Citrus Sinensis ID: 028315

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200-------210
Protein Sequence
MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS
Secondary Structure (PSIPRED)
cccccccccccEEEEEEEEccccccHHHHHHHccccccccccccccEEcEEEEEEEccEEEEEEEEEccccccccccHHHHcccccEEEEEEEcccHHHHHHHHHHHHHHHHHHccccccEEEEEEEcccccccccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
ccccccccHHHHEEEEEEEccccccHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEccHHHcccccHHHHccccEEEEEEEcccHHHHHcHHHHHHHHHHHHcccccEEEEEEEEccccHHHccccHHHHHHHHHHHccEEEEcEccccEcHHHHHHHHHHHHHcHHcccccccccccccEEcccccccccccccccc
Coil and Loop (DISEMBL)
mgskvgnnsydySFKILLIGDSGVGKSSILLSLIsnsvhdpsptigvdFKIKLLTVGgkrlkltiwdtagqerfgtltssyyrgaHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVgnkvdrdseravtREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIlevpslleqGSAVVKNQILKQKEvqesarggnccs
Flexible Loop (DISEMBL)
mgskvgnnsyDYSFKILLIGDSGVGKSSILLSLISnsvhdpsptiGVDFKIKLLTVGGKRLkltiwdtagqerfgtltssyyrgaHGIILVYDVTRRETFTNLSSVWAKEVelystnqdcvkilvgnkvdrdserAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILkqkevqesarggnccs
Low Complexity Region (SEG)
MGSKVGNNSYDYSFKILLIGDSGVGKssillslisnsVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS
Disordered region (IsUnstruct)
********SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQI*****************
Disordered Region (DISOPRED)
***********YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI******************************GNCCS
Disordered Region (DISEMBL)
MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQK*************
Disordered Region (DISPRO)
******NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL****************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
iiiiiiiiiiiiiiiHHHHHHHHHHHHHHHHHHHoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooohhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
oooooooooooooohhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	210	2.2.26 [Sep-21-2011]
O49841	210	Ras-related protein RABC2	yes	no	1.0	1.0	0.723	5e-86
O23657	212	Ras-related protein RABC1	no	no	0.952	0.943	0.68	1e-77
Q9SF92	205	Ras-related protein RABC2	no	no	0.971	0.995	0.676	1e-72
P36862	203	GTP-binding protein yptV3	N/A	no	0.838	0.866	0.581	7e-54
Q6DHC1	205	Ras-related protein Rab-1	no	no	0.919	0.941	0.515	1e-48
P35293	206	Ras-related protein Rab-1	yes	no	0.904	0.922	0.510	1e-47
Q5EB77	206	Ras-related protein Rab-1	yes	no	0.904	0.922	0.510	1e-47
Q5ZLG1	206	Ras-related protein Rab-1	yes	no	0.814	0.830	0.545	6e-47
Q5R5H5	206	Ras-related protein Rab-1	yes	no	0.8	0.815	0.543	4e-46
Q9NP72	206	Ras-related protein Rab-1	yes	no	0.8	0.815	0.543	4e-46

>sp|O49841|RAC2A_ARATH Ras-related protein RABC2a OS=Arabidopsis thaliana GN=RABC2A PE=1 SV=1

 Score =  317 bits (811), Expect = 5e-86,   Method: Compositional matrix adjust.
 Identities = 152/210 (72%), Positives = 177/210 (84%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           MGS  G + YD SFKILLIGDSGVGKSS+L+S IS+SV D +PTIGVDFKIK LTVGGKR
Sbjct: 1   MGSSSGQSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKR 60

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQERF TLTSSYYRGA GIILVYDVTRRETFTNL  VW KE+ELYSTNQ+C
Sbjct: 61  LKLTIWDTAGQERFRTLTSSYYRGAQGIILVYDVTRRETFTNLVDVWGKEIELYSTNQEC 120

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           V++LVGNKVDR+SER V+REEG+ LA+E  C+FLECSA+  ++V+QCF++L  KI+EVPS
Sbjct: 121 VRMLVGNKVDRESERGVSREEGIALAKELNCMFLECSARTRQNVEQCFEELALKIMEVPS 180

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           LLE+GS+ VK  ILKQK   ++     CCS
Sbjct: 181 LLEEGSSAVKRNILKQKPEHQTNTQSGCCS 210

Intracellular vesicle trafficking and protein transport.
Arabidopsis thaliana (taxid: 3702)

>sp|O23657|RABC1_ARATH Ras-related protein RABC1 OS=Arabidopsis thaliana GN=RABC1 PE=2 SV=1

 Score =  289 bits (739), Expect = 1e-77,   Method: Compositional matrix adjust.
 Identities = 136/200 (68%), Positives = 165/200 (82%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           MGS  G   +DY FK+LLIGDSGVGKSS+LLS  SN+  D SPTIGVDFK+K LT+G K+
Sbjct: 1   MGSSSGQPEFDYLFKVLLIGDSGVGKSSLLLSFTSNTFDDLSPTIGVDFKVKYLTIGEKK 60

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKL IWDTAGQERF TLTSSYYRGA GII+VYDVTRR+TFTNLS +WAKE++LYSTNQDC
Sbjct: 61  LKLAIWDTAGQERFRTLTSSYYRGAQGIIMVYDVTRRDTFTNLSDIWAKEIDLYSTNQDC 120

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           +K+LVGNKVD++SERAV+++EG+  A+E+ CLFLECSAK   +V+QCF++L+ KILE PS
Sbjct: 121 IKMLVGNKVDKESERAVSKKEGIDFAREYGCLFLECSAKTRVNVEQCFEELVLKILETPS 180

Query: 181 LLEQGSAVVKNQILKQKEVQ 200
           L  +GS+  K  I KQ   Q
Sbjct: 181 LTAEGSSGGKKNIFKQNPAQ 200

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9SF92|RAC2B_ARATH Ras-related protein RABC2b OS=Arabidopsis thaliana GN=RABC2B PE=2 SV=1

 Score =  272 bits (696), Expect = 1e-72,   Method: Compositional matrix adjust.
 Identities = 142/210 (67%), Positives = 169/210 (80%), Gaps = 6/210 (2%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           MGS  G + YD SFKILLIGDSGVGKSS+LLS IS+SV D +PTIGVDFKIK + V GKR
Sbjct: 1   MGSSSGQSGYDLSFKILLIGDSGVGKSSLLLSFISSSVEDLAPTIGVDFKIKQMKVRGKR 60

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQE+F TLTSSY+RG+ GIILVYDVT+RETF NL+ +WAKE+ELYSTN DC
Sbjct: 61  LKLTIWDTAGQEKFRTLTSSYFRGSQGIILVYDVTKRETFLNLADIWAKEIELYSTNHDC 120

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           +K+LVGNKVDR+SER V+REEGM LA++  CLF ECSA+  E+V  CF++L  KI+EVPS
Sbjct: 121 IKMLVGNKVDRESERKVSREEGMALAKDLNCLFHECSARTRENVNGCFEELALKIMEVPS 180

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           LLE+GS+ VK      ++    A  G CCS
Sbjct: 181 LLEEGSSSVK------RKPDYRAHQGRCCS 204

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|P36862|YPTV3_VOLCA GTP-binding protein yptV3 OS=Volvox carteri GN=YPTV3 PE=3 SV=1

 Score =  210 bits (534), Expect = 7e-54,   Method: Compositional matrix adjust.
 Identities = 103/177 (58%), Positives = 130/177 (73%), Gaps = 1/177 (0%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIW 66
           +S+DY+FK+LL+GDSGVGKS IL    S    + +  TIGVDFK+K LT  GKR KLTIW
Sbjct: 4   DSHDYTFKVLLVGDSGVGKSCILTRFTSGIFEESTTSTIGVDFKVKYLTADGKRCKLTIW 63

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQERF TLTSSYYRGA GII VYDVTRR+TF +L + W +E ++YST +  +K++V 
Sbjct: 64  DTAGQERFRTLTSSYYRGAQGIIFVYDVTRRDTFESLEANWMREFDIYSTVESAIKMVVA 123

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           NKVD  ++R V+ EEG   A+ H CLF+E SA+    V Q F++LL KIL+ P LLE
Sbjct: 124 NKVDLSAQRQVSSEEGHDFARRHGCLFVETSARANLAVGQAFEELLLKILDTPLLLE 180

Protein transport. Probably involved in vesicular traffic.

Volvox carteri (taxid: 3067)

>sp|Q6DHC1|RB18B_DANRE Ras-related protein Rab-18-B OS=Danio rerio GN=rab18b PE=2 SV=1

 Score =  192 bits (489), Expect = 1e-48,   Method: Compositional matrix adjust.
 Identities = 102/198 (51%), Positives = 135/198 (68%), Gaps = 5/198 (2%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K + + G R KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTIAIDGNRAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVT+R+TFT L + W  E+E Y T  D VK+LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTKRDTFTKLEN-WLNELETYCTRNDLVKMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
           +D+ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KIL+ P L E       
Sbjct: 126 KDN-REVDRNEGLKFARKHSMLFIEASAKTRDGVQCAFEELVEKILQTPGLWESSIQNHG 184

Query: 191 NQILKQKEVQESARGGNC 208
            Q+   +  ++ A GG C
Sbjct: 185 VQLSDNEPQRQGACGGYC 202

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Danio rerio (taxid: 7955)

>sp|P35293|RAB18_MOUSE Ras-related protein Rab-18 OS=Mus musculus GN=Rab18 PE=2 SV=2

 Score =  189 bits (480), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 101/198 (51%), Positives = 137/198 (69%), Gaps = 8/198 (4%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  +   +
Sbjct: 126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESEN---Q 181

Query: 191 NQILKQKEVQESARGGNC 208
           N+ +K    +ES  GG C
Sbjct: 182 NKGVKLSHREESRGGGAC 199

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Mus musculus (taxid: 10090)

>sp|Q5EB77|RAB18_RAT Ras-related protein Rab-18 OS=Rattus norvegicus GN=Rab18 PE=2 SV=1

 Score =  189 bits (480), Expect = 1e-47,   Method: Compositional matrix adjust.
 Identities = 101/198 (51%), Positives = 137/198 (69%), Gaps = 8/198 (4%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  +   +
Sbjct: 126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESEN---Q 181

Query: 191 NQILKQKEVQESARGGNC 208
           N+ +K    +ES  GG C
Sbjct: 182 NKGVKLSPREESHGGGAC 199

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Rattus norvegicus (taxid: 10116)

>sp|Q5ZLG1|RAB18_CHICK Ras-related protein Rab-18 OS=Gallus gallus GN=RAB18 PE=2 SV=1

 Score =  187 bits (474), Expect = 6e-47,   Method: Compositional matrix adjust.
 Identities = 96/176 (54%), Positives = 127/176 (72%), Gaps = 5/176 (2%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D VK+LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVKMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGS 186
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  S
Sbjct: 126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESES 180

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Gallus gallus (taxid: 9031)

>sp|Q5R5H5|RAB18_PONAB Ras-related protein Rab-18 OS=Pongo abelii GN=RAB18 PE=2 SV=1

 Score =  184 bits (467), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 94/173 (54%), Positives = 125/173 (72%), Gaps = 5/173 (2%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E
Sbjct: 126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 177

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Pongo abelii (taxid: 9601)

>sp|Q9NP72|RAB18_HUMAN Ras-related protein Rab-18 OS=Homo sapiens GN=RAB18 PE=1 SV=1

 Score =  184 bits (467), Expect = 4e-46,   Method: Compositional matrix adjust.
 Identities = 94/173 (54%), Positives = 125/173 (72%), Gaps = 5/173 (2%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGKSS+LL   ++   DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 8   TLKILIIGESGVGKSSLLLRF-TDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct: 67  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E
Sbjct: 126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 177

Plays a role in apical endocytosis/recycling. May be implicated in transport between the plasma membrane and early endosomes. Plays a key role in eye and brain development and neurodegeneration.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	210
224113131	212	predicted protein [Populus trichocarpa]	0.985	0.976	0.817	9e-93
359486861	215	PREDICTED: ras-related protein RABC2a-li	0.961	0.939	0.814	8e-90
296085951	212	unnamed protein product [Vitis vinifera]	0.961	0.952	0.814	1e-89
224097728	214	predicted protein [Populus trichocarpa]	0.990	0.971	0.813	2e-88
255584090	251	protein with unknown function [Ricinus c	0.971	0.812	0.665	2e-87
356576370	212	PREDICTED: ras-related protein RABC2a-li	0.980	0.971	0.742	2e-86
217069806	212	unknown [Medicago truncatula] gi|3884989	0.980	0.971	0.757	4e-86
356535505	212	PREDICTED: ras-related protein RABC2a [G	0.985	0.976	0.734	7e-85
224138818	208	predicted protein [Populus trichocarpa]	0.990	1.0	0.752	1e-84
18414255	210	RAB GTPase-C2A [Arabidopsis thaliana] gi	1.0	1.0	0.723	2e-84

>gi|224113131|ref|XP_002316401.1| predicted protein [Populus trichocarpa] gi|118482557|gb|ABK93199.1| unknown [Populus trichocarpa] gi|222865441|gb|EEF02572.1| predicted protein [Populus trichocarpa]

 Score =  345 bits (884), Expect = 9e-93,   Method: Compositional matrix adjust.
 Identities = 170/208 (81%), Positives = 184/208 (88%), Gaps = 1/208 (0%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLK 62
           SK  NNSYDYSFKILLIGDSGVGKSS+LLS ISNSV D SPTIGVDFKIK+LT+GGKRLK
Sbjct: 6   SKGWNNSYDYSFKILLIGDSGVGKSSLLLSFISNSVRDLSPTIGVDFKIKVLTLGGKRLK 65

Query: 63  LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK 122
           LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETF NLS +WA+EVELY TNQ C+K
Sbjct: 66  LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFENLSDIWAEEVELY-TNQKCIK 124

Query: 123 ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL 182
           ILVGNKVDRDSER V+REEGM LAQEHKC FLECSAK  E+V QCFK+L  KI EVPSLL
Sbjct: 125 ILVGNKVDRDSERVVSREEGMALAQEHKCSFLECSAKTRENVLQCFKELTLKISEVPSLL 184

Query: 183 EQGSAVVKNQILKQKEVQESARGGNCCS 210
           E GS VV+ QILK+K+V ++ RGG CCS
Sbjct: 185 ENGSVVVRQQILKEKQVYQAPRGGGCCS 212

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|359486861|ref|XP_002265762.2| PREDICTED: ras-related protein RABC2a-like [Vitis vinifera]

 Score =  335 bits (859), Expect = 8e-90,   Method: Compositional matrix adjust.
 Identities = 167/205 (81%), Positives = 180/205 (87%), Gaps = 3/205 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           G NSYD SFKILLIGDSGVGKSS+LLS IS SVHD SPTIGVDFKI LLT+GGKRLKLTI
Sbjct: 12  GKNSYDCSFKILLIGDSGVGKSSLLLSFISGSVHDLSPTIGVDFKIMLLTIGGKRLKLTI 71

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERFGTLT+SYYRGAHGIILVYDVTRRE+FTNL  VWAKEVELYSTN +C+K LV
Sbjct: 72  WDTAGQERFGTLTNSYYRGAHGIILVYDVTRRESFTNLLDVWAKEVELYSTNHECIKFLV 131

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
           GNKVDRD ERAVTREEGM LAQEHKC FLECSAK  E+V+QCFK+L  KIL+VPSLLEQG
Sbjct: 132 GNKVDRDCERAVTREEGMSLAQEHKCSFLECSAKTRENVQQCFKELTLKILQVPSLLEQG 191

Query: 186 SAVVKNQILKQKEV-QESARGGNCC 209
           S VV+ Q L QKE+ QES R  +CC
Sbjct: 192 SRVVERQTLMQKELYQESPR--SCC 214

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296085951|emb|CBI31392.3| unnamed protein product [Vitis vinifera]

 Score =  335 bits (858), Expect = 1e-89,   Method: Compositional matrix adjust.
 Identities = 167/205 (81%), Positives = 180/205 (87%), Gaps = 3/205 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           G NSYD SFKILLIGDSGVGKSS+LLS IS SVHD SPTIGVDFKI LLT+GGKRLKLTI
Sbjct: 9   GKNSYDCSFKILLIGDSGVGKSSLLLSFISGSVHDLSPTIGVDFKIMLLTIGGKRLKLTI 68

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERFGTLT+SYYRGAHGIILVYDVTRRE+FTNL  VWAKEVELYSTN +C+K LV
Sbjct: 69  WDTAGQERFGTLTNSYYRGAHGIILVYDVTRRESFTNLLDVWAKEVELYSTNHECIKFLV 128

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
           GNKVDRD ERAVTREEGM LAQEHKC FLECSAK  E+V+QCFK+L  KIL+VPSLLEQG
Sbjct: 129 GNKVDRDCERAVTREEGMSLAQEHKCSFLECSAKTRENVQQCFKELTLKILQVPSLLEQG 188

Query: 186 SAVVKNQILKQKEV-QESARGGNCC 209
           S VV+ Q L QKE+ QES R  +CC
Sbjct: 189 SRVVERQTLMQKELYQESPR--SCC 211

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224097728|ref|XP_002311057.1| predicted protein [Populus trichocarpa] gi|222850877|gb|EEE88424.1| predicted protein [Populus trichocarpa]

 Score =  330 bits (846), Expect = 2e-88,   Method: Compositional matrix adjust.
 Identities = 170/209 (81%), Positives = 186/209 (88%), Gaps = 1/209 (0%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLK 62
           SK GNNSYDYSFKILLIGDSGVGKSS+LLS IS+SV D SPTIGVDFK+K+LTVGGKRLK
Sbjct: 6   SKGGNNSYDYSFKILLIGDSGVGKSSLLLSFISSSVRDLSPTIGVDFKVKMLTVGGKRLK 65

Query: 63  LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK 122
           LTIWDTAGQERFGTL SSYYRGAHGIILVYDVTRRETF NLS +WAKEVELYSTN D +K
Sbjct: 66  LTIWDTAGQERFGTLISSYYRGAHGIILVYDVTRRETFENLSDIWAKEVELYSTNHDGIK 125

Query: 123 ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL 182
           ILVGNKVDRDSERAV+REEGM LAQ+HKC F ECSAK +E+V QCFK+L  KILEVPSLL
Sbjct: 126 ILVGNKVDRDSERAVSREEGMALAQQHKCSFFECSAKTSENVLQCFKELTLKILEVPSLL 185

Query: 183 EQGSAVVKNQILKQKEVQESAR-GGNCCS 210
           E GS VVK QI+K K+V ++ R GG+CCS
Sbjct: 186 ENGSVVVKQQIMKDKQVYQAPRGGGSCCS 214

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255584090|ref|XP_002532788.1| protein with unknown function [Ricinus communis] gi|223527476|gb|EEF29607.1| protein with unknown function [Ricinus communis]

 Score =  327 bits (838), Expect = 2e-87,   Method: Compositional matrix adjust.
 Identities = 167/251 (66%), Positives = 183/251 (72%), Gaps = 47/251 (18%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
           NNSYDYSFKILLIGDSGVGKSSILLS ISNSVHD SPTIGVDFKIK+L+ GGKRLKLTIW
Sbjct: 1   NNSYDYSFKILLIGDSGVGKSSILLSFISNSVHDLSPTIGVDFKIKMLSAGGKRLKLTIW 60

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQERFGTL SSYYRGAHGIILVYDVTRRETFTNLS  WAKEVELYSTN++C+K+LVG
Sbjct: 61  DTAGQERFGTLISSYYRGAHGIILVYDVTRRETFTNLSDTWAKEVELYSTNKECIKVLVG 120

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL--------------- 171
           NKVDRDSERAV++EEGM LA+EHKC FLECSAK  E+V QCFK+L               
Sbjct: 121 NKVDRDSERAVSKEEGMALAEEHKCSFLECSAKTRENVLQCFKELSLKISNIVPFYEYVY 180

Query: 172 --------------------------------LYKILEVPSLLEQGSAVVKNQILKQKEV 199
                                           L +ILEVPSLLE GSA VK  +LKQK+ 
Sbjct: 181 CRYVNHTLHAILPYYQRGNFKENFELPEAALILEQILEVPSLLENGSAAVKQHVLKQKQE 240

Query: 200 QESARGGNCCS 210
            ++  GG CCS
Sbjct: 241 YKALHGGGCCS 251

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356576370|ref|XP_003556305.1| PREDICTED: ras-related protein RABC2a-like [Glycine max]

 Score =  324 bits (830), Expect = 2e-86,   Method: Compositional matrix adjust.
 Identities = 156/210 (74%), Positives = 182/210 (86%), Gaps = 4/210 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS--VHDPSPTIGVDFKIKLLTVGGKR 60
           S+VG+++YDYSFK+LL+GDSGVGKSS+LLS ISNS  ++  SPTIGVDFKIKL TVGGKR
Sbjct: 5   SRVGSSNYDYSFKVLLVGDSGVGKSSLLLSFISNSNSINHLSPTIGVDFKIKLFTVGGKR 64

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQERFGT+  SYYRGAHGIILVYDVTRRETFTNL  +WAKEVELYSTN D 
Sbjct: 65  LKLTIWDTAGQERFGTVIGSYYRGAHGIILVYDVTRRETFTNLIDIWAKEVELYSTNHDS 124

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           +KILVGNKVD++SERAV++EEGM LAQ+H+CLFLECSAK  E+V+QCF DL  KIL+VPS
Sbjct: 125 IKILVGNKVDKESERAVSKEEGMALAQQHRCLFLECSAKTRENVQQCFNDLTLKILDVPS 184

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           L E+GS  VK Q  KQK + E+++ G CCS
Sbjct: 185 LRERGSVAVKRQ--KQKHIYETSKSGGCCS 212

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|217069806|gb|ACJ83263.1| unknown [Medicago truncatula] gi|388498948|gb|AFK37540.1| unknown [Medicago truncatula]

 Score =  323 bits (827), Expect = 4e-86,   Method: Compositional matrix adjust.
 Identities = 159/210 (75%), Positives = 180/210 (85%), Gaps = 4/210 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISN--SVHDPSPTIGVDFKIKLLTVGGKR 60
           SKVGN++YDYSFK+LLIGDSGVGKSS+LLS ISN  S+ D SPTIGVDFKIKL T+G KR
Sbjct: 5   SKVGNSNYDYSFKVLLIGDSGVGKSSLLLSFISNANSLDDLSPTIGVDFKIKLFTIGDKR 64

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQERFGT+  SYYRGAHGI+LVYDVTRRETFTNL   WAKEV LYSTN DC
Sbjct: 65  LKLTIWDTAGQERFGTVICSYYRGAHGIVLVYDVTRRETFTNLVGTWAKEVGLYSTNHDC 124

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           +KILVGNKVD++SERAV++EEGM LA+EH+CLFLECSAK  E+V+QCFKDL  KILEVPS
Sbjct: 125 IKILVGNKVDKESERAVSKEEGMALAKEHRCLFLECSAKTKENVQQCFKDLTLKILEVPS 184

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           L E+GS  VK Q  KQK   E+++ G CCS
Sbjct: 185 LREKGSVEVKRQ--KQKRFYETSQRGGCCS 212

Source: Medicago truncatula

Species: Medicago truncatula

Genus: Medicago

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356535505|ref|XP_003536285.1| PREDICTED: ras-related protein RABC2a [Glycine max] gi|255629553|gb|ACU15124.1| unknown [Glycine max]

 Score =  318 bits (816), Expect = 7e-85,   Method: Compositional matrix adjust.
 Identities = 155/211 (73%), Positives = 179/211 (84%), Gaps = 4/211 (1%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS--VHDPSPTIGVDFKIKLLTVGGK 59
            S+V +++YDYSFK+LLIGDSGVGKSS+LLS ISNS  ++D SPTIGVDFKIKL TVGGK
Sbjct: 4   ASRVESSNYDYSFKVLLIGDSGVGKSSLLLSFISNSNSINDLSPTIGVDFKIKLFTVGGK 63

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           RLKLTIWDTAGQERFGT+ SSYYRGAHGIILVYDVTRRETFTNL  +WAKEVE YSTN  
Sbjct: 64  RLKLTIWDTAGQERFGTVISSYYRGAHGIILVYDVTRRETFTNLIDIWAKEVERYSTNHG 123

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
            +KILVGNKVD+DSERAV++EEGM LAQ+H+CLFLECSAK  E+V+QCF DL  KIL+VP
Sbjct: 124 SIKILVGNKVDKDSERAVSKEEGMALAQQHRCLFLECSAKTRENVQQCFNDLTLKILDVP 183

Query: 180 SLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
            L E+GS  VK Q  KQK + E+++   CCS
Sbjct: 184 GLREKGSVAVKRQ--KQKHIYETSQSAGCCS 212

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224138818|ref|XP_002322909.1| predicted protein [Populus trichocarpa] gi|222867539|gb|EEF04670.1| predicted protein [Populus trichocarpa]

 Score =  318 bits (814), Expect = 1e-84,   Method: Compositional matrix adjust.
 Identities = 158/210 (75%), Positives = 176/210 (83%), Gaps = 2/210 (0%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           MGS  G  SYD SFKILLIGDSGVGKSS+L+S IS+SV D +PTIGVDFKIK LTVGGKR
Sbjct: 1   MGSSSG--SYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKR 58

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQERF TLTSSYYR A GIILVYDVTRRETFTNLS VW KEVEL+STNQDC
Sbjct: 59  LKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELFSTNQDC 118

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           VK+LVGNKVD++S R VT++EGM LA++H CLFLECSAK  E+V+QCF++L  KI+EVPS
Sbjct: 119 VKMLVGNKVDKESGRDVTKDEGMALAKQHGCLFLECSAKTRENVEQCFEELALKIMEVPS 178

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           LLE+GS  VK  ILKQK     A  G CCS
Sbjct: 179 LLEEGSTAVKRNILKQKPEHHVASNGGCCS 208

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|18414255|ref|NP_568121.1| RAB GTPase-C2A [Arabidopsis thaliana] gi|297810433|ref|XP_002873100.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|75098916|sp|O49841.1|RAC2A_ARATH RecName: Full=Ras-related protein RABC2a; Short=AtRABC2a; AltName: Full=Ras-related protein Rab18B; Short=AtRab18B gi|2723477|dbj|BAA24074.1| GTP-binding protein [Arabidopsis thaliana] gi|7378638|emb|CAB83314.1| AtRab GTP-binding protein [Arabidopsis thaliana] gi|26453054|dbj|BAC43603.1| putative AtRab GTP-binding protein [Arabidopsis thaliana] gi|29824251|gb|AAP04086.1| unknown protein [Arabidopsis thaliana] gi|297318937|gb|EFH49359.1| predicted protein [Arabidopsis lyrata subsp. lyrata] gi|332003236|gb|AED90619.1| RAB GTPase-C2A [Arabidopsis thaliana]

 Score =  317 bits (811), Expect = 2e-84,   Method: Compositional matrix adjust.
 Identities = 152/210 (72%), Positives = 177/210 (84%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           MGS  G + YD SFKILLIGDSGVGKSS+L+S IS+SV D +PTIGVDFKIK LTVGGKR
Sbjct: 1   MGSSSGQSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKR 60

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           LKLTIWDTAGQERF TLTSSYYRGA GIILVYDVTRRETFTNL  VW KE+ELYSTNQ+C
Sbjct: 61  LKLTIWDTAGQERFRTLTSSYYRGAQGIILVYDVTRRETFTNLVDVWGKEIELYSTNQEC 120

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           V++LVGNKVDR+SER V+REEG+ LA+E  C+FLECSA+  ++V+QCF++L  KI+EVPS
Sbjct: 121 VRMLVGNKVDRESERGVSREEGIALAKELNCMFLECSARTRQNVEQCFEELALKIMEVPS 180

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           LLE+GS+ VK  ILKQK   ++     CCS
Sbjct: 181 LLEEGSSAVKRNILKQKPEHQTNTQSGCCS 210

Source: Arabidopsis thaliana

Species: Arabidopsis thaliana

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

---

Prediction of Gene Ontology (GO) Terms

Close Homologs with Gene Ontology terms Detected by BLAST

Original result of BLAST against Gene Ontology (AMIGO)

ID	Length	Definition	Q cover	H cover	Identity	E-value
Query	210
TAIR|locus:2831859	210	RABC2A "RAB GTPase homolog C2A	0.995	0.995	0.701	9.3e-75
TAIR|locus:2029167	212	RAB18 "RAB GTPASE HOMOLOG B18"	1.0	0.990	0.625	1e-68
TAIR|locus:2085084	205	RABC2b "RAB GTPase homolog C2B	0.971	0.995	0.638	4e-67
ZFIN|ZDB-GENE-030131-3980	205	rab18a "RAB18A, member RAS onc	0.9	0.921	0.507	7.1e-45
ZFIN|ZDB-GENE-040801-185	205	rab18b "RAB18B, member RAS onc	0.909	0.931	0.505	1.2e-44
UNIPROTKB|Q5ZLG1	206	RAB18 "Ras-related protein Rab	0.904	0.922	0.494	3.9e-44
GENEDB_PFALCIPARUM|PF08_0110	201	rab18 "PfRab18, GTPase" [Plasm	0.914	0.955	0.5	6.4e-44
UNIPROTKB|Q7K6B0	201	rab18 "PfRab18, GTPase" [Plasm	0.914	0.955	0.5	6.4e-44
MGI|MGI:102790	206	Rab18 "RAB18, member RAS oncog	0.904	0.922	0.492	8.1e-44
RGD|1308905	206	Rab18 "RAB18, member RAS oncog	0.904	0.922	0.489	1.7e-43

TAIR|locus:2831859 RABC2A "RAB GTPase homolog C2A" [Arabidopsis thaliana (taxid:3702)]

 Score = 754 (270.5 bits), Expect = 9.3e-75, P = 9.3e-75
 Identities = 148/211 (70%), Positives = 170/211 (80%)

Query:     1 MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKR 60
             MGS  G + YD SFKILLIGDSGVGK           V D +PTIGVDFKIK LTVGGKR
Sbjct:     1 MGSSSGQSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKR 60

Query:    61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
             LKLTIWDTAGQERF TLTSSYYRGA GIILVYDVTRRETFTNL  VW KE+ELYSTNQ+C
Sbjct:    61 LKLTIWDTAGQERFRTLTSSYYRGAQGIILVYDVTRRETFTNLVDVWGKEIELYSTNQEC 120

Query:   121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             V++LVGNKVDR+SER V+REEG+ LA+E  C+FLECSA+  ++V+QCF++L  KI+EVPS
Sbjct:   121 VRMLVGNKVDRESERGVSREEGIALAKELNCMFLECSARTRQNVEQCFEELALKIMEVPS 180

Query:   181 LLEQGSAVVKNQILKQK-EVQESARGGNCCS 210
             LLE+GS+ VK  ILKQK E Q + + G CCS
Sbjct:   181 LLEEGSSAVKRNILKQKPEHQTNTQSG-CCS 210

GO:0005524 "ATP binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005777 "peroxisome" evidence=IDA

GO:0030742 "GTP-dependent protein binding" evidence=IPI

GO:0080115 "myosin XI tail binding" evidence=IPI

TAIR|locus:2029167 RAB18 "RAB GTPASE HOMOLOG B18" [Arabidopsis thaliana (taxid:3702)]

 Score = 697 (250.4 bits), Expect = 1.0e-68, P = 1.0e-68
 Identities = 132/211 (62%), Positives = 162/211 (76%)

Query:     1 MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKR 60
             MGS  G   +DY FK+LLIGDSGVGK             D SPTIGVDFK+K LT+G K+
Sbjct:     1 MGSSSGQPEFDYLFKVLLIGDSGVGKSSLLLSFTSNTFDDLSPTIGVDFKVKYLTIGEKK 60

Query:    61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
             LKL IWDTAGQERF TLTSSYYRGA GII+VYDVTRR+TFTNLS +WAKE++LYSTNQDC
Sbjct:    61 LKLAIWDTAGQERFRTLTSSYYRGAQGIIMVYDVTRRDTFTNLSDIWAKEIDLYSTNQDC 120

Query:   121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             +K+LVGNKVD++SERAV+++EG+  A+E+ CLFLECSAK   +V+QCF++L+ KILE PS
Sbjct:   121 IKMLVGNKVDKESERAVSKKEGIDFAREYGCLFLECSAKTRVNVEQCFEELVLKILETPS 180

Query:   181 LLEQGSAVVKNQILKQKEVQESARGGN-CCS 210
             L  +GS+  K  I KQ   Q ++   + CCS
Sbjct:   181 LTAEGSSGGKKNIFKQNPAQTTSTSSSYCCS 211

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

TAIR|locus:2085084 RABC2b "RAB GTPase homolog C2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 682 (245.1 bits), Expect = 4.0e-67, P = 4.0e-67
 Identities = 134/210 (63%), Positives = 159/210 (75%)

Query:     1 MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKR 60
             MGS  G + YD SFKILLIGDSGVGK           V D +PTIGVDFKIK + V GKR
Sbjct:     1 MGSSSGQSGYDLSFKILLIGDSGVGKSSLLLSFISSSVEDLAPTIGVDFKIKQMKVRGKR 60

Query:    61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
             LKLTIWDTAGQE+F TLTSSY+RG+ GIILVYDVT+RETF NL+ +WAKE+ELYSTN DC
Sbjct:    61 LKLTIWDTAGQEKFRTLTSSYFRGSQGIILVYDVTKRETFLNLADIWAKEIELYSTNHDC 120

Query:   121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             +K+LVGNKVDR+SER V+REEGM LA++  CLF ECSA+  E+V  CF++L  KI+EVPS
Sbjct:   121 IKMLVGNKVDRESERKVSREEGMALAKDLNCLFHECSARTRENVNGCFEELALKIMEVPS 180

Query:   181 LLEQGSAVVKNQILKQKEVQESARGGNCCS 210
             LLE+GS+ VK      ++    A  G CCS
Sbjct:   181 LLEEGSSSVK------RKPDYRAHQGRCCS 204

GO:0005524 "ATP binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA;ISS

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006355 "regulation of transcription, DNA-dependent" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0008134 "transcription factor binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

ZFIN|ZDB-GENE-030131-3980 rab18a "RAB18A, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 472 (171.2 bits), Expect = 7.1e-45, P = 7.1e-45
 Identities = 99/195 (50%), Positives = 131/195 (67%)

Query:    13 SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
             + KIL+IG+SGVGK              +   TIGVDFK+K L V G R KL IWDTAGQ
Sbjct:     8 TLKILIIGESGVGKSSLLLRFTDDTFDAEIGATIGVDFKVKTLAVDGNRAKLAIWDTAGQ 67

Query:    72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
             ERF TLT SYYRGA G+ILVYDV+RRETF  L + W  E+E Y T  D VK+LVGNK+D+
Sbjct:    68 ERFRTLTPSYYRGAQGVILVYDVSRRETFAKLDN-WLSELETYCTRNDLVKMLVGNKIDK 126

Query:   132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKN 191
             D +R + REEG+  A++H  LF+E SAK  + V+  F++L+ KIL+ P L E   ++ K+
Sbjct:   127 D-DREIEREEGLKFARKHSMLFIESSAKTRDGVQCAFEELVEKILQTPGLWE---SMHKS 182

Query:   192 QILKQKEVQESARGG 206
             + +   E+ ES++GG
Sbjct:   183 RGVALSELSESSQGG 197

GO:0005525 "GTP binding" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0009790 "embryo development" evidence=IMP

GO:0001654 "eye development" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

ZFIN|ZDB-GENE-040801-185 rab18b "RAB18B, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 470 (170.5 bits), Expect = 1.2e-44, P = 1.2e-44
 Identities = 101/200 (50%), Positives = 132/200 (66%)

Query:    13 SFKILLIGDSGVGKXXXXXXXXXXXVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
             + KIL+IG+SGVGK             DP  + TIGVDFK+K + + G R KL IWDTAG
Sbjct:     8 TLKILIIGESGVGKSSLLLRFTDDTF-DPELAATIGVDFKVKTIAIDGNRAKLAIWDTAG 66

Query:    71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             QERF TLT SYYRGA G+ILVYDVT+R+TFT L + W  E+E Y T  D VK+LVGNK+D
Sbjct:    67 QERFRTLTPSYYRGAQGVILVYDVTKRDTFTKLEN-WLNELETYCTRNDLVKMLVGNKID 125

Query:   131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
             +D+ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KIL+ P L E  S++  
Sbjct:   126 KDN-REVDRNEGLKFARKHSMLFIEASAKTRDGVQCAFEELVEKILQTPGLWE--SSIQN 182

Query:   191 NQI-LKQKEVQ-ESARGGNC 208
             + + L   E Q + A GG C
Sbjct:   183 HGVQLSDNEPQRQGACGGYC 202

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0007420 "brain development" evidence=IMP

GO:0001654 "eye development" evidence=IMP

GO:0009790 "embryo development" evidence=IMP

GO:0006810 "transport" evidence=IEA

GO:0000166 "nucleotide binding" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

UNIPROTKB|Q5ZLG1 RAB18 "Ras-related protein Rab-18" [Gallus gallus (taxid:9031)]

 Score = 465 (168.7 bits), Expect = 3.9e-44, P = 3.9e-44
 Identities = 98/198 (49%), Positives = 130/198 (65%)

Query:    13 SFKILLIGDSGVGKXXXXXXXXXXXVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
             + KIL+IG+SGVGK             DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct:     8 TLKILIIGESGVGKSSLLLRFTDDTF-DPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query:    71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D VK+LVGNK+D
Sbjct:    67 QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVKMLVGNKID 125

Query:   131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
             +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  S   +
Sbjct:   126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESES---Q 181

Query:   191 NQILKQKEVQESARGGNC 208
             N+ +K    +E   GG C
Sbjct:   182 NKGVKLSNKEEGHGGGAC 199

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005622 "intracellular" evidence=IEA

GO:0001654 "eye development" evidence=ISS

GO:0007420 "brain development" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GENEDB_PFALCIPARUM|PF08_0110 rab18 "PfRab18, GTPase" [Plasmodium falciparum (taxid:5833)]

 Score = 463 (168.0 bits), Expect = 6.4e-44, P = 6.4e-44
 Identities = 98/196 (50%), Positives = 127/196 (64%)

Query:     8 NSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIW 66
             N YDY  K+LL+GDS VGK             +    TIG+DFK+K L +  K +K+ IW
Sbjct:     5 NKYDYLLKLLLVGDSSVGKSSILCRYSDNQFEEKVLSTIGIDFKVKYLKIDNKTIKVGIW 64

Query:    67 DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
             DTAGQERF TLTS+YYR AH IILVYD T RE+F NL  VW  E++ YSTN++ +K+LV 
Sbjct:    65 DTAGQERFRTLTSAYYRNAHAIILVYDCTVRESFENLD-VWINEIDKYSTNKNAIKMLVA 123

Query:   127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGS 186
             NK+D+ +   VT++EG   A E+  LF E SAKN  ++  CF++L+ +IL  PSLLE  S
Sbjct:   124 NKIDKPNHE-VTKDEGKNFAFENNMLFCETSAKNDINITYCFEELIQQILNNPSLLEL-S 181

Query:   187 AVVKNQILKQKEVQES 202
              V KN  L +KE   S
Sbjct:   182 IVTKNLKLGKKEESRS 197

GO:0003924 "GTPase activity" evidence=ISS

UNIPROTKB|Q7K6B0 rab18 "PfRab18, GTPase" [Plasmodium falciparum 3D7 (taxid:36329)]

 Score = 463 (168.0 bits), Expect = 6.4e-44, P = 6.4e-44
 Identities = 98/196 (50%), Positives = 127/196 (64%)

Query:     8 NSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIW 66
             N YDY  K+LL+GDS VGK             +    TIG+DFK+K L +  K +K+ IW
Sbjct:     5 NKYDYLLKLLLVGDSSVGKSSILCRYSDNQFEEKVLSTIGIDFKVKYLKIDNKTIKVGIW 64

Query:    67 DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
             DTAGQERF TLTS+YYR AH IILVYD T RE+F NL  VW  E++ YSTN++ +K+LV 
Sbjct:    65 DTAGQERFRTLTSAYYRNAHAIILVYDCTVRESFENLD-VWINEIDKYSTNKNAIKMLVA 123

Query:   127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGS 186
             NK+D+ +   VT++EG   A E+  LF E SAKN  ++  CF++L+ +IL  PSLLE  S
Sbjct:   124 NKIDKPNHE-VTKDEGKNFAFENNMLFCETSAKNDINITYCFEELIQQILNNPSLLEL-S 181

Query:   187 AVVKNQILKQKEVQES 202
              V KN  L +KE   S
Sbjct:   182 IVTKNLKLGKKEESRS 197

GO:0003924 "GTPase activity" evidence=ISS

GO:0006184 "GTP catabolic process" evidence=ISS

MGI|MGI:102790 Rab18 "RAB18, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 462 (167.7 bits), Expect = 8.1e-44, P = 8.1e-44
 Identities = 98/199 (49%), Positives = 131/199 (65%)

Query:    13 SFKILLIGDSGVGKXXXXXXXXXXXVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
             + KIL+IG+SGVGK             DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct:     8 TLKILIIGESGVGKSSLLLRFTDDTF-DPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query:    71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct:    67 QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query:   131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
             +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  +   +
Sbjct:   126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESEN---Q 181

Query:   191 NQILKQKEVQESARGGNCC 209
             N+ +K    +ES RGG  C
Sbjct:   182 NKGVKLSHREES-RGGGAC 199

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0006810 "transport" evidence=IEA

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0007275 "multicellular organismal development" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

RGD|1308905 Rab18 "RAB18, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 459 (166.6 bits), Expect = 1.7e-43, P = 1.7e-43
 Identities = 97/198 (48%), Positives = 130/198 (65%)

Query:    13 SFKILLIGDSGVGKXXXXXXXXXXXVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
             + KIL+IG+SGVGK             DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct:     8 TLKILIIGESGVGKSSLLLRFTDDTF-DPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 66

Query:    71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V +LVGNK+D
Sbjct:    67 QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNMLVGNKID 125

Query:   131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVK 190
             +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E  +   +
Sbjct:   126 KEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESEN---Q 181

Query:   191 NQILKQKEVQESARGGNC 208
             N+ +K    +ES  GG C
Sbjct:   182 NKGVKLSPREESHGGGAC 199

GO:0001654 "eye development" evidence=ISS

GO:0005525 "GTP binding" evidence=IEA

GO:0005622 "intracellular" evidence=IEA;ISO

GO:0007264 "small GTPase mediated signal transduction" evidence=IEA

GO:0007420 "brain development" evidence=ISS

GO:0015031 "protein transport" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO;ISS

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q5ZLG1	RAB18_CHICK	No assigned EC number	0.5454	0.8142	0.8300	yes	no
O49841	RAC2A_ARATH	No assigned EC number	0.7238	1.0	1.0	yes	no
Q5EB77	RAB18_RAT	No assigned EC number	0.5101	0.9047	0.9223	yes	no
Q8MXS1	RAB18_CAEEL	No assigned EC number	0.5144	0.8	0.8275	yes	no
Q0IIG8	RAB18_BOVIN	No assigned EC number	0.5433	0.8	0.8155	yes	no
Q54GY8	RAB18_DICDI	No assigned EC number	0.5294	0.7952	0.8267	yes	no
P36862	YPTV3_VOLCA	No assigned EC number	0.5819	0.8380	0.8669	N/A	no
P01123	YPT1_YEAST	No assigned EC number	0.4439	0.9238	0.9417	yes	no
Q9NP72	RAB18_HUMAN	No assigned EC number	0.5433	0.8	0.8155	yes	no
P35293	RAB18_MOUSE	No assigned EC number	0.5101	0.9047	0.9223	yes	no
Q5R5H5	RAB18_PONAB	No assigned EC number	0.5433	0.8	0.8155	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Your Input: gw1.X.2875.1 SubName- Full=Putative uncharacterized protein; (201 aa) (Populus trichocarpa)

Predicted Functional Partners:

Sorry, there are no predicted associations at the current settings.

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database part I

ID	Length	Definition	E-value
Query	210
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	1e-119
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	7e-90
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	4e-85
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	7e-74
pfam00071	162	pfam00071, Ras, Ras family	6e-70
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	1e-68
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	4e-66
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	8e-62
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	1e-56
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	9e-54
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-52
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	7e-52
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-51
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	3e-51
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	3e-49
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	7e-49
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-48
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	1e-47
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	3e-47
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	5e-44
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	1e-43
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-42
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	5e-42
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	5e-40
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	6e-40
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	2e-39
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	3e-39
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	2e-36
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	6e-36
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	6e-36
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	9e-35
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	3e-34
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	5e-34
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	7e-34
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	4e-32
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	5e-32
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	2e-31
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	3e-31
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	3e-28
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	3e-28
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	4e-28
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	2e-27
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	2e-27
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	3e-27
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	3e-27
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	7e-27
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	7e-27
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	8e-27
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	3e-26
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	7e-26
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	1e-25
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	2e-24
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	4e-24
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	5e-24
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	9e-24
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	2e-23
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	4e-23
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	4e-23
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	4e-23
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	1e-22
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	5e-22
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	8e-22
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-21
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	2e-21
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	5e-21
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-20
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	1e-20
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	2e-20
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	3e-18
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	8e-18
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-17
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	1e-17
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-17
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	5e-17
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	7e-17
pfam08477	116	pfam08477, Miro, Miro-like protein	1e-16
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	9e-16
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	2e-15
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	2e-15
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	2e-15
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	5e-15
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	1e-14
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	1e-14
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	3e-14
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	9e-14
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	2e-12
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	1e-11
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	2e-11
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	4e-11
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	4e-11
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	7e-11
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	2e-10
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	3e-10
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	9e-10
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	1e-09
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	5e-09
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	9e-09
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	1e-08
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	1e-08
cd04162	164	cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp	2e-08
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	3e-08
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	3e-08
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	1e-07
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	1e-07
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	5e-07
cd04154	173	cd04154, Arl2, Arf-like 2 (Arl2) GTPase	9e-07
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	2e-06
cd00880	161	cd00880, Era_like, E	1e-05
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	2e-05
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	2e-04
pfam04670	230	pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserve	2e-04
cd04161	167	cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (A	8e-04
cd01892	180	cd01892, Miro2, Mitochondrial Rho family 2 (Miro2)	0.002
COG0486	454	COG0486, ThdF, Predicted GTPase [General function	0.002
pfam00735	280	pfam00735, Septin, Septin	0.002
cd11384	286	cd11384, RagA_like, Rag GTPase, subfamily of Ras-r	0.003

>gnl|CDD|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score =  335 bits (861), Expect = e-119
 Identities = 162/211 (76%), Positives = 178/211 (84%), Gaps = 1/211 (0%)

Query: 1   MGSKVGNNS-YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK 59
           MGS  G +S YD SFKILLIGDSGVGKSS+L+S IS+SV D +PTIGVDFKIK LTVGGK
Sbjct: 1   MGSSSGQSSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGK 60

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           RLKLTIWDTAGQERF TLTSSYYR A GIILVYDVTRRETFTNLS VW KEVELYSTNQD
Sbjct: 61  RLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQD 120

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
           CVK+LVGNKVDR+SER V+REEGM LA+EH CLFLECSAK  E+V+QCF++L  KI+EVP
Sbjct: 121 CVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP 180

Query: 180 SLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           SLLE+GS  VK  ILKQK   +    G CCS
Sbjct: 181 SLLEEGSTAVKRNILKQKPEHQPPPNGGCCS 211

Length = 211

>gnl|CDD|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score =  260 bits (667), Expect = 7e-90
 Identities = 101/163 (61%), Positives = 123/163 (75%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            KILLIGDSGVGKSS+LL    ++  +  S TIGVDFK+K +TV GK++KL IWDTAGQE
Sbjct: 1   LKILLIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF TLTSSYYRGA G+ILVYDVTRR+TF NL   W  E++ YSTN D VK+LVGNK+D+ 
Sbjct: 61  RFRTLTSSYYRGAQGVILVYDVTRRDTFDNL-DTWLNELDTYSTNPDAVKMLVGNKIDK- 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             R VTREEG   A++H  LF+E SAK    V+Q F++L+ KI
Sbjct: 119 ENREVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

Rab18 subfamily. Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score =  248 bits (636), Expect = 4e-85
 Identities = 87/164 (53%), Positives = 113/164 (68%), Gaps = 3/164 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI+LIGDSGVGKSS+L         +    TIGVDFK K + V GKR+KL IWDTAGQE
Sbjct: 1   FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF ++TSSYYRGA G +LVYD+T RE+F NL + W KE+  Y+ + + V +LVGNK D +
Sbjct: 61  RFRSITSSYYRGAVGALLVYDITNRESFENLEN-WLKELREYA-SPNVVIMLVGNKSDLE 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
            +R V+REE    A+EH   F E SAK   +V++ F++L  +IL
Sbjct: 119 EQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREIL 162

Rab GTPases are implicated in vesicle trafficking. Length = 164

>gnl|CDD|206640 cd00154, Rab, Ras-related in brain (Rab) family of small guanosine triphosphatases (GTPases)

 Score =  220 bits (562), Expect = 7e-74
 Identities = 88/159 (55%), Positives = 110/159 (69%), Gaps = 3/159 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI+LIGDSGVGK+S+LL  + N    +   TIGVDFK K + V GK++KL IWDTAGQE
Sbjct: 1   FKIVLIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF ++TSSYYRGAHG ILVYDVT RE+F NL   W  E++ Y+   +   ILVGNK D +
Sbjct: 61  RFRSITSSYYRGAHGAILVYDVTNRESFENLDK-WLNELKEYA-PPNIPIILVGNKSDLE 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
            ER V+ EE    A+E+  LF E SAK  E+V + F+ L
Sbjct: 119 DERQVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESL 157

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which mask C-terminal lipid binding and promote cytosolic localization. While most unicellular organisms possess 5-20 Rab members, several have been found to possess 60 or more Rabs; for many of these Rab isoforms, homologous proteins are not found in other organisms. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Since crystal structures often lack C-terminal residues, the lipid modification site is not available for annotation in many of the CDs in the hierarchy, but is included where possible. Length = 159

>gnl|CDD|215692 pfam00071, Ras, Ras family

 Score =  210 bits (536), Expect = 6e-70
 Identities = 77/164 (46%), Positives = 108/164 (65%), Gaps = 3/164 (1%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD GVGKSS+L+    N   +   PTIGVDF  K + V GK +KL IWDTAGQER
Sbjct: 1   KLVLVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQER 60

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F  L   YYRGA G +LVYD+T R++F N+   W +E+  ++   +   +LVGNK D + 
Sbjct: 61  FRALRPLYYRGAQGFLLVYDITSRDSFENVKK-WLEEILRHADE-NVPIVLVGNKCDLED 118

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +R V+ EEG  LA+E    F+E SAK  E+V++ F++L  +IL+
Sbjct: 119 QRVVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See pfam00009 pfam00025, pfam00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices. Length = 162

>gnl|CDD|206659 cd01867, Rab8_Rab10_Rab13_like, Rab GTPase families 8, 10, 13 (Rab8, Rab10, Rab13)

 Score =  207 bits (528), Expect = 1e-68
 Identities = 86/169 (50%), Positives = 122/169 (72%), Gaps = 5/169 (2%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           DY FK+LLIGDSGVGKS +LL    +S  +PS   TIG+DFKI+ + + GK++KL IWDT
Sbjct: 1   DYLFKLLLIGDSGVGKSCLLLRFSEDSF-NPSFISTIGIDFKIRTIELDGKKIKLQIWDT 59

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+T+SYYRGA GIILVYD+T  ++F N+ + W + ++ ++ ++D  ++LVGNK
Sbjct: 60  AGQERFRTITTSYYRGAMGIILVYDITDEKSFENIKN-WMRNIDEHA-SEDVERMLVGNK 117

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            D + +R V++EEG  LA+E+   FLE SAK   +V++ F  L   IL+
Sbjct: 118 CDMEEKRVVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDILK 166

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 167

>gnl|CDD|206661 cd01869, Rab1_Ypt1, Rab GTPase family 1 includes the yeast homolog Ypt1

 Score =  200 bits (511), Expect = 4e-66
 Identities = 83/167 (49%), Positives = 112/167 (67%), Gaps = 3/167 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           Y FK+LLIGDSGVGKS +LL    ++  +    TIGVDFKI+ + + GK +KL IWDTAG
Sbjct: 1   YLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAG 60

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y  +++  K+LVGNK D
Sbjct: 61  QERFRTITSSYYRGAHGIIIVYDVTDQESFNNVKQ-WLQEIDRY-ASENVNKLLVGNKCD 118

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
              ++ V   E    A E    FLE SAKN  +V++ F  +  +I +
Sbjct: 119 LTDKKVVDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREIKK 165

Rab1/Ypt1 subfamily. Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|206660 cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-like includes Rab11a, Rab11b, and Rab25

 Score =  189 bits (483), Expect = 8e-62
 Identities = 77/166 (46%), Positives = 109/166 (65%), Gaps = 3/166 (1%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           DY FKI+LIGDSGVGKS++L     N  +  S  TIGV+F  + + + GK +K  IWDTA
Sbjct: 1   DYLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTA 60

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQER+  +TS+YYRGA G +LVYD+T++ TF N+   W KE+  ++ + + V +LVGNK 
Sbjct: 61  GQERYRAITSAYYRGAVGALLVYDITKKSTFENVER-WLKELRDHA-DSNIVIMLVGNKS 118

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           D    RAV  EE    A+++   F+E SA +  +V++ FK LL +I
Sbjct: 119 DLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score =  176 bits (449), Expect = 1e-56
 Identities = 81/171 (47%), Positives = 115/171 (67%), Gaps = 7/171 (4%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLIS---NSVHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
           Y Y FK ++IGD+GVGKS +LL         VHD   TIGV+F  +++T+ GK++KL IW
Sbjct: 1   YAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDL--TIGVEFGARMITIDGKQIKLQIW 58

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQE F ++T SYYRGA G +LVYD+TRRETF +L+S W ++   +S N +   +L+G
Sbjct: 59  DTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTS-WLEDARQHS-NSNMTIMLIG 116

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           NK D +S R V+ EEG   A+EH  +F+E SAK   +V++ F +   +I +
Sbjct: 117 NKCDLESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYD 167

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 168

>gnl|CDD|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score =  169 bits (430), Expect = 9e-54
 Identities = 68/165 (41%), Positives = 97/165 (58%), Gaps = 3/165 (1%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GDS VGKSSI+L  + N   +    TIG  F  + + +    +K  IWDTAGQ
Sbjct: 1   QFKLVLLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQ 60

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ER+ +L   YYRGA   I+VYD+T  E+F    S W KE++ +    + V  L GNK D 
Sbjct: 61  ERYRSLAPMYYRGAAAAIVVYDITSEESFEKAKS-WVKELQEHG-PPNIVIALAGNKADL 118

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           +S+R V+ EE    A E+  LF+E SAK  E+V + F ++  K+ 
Sbjct: 119 ESKRQVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKLP 163

The Rab5-related subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|133322 cd04122, Rab14, Rab GTPase family 14 (Rab14)

 Score =  165 bits (419), Expect = 3e-52
 Identities = 79/167 (47%), Positives = 106/167 (63%), Gaps = 3/167 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPSP-TIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           Y FK ++IGD GVGKS +L            P TIGV+F  +++ V G+++KL IWDTAG
Sbjct: 1   YIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAG 60

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF  +T SYYRGA G ++VYD+TRR T+ +LSS W  +     TN + V  L+GNK D
Sbjct: 61  QERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDAR-NLTNPNTVIFLIGNKAD 118

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +++R VT EE    A E+  LFLECSAK  E+V+  F +   KI +
Sbjct: 119 LEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 166

>gnl|CDD|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score =  164 bits (417), Expect = 7e-52
 Identities = 76/160 (47%), Positives = 103/160 (64%), Gaps = 4/160 (2%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLIS-NSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           D+ FKI+LIGDS VGK+ ++    S         TIGVDF +K L + GKR+KL IWDTA
Sbjct: 1   DFLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTA 60

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF T+T SYYR A+G I+ YD+TRR +F ++   W +EVE Y    + V +L+GNK 
Sbjct: 61  GQERFRTITQSYYRSANGAIIAYDITRRSSFESVPH-WIEEVEKY-GASNVVLLLIGNKC 118

Query: 130 DRDSERAVTREEGMILAQEHKCLF-LECSAKNTEDVKQCF 168
           D + +R V  EE   LA+ +  L  LE SAK + +V++ F
Sbjct: 119 DLEEQREVLFEEACTLAEHYGILAVLETSAKESSNVEEAF 158

Rab19 subfamily. Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet characterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score =  163 bits (415), Expect = 1e-51
 Identities = 72/164 (43%), Positives = 107/164 (65%), Gaps = 5/164 (3%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWD 67
           YD+ FKI+LIG++GVGK+  L+   +  +  P    TIGVDF IK + + G+++KL IWD
Sbjct: 4   YDFLFKIVLIGNAGVGKTC-LVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWD 62

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF ++T SYYR A+ +IL YD+T  E+F  L   W +E+E Y+ N+  + ILVGN
Sbjct: 63  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPE-WLREIEQYANNK-VITILVGN 120

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           K+D    R V+++     +      +LE SAK +++V++ F DL
Sbjct: 121 KIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDL 164

Rab30 subfamily. Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 169

>gnl|CDD|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score =  164 bits (416), Expect = 3e-51
 Identities = 81/172 (47%), Positives = 113/172 (65%), Gaps = 7/172 (4%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLIS---NSVHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           SY Y FK ++IGD+GVGKS +LL         VHD   TIGV+F  +++T+  K +KL I
Sbjct: 2   SYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDL--TIGVEFGARMITIDNKPIKLQI 59

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQE F ++T SYYRGA G +LVYD+TRRETF +L+S W ++   ++ N +   +L+
Sbjct: 60  WDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLAS-WLEDARQHA-NANMTIMLI 117

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D    RAV+ EEG   A+EH  +F+E SAK  ++V++ F     KI +
Sbjct: 118 GNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYK 169

Length = 210

>gnl|CDD|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score =  157 bits (399), Expect = 3e-49
 Identities = 77/156 (49%), Positives = 101/156 (64%), Gaps = 3/156 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSP-TIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK L+IG +G GKS +L   I N     S  TIGV+F  +++ VGGK +KL IWDTAGQE
Sbjct: 1   FKFLIIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF ++T SYYRGA G +LVYD+T RE+F  L++ W  +    ++  D V ILVGNK D +
Sbjct: 61  RFRSVTRSYYRGAAGALLVYDITSRESFNALTN-WLTDARTLAS-PDIVIILVGNKKDLE 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
            +R VT  E    AQE+  LFLE SA   E+V++ F
Sbjct: 119 DDREVTFLEASRFAQENGLLFLETSALTGENVEEAF 154

Rab4 subfamily. Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133310 cd04110, Rab35, Rab GTPase family 35 (Rab35)

 Score =  158 bits (400), Expect = 7e-49
 Identities = 87/202 (43%), Positives = 116/202 (57%), Gaps = 7/202 (3%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YD+ FK+L+IGDSGVGKSS+LL    N+       TIGVDFKI+ + + G+R+KL IWDT
Sbjct: 3   YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDT 62

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGN 127
           AGQERF T+TS+YYRG HG+I+VYDVT  E+F N+   W +E+E    N D V K+LVGN
Sbjct: 63  AGQERFRTITSTYYRGTHGVIVVYDVTNGESFVNVKR-WLQEIE---QNCDDVCKVLVGN 118

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSA 187
           K D    + V  E+    A +      E SAK   +V++ F  +   +L           
Sbjct: 119 KNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRA-KKDNLAKQ 177

Query: 188 VVKNQILKQKEVQESARGGNCC 209
             + Q    K  + S R   CC
Sbjct: 178 QQQQQNDVVKLPKNSKRKKRCC 199

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 199

>gnl|CDD|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score =  154 bits (392), Expect = 4e-48
 Identities = 64/160 (40%), Positives = 95/160 (59%), Gaps = 5/160 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            K++ +GD  VGK+SI+   + ++  D     TIG+DF  K + V  K ++L +WDTAGQ
Sbjct: 1   HKLVFLGDQSVGKTSIITRFMYDTF-DNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQ 59

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ERF +L  SY R +   ++VYD+T R++F N    W  +V       D + +LVGNK D 
Sbjct: 60  ERFRSLIPSYIRDSSVAVVVYDITNRQSFDNTDK-WIDDVRD-ERGNDVIIVLVGNKTDL 117

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
             +R V+ EEG   A+E+  +F+E SAK   +VKQ FK +
Sbjct: 118 SDKRQVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKI 157

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 161

>gnl|CDD|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score =  154 bits (392), Expect = 1e-47
 Identities = 69/159 (43%), Positives = 105/159 (66%), Gaps = 3/159 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVG-GKRLKLTIWDTA 69
           Y F++++IGDS VGKSS+L         + S PT+GVDF  +L+ +  G R+KL +WDTA
Sbjct: 1   YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTA 60

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF ++T SYYR + G++LV+D+T RE+F ++   W +E   +      V ILVG+K 
Sbjct: 61  GQERFRSITRSYYRNSVGVLLVFDITNRESFEHVHD-WLEEARSHIQPHRPVFILVGHKC 119

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           D +S+R VTREE   LA++    ++E SA+  ++V++ F
Sbjct: 120 DLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAF 158

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 211

>gnl|CDD|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score =  154 bits (390), Expect = 3e-47
 Identities = 88/218 (40%), Positives = 129/218 (59%), Gaps = 11/218 (5%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDFKIKLLTVGGK 59
           M  +V ++ YDY FKI+LIGDSGVGKS+IL     N    +   TIGV+F  + L V GK
Sbjct: 1   MAHRV-DHEYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGK 59

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +K  IWDTAGQER+  +TS+YYRGA G +LVYD+T+R+TF N+   W +E+  ++ + +
Sbjct: 60  TVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITKRQTFDNVQR-WLRELRDHA-DSN 117

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL---YKIL 176
            V ++ GNK D +  R+V  E+G  LA++    FLE SA    +V++ F+ +L   Y I+
Sbjct: 118 IVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHII 177

Query: 177 EVPSLLEQGSAVVKNQILKQKEVQESARGGN----CCS 210
              +L  Q +A       +   +  +   GN    CCS
Sbjct: 178 SKKALAAQEAAANSGLPGQGTTINVADTSGNNKRGCCS 215

Length = 216

>gnl|CDD|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score =  145 bits (366), Expect = 5e-44
 Identities = 79/205 (38%), Positives = 123/205 (60%), Gaps = 23/205 (11%)

Query: 14  FKILLIGDSGVGKSSILL-----SLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           FK++L+GDSGVGK+ +L+     + ++ S      T+G+ F  K++TV G ++KL IWDT
Sbjct: 1   FKVMLVGDSGVGKTCLLVRFKDGAFLAGSF---IATVGIQFTNKVVTVDGVKVKLQIWDT 57

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF ++T +YYR AH ++L+YDVT + +F N+   W  E+  Y+   D V +L+GNK
Sbjct: 58  AGQERFRSVTHAYYRDAHALLLLYDVTNKSSFDNI-RAWLTEILEYA-QSDVVIMLLGNK 115

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF----KDLLYKILEVPSLLEQ 184
            D   ER V RE+G  LA+E+   F+E SAK   +V+  F    K+L ++ +E P    +
Sbjct: 116 ADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHRSVEQPD---E 172

Query: 185 GSAVVKNQILKQKEVQESARGGNCC 209
               +++ + KQK+         CC
Sbjct: 173 PKFKIQDYVEKQKKSS------GCC 191

Rab26 subfamily. First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 191

>gnl|CDD|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score =  143 bits (362), Expect = 1e-43
 Identities = 75/165 (45%), Positives = 105/165 (63%), Gaps = 3/165 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK+L+IG+S VGK+S L     +S       T+G+DFK+K +    KR+KL IWDTAGQE
Sbjct: 2   FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQE 61

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ T+T++YYRGA G IL+YD+T  E+F  +   W+ +++ YS +   V ILVGNK D +
Sbjct: 62  RYRTITTAYYRGAMGFILMYDITNEESFNAVQD-WSTQIKTYSWDNAQV-ILVGNKCDME 119

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            ER V+ E G  LA +    F E SAK   +VKQ F+ L+  I +
Sbjct: 120 DERVVSAERGRQLADQLGFEFFEASAKENINVKQVFERLVDIICD 164

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score =  140 bits (356), Expect = 1e-42
 Identities = 59/159 (37%), Positives = 92/159 (57%), Gaps = 3/159 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSP-TIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+  VGK+S++L  + N  ++    T    F  K + +GGKR+ L IWDTAGQE
Sbjct: 1   FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+  L   YYR A G ILVYD+T  ++F  +   W KE++    N   + ++VGNK+D +
Sbjct: 61  RYHALGPIYYRDADGAILVYDITDADSFQKVKK-WIKELKQMRGNNISL-VIVGNKIDLE 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
            +R V++ E    A+       E SAK  + +++ F  L
Sbjct: 119 RQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSL 157

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score =  140 bits (354), Expect = 5e-42
 Identities = 73/173 (42%), Positives = 118/173 (68%), Gaps = 9/173 (5%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSP-TIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           ++++IG  GVGK+S++     ++  +    T+GVDFKIK + + GK+++L IWDTAGQER
Sbjct: 2   QVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQER 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F ++TS+YYR A GIILVYD+T++ETF +L   W K ++ Y++ +D   +LVGNK+D ++
Sbjct: 62  FNSITSAYYRSAKGIILVYDITKKETFDDLPK-WMKMIDKYAS-EDAELLLVGNKLDCET 119

Query: 134 ERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF----KDLLYKI-LEVPS 180
           +R +TR++G   AQ+   + F E SAK+  +V + F     D+L K+ L++  
Sbjct: 120 DREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKKMPLDILR 172

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 202

>gnl|CDD|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score =  134 bits (338), Expect = 5e-40
 Identities = 70/160 (43%), Positives = 102/160 (63%), Gaps = 5/160 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           F++LLIGDSGVGK+ +L     N  H  S   TIGVDFK+K + V G ++++ IWDTAGQ
Sbjct: 1   FRLLLIGDSGVGKTCLLCRFTDNEFH-SSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQ 59

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ER+ T+T  YYR A GI LVYD++   ++ ++   W  +V+ Y+  +   KIL+GNK D 
Sbjct: 60  ERYQTITKQYYRRAQGIFLVYDISSERSYQHIMK-WVSDVDEYA-PEGVQKILIGNKADE 117

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           + +R V  E+G  LA+E+   F E SA   +++K+ F  L
Sbjct: 118 EQKRQVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRL 157

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133315 cd04115, Rab33B_Rab33A, Rab GTPase family 33 includes Rab33A and Rab33B

 Score =  134 bits (338), Expect = 6e-40
 Identities = 62/167 (37%), Positives = 93/167 (55%), Gaps = 6/167 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI++IGDS VGK+ +     +    +    TIGVDF+ + + + G+R+K+ +WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQE 62

Query: 73  RF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           RF  ++   YYR  H ++ VYDVT   +F +L S W +E E +S   +  +ILVGNK D 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDVTNMASFHSLPS-WIEECEQHSLPNEVPRILVGNKCDL 121

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKN---TEDVKQCFKDLLYKI 175
             +  V  +     A  H     E SAK+    + V+  F  L +K+
Sbjct: 122 REQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL 168

Rab33B/Rab33A subfamily. Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|206642 cd00876, Ras, Rat sarcoma (Ras) family of small guanosine triphosphatases (GTPases)

 Score =  132 bits (335), Expect = 2e-39
 Identities = 61/162 (37%), Positives = 92/162 (56%), Gaps = 3/162 (1%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGKS++ +  +S   V +  PTI  D   K + V G+   L I DTAGQE 
Sbjct: 1   KLVVLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEE 59

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F  +   Y R   G ILVY +T RE+F  + ++  + + +       + +LVGNK D ++
Sbjct: 60  FSAMRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPI-VLVGNKCDLEN 118

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ER V+ EEG  LA+E  C FLE SAK   ++ + F  L+ +I
Sbjct: 119 ERQVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 160

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 160

>gnl|CDD|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score =  132 bits (334), Expect = 3e-39
 Identities = 62/172 (36%), Positives = 99/172 (57%), Gaps = 12/172 (6%)

Query: 14  FKILLIGDSGVGKSSILLSLI----SNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
            K++++GDSGVGK+S++   +    SN       TIG DF  K +TV  + + L IWDTA
Sbjct: 1   LKVIILGDSGVGKTSLMNQYVNKKFSNQY---KATIGADFLTKEVTVDDRLVTLQIWDTA 57

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQERF +L  ++YRGA   +LVYDVT  ++F +L S W  E  + ++ +D      +++G
Sbjct: 58  GQERFQSLGVAFYRGADCCVLVYDVTNPKSFESLDS-WRDEFLIQASPRDPENFPFVVLG 116

Query: 127 NKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           NK+D + +R V+ ++     +    + + E SAK   +V Q F+ +    LE
Sbjct: 117 NKIDLEEKRQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALE 168

Rab7 subfamily. Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 172

>gnl|CDD|206692 cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab18) and 32 (Rab32)

 Score =  125 bits (317), Expect = 2e-36
 Identities = 69/207 (33%), Positives = 106/207 (51%), Gaps = 17/207 (8%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-----SPTIGVDFKIKLLTVGGKRL-KLTIWD 67
           FK+L+IGD GVGK+SI    I   VH         TIGVDF +K++      + +L +WD
Sbjct: 1   FKVLVIGDLGVGKTSI----IKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWD 56

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE---LYSTNQDCVKIL 124
            AGQERFG +T  YY+GA G I+V+DVTR  TF      W  +++        +    +L
Sbjct: 57  IAGQERFGGMTRVYYKGAVGAIIVFDVTRPSTFEA-VLKWKADLDSKVTLPNGEPIPALL 115

Query: 125 VGNKVDRDSER-AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVPSLL 182
           + NK D   ER A   E+     +E+  + + E SAK   ++++  + L+  IL+    L
Sbjct: 116 LANKCDLKKERLAKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGL 175

Query: 183 EQGSAVVKNQILKQKEVQESARGGNCC 209
           +       N I   K+   +++  +CC
Sbjct: 176 QSPEPDEDNVIDL-KQETTTSKSKSCC 201

Rab38/Rab32 subfamily. Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 201

>gnl|CDD|214541 smart00173, RAS, Ras subfamily of RAS small GTPases

 Score =  123 bits (311), Expect = 6e-36
 Identities = 61/163 (37%), Positives = 92/163 (56%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  I    V D  PTI  D   K + + G+   L I DTAGQE
Sbjct: 1   YKLVVLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 59

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            F  +   Y R   G +LVY +T R++F  +     + + +   +   + +LVGNK D +
Sbjct: 60  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPI-VLVGNKCDLE 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           SER V+ EEG  LA++  C FLE SAK   +V + F DL+ +I
Sbjct: 119 SERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREI 161

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades. Length = 164

>gnl|CDD|197466 smart00010, small_GTPase, Small GTPase of the Ras superfamily; ill-defined subfamily

 Score =  123 bits (311), Expect = 6e-36
 Identities = 59/166 (35%), Positives = 92/166 (55%), Gaps = 9/166 (5%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  +    V +  PTI  D   K + + G+   L I DTAGQE
Sbjct: 3   YKLVVLGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQE 61

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
            F  +   Y R   G +LVY +T R++F  ++    + + +     D      +LVGNK 
Sbjct: 62  EFSAMRDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVK----DRDDVPIVLVGNKC 117

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           D ++ER V+ EEG  LA++  C FLE SAK   +V + F DL+ +I
Sbjct: 118 DLENERVVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREI 163

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily. Length = 166

>gnl|CDD|224025 COG1100, COG1100, GTPase SAR1 and related small G proteins [General function prediction only]

 Score =  122 bits (307), Expect = 9e-35
 Identities = 71/220 (32%), Positives = 112/220 (50%), Gaps = 19/220 (8%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWD 67
            +   FKI+++GD GVGK+++L  L+ +   +   PTIG     K +    + +KL +WD
Sbjct: 1   LFMKEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWD 60

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQE + +L   YYRGA+GI++VYD T RE+   L+  W +E+   + +   + +LVGN
Sbjct: 61  TAGQEEYRSLRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPI-LLVGN 119

Query: 128 KVDRDSERAVTREEGMILAQEHKCL---------------FLECSAKNTE--DVKQCFKD 170
           K+D   E++ + E    L +E   L                LE SAK+    +V + FK+
Sbjct: 120 KIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKE 179

Query: 171 LLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           LL K+LE    L   + + +   L     Q +    NC  
Sbjct: 180 LLRKLLEEIEKLVLKNELRQLDRLNNPIEQAALASFNCVL 219

Length = 219

>gnl|CDD|133321 cd04121, Rab40, Rab GTPase family 40 (Rab40) contains Rab40a, Rab40b and Rab40c

 Score =  120 bits (302), Expect = 3e-34
 Identities = 66/164 (40%), Positives = 95/164 (57%), Gaps = 4/164 (2%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWD 67
           +YDY  K LL+GDS VGK  IL SL   S   P    +G+D+K   + + G+R+KL +WD
Sbjct: 2   AYDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWD 61

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           T+GQ RF T+  SY RGA GIILVYD+T R +F  +   W KE++ ++      KILVGN
Sbjct: 62  TSGQGRFCTIFRSYSRGAQGIILVYDITNRWSFDGIDR-WIKEIDEHAPG--VPKILVGN 118

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           ++    +R V  E+    A+ +   F E S     ++ + F +L
Sbjct: 119 RLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTEL 162

The Rab40 subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 189

>gnl|CDD|133345 cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3

 Score =  118 bits (298), Expect = 5e-34
 Identities = 64/166 (38%), Positives = 92/166 (55%), Gaps = 17/166 (10%)

Query: 14  FKILLIGDSGVGKSSILLSLI-SNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  I S  V D  PTI  D   K   + G+  +L I DTAGQE
Sbjct: 3   YKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCEIDGQWARLDILDTAGQE 61

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-------ILV 125
            F  +   Y R   G +LV+ VT R +F        +EV+ + T    VK       ILV
Sbjct: 62  EFSAMREQYMRTGEGFLLVFSVTDRGSF--------EEVDKFHTQILRVKDRDEFPMILV 113

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           GNK D + +R V+REEG  LA++ K  ++E SAK+  +V + F DL
Sbjct: 114 GNKADLEHQRQVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDL 159

The M-Ras/R-Ras-like subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206700 cd04127, Rab27A, Rab GTPase family 27a (Rab27a)

 Score =  118 bits (298), Expect = 7e-34
 Identities = 63/181 (34%), Positives = 104/181 (57%), Gaps = 16/181 (8%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLL---------TVG-G 58
           YDY  K+L +GDSGVGK++ L     N  +     T+G+DF+ K +         T G  
Sbjct: 1   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKA 60

Query: 59  KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL--YST 116
            R+ L +WDTAGQERF +LT++++R A G +L++D+T  ++F N+ + W  +++   Y  
Sbjct: 61  FRVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRN-WMSQLQAHAYCE 119

Query: 117 NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           N D V  L+GNK D   +R V+  +   LA ++   + E SA   ++V++  + LL  I+
Sbjct: 120 NPDIV--LIGNKADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIM 177

Query: 177 E 177
           +
Sbjct: 178 K 178

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated insulin secretion, making it a potential target for diabetes therapy. When bound to JFC1 in prostate cells, Rab27a is believed to regulate the exocytosis of prostate- specific markers. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 180

>gnl|CDD|133319 cd04119, RJL, Rab GTPase family J-like (RabJ-like)

 Score =  113 bits (286), Expect = 4e-32
 Identities = 53/172 (30%), Positives = 94/172 (54%), Gaps = 14/172 (8%)

Query: 15  KILLIGDSGVGKSSILL-----SLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           K++ +G+SGVGKS I+        +S  +    PTIG+D+ +K ++V  K +++  +D +
Sbjct: 2   KVISMGNSGVGKSCIIKRYCEGRFVSKYL----PTIGIDYGVKKVSVRNKEVRVNFFDLS 57

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ----DCVKILV 125
           G   +  + + +Y+   G++LVYDVT R++F  L S W KE++          + V ++ 
Sbjct: 58  GHPEYLEVRNEFYKDTQGVLLVYDVTDRQSFEALDS-WLKEMKQEGGPHGNMENIVVVVC 116

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            NK+D    RAV+ +EG + A+     + E SA   E V + F+ L   I++
Sbjct: 117 ANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIVD 168

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 168

>gnl|CDD|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score =  113 bits (286), Expect = 5e-32
 Identities = 62/162 (38%), Positives = 90/162 (55%), Gaps = 3/162 (1%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI ++G   VGKSS+ +  +    V    PTI   F  K++T  G+   L I DTAGQ+ 
Sbjct: 3   KIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDE 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  L   Y  G HG ILVY VT R++F  +  ++ K +++       + +LVGNK D   
Sbjct: 62  YSILPQKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLGKESVPI-VLVGNKSDLHM 120

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ER V+ EEG  LA+     FLE SAK  E+V++ F+ L+ +I
Sbjct: 121 ERQVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI 162

Rheb (Ras Homolog Enriched in Brain) subfamily. Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that leads to cell growth and cell-cycle progression. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 180

>gnl|CDD|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score =  112 bits (282), Expect = 2e-31
 Identities = 57/171 (33%), Positives = 89/171 (52%), Gaps = 20/171 (11%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           KI+++GD  VGK+ +L+S  +N    P+   PT+  D     +TV GK++ L +WDTAGQ
Sbjct: 2   KIVVVGDGAVGKTCLLISYTTNKF--PTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQ 58

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      +L + V    +F N+ + W  E++ Y    +   ILVG K+D 
Sbjct: 59  EEYDRLRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHY--CPNVPIILVGTKIDL 116

Query: 131 RDSE----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKD 170
           RD            + +T EEG  LA+E   + ++ECSA   E +K+ F +
Sbjct: 117 RDDGNTLKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDE 167

Members of the Rho (Ras homology) family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Since crystal structures often lack C-terminal residues, this feature is not available for annotation in many of the CDs in the hierarchy. Length = 171

>gnl|CDD|206697 cd04116, Rab9, Rab GTPase family 9 (Rab9)

 Score =  111 bits (280), Expect = 3e-31
 Identities = 60/160 (37%), Positives = 91/160 (56%), Gaps = 7/160 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++L+GD GVGKSS++   ++N        TIGV+F  K L V G  + L IWDTAGQE
Sbjct: 6   LKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQE 65

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L + +YRG+   +L + V   ++F NL S W KE   Y+  ++      +++GNK+
Sbjct: 66  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNL-SNWKKEFIYYADVKEPESFPFVILGNKI 124

Query: 130 DRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           D   ER V+ EE     +++    + E SAK+  +V   F
Sbjct: 125 DI-PERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 163

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 170

>gnl|CDD|197554 smart00174, RHO, Rho (Ras homology) subfamily of Ras-like small GTPases

 Score =  104 bits (261), Expect = 3e-28
 Identities = 49/167 (29%), Positives = 83/167 (49%), Gaps = 17/167 (10%)

Query: 16  ILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           ++++GD  VGK+ +L+   +N+   D  PT+  ++    + V GK ++L +WDTAGQE +
Sbjct: 1   LVVVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDY 59

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD---- 130
             L    Y      ++ + V    +F N+   W  EV+ +    +   ILVG K+D    
Sbjct: 60  DRLRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHF--CPNVPIILVGTKLDLRND 117

Query: 131 --------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
                   +  +  VT E+G  LA+    + +LECSA   E V++ F
Sbjct: 118 KSTLEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVF 164

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms. Length = 174

>gnl|CDD|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score =  103 bits (259), Expect = 3e-28
 Identities = 56/165 (33%), Positives = 94/165 (56%), Gaps = 5/165 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  +S + +    PTI  DF  K + V      L I DTAG E
Sbjct: 2   YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDR 131
           +F ++   Y +   G I+VY +  ++TF ++  +  ++  +     + V I LVGNKVD 
Sbjct: 61  QFASMRDLYIKNGQGFIVVYSLVNQQTFQDIKPM--RDQIVRVKGYEKVPIILVGNKVDL 118

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           +SER V+  EG  LA+E  C F+E SAK+   V + F +++ ++ 
Sbjct: 119 ESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQMN 163

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, including the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|185444 PTZ00099, PTZ00099, rab6; Provisional

 Score =  104 bits (259), Expect = 4e-28
 Identities = 61/165 (36%), Positives = 90/165 (54%), Gaps = 2/165 (1%)

Query: 44  TIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNL 103
           TIG+DF  K L +    ++L +WDTAGQERF +L  SY R +   I+VYD+T R++F N 
Sbjct: 12  TIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFEN- 70

Query: 104 SSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED 163
           ++ W +++ L    +D +  LVGNK D    R VT EEGM  AQE+  +F E SAK   +
Sbjct: 71  TTKWIQDI-LNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHN 129

Query: 164 VKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNC 208
           +K  FK +  K+  + +     + VV  Q+       +      C
Sbjct: 130 IKVLFKKIAAKLPNLDNSNSNDANVVDIQLTNNSNANDKNMLSKC 174

Length = 176

>gnl|CDD|133306 cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-like

 Score =  101 bits (254), Expect = 2e-27
 Identities = 56/158 (35%), Positives = 86/158 (54%), Gaps = 6/158 (3%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDF--KIKLLTVGGKRLKLTIWDTAGQ 71
           K++++G+  VGKSS++   +      D   TIGVDF  K   L    + ++L +WDTAGQ
Sbjct: 2   KVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQ 61

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E F  +T +YYRGA   ILV+  T RE+F  + S W ++VE  +   D   +LV  K+D 
Sbjct: 62  EEFDAITKAYYRGAQACILVFSTTDRESFEAIES-WKEKVE--AECGDIPMVLVQTKIDL 118

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
             +  +T EE   LA+  +      S K+  +V + F+
Sbjct: 119 LDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFE 156

Rab23-like subfamily. Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signaling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|133375 cd04175, Rap1, Rap1 family GTPase consists of Rap1a and Rap1b isoforms

 Score =  101 bits (254), Expect = 2e-27
 Identities = 59/163 (36%), Positives = 94/163 (57%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  +    V    PTI   ++ K + V G++  L I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G +LVY +T + TF +L  +  + + +  T +D   ILVGNK D +
Sbjct: 61  QFTAMRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDT-EDVPMILVGNKCDLE 119

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++  C FLE SAK   +V + F DL+ +I
Sbjct: 120 DERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI 162

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines; interestingly, in the SCCs, the active GTP-bound form localized to the nucleus, while the inactive GDP-bound form localized to the cytoplasm. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap1a, which is stimulated by T-cell receptor (TCR) activation, is a positive regulator of T cells by directing integrin activation and augmenting lymphocyte responses. In murine hippocampal neurons, Rap1b determines which neurite will become the axon and directs the recruitment of Cdc42, which is required for formation of dendrites and axons. In murine platelets, Rap1b is required for normal homeostasis in vivo and is involved in integrin activation. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|133344 cd04144, Ras2, Rat sarcoma (Ras) family 2 of small guanosine triphosphatases (GTPases)

 Score =  102 bits (255), Expect = 3e-27
 Identities = 63/186 (33%), Positives = 96/186 (51%), Gaps = 7/186 (3%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD GVGK+++ + L  N  V    PTI   ++ K + V G+   L + DTAGQE 
Sbjct: 1   KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYR-KQVVVDGQPCMLEVLDTAGQEE 59

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY-STNQDCVKILVGNKVDRD 132
           +  L   + R   G ILVY +T R TF  +     +   +   +  D   ++VGNK D+ 
Sbjct: 60  YTALRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKV 119

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQ 192
            ER V+ EEG  LA+   C F+E SAK   +V++ F  L+  + +      QG    K  
Sbjct: 120 YEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQ----RQGGQGPKGG 175

Query: 193 ILKQKE 198
             K+KE
Sbjct: 176 PTKKKE 181

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 190

>gnl|CDD|206648 cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like superfamily of small guanosine triphosphatases (GTPases)

 Score =  101 bits (253), Expect = 3e-27
 Identities = 52/166 (31%), Positives = 76/166 (45%), Gaps = 16/166 (9%)

Query: 17  LLIGDSGVGKSSILLSLISNSV----HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +++G  GVGKSS+L +L+   V      P  T   D  +K   +   ++KL + DT G +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVK--ELDKGKVKLVLVDTPGLD 58

Query: 73  RFG-----TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
            FG      L     RGA  I+LV D T RE+  +   +  + +           ILVGN
Sbjct: 59  EFGGLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKE----GIPIILVGN 114

Query: 128 KVDRDSERAVTREEGM-ILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
           K+D   ER V     +  LA+       E SAK  E V + F+ L+
Sbjct: 115 KIDLLEEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLI 160

Ras-like GTPase superfamily. The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulates initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Members of the Ras superfamily are identified by the GTP binding site, which is made up of five characteristic sequence motifs, and the switch I and switch II regions. Length = 161

>gnl|CDD|133324 cd04124, RabL2, Rab GTPase-like family 2 (Rab-like2)

 Score =  100 bits (250), Expect = 7e-27
 Identities = 59/159 (37%), Positives = 86/159 (54%), Gaps = 7/159 (4%)

Query: 15  KILLIGDSGVGKSSILLS-LISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI+L+GDS VGKS ++   L+         T  +          GK + +  WDTAGQER
Sbjct: 2   KIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQER 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F T+ +SYY  AH  ILV+DVTR+ T+ NLS  W +E+  Y     C  I+V NK+D D 
Sbjct: 62  FQTMHASYYHKAHACILVFDVTRKITYKNLSK-WYEELREYRPEIPC--IVVANKIDLDP 118

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             +VT ++    A++H       SA +  +V + F+D +
Sbjct: 119 --SVT-QKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAI 154

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share > 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 161

>gnl|CDD|206688 cd04101, RabL4, Rab GTPase-like family 4 (Rab-like4)

 Score =  100 bits (250), Expect = 7e-27
 Identities = 49/162 (30%), Positives = 73/162 (45%), Gaps = 6/162 (3%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSP---TIGVDFKIKLLTV--GGKRLKLTIWDTA 69
           +  ++GD  VGKS+++    S+          T G D  +K + V      ++L I+D+A
Sbjct: 2   QCAVVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSA 61

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQE F  +  + +     + +VYDVT   +F N S  W   V  +S       +LVGNK 
Sbjct: 62  GQELFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSR-WINRVRTHSHGLHTPGVLVGNKC 120

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           D    R V   +   LAQ +   F E SAK     +  F  L
Sbjct: 121 DLTDRREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSL 162

RabL4 (Rab-like4) subfamily. RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown. Length = 167

>gnl|CDD|206710 cd04139, RalA_RalB, Ral (Ras-like) family containing highly homologous RalA and RalB

 Score =  100 bits (250), Expect = 8e-27
 Identities = 58/164 (35%), Positives = 92/164 (56%), Gaps = 5/164 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++G  GVGKS++ L  + +  V D  PT   D   K + + G+ ++L I DTAGQE
Sbjct: 1   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA-DSYRKKVVLDGEEVQLNILDTAGQE 59

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDR 131
            +  +  +Y+R   G +LV+ +T  E+FT L+     E  L     D V  +LVGNK D 
Sbjct: 60  DYAAIRDNYFRSGEGFLLVFSITDMESFTALAEFR--EQILRVKEDDNVPLLLVGNKCDL 117

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           + +R V+ EE   LA++    ++E SAK   +V + F DL+ +I
Sbjct: 118 EDKRQVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREI 161

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (>80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exocyst and for localizing the exocyst to the leading edge of migrating cells. In human cancer cells, RalA is required to support anchorage-independent proliferation and RalB is required to suppress apoptosis. RalA has been shown to localize to the plasma membrane while RalB is localized to the intracellular vesicles. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 163

>gnl|CDD|206712 cd04141, Rit_Rin_Ric, Ras-like protein in all tissues (Rit), Ras-like protein in neurons (Rin) and Ras-related protein which interacts with calmodulin (Ric)

 Score = 99.2 bits (247), Expect = 3e-26
 Identities = 57/148 (38%), Positives = 80/148 (54%), Gaps = 7/148 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSV---HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           +KI+++G  GVGKS++ +  IS+S    HDP  TI   +K +   +  +   L I DTAG
Sbjct: 3   YKIVMLGAGGVGKSAVTMQFISHSFPDYHDP--TIEDAYKTQAR-IDNEPALLDILDTAG 59

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           Q  F  +   Y R   G I+ Y VT R +F   S  + + +      +D   +LVGNKVD
Sbjct: 60  QAEFTAMRDQYMRCGEGFIICYSVTDRHSFQEASE-FKELITRVRLTEDIPLVLVGNKVD 118

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSA 158
            + +R VT EEG  LA+E  C F E SA
Sbjct: 119 LEQQRQVTTEEGRNLAREFNCPFFETSA 146

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to signal in parallel with the Ras pathway or stimulate the Ras pathway at some upstream point, and binding of calmodulin to Ric may negatively regulate Ric activity. Length = 172

>gnl|CDD|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 98.4 bits (245), Expect = 7e-26
 Identities = 60/164 (36%), Positives = 91/164 (55%), Gaps = 5/164 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  I N  + +  PTI   ++ K   +  +   L I DTAGQE
Sbjct: 6   YKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQE 64

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDR 131
            +  +   Y R   G + VY +T R +F  ++S   +E  L   ++D V  ILVGNK D 
Sbjct: 65  EYSAMRDQYMRTGQGFLCVYSITSRSSFEEIASF--REQILRVKDKDRVPMILVGNKCDL 122

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           DSER V+  EG  LA+     FLE SAK   +V + F +L+ +I
Sbjct: 123 DSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREI 166

Length = 189

>gnl|CDD|206643 cd00877, Ran, Ras-related nuclear proteins (Ran)/TC4 family of small GTPases

 Score = 97.0 bits (242), Expect = 1e-25
 Identities = 54/170 (31%), Positives = 90/170 (52%), Gaps = 8/170 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVD-FKIKLLTVGGKRLKLTIWDTAGQ 71
           FK++L+GD G GK++ +   ++         T+GV+   +   T  GK ++  +WDTAGQ
Sbjct: 1   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGK-IRFNVWDTAGQ 59

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY      I+++DVT R T+ N+   W +++     N   V  L GNKVD 
Sbjct: 60  EKFGGLRDGYYIQGQCAIIMFDVTSRVTYKNV-PNWHRDLVRVCENIPIV--LCGNKVDI 116

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             +R V + + +   ++    + E SAK+  + ++ F  L  K+L  P+L
Sbjct: 117 -KDRKV-KPKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLGNPNL 164

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is bound to chromatin and confined to the nucleus. Ran itself is mobile and is actively imported into the nucleus by a mechanism involving NTF-2. Together with the compartmentalization of its regulators, this is thought to produce a relatively high concentration of RanGTP in the nucleus. Length = 166

>gnl|CDD|206704 cd04132, Rho4_like, Ras homology family 4 (Rho4) of small guanosine triphosphatases (GTPases)-like

 Score = 94.7 bits (236), Expect = 2e-24
 Identities = 55/219 (25%), Positives = 87/219 (39%), Gaps = 42/219 (19%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWD 67
           D   KI+++GD G GK+ +L+     S   P    PT+  ++   L    GK ++L +WD
Sbjct: 1   DLKVKIVVVGDGGCGKTCLLMVYAQGSF--PEEYVPTVFENYVTTLQVPNGKIIELALWD 58

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---IL 124
           TAGQE +  L    Y     I++ Y V    +  N+   W  EV     N  C     +L
Sbjct: 59  TAGQEDYDRLRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEV-----NHFCPGTPIVL 113

Query: 125 VGNKVD--RDSERA----------VTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDL 171
           VG K D  +D              VT E+G  +A+      ++ECSAK  E+V + F   
Sbjct: 114 VGLKTDLRKDKNSVSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFD-- 171

Query: 172 LYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
                         +  +       +  ++  +   C  
Sbjct: 172 -----------AAINVALSK---SGRAARKKKKKKKCVI 196

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 197

>gnl|CDD|206711 cd04140, ARHI_like, A Ras homolog member I (ARHI)

 Score = 93.0 bits (231), Expect = 4e-24
 Identities = 48/161 (29%), Positives = 81/161 (50%), Gaps = 3/161 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLIS-NSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +++++ G  GVGKSS++L  +         PTI   ++ ++++       L I DT G  
Sbjct: 2   YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR-QVISCSKSICTLQITDTTGSH 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTN-QDCVKILVGNKVDR 131
           +F  +        H  ILVY +T +++   L  ++    E+   N +    +LVGNK D 
Sbjct: 61  QFPAMQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDE 120

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
              R V+  EG  LA+   C F+E SAK   +V++ F++LL
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQELL 161

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 165

>gnl|CDD|133338 cd04138, H_N_K_Ras_like, Ras GTPase family containing H-Ras,N-Ras and K-Ras4A/4B

 Score = 92.9 bits (231), Expect = 5e-24
 Identities = 53/164 (32%), Positives = 90/164 (54%), Gaps = 6/164 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ + LI N  V +  PTI  D   K + + G+   L I DTAGQE
Sbjct: 2   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDR 131
            +  +   Y R   G + V+ +  R++F ++ +   +E      + D V  +LVGNK D 
Sbjct: 61  EYSAMRDQYMRTGEGFLCVFAINSRKSFEDIHTY--REQIKRVKDSDDVPMVLVGNKCDL 118

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            + R V+  +G  LA+ +   ++E SAK  + V++ F  L+ +I
Sbjct: 119 AA-RTVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161

H-Ras/N-Ras/K-Ras subfamily. H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1. Others are proposed to play negative regulatory roles in oncogenesis, including RASSF and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 162

>gnl|CDD|206708 cd04136, Rap_like, Rap-like family consists of Rap1, Rap2 and RSR1

 Score = 92.2 bits (229), Expect = 9e-24
 Identities = 59/164 (35%), Positives = 94/164 (57%), Gaps = 4/164 (2%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  +     D   PTI  D   K + V  ++  L I DTAG E
Sbjct: 2   YKLVVLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T +++F +L  +  + + +  T +D   ILVGNK D +
Sbjct: 61  QFTAMRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDT-EDVPMILVGNKCDLE 119

Query: 133 SERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V++EEG  LA++   C FLE SAK+  +V + F DL+ +I
Sbjct: 120 DERVVSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres. Rap2 is involved in multiple functions, including activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton and activation of the Wnt/beta-catenin signaling pathway in embryonic Xenopus. A number of effector proteins for Rap2 have been identified, including isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK), and the RalGEFs RalGDS, RGL, and Rlf, which also interact with Rap1 and Ras. RSR1 is the fungal homolog of Rap1 and Rap2. In budding yeasts, it is involved in selecting a site for bud growth, which directs the establishment of cell polarization. The Rho family GTPase Cdc42 and its GEF, Cdc24, then establish an axis of polarized growth. It is believed that Cdc42 interacts directly with RSR1 in vivo. In filamentous fungi such as Ashbya gossypii, RSR1 is a key regulator of polar growth in the hypha. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 164

>gnl|CDD|206694 cd04109, Rab28, Rab GTPase family 28 (Rab28)

 Score = 92.9 bits (231), Expect = 2e-23
 Identities = 62/201 (30%), Positives = 97/201 (48%), Gaps = 8/201 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQ 71
            KI+++GD   GK+S++              TIG+DF  + +T+ G   + L +WD  GQ
Sbjct: 1   IKIVVLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQ 60

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-LYSTNQDCVKI-LVGNKV 129
           +  G +   Y  GA  + LVYD+T  ++F NL   W   V+ +   ++   K+ LVGNK 
Sbjct: 61  QIGGKMLDKYIYGAQAVCLVYDITNSQSFENLED-WLSVVKKVNEESETKPKMVLVGNKT 119

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV---PSLLEQGS 186
           D +  R VT E+    AQE+    +  SAK  + V  CF+ +  ++L V    + LEQ  
Sbjct: 120 DLEHNRQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLGVKLSQAELEQSQ 179

Query: 187 AVVKNQILKQKEVQESARGGN 207
            VVK  + +  E         
Sbjct: 180 RVVKADVSRYSERTLREPVSR 200

Rab28 subfamily. First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumably the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 213

>gnl|CDD|133318 cd04118, Rab24, Rab GTPase family 24 (Rab24)

 Score = 91.5 bits (227), Expect = 4e-23
 Identities = 59/205 (28%), Positives = 98/205 (47%), Gaps = 23/205 (11%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSP-TIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           K++++G   VGK+S++   + +  +  P   TIG  F  K + VG + + L IWDTAG E
Sbjct: 2   KVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSE 61

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-- 130
           R+  ++  YYRGA   I+ YD+T   +F   +  W KE++  +  + C   L G K D  
Sbjct: 62  RYEAMSRIYYRGAKAAIVCYDLTDSSSFER-AKFWVKELQ--NLEEHCKIYLCGTKSDLI 118

Query: 131 --RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAV 188
               S R V   +    A E K    E S+K  ++V + F+           + E   + 
Sbjct: 119 EQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQ----------KVAEDFVSR 168

Query: 189 VKNQILKQKEV----QESARGGNCC 209
             NQ+  +K V    ++++   +CC
Sbjct: 169 ANNQMNTEKGVDLGQKKNSYFYSCC 193

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 193

>gnl|CDD|206713 cd04146, RERG_RasL11_like, Ras-related and Estrogen-Regulated Growth inhibitor (RERG) and Ras-like 11 (RasL11)-like families

 Score = 90.8 bits (226), Expect = 4e-23
 Identities = 54/167 (32%), Positives = 88/167 (52%), Gaps = 5/167 (2%)

Query: 15  KILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI ++G SGVGKS++ +  ++   + +  P +   +  + +T+ G+++ L I DT GQ++
Sbjct: 1   KIAVLGASGVGKSALTVRFLTKRFIGEYEPNLESLYS-RQVTIDGEQVSLEIQDTPGQQQ 59

Query: 74  F--GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
                      R A G +LVY +T R +F  +S +     E+   + +   ILVGNK D 
Sbjct: 60  NEDPESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADL 119

Query: 132 DSERAVTREEGMILAQEHKCLFLECSA-KNTEDVKQCFKDLLYKILE 177
              R V+ EEG  LA E  CLF E SA +N  +V+  F +L  ++  
Sbjct: 120 LHSRQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREVRR 166

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tumor suppressor activity. Length = 166

>gnl|CDD|133330 cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (Wrch-1) is a Rho family GTPase similar to Cdc42

 Score = 90.9 bits (226), Expect = 4e-23
 Identities = 49/168 (29%), Positives = 84/168 (50%), Gaps = 17/168 (10%)

Query: 15  KILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K +L+GD  VGK+S+++S  +N    +  PT   +F + +L V GK ++L + DTAGQ+ 
Sbjct: 2   KCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVL-VDGKPVRLQLCDTAGQDE 60

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG------- 126
           F  L    Y      +L + V    +F N+S  W  E+  ++       ILVG       
Sbjct: 61  FDKLRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPI--ILVGTQADLRT 118

Query: 127 -----NKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQCF 168
                 ++ R  E+ V++     LA++   C ++ECSA   +++K+ F
Sbjct: 119 DVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206693 cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab34) and 36 (Rab36)

 Score = 89.6 bits (222), Expect = 1e-22
 Identities = 52/157 (33%), Positives = 86/157 (54%), Gaps = 4/157 (2%)

Query: 15  KILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD  VGK+ ++     +    +   TIGVDF+++   V G    L +WDTAGQER
Sbjct: 2   KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQER 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F  + S+YYRGA  II+V+D+T   +  + +  W ++    +     +  LVG K D  S
Sbjct: 62  FKCIASTYYRGAQAIIIVFDLTDVASLEH-TRQWLEDALKENDPSSVLLFLVGTKKDLSS 120

Query: 134 --ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
             + A+  ++ + LA+E K  +   SA   E+V+  F
Sbjct: 121 PAQYALMEQDAIKLAREMKAEYWAVSALTGENVRDFF 157

Rab34/Rab36 subfamily. Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 170

>gnl|CDD|133326 cd04126, Rab20, Rab GTPase family 20 (Rab20)

 Score = 89.2 bits (221), Expect = 5e-22
 Identities = 47/128 (36%), Positives = 71/128 (55%), Gaps = 8/128 (6%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K++L+GD  VGK+S+L   +     D   T+G  F +K          ++IWDTAG+E+F
Sbjct: 2   KVVLLGDMNVGKTSLLHRYMERRFKDTVSTVGGAFYLKQW----GPYNISIWDTAGREQF 57

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDS 133
             L S Y RGA  +IL YDV+  ++   L     + + L  T N+DC+  +VGNK+D   
Sbjct: 58  HGLGSMYCRGAAAVILTYDVSNVQSLEEL---EDRFLGLTDTANEDCLFAVVGNKLDLTE 114

Query: 134 ERAVTREE 141
           E A+  +E
Sbjct: 115 EGALAGQE 122

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Length = 220

>gnl|CDD|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 87.2 bits (216), Expect = 8e-22
 Identities = 56/166 (33%), Positives = 93/166 (56%), Gaps = 6/166 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +KI+++G  GVGKS++ +  + N  +    PTI   ++ K + + G++  L I DTAG E
Sbjct: 2   YKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGTE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDR 131
           +F  +   Y +   G +LVY VT   +   L  +  +E  L   + D V + LVGNK D 
Sbjct: 61  QFTAMRELYIKSGQGFLLVYSVTSEASLNELGEL--REQVLRIKDSDNVPMVLVGNKADL 118

Query: 132 DSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           + +R V+RE+G+ L+Q+     F E SA+   +V + F DL+ +I+
Sbjct: 119 EDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII 164

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 168

>gnl|CDD|206701 cd04128, Spg1, Septum-promoting GTPase (Spg1)

 Score = 86.7 bits (215), Expect = 2e-21
 Identities = 45/177 (25%), Positives = 92/177 (51%), Gaps = 11/177 (6%)

Query: 15  KILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI L+GD+ +GK+S+++  +      +   T+GV+F  K +++ G  +  +IWD  GQ  
Sbjct: 2   KIGLLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQRE 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR-- 131
           F  +     + A  I+ ++D+TR+ T  ++   W ++      N+  + ILVG K D   
Sbjct: 62  FINMLPLVCKDAVAILFMFDLTRKSTLNSIKE-WYRQA--RGFNKTAIPILVGTKYDLFA 118

Query: 132 ----DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQ 184
               + +  +T+ +    A+  K   + CS  ++ +V++ FK +L K+ ++P  + +
Sbjct: 119 DLPPEEQEEITK-QARKYAKAMKAPLIFCSTSHSINVQKIFKFVLAKVFDLPLTIPE 174

Spg1p. Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Length = 182

>gnl|CDD|206715 cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfamily of Ras GTPases

 Score = 87.5 bits (217), Expect = 2e-21
 Identities = 52/159 (32%), Positives = 80/159 (50%), Gaps = 8/159 (5%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSP--TIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           ++++L+GDSGVGKSS L ++ +  V++ S     G D   + ++V G+   L ++D   Q
Sbjct: 1   YRVVLLGDSGVGKSS-LANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQ 59

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKILVGNKV 129
           E    L  S  +     ++VY VT R +F   S +    ++L    Q  D   ILVGNK 
Sbjct: 60  EDGMWLEDSCMQVGDAYVIVYSVTDRSSFEKASEL---RIQLRRARQAEDIPIILVGNKS 116

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           D    R V+ +EG   A    C F+E SA    +V + F
Sbjct: 117 DLVRSREVSVQEGRACAVVFDCKFIETSAALQHNVDELF 155

RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ras superfamily members. The N-terminal extension is not conserved among family members; the C-terminal extension is reported to be conserved among the family and lack the CaaX prenylation motif typical of membrane-associated Ras proteins. However, a putative CaaX motif has been identified in the alignment of the C-terminal residues of this CD. Length = 219

>gnl|CDD|206644 cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf-like (Arl) small GTPases

 Score = 84.9 bits (211), Expect = 5e-21
 Identities = 45/168 (26%), Positives = 73/168 (43%), Gaps = 18/168 (10%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +IL++G  G GK++IL  L    V    PTIG  F ++ +    K +K T+WD  GQ++ 
Sbjct: 1   RILMLGLDGAGKTTILYKLKLGEVVTTIPTIG--FNVETVEY--KNVKFTVWDVGGQDKI 56

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD----CVKILV-GNKV 129
             L   YY    G+I V D + RE         AK  EL+    +       +L+  NK 
Sbjct: 57  RPLWKHYYENTDGLIFVVDSSDRERI-----EEAKN-ELHKLLNEEELKGAPLLILANKQ 110

Query: 130 DR---DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYK 174
           D     +E  +    G+   +  +     CSA   + + +    L+ +
Sbjct: 111 DLPGALTESELIELLGLESIKGRRWHIQPCSAVTGDGLDEGLDWLIEQ 158

Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases. Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thus, despite their significant sequence homologies, Arf family proteins may regulate unrelated functions. Length = 158

>gnl|CDD|232886 TIGR00231, small_GTP, small GTP-binding protein domain

 Score = 84.0 bits (208), Expect = 1e-20
 Identities = 44/170 (25%), Positives = 75/170 (44%), Gaps = 16/170 (9%)

Query: 14  FKILLIGDSGVGKSSILLSLISN--SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            KI+++GD  VGKS++L  L+ N  S+ +  P    ++   ++   GK  K  + DTAGQ
Sbjct: 2   IKIVIVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQ 61

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILVGN 127
           E +  +   YYR     + V+D+        L      E +              ILVGN
Sbjct: 62  EDYDAIRRLYYRAVESSLRVFDI----VILVLDVEEILEKQTKEIIHHAESGVPIILVGN 117

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K+D    +  T     + A+ +    +  SA+  +++     D  +KI+E
Sbjct: 118 KIDLRDAKLKT-HVAFLFAKLNGEPIIPLSAETGKNI-----DSAFKIVE 161

Proteins with a small GTP-binding domain recognized by this model include Ras, RhoA, Rab11, translation elongation factor G, translation initiation factor IF-2, tetratcycline resistance protein TetM, CDC42, Era, ADP-ribosylation factors, tdhF, and many others. In some proteins the domain occurs more than once.This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model [Unknown function, General]. Length = 162

>gnl|CDD|240284 PTZ00132, PTZ00132, GTP-binding nuclear protein Ran; Provisional

 Score = 85.1 bits (211), Expect = 1e-20
 Identities = 57/172 (33%), Positives = 91/172 (52%), Gaps = 10/172 (5%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFK-IKLLTVGGKRLKLTIWDTAG 70
            FK++L+GD GVGK++ +   ++        PT+GV+   +K  T  G  +   +WDTAG
Sbjct: 9   EFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGP-ICFNVWDTAG 67

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QE+FG L   YY      I+++DVT R T+ N+ + W +++     N   V  LVGNKVD
Sbjct: 68  QEKFGGLRDGYYIKGQCAIIMFDVTSRITYKNVPN-WHRDIVRVCENIPIV--LVGNKVD 124

Query: 131 RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +R V  +   I     K L + + SAK+  + ++ F  L  ++   P+L
Sbjct: 125 V-KDRQV--KARQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTNDPNL 173

Length = 215

>gnl|CDD|178620 PLN03071, PLN03071, GTP-binding nuclear protein Ran; Provisional

 Score = 85.2 bits (211), Expect = 2e-20
 Identities = 55/171 (32%), Positives = 85/171 (49%), Gaps = 8/171 (4%)

Query: 13  SFKILLIGDSGVGKSSIL-LSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           SFK++++GD G GK++ +   L         PTIGV+           +++   WDTAGQ
Sbjct: 13  SFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQ 72

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY      I+++DVT R T+ N+   W +++     N   V  L GNKVD 
Sbjct: 73  EKFGGLRDGYYIHGQCAIIMFDVTARLTYKNV-PTWHRDLCRVCENIPIV--LCGNKVDV 129

Query: 132 DSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVPSL 181
            + R V  +   +     K L + E SAK+  + ++ F  L  K+   P+L
Sbjct: 130 KN-RQV--KAKQVTFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGDPNL 177

Length = 219

>gnl|CDD|206706 cd04134, Rho3, Ras homology family 3 (Rho3) of small guanosine triphosphatases (GTPases)

 Score = 78.4 bits (193), Expect = 3e-18
 Identities = 54/170 (31%), Positives = 86/170 (50%), Gaps = 19/170 (11%)

Query: 15  KILLIGDSGVGKSSILLSLISN---SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           K++++GD   GK+S+L          V++P  T+  ++ I  + V G  ++L++WDTAGQ
Sbjct: 2   KVVVLGDGACGKTSLLNVFTRGYFPQVYEP--TVFENY-IHDIFVDGLAVELSLWDTAGQ 58

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVD 130
           E F  L S  Y   H I+L + V   ++  N+ S W  E+     +   VK+ LV  K D
Sbjct: 59  EEFDRLRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEI---RHHCPGVKLVLVALKCD 115

Query: 131 -RDSERAVTR-------EEGMILAQE-HKCLFLECSAKNTEDVKQCFKDL 171
            R+      R       EEG+ +A+  + C +LECSAK    V + F + 
Sbjct: 116 LREPRNERDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAFTEA 165

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 185

>gnl|CDD|206662 cd01870, RhoA_like, Ras homology family A (RhoA)-like includes RhoA, RhoB and RhoC

 Score = 77.1 bits (190), Expect = 8e-18
 Identities = 47/168 (27%), Positives = 84/168 (50%), Gaps = 17/168 (10%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK+ +L+    +   +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 3   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  L    Y     I++ + +   ++  N+   W  EV+ +    +   ILVGNK D   
Sbjct: 62  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRN 119

Query: 131 ---------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
                    +  +  V  EEG  +A++     +LECSAK  E V++ F
Sbjct: 120 DEHTIRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVF 167

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranylgeranylated forms; however, RhoB can be present in palmitoylated, farnesylated, and geranylgeranylated forms. RhoA and RhoC are highly relevant for tumor progression and invasiveness; however, RhoB has recently been suggested to be a tumor suppressor. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206680 cd01893, Miro1, Mitochondrial Rho family 1 (Miro1), N-terminal

 Score = 76.6 bits (189), Expect = 1e-17
 Identities = 56/169 (33%), Positives = 81/169 (47%), Gaps = 29/169 (17%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSP------TIGVDFKIKLLTVGGKRLKLTIWDT 68
           +I+LIGD GVGKSS+++SL+S    +  P      TI  D          +R+  TI DT
Sbjct: 4   RIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVT-------PERVPTTIVDT 56

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILV 125
           + + +     ++  R A+ I LVY V R  T   + + W   +      +  VK   ILV
Sbjct: 57  SSRPQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLI-----RRLGVKVPIILV 111

Query: 126 GNKVD-RDSERAVTREEGMI-LAQEHK----CLFLECSAKNTEDVKQCF 168
           GNK D RD       EE M+ +  E +    C  +ECSAK   +V + F
Sbjct: 112 GNKSDLRDGSSQAGLEEEMLPIMNEFREIETC--VECSAKTLINVSEVF 158

Miro1 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 168

>gnl|CDD|206705 cd04133, Rop_like, Rho-related protein from plants (Rop)-like

 Score = 76.4 bits (188), Expect = 1e-17
 Identities = 52/167 (31%), Positives = 83/167 (49%), Gaps = 15/167 (8%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K + +GD  VGK+ +L+S  SN+   D  PT+  +F   +  V G  + L +WDTAGQE 
Sbjct: 3   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANV-VVDGNTVNLGLWDTAGQED 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    YRGA   +L + +  + ++ N+   W  E+  Y+     V  LVG K+D RD
Sbjct: 62  YNRLRPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYAPGVPIV--LVGTKLDLRD 119

Query: 133 SERAVTREEGMI---LAQEHK-------CLFLECSAKNTEDVKQCFK 169
            ++      G +    AQ  +         ++ECS+K  ++VK  F 
Sbjct: 120 DKQFFADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFD 166

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example, Rop1, Rop3, and Rop5 are all involved in pollen-tube growth; Rop2 plays a role in response to low-oxygen environments, cell-morphology, and root-hair development; root-hair development is also regulated by Rop4 and Rop6; Rop6 is also responsible for ABA response, and ABA response is also regulated by Rop10. Plants retain some of the regulatory mechanisms that are shared by other members of the Rho family, but have also developed a number of unique modes for regulating Rops. Unique RhoGEFs have been identified that are exclusively active toward Rop proteins, such as those containing the domain PRONE (plant-specific Rop nucleotide exchanger). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 173

>gnl|CDD|206707 cd04135, Tc10, Rho GTPase TC10 (Tc10)

 Score = 75.4 bits (185), Expect = 3e-17
 Identities = 52/177 (29%), Positives = 92/177 (51%), Gaps = 17/177 (9%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K +++GD  VGK+ +L+S  +++  +   PT+   + + + TVGGK+  L ++DTAGQE
Sbjct: 1   LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSV-TVGGKQYLLGLYDTAGQE 59

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-R 131
            +  L    Y      ++ + V    +F N+   W  E++ Y+ N   +  L+G ++D R
Sbjct: 60  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPYL--LIGTQIDLR 117

Query: 132 D-----------SERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           D            E+ +T E+G  LA+E   C ++ECSA   + +K  F + +  IL
Sbjct: 118 DDPKTLARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 174

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interactions with CFTR-associated ligand (CAL). The GTP-bound form of TC10 directs the trafficking of CFTR from the juxtanuclear region to the secretory pathway toward the plasma membrane, away from CAL-mediated DFTR degradation in the lysosome. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|133277 cd01875, RhoG, Ras homolog family, member G (RhoG) of small guanosine triphosphatases (GTPases)

 Score = 75.4 bits (185), Expect = 5e-17
 Identities = 49/178 (27%), Positives = 87/178 (48%), Gaps = 17/178 (9%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K +++GD  VGK+ +L+   +N+      PT+  ++  +   V G+ + L +WDTAGQ
Sbjct: 3   SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQT-AVDGRTVSLNLWDTAGQ 61

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L +  Y   +  I+ + +    ++ N+   W  EV  +  N     +LVG K D 
Sbjct: 62  EEYDRLRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHCPNVPI--LLVGTKKDL 119

Query: 131 -----------RDSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKIL 176
                         +  +T ++G  LA++ H   +LECSA N + VK+ F + +  +L
Sbjct: 120 RNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVL 177

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 191

>gnl|CDD|133343 cd04143, Rhes_like, Ras homolog enriched in striatum (Rhes) and activator of G-protein signaling 1 (Dexras1/AGS1)

 Score = 75.9 bits (187), Expect = 7e-17
 Identities = 48/173 (27%), Positives = 84/173 (48%), Gaps = 22/173 (12%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ- 71
           ++++++G S VGK++I+   +     +  +PTI  DF  KL ++ G+  +L I DT+G  
Sbjct: 1   YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNH 59

Query: 72  -----ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-------TNQD 119
                 R   LT   +      ILV+ +  RE+F  +  +  + +E  S        N  
Sbjct: 60  PFPAMRRLSILTGDVF------ILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVK 113

Query: 120 CVKILVGNKVDRDSERAVTREEGM-ILAQEHKCLFLECSAKNTEDVKQCFKDL 171
              ++ GNK DRD  R V R+E   ++  +  C + E SAK   ++ + F+ L
Sbjct: 114 IPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRAL 166

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression levels in other tissues. Dexras1 localizes primarily to the cytoplasm, and is a critical regulator of the circadian master clock to photic and nonphotic input. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 247

>gnl|CDD|219856 pfam08477, Miro, Miro-like protein

 Score = 72.4 bits (178), Expect = 1e-16
 Identities = 40/115 (34%), Positives = 54/115 (46%), Gaps = 1/115 (0%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K+++IGD G GKSS+L  L+       P    G    +  L V G    L IWD  G+E 
Sbjct: 1   KVVVIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREE 60

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
                  + + A  I+LVYD+T RE+   +S + A    L         ILVGNK
Sbjct: 61  LKFEHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRKLGGKIPVILVGNK 115

Mitochondrial Rho proteins (Miro-1, and Miro-2), are atypical Rho GTPases. They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (pfam00036), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis. Length = 116

>gnl|CDD|206663 cd01871, Rac1_like, Ras-related C3 botulinum toxin substrate 1 (rho family, small GTP binding protein Rac1)-like consists of Rac1, Rac2 and Rac3

 Score = 71.4 bits (175), Expect = 9e-16
 Identities = 49/172 (28%), Positives = 84/172 (48%), Gaps = 21/172 (12%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK+ +L+S  +N+   P    PT+  ++   ++ V GK + L +WDTA
Sbjct: 1   AIKCVVVGDGAVGKTCLLISYTTNAF--PGEYIPTVFDNYSANVM-VDGKPVNLGLWDTA 57

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQE +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+
Sbjct: 58  GQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKL 115

Query: 130 D--RDSERA----------VTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           D   D +            +T  +G+ +A+E   + +LECSA     +K  F
Sbjct: 116 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleotide association and is more efficiently activated by the RacGEF Tiam1. Both Rac1 and Rac3 have been implicated in the regulation of cell migration and invasion in human metastatic breast cancer. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 174

>gnl|CDD|206702 cd04129, Rho2, Ras homology family 2 (Rho2) of small guanosine triphosphatases (GTPases)

 Score = 71.0 bits (174), Expect = 2e-15
 Identities = 48/170 (28%), Positives = 81/170 (47%), Gaps = 21/170 (12%)

Query: 15  KILLIGDSGVGKSSIL----LSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           K++++GD   GK+S+L    L       H   PT+  ++ +    V GK ++L +WDTAG
Sbjct: 3   KLVIVGDGACGKTSLLYVFTLGEFPEEYH---PTVFENY-VTDCRVDGKPVQLALWDTAG 58

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QE +  L    Y  AH I++ + +   ++  N+ + W +EV  Y  N     ILVG K D
Sbjct: 59  QEEYERLRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYCPNVPV--ILVGLKKD 116

Query: 131 ----------RDSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFK 169
                       ++  V  ++  ++A+      ++ECSA   E V   F+
Sbjct: 117 LRQEAVAKGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVFE 166

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors). Length = 190

>gnl|CDD|177661 PLN00023, PLN00023, GTP-binding protein; Provisional

 Score = 73.0 bits (179), Expect = 2e-15
 Identities = 40/112 (35%), Positives = 62/112 (55%), Gaps = 17/112 (15%)

Query: 15  KILLIGDSGVGKSSILLSLI--SNSVHDPSPTIGVDFKIKLLTVGG-------------K 59
           ++L++GDSGVGKSS L+ LI   +S+  P  TIG    +K +T G              +
Sbjct: 23  RVLVVGDSGVGKSS-LVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSER 81

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEV 111
              + +WD +G ER+    S +Y   +G+I V+D+++R T T+L   WA EV
Sbjct: 82  DFFVELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQK-WASEV 132

Length = 334

>gnl|CDD|128473 smart00176, RAN, Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

 Score = 71.2 bits (174), Expect = 2e-15
 Identities = 44/164 (26%), Positives = 81/164 (49%), Gaps = 6/164 (3%)

Query: 19  IGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL 77
           +GD G GK++ +   ++         T+GV+    +       ++  +WDTAGQE+FG L
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 78  TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV 137
              YY      I+++DVT R T+ N+ + W +++     N   V  L GNKVD    +  
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPN-WHRDLVRVCENIPIV--LCGNKVDVKDRK-- 115

Query: 138 TREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
            + + +   ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 116 VKAKSITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 159

Ran is involved in the active transport of proteins through nuclear pores. Length = 200

>gnl|CDD|206664 cd01874, Cdc42, cell division cycle 42 (Cdc42) is a small GTPase of the Rho family

 Score = 69.5 bits (170), Expect = 5e-15
 Identities = 45/174 (25%), Positives = 87/174 (50%), Gaps = 21/174 (12%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK+ +L+S  +N    PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 1   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 57

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQE +  L    Y      ++ + V    +F N+   W  E+  +        +LVG ++
Sbjct: 58  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPF--LLVGTQI 115

Query: 130 D------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKD 170
           D            ++ ++ +T E G  LA++ K + ++ECSA   + +K  F +
Sbjct: 116 DLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDE 169

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addition, Cdc42 has been implicated in a number of human diseases through interactions with its regulators and downstream effectors. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 175

>gnl|CDD|206714 cd04147, Ras_dva, Ras - dorsal-ventral anterior localization (Ras-dva) family

 Score = 69.1 bits (169), Expect = 1e-14
 Identities = 48/199 (24%), Positives = 93/199 (46%), Gaps = 7/199 (3%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +++ +G +GVGK++++   + ++          +   K   V G ++ + I DT+G   F
Sbjct: 1   RLVFMGAAGVGKTALIQRFLYDTFEPKHRRTVEELHSKEYEVAGVKVTIDILDTSGSYSF 60

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE 134
             +     +      LVY V   E+F  +  +  + +E+       + ++VGNK+D  +E
Sbjct: 61  PAMRKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPI-VVVGNKIDSLAE 119

Query: 135 RAVTREEGMILAQ-EHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQI 193
           R V   + +   + +    F+E SAK+ E+V + FK+LL +   +PS L    A+ + + 
Sbjct: 120 RQVEAADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQA-NLPSWL--SPALRRRRE 176

Query: 194 LKQKEVQESARGG--NCCS 210
               E+Q        N CS
Sbjct: 177 SAPSEIQRRPPMNKTNSCS 195

Ras-dva subfamily. Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Length = 197

>gnl|CDD|206689 cd04102, RabL3, Rab GTPase-like family 3 (Rab-like3)

 Score = 69.2 bits (169), Expect = 1e-14
 Identities = 45/164 (27%), Positives = 77/164 (46%), Gaps = 31/164 (18%)

Query: 15  KILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGG-----KRLKLTIWDT 68
           K+L++GDSGVGKSS++  L  N V  +PS T+G    ++  T G      K   + +WD 
Sbjct: 2   KVLVLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVRHHTYGEGTPEEKTFYVELWDV 61

Query: 69  AGQ----ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEV--------ELYST 116
            G     E   +  + +Y   +GII V+D+T +++  NL   W+ E          L  T
Sbjct: 62  GGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYR-WSLEALNRDTFPAGLLVT 120

Query: 117 NQDCVK----------ILVGNKVDR--DSERAVTREEGMILAQE 148
           N D             +++G K+D+  +++R         L+++
Sbjct: 121 NGDYDSEQFAGNPVPLLVIGTKLDQIPEAKRNWVLTRTAFLSED 164

RabL3 (Rab-like3) subfamily. RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown. Length = 204

>gnl|CDD|206703 cd04131, Rnd, Rho family GTPase subfamily Rnd includes Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8

 Score = 67.8 bits (166), Expect = 3e-14
 Identities = 44/162 (27%), Positives = 83/162 (51%), Gaps = 17/162 (10%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI+L+GDS  GK+++L     +S  +   PT+  ++      V  +R++L++WDT+G   
Sbjct: 3   KIVLVGDSQCGKTALLQVFAKDSFPENYVPTVFENYTASF-EVDKQRIELSLWDTSGSPY 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +    Y  +  +++ +D++R ET  ++   W  EV  +  N     +LVG K D  +
Sbjct: 62  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFCPNTPV--LLVGCKSDLRT 119

Query: 134 ERA------------VTREEGMILAQEHKCL-FLECSAKNTE 162
           + +            V+ E+G  LA++     ++ECSAK +E
Sbjct: 120 DLSTLTELSNKRQIPVSHEQGRNLAKQIGAAAYVECSAKTSE 161

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 176

>gnl|CDD|200938 pfam00025, Arf, ADP-ribosylation factor family

 Score = 66.1 bits (162), Expect = 9e-14
 Identities = 36/128 (28%), Positives = 58/128 (45%), Gaps = 15/128 (11%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
            ++   +IL++G    GK++IL  L    +    PTIG  F ++ +T     +K T+WD 
Sbjct: 10  GWNKEMRILILGLDNAGKTTILYKLKLGEIVTTIPTIG--FNVETVTYKN--VKFTVWDV 65

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-----TNQDCVKI 123
            GQE    L  +Y+     +I V D   R+         AKE EL++        D   +
Sbjct: 66  GGQESLRPLWRNYFPNTDAVIFVVDSADRDRIEE-----AKE-ELHALLNEEELADAPLL 119

Query: 124 LVGNKVDR 131
           ++ NK D 
Sbjct: 120 ILANKQDL 127

Pfam combines a number of different Prosite families together. Length = 174

>gnl|CDD|206723 cd04158, ARD1, (ADP-ribosylation factor domain protein 1 (ARD1)

 Score = 62.7 bits (152), Expect = 2e-12
 Identities = 44/139 (31%), Positives = 66/139 (47%), Gaps = 13/139 (9%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +++ +G  G GK++IL  L  +    P PTIG + +    TV  K LK TIWD  G+ + 
Sbjct: 1   RVVTLGLDGAGKTTILFKLKQDEFMQPIPTIGFNVE----TVEYKNLKFTIWDVGGKHKL 56

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAK---EVELYSTNQDCVKILVGNKVDR 131
             L   YY     ++ V D + R+  +   S  AK   E EL    +D + ++  NK D 
Sbjct: 57  RPLWKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKEL----RDALLLIFANKQDV 112

Query: 132 DSERAVTREEGMILAQEHK 150
               A++ EE   L   HK
Sbjct: 113 AG--ALSVEEMTELLSLHK 129

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membrane. Two Tyr-based motifs in the Arf domain are responsible for Golgi localization, while the GAP domain controls lysosomal localization. Length = 169

>gnl|CDD|133353 cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8) GTPases

 Score = 60.4 bits (147), Expect = 1e-11
 Identities = 28/95 (29%), Positives = 46/95 (48%), Gaps = 6/95 (6%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
               +Y  K++++G    GK++IL   +   V   SPTIG + +     +  K ++  +W
Sbjct: 11  FPRKEY--KVIIVGLDNAGKTTILYQFLLGEVVHTSPTIGSNVEE----IVYKNIRFLMW 64

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFT 101
           D  GQE   +  ++YY     +ILV D T RE   
Sbjct: 65  DIGGQESLRSSWNTYYTNTDAVILVIDSTDRERLP 99

Arl5/Arl8 subfamily. Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date. Length = 174

>gnl|CDD|206735 cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases

 Score = 60.1 bits (145), Expect = 2e-11
 Identities = 37/169 (21%), Positives = 83/169 (49%), Gaps = 17/169 (10%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           + +   KI+++GDS  GK+++L     +    +  PT+  ++      +  +R++L++WD
Sbjct: 1   NQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWD 59

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           T+G   +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LVG 
Sbjct: 60  TSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKM--LLVGC 117

Query: 128 KVD------------RDSERAVTREEGMILAQE-HKCLFLECSAKNTED 163
           K D               +  V+ ++G  +A++     ++ECSA  +E+
Sbjct: 118 KSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 166

Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight junction formation. Rnd3/RhoE is underexpressed in prostate cancer cells both in vitro and in vivo; re-expression of Rnd3/RhoE suppresses cell cycle progression and increases apoptosis, suggesting it may play a role in tumor suppression. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 182

>gnl|CDD|128474 smart00177, ARF, ARF-like small GTPases; ARF, ADP-ribosylation factor

 Score = 59.2 bits (143), Expect = 4e-11
 Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 4/84 (4%)

Query: 15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL++G    GK++IL  L         PTIG + +    TV  K +  T+WD  GQ++ 
Sbjct: 15 RILMVGLDAAGKTTILYKLKLGESVTTIPTIGFNVE----TVTYKNISFTVWDVGGQDKI 70

Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   YY    G+I V D   R+
Sbjct: 71 RPLWRHYYTNTQGLIFVVDSNDRD 94

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop). Length = 175

>gnl|CDD|206736 cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases

 Score = 60.0 bits (145), Expect = 4e-11
 Identities = 41/164 (25%), Positives = 86/164 (52%), Gaps = 19/164 (11%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           KI+++GD+  GK++ LL + +   +  S  PT+  ++      +   R++L +WDT+G  
Sbjct: 3   KIVVVGDTQCGKTA-LLHVFAKDNYPESYVPTVFENYTASF-EIDKHRIELNMWDTSGSS 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +    Y  +  +++ +D++R ET  ++   W  E + +  N   V  LVG K+D  
Sbjct: 61  YYDNVRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFCPNAKLV--LVGCKLDMR 118

Query: 133 SERA------------VTREEGMILAQEHKCL-FLECSAKNTED 163
           ++ +            VT E+G +LA++   + ++ECS++ +E+
Sbjct: 119 TDLSTLRELSKQRLIPVTHEQGSLLARQLGAVAYVECSSRMSEN 162

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in spermatocytes and early spermatids, with male-germ-cell Rac GTPase-activating protein (MgcRacGAP), where it localizes to the Golgi-derived pro-acrosomal vesicle. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Length = 221

>gnl|CDD|173423 PTZ00133, PTZ00133, ADP-ribosylation factor; Provisional

 Score = 58.7 bits (142), Expect = 7e-11
 Identities = 32/84 (38%), Positives = 45/84 (53%), Gaps = 4/84 (4%)

Query: 15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL++G    GK++IL  L    V    PTIG + +    TV  K LK T+WD  GQ++ 
Sbjct: 19 RILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNVE----TVEYKNLKFTMWDVGGQDKL 74

Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   YY+  +G+I V D   RE
Sbjct: 75 RPLWRHYYQNTNGLIFVVDSNDRE 98

Length = 182

>gnl|CDD|206717 cd04150, Arf1_5_like, ADP-ribosylation factor-1 (Arf1) and ADP-ribosylation factor-5 (Arf5)

 Score = 56.6 bits (137), Expect = 2e-10
 Identities = 29/84 (34%), Positives = 44/84 (52%), Gaps = 4/84 (4%)

Query: 15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL++G    GK++IL  L    +    PTIG  F ++  TV  K +  T+WD  GQ++ 
Sbjct: 2  RILMVGLDAAGKTTILYKLKLGEIVTTIPTIG--FNVE--TVEYKNISFTVWDVGGQDKI 57

Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   Y++   G+I V D   RE
Sbjct: 58 RPLWRHYFQNTQGLIFVVDSNDRE 81

The Arf1-Arf5-like subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents and other lower eukaryotes, lack Arf2. Human Arf3 shares 96% sequence identity with Arf1 and is believed to generally function interchangeably with Arf1. Human Arf4 in the activated (GTP-bound) state has been shown to interact with the cytoplasmic domain of epidermal growth factor receptor (EGFR) and mediate the EGF-dependent activation of phospholipase D2 (PLD2), leading to activation of the activator protein 1 (AP-1) transcription factor. Arf4 has also been shown to recognize the C-terminal sorting signal of rhodopsin and regulate its incorporation into specialized post-Golgi rhodopsin transport carriers (RTCs). There is some evidence that Arf5 functions at the early-Golgi and the trans-Golgi to affect Golgi-associated alpha-adaptin homology Arf-binding proteins (GGAs). Length = 159

>gnl|CDD|206716 cd04149, Arf6, ADP ribosylation factor 6 (Arf6)

 Score = 56.7 bits (137), Expect = 3e-10
 Identities = 36/120 (30%), Positives = 56/120 (46%), Gaps = 13/120 (10%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +IL++G    GK++IL  L         PT+G  F ++  TV  K +K  +WD  GQ++ 
Sbjct: 11  RILMLGLDAAGKTTILYKLKLGQSVTTIPTVG--FNVE--TVTYKNVKFNVWDVGGQDKI 66

Query: 75  GTLTSSYYRGAHGIILVYDVTRR----ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             L   YY G  G+I V D   R    E    L  +   + E+    +D + ++  NK D
Sbjct: 67  RPLWRHYYTGTQGLIFVVDSADRDRIDEARQELHRI-INDREM----RDALLLVFANKQD 121

Arf6 subfamily. Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed to function at multiple sites on the plasma membrane through interaction with a specific set of GEFs, GAPs, and effectors. Arf6 has been implicated in breast cancer and melanoma cell invasion, and in actin remodelling at the invasion site of Chlamydia infection. Length = 168

>gnl|CDD|206724 cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl10) GTPases

 Score = 55.0 bits (133), Expect = 9e-10
 Identities = 39/122 (31%), Positives = 62/122 (50%), Gaps = 18/122 (14%)

Query: 16  ILLIGDSGVGKSSILLSLISNSVH--DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           I L+G    GK++ L+++I++     D  PT+G  F ++ +T G   +K  +WD  GQ R
Sbjct: 2   ITLVGLQNSGKTT-LVNVIASGQFSEDTIPTVG--FNMRKVTKGNVTIK--VWDLGGQPR 56

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS----TNQDCVKILV-GNK 128
           F ++   Y RG + I+ V D   RE         AK  EL+      + + + +LV GNK
Sbjct: 57  FRSMWERYCRGVNAIVYVVDAADREKLEV-----AKN-ELHDLLEKPSLEGIPLLVLGNK 110

Query: 129 VD 130
            D
Sbjct: 111 ND 112

Arl10-like subfamily. Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved. Length = 159

>gnl|CDD|133342 cd04142, RRP22, Ras-related protein on chromosome 22 (RRP22) family

 Score = 55.3 bits (133), Expect = 1e-09
 Identities = 49/175 (28%), Positives = 82/175 (46%), Gaps = 21/175 (12%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD----- 67
            ++ ++G  GVGK++I+   ++    +   PT         + + G+   L I D     
Sbjct: 1   VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQ 60

Query: 68  ----TAGQE----RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL-YSTNQ 118
               TAGQE    RF  L     R +   ILVYD+   ++F  +  +  + +E   + N+
Sbjct: 61  RYPGTAGQEWMDPRFRGL-----RNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNK 115

Query: 119 DCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLL 172
           +   ++VGNK D+   R   R    +L ++  KC +LECSAK    +   FK+LL
Sbjct: 116 EPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELL 170

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated. Length = 198

>gnl|CDD|206719 cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7) GTPases

 Score = 53.3 bits (128), Expect = 5e-09
 Identities = 42/142 (29%), Positives = 62/142 (43%), Gaps = 12/142 (8%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDF-KIKLLTVGGKRLKLTIWDTAGQ 71
           S  I+++G    GK+++L  L  N   +  PT G +  KIK+     K +    WD  GQ
Sbjct: 3   SLHIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNAKGVTFHFWDVGGQ 62

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY-----STNQDCVKILVG 126
           E+   L  SY R   GI+ V D    E         AK  EL+     S NQ    +++ 
Sbjct: 63  EKLRPLWKSYTRCTDGIVFVVDSVDVERMEE-----AK-TELHKITKFSENQGVPVLVLA 116

Query: 127 NKVDRDSERAVTREEGMILAQE 148
           NK D  +   V+  E ++   E
Sbjct: 117 NKQDLPNALPVSEVEKLLALHE 138

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 183

>gnl|CDD|206737 cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases

 Score = 53.5 bits (128), Expect = 9e-09
 Identities = 45/189 (23%), Positives = 88/189 (46%), Gaps = 18/189 (9%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD   GK+++L  L  +   +   PT+  ++   L T   +R++L++WDT+G   
Sbjct: 15  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPY 73

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  ++L +D++R E F +    W  E+  Y  +     +L+G K D   
Sbjct: 74  YDNVRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYCPSTRI--LLIGCKTDLRT 131

Query: 131 ---------RDSERAVTREEGMILAQEHKC-LFLECSAKNTE-DVKQCFKDLLYKILEVP 179
                       +  ++ E+G  +A++     +LECSA  +E  +   F+      +   
Sbjct: 132 DLSTLMELSNQKQAPISYEQGCAMAKQLGAEAYLECSAFTSEKSIHSIFRTASLLCINKL 191

Query: 180 SLLEQGSAV 188
           S L + S V
Sbjct: 192 SPLAKKSPV 200

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation. Length = 232

>gnl|CDD|165788 PLN00223, PLN00223, ADP-ribosylation factor; Provisional

 Score = 52.7 bits (126), Expect = 1e-08
 Identities = 27/84 (32%), Positives = 43/84 (51%), Gaps = 4/84 (4%)

Query: 15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL++G    GK++IL  L    +    PTIG + +    TV  K +  T+WD  GQ++ 
Sbjct: 19 RILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDKI 74

Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   Y++   G+I V D   R+
Sbjct: 75 RPLWRHYFQNTQGLIFVVDSNDRD 98

Length = 181

>gnl|CDD|206725 cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)

 Score = 52.0 bits (125), Expect = 1e-08
 Identities = 47/169 (27%), Positives = 75/169 (44%), Gaps = 22/169 (13%)

Query: 16  ILLIGDSGVGKSSILLSLISNSVHD-----PS---PTIGVDFKIKLLTVGGKRLKLTIWD 67
           +L++G    GK++ L    +    +     PS   PT+G++  I  + VG  RL    WD
Sbjct: 2   VLILGLDNAGKTTFLEQTKTKFSKNYKGLNPSKITPTVGLN--IGTIEVGKARLMF--WD 57

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
             GQE   +L   YY  +HG+I V D T RE F N S    ++V      +    +++ N
Sbjct: 58  LGGQEELRSLWDKYYAESHGVIYVIDSTDRERF-NESKSAFEKVINNEALEGVPLLVLAN 116

Query: 128 KVDRDSERAVTREE-----GMILAQEHK--CLFLECSAKNTEDVKQCFK 169
           K  +D   A++  E        +A   +  CL    SA   E V++  +
Sbjct: 117 K--QDLPDALSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVEEGIE 163

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development. Length = 168

>gnl|CDD|133362 cd04162, Arl9_Arfrp2_like, Arf-like 9 (Arl9)/Arfrp2-like GTPase

 Score = 51.3 bits (123), Expect = 2e-08
 Identities = 46/181 (25%), Positives = 67/181 (37%), Gaps = 44/181 (24%)

Query: 16  ILLIGDSGVGKSSILLSLISN-SVHDPSPTIGV--------DFKIKLLTVGGKRLKLTIW 66
           IL++G  G GK+S+L SL S  S+    PT G         D  ++LL +GG +     W
Sbjct: 2   ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNSVAIPTQDAIMELLEIGGSQNLRKYW 61

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ-DCVK--I 123
                         Y  G+ G+I V D    E         A++ EL+   Q       +
Sbjct: 62  ------------KRYLSGSQGLIFVVDSADSERLP-----LARQ-ELHQLLQHPPDLPLV 103

Query: 124 LVGNKVDRDSERAVT------------REEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           ++ NK D  + R+V             R    IL      L  + S    E VK     L
Sbjct: 104 VLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTS--LDDDGSPSRMEAVKDLLSQL 161

Query: 172 L 172
           +
Sbjct: 162 I 162

Arl9/Arfrp2-like subfamily. Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date. Length = 164

>gnl|CDD|206741 cd09914, RocCOR, Ras of complex proteins (Roc) C-terminal of Roc (COR) domain family

 Score = 51.2 bits (123), Expect = 3e-08
 Identities = 38/134 (28%), Positives = 65/134 (48%), Gaps = 17/134 (12%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDF-KIKLLTVGGKRLKLTIWDTAGQE 72
           K++L+G  GVGK+S+   LI      D S T G++    K+     K+++L +WD  GQE
Sbjct: 3   KLMLVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQE 62

Query: 73  RF-GT----LTS-SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
            +  T    LTS S Y      +LV+D+ R     +    W ++++ +        ILVG
Sbjct: 63  IYHATHQFFLTSRSLY------LLVFDL-RTGDEVSRVPYWLRQIKAFGGVSPV--ILVG 113

Query: 127 NKVDRDSERAVTRE 140
             +D   +  + ++
Sbjct: 114 THIDESCDEDILKK 127

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 51.1 bits (123), Expect = 3e-08
 Identities = 40/132 (30%), Positives = 62/132 (46%), Gaps = 17/132 (12%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           KI+ +G    GK+++L  L  + +    PT+      + LT+G   +K T +D  G E+ 
Sbjct: 21  KIVFLGLDNAGKTTLLHMLKDDRLAQHVPTLH--PTSEELTIGN--VKFTTFDLGGHEQA 76

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD----CVKILV-GNKV 129
             +   Y+    GI+ + D    E F       +KE EL S   D     V IL+ GNK+
Sbjct: 77  RRVWKDYFPEVDGIVFLVDAADPERFQE-----SKE-ELDSLLNDEELANVPILILGNKI 130

Query: 130 DRDSERAVTREE 141
           D+    AV+ EE
Sbjct: 131 DK--PGAVSEEE 140

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 49.3 bits (118), Expect = 1e-07
 Identities = 46/159 (28%), Positives = 66/159 (41%), Gaps = 24/159 (15%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +IL++G  G GK++IL  L    V    PTIG + +    TV  K LK  +WD  GQ   
Sbjct: 1   RILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVE----TVTYKNLKFQVWDLGGQTSI 56

Query: 75  GTLTSSYYRGAHGIILVYD--------VTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
                 YY     II V D        +++ E    L     +E EL    +D V ++  
Sbjct: 57  RPYWRCYYSNTDAIIYVVDSTDRDRLGISKSELHAML-----EEEEL----KDAVLLVFA 107

Query: 127 NKVDRD---SERAVTREEGMILAQEHKCLFLECSAKNTE 162
           NK D     SE  V  + G+   ++      + SA   E
Sbjct: 108 NKQDMPGALSEAEVAEKLGLSELKDRTWQIFKTSATKGE 146

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 49.3 bits (118), Expect = 1e-07
 Identities = 28/86 (32%), Positives = 42/86 (48%), Gaps = 4/86 (4%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +ILL+G    GK++IL  L S  +   +PT G  F IK +   G +L +  WD  GQ + 
Sbjct: 17  RILLLGLDNAGKTTILKQLASEDISHITPTQG--FNIKNVQADGFKLNV--WDIGGQRKI 72

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETF 100
                +Y+     +I V D   R+ F
Sbjct: 73  RPYWRNYFENTDVLIYVIDSADRKRF 98

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 47.4 bits (113), Expect = 5e-07
 Identities = 26/84 (30%), Positives = 43/84 (51%), Gaps = 3/84 (3%)

Query: 15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          ++LL+G    GKS++L  L    +    PT+G  F +++L +    L LT+WD  GQE+ 
Sbjct: 1  QVLLLGLDSAGKSTLLYKLKHAELVTTIPTVG--FNVEMLQLEKH-LSLTVWDVGGQEKM 57

Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
           T+   Y     G++ V D +   
Sbjct: 58 RTVWKCYLENTDGLVYVVDSSDEA 81

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

>gnl|CDD|206720 cd04154, Arl2, Arf-like 2 (Arl2) GTPase

 Score = 46.9 bits (112), Expect = 9e-07
 Identities = 28/85 (32%), Positives = 41/85 (48%), Gaps = 4/85 (4%)

Query: 14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK++IL       +   SPT+G  F IK L   G   KL IWD  GQ+ 
Sbjct: 15 MRILMLGLDNAGKTTILKKFNGEDISTISPTLG--FNIKTLEYNG--YKLNIWDVGGQKS 70

Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
            +   +Y+     +I V D + R 
Sbjct: 71 LRSYWRNYFESTDALIWVVDSSDRA 95

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis. Length = 173

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 46.3 bits (110), Expect = 2e-06
 Identities = 42/175 (24%), Positives = 71/175 (40%), Gaps = 21/175 (12%)

Query: 15  KILLIGDSGVGKS----------SILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKL 63
           KI++IG  G GK+           ++    ++SV         V      + +      +
Sbjct: 12  KIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDED-TGV 70

Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            ++ T GQERF  +     RGA G I++ D +R  TF       A+E+  + T+++ + +
Sbjct: 71  HLFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFH------AEEIIDFLTSRNPIPV 124

Query: 124 LVG-NKVD-RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           +V  NK D  D+       E + L      +  E  A   E  +     LL K L
Sbjct: 125 VVAINKQDLFDALPPEKIREALKLELLSVPVI-EIDATEGEGARDQLDVLLLKDL 178

Length = 187

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 43.8 bits (104), Expect = 1e-05
 Identities = 33/169 (19%), Positives = 54/169 (31%), Gaps = 19/169 (11%)

Query: 18  LIGDSGVGKSSILLSLISNSVHDPSPTIGV--DFKIKLLTVGGKRLKLTIWDTAG----- 70
           + G   VGKSS+L +L+  +V   SP  G   D   K   +      + + DT G     
Sbjct: 2   IFGRPNVGKSSLLNALLGQNVGIVSPIPGTTRDPVRKEWELLPLG-PVVLIDTPGLDEEG 60

Query: 71  --QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
                           A  ++LV D               +E            +LV NK
Sbjct: 61  GLGRERVEEARQVADRADLVLLVVDSDLTPVEEEAKLGLLRERGKPV-------LLVLNK 113

Query: 129 VDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           +D   E            +    L  +  SA   E + +  +  + ++L
Sbjct: 114 IDLVPESEEEELLRERKLELLPDLPVIAVSALPGEGIDE-LRKKIAELL 161

coli Ras-like protein (Era)-like GTPase. The Era (E. coli Ras-like protein)-like family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngB), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Length = 161

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 43.2 bits (102), Expect = 2e-05
 Identities = 42/131 (32%), Positives = 64/131 (48%), Gaps = 18/131 (13%)

Query: 16  ILLIGDSGVGKSSILLSLISNSV--HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           IL++G    GK++I+  L  ++    +  PT+G  F ++    G   L  T +D +GQ +
Sbjct: 2   ILVLGLDNSGKTTIINQLKPSNAQSQNIVPTVG--FNVESFKKGN--LSFTAFDMSGQGK 57

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAK-EVELYSTNQDC----VKILV-GN 127
           +  L   YY+   GII V D + R     L  V AK E+EL   + D     + IL   N
Sbjct: 58  YRGLWEHYYKNIQGIIFVIDSSDR-----LRMVVAKDELELLLNHPDIKHRRIPILFYAN 112

Query: 128 KVD-RDSERAV 137
           K+D  D+  AV
Sbjct: 113 KMDLPDALTAV 123

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score = 40.6 bits (96), Expect = 2e-04
 Identities = 21/72 (29%), Positives = 38/72 (52%), Gaps = 13/72 (18%)

Query: 14 FKILLIGDSGVGKS----SILLSLISNSVHDPSPTIGVDFKIKLLTV------GGKRLKL 63
          F I+++G+SG+GKS    ++  + +  S + P+P   +   +++          G +LKL
Sbjct: 5  FNIMVVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGVKLKL 64

Query: 64 TIWDTAGQERFG 75
          T+ DT G   FG
Sbjct: 65 TVIDTPG---FG 73

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities. Length = 275

>gnl|CDD|218203 pfam04670, Gtr1_RagA, Gtr1/RagA G protein conserved region

 Score = 40.3 bits (95), Expect = 2e-04
 Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 19/164 (11%)

Query: 15  KILLIGDSGVGKSSILLSLISN-SVHDPSPTIGVDFKIKLLTVGGKR-LKLTIWDTAGQE 72
           K+LL+G  G GKSS+   + SN S  D +  +G    ++   V     L L +WD  GQ+
Sbjct: 1   KVLLMGLRGSGKSSMRSIIFSNYSPRD-TLRLGATIDVEQSHVRFLGNLTLNLWDCPGQD 59

Query: 73  RFGTLTSSY-----YRGAHGIILVYDVTRRE---TFTNLSSVWAKEVELYSTNQDCVKIL 124
            F     +      +     +I V+DV  RE       L  +  + +  YS N   V +L
Sbjct: 60  DFMENYLTRQKEHIFSNVGVLIYVFDVESREYEEDLATLVKI-IEALYQYSPNA-KVFVL 117

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           + +K+D  SE    R+E   + ++ K   +E       +    F
Sbjct: 118 I-HKMDLLSEDE--RKE---IFEDRKEEIIEEIEDFGIEDLTFF 155

GTR1 was first identified in S. cerevisiae as a suppressor of a mutation in RCC1. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1. Included in this family is the human Rag C, a novel protein that has been shown to interact with RagA/B. Length = 230

>gnl|CDD|133361 cd04161, Arl2l1_Arl13_like, Arl2-like protein 1 (Arl2l1) and Arl13

 Score = 38.1 bits (89), Expect = 8e-04
 Identities = 21/78 (26%), Positives = 38/78 (48%), Gaps = 4/78 (5%)

Query: 16 ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG 75
          +L +G    GK++++ +L        +PT+G     KL      + ++ I+D  G   F 
Sbjct: 2  LLTVGLDNAGKTTLVSALQGEIPKKVAPTVGFT-PTKLRL---DKYEVCIFDLGGGANFR 57

Query: 76 TLTSSYYRGAHGIILVYD 93
           +  +YY  AHG++ V D
Sbjct: 58 GIWVNYYAEAHGLVFVVD 75

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene. Length = 167

>gnl|CDD|206679 cd01892, Miro2, Mitochondrial Rho family 2 (Miro2), C-terminal

 Score = 37.6 bits (88), Expect = 0.002
 Identities = 30/121 (24%), Positives = 50/121 (41%), Gaps = 6/121 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISN--SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           F   ++G  G GKS++L + +    S +  SPTI   + +  + V G+   L + +    
Sbjct: 5   FLCFVLGAKGSGKSALLQAFLGRSFSQNAYSPTIKPRYAVNTVEVPGQEKYLILREVGED 64

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E    L  +         LVYD +   +F+  + V+ K   L      C+   V  K D 
Sbjct: 65  EEAILLNDAELAACDVACLVYDSSDPNSFSYCAEVYKKYFMLGEI--PCL--FVAAKADL 120

Query: 132 D 132
           D
Sbjct: 121 D 121

Miro2 subfamily. Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature. Length = 180

>gnl|CDD|223561 COG0486, ThdF, Predicted GTPase [General function prediction only]

 Score = 37.9 bits (89), Expect = 0.002
 Identities = 47/211 (22%), Positives = 81/211 (38%), Gaps = 48/211 (22%)

Query: 14  FKILLIGDSGVGKSSILLSL----------ISNSVHDPSPTIGVDFKIKLLTVGGKRLKL 63
            K+++IG   VGKSS+L +L          I+ +  D    I  D  +      G  ++L
Sbjct: 218 LKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRD---VIEEDINL-----NGIPVRL 269

Query: 64  TIWDTAGQ-------ERFG---TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL 113
              DTAG        ER G      +     A  ++ V D ++     +L       +EL
Sbjct: 270 V--DTAGIRETDDVVERIGIERAKKAI--EEADLVLFVLDASQPLDKEDL-----ALIEL 320

Query: 114 YSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY 173
               +    I+V NK D  S+  +  E+   LA     + +  SAK  E +    ++ + 
Sbjct: 321 LPKKKPI--IVVLNKADLVSKIELESEK---LANGDAIISI--SAKTGEGLDA-LREAIK 372

Query: 174 KILEVPSLLEQGSAVVKNQILKQKEVQESAR 204
           ++     L  Q    + N   +  ++ E A 
Sbjct: 373 QLFGK-GLGNQEGLFLSNL--RHIQLLEQAA 400

Length = 454

>gnl|CDD|201420 pfam00735, Septin, Septin

 Score = 37.7 bits (88), Expect = 0.002
 Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 13/73 (17%)

Query: 13 SFKILLIGDSGVGKSSILLSLISNSVHD------PSPTIGVDFKIKLLTV----GGKRLK 62
           F ++++G+SG+GK++++ +L    +        PS  I    +IK  TV     G +L 
Sbjct: 4  DFTLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGVKLN 63

Query: 63 LTIWDTAGQERFG 75
          LT+ DT G   FG
Sbjct: 64 LTVIDTPG---FG 73

Members of this family include CDC3, CDC10, CDC11 and CDC12/Septin. Members of this family bind GTP. As regards the septins, these are polypeptides of 30-65kDa with three characteristic GTPase motifs (G-1, G-3 and G-4) that are similar to those of the Ras family. The G-4 motif is strictly conserved with a unique septin consensus of AKAD. Most septins are thought to have at least one coiled-coil region, which in some cases is necessary for intermolecular interactions that allow septins to polymerise to form rod-shaped complexes. In turn, these are arranged into tandem arrays to form filaments. They are multifunctional proteins, with roles in cytokinesis, sporulation, germ cell development, exocytosis and apoptosis. Length = 280

>gnl|CDD|206744 cd11384, RagA_like, Rag GTPase, subfamily of Ras-related GTPases, includes Ras-related GTP-binding proteins A and B

 Score = 37.6 bits (88), Expect = 0.003
 Identities = 33/123 (26%), Positives = 54/123 (43%), Gaps = 25/123 (20%)

Query: 15  KILLIGDSGVGKSS----ILLSLISNSVHDPSPTIGVDF-KIKLLTVGGKRLKLTIWDTA 69
           K+LL+G SG GK+S    I  + ++        TI V+   ++ L  G   L L +WD  
Sbjct: 1   KVLLMGKSGSGKTSMRSIIFANYLARDTRRLGATIDVEHSHVRFL--GN--LVLNLWDCG 56

Query: 70  GQERF-----GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           GQ+ F      +     +R    +I V+DV  RE          K++  +   + C++ L
Sbjct: 57  GQDAFMENYFTSQRDHIFRNVEVLIYVFDVESRE--------LEKDLTYF---RSCLEAL 105

Query: 125 VGN 127
             N
Sbjct: 106 RQN 108

RagA and RagB are closely related Rag GTPases (ras-related GTP-binding protein A and B) that constitute a unique subgroup of the Ras superfamily, and are functional homologs of Saccharomyces cerevisiae Gtr1. These domains function by forming heterodimers with RagC or RagD, and similarly, Gtr1 dimerizes with Gtr2, through the carboxy-terminal segments. They play an essential role in regulating amino acid-induced target of rapamycin complex 1 (TORC1) kinase signaling, exocytic cargo sorting at endosomes, and epigenetic control of gene expression. In response to amino acids, the Rag GTPases guide the TORC1 complex to activate the platform containing Rheb proto-oncogene by driving the relocalization of mTORC1 from discrete locations in the cytoplasm to a late endosomal and/or lysosomal compartment that is Rheb-enriched and contains Rab-7. Length = 286

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	210
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
PLN03118	211	Rab family protein; Provisional	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
PLN03108	210	Rab family protein; Provisional	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	100.0
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	100.0
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	100.0
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	100.0
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	100.0
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	100.0
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	100.0
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	100.0
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	100.0
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.98
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.98
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.98
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.98
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.97
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.97
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.97
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.97
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.97
PLN00223	181	ADP-ribosylation factor; Provisional	99.97
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.97
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.97
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.97
PTZ00133	182	ADP-ribosylation factor; Provisional	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.97
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	99.97
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.97
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.97
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.96
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.96
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.96
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.96
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.96
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.96
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
PTZ00099	176	rab6; Provisional	99.95
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.95
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.95
PLN00023	334	GTP-binding protein; Provisional	99.95
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.94
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.94
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.94
PRK15494	339	era GTPase Era; Provisional	99.94
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.93
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.93
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.93
PRK12299	335	obgE GTPase CgtA; Reviewed	99.93
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.93
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.92
COG1100	219	GTPase SAR1 and related small G proteins [General	99.92
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.92
PRK04213	201	GTP-binding protein; Provisional	99.92
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.92
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.91
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.91
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.91
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.91
COG1159	298	Era GTPase [General function prediction only]	99.91
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.91
PRK03003	472	GTP-binding protein Der; Reviewed	99.91
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.91
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.91
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.91
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.9
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.9
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.9
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.9
PRK00089	292	era GTPase Era; Reviewed	99.9
PRK03003	472	GTP-binding protein Der; Reviewed	99.9
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.9
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.9
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.9
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.9
cd00881	189	GTP_translation_factor GTP translation factor fami	99.89
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.89
PRK12297	424	obgE GTPase CgtA; Reviewed	99.89
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.89
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.89
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.89
PRK12296	500	obgE GTPase CgtA; Reviewed	99.88
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.88
PRK12298	390	obgE GTPase CgtA; Reviewed	99.88
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.88
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.88
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.88
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.87
PRK00093	435	GTP-binding protein Der; Reviewed	99.87
PRK11058	426	GTPase HflX; Provisional	99.87
CHL00189	742	infB translation initiation factor 2; Provisional	99.87
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.87
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.87
PRK05433	600	GTP-binding protein LepA; Provisional	99.87
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.87
KOG1673	205	consensus Ras GTPases [General function prediction	99.86
PRK05306	787	infB translation initiation factor IF-2; Validated	99.86
PRK00093	435	GTP-binding protein Der; Reviewed	99.86
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.86
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.86
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.86
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.86
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.86
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.86
COG1160	444	Predicted GTPases [General function prediction onl	99.85
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.85
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.85
COG1160	444	Predicted GTPases [General function prediction onl	99.85
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.84
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.84
PRK12317	425	elongation factor 1-alpha; Reviewed	99.84
COG0486	454	ThdF Predicted GTPase [General function prediction	99.84
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.83
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.83
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.83
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.83
PRK10218	607	GTP-binding protein; Provisional	99.83
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.82
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.82
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.82
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.82
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.82
COG2229	187	Predicted GTPase [General function prediction only	99.81
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.81
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.8
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.8
PRK12736	394	elongation factor Tu; Reviewed	99.79
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.79
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.79
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.79
PRK04004	586	translation initiation factor IF-2; Validated	99.78
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.78
CHL00071	409	tufA elongation factor Tu	99.78
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.78
PRK12735	396	elongation factor Tu; Reviewed	99.77
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.77
COG0218	200	Predicted GTPase [General function prediction only	99.77
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.76
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.76
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.75
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.75
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.74
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.73
PLN03126	478	Elongation factor Tu; Provisional	99.73
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.73
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.73
COG1084	346	Predicted GTPase [General function prediction only	99.72
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.72
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.72
PLN03127	447	Elongation factor Tu; Provisional	99.72
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.72
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.72
PRK00049	396	elongation factor Tu; Reviewed	99.72
COG2262	411	HflX GTPases [General function prediction only]	99.71
PLN00043	447	elongation factor 1-alpha; Provisional	99.71
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.7
PRK13351	687	elongation factor G; Reviewed	99.7
COG0536	369	Obg Predicted GTPase [General function prediction	99.7
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.7
PTZ00141	446	elongation factor 1- alpha; Provisional	99.7
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.69
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.69
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.69
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.68
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.68
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.68
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.68
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.67
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.67
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.67
COG1163	365	DRG Predicted GTPase [General function prediction	99.67
PRK12739	691	elongation factor G; Reviewed	99.66
COG3596	296	Predicted GTPase [General function prediction only	99.65
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.64
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.64
PRK00007	693	elongation factor G; Reviewed	99.63
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.62
KOG1145	683	consensus Mitochondrial translation initiation fac	99.61
PRK09602	396	translation-associated GTPase; Reviewed	99.61
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.58
PRK12740	668	elongation factor G; Reviewed	99.58
PRK09866	741	hypothetical protein; Provisional	99.57
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.57
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.54
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.54
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.53
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.52
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.51
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.51
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.49
PRK13768	253	GTPase; Provisional	99.49
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.47
KOG0090	238	consensus Signal recognition particle receptor, be	99.46
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.45
PRK14845	1049	translation initiation factor IF-2; Provisional	99.45
PTZ00416	836	elongation factor 2; Provisional	99.44
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.44
PRK07560	731	elongation factor EF-2; Reviewed	99.44
PTZ00258	390	GTP-binding protein; Provisional	99.44
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.43
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.43
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.42
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.41
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.4
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.4
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.39
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.37
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.37
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.36
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.36
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.35
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.34
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.34
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.32
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.3
COG3276	447	SelB Selenocysteine-specific translation elongatio	99.3
PRK09601	364	GTP-binding protein YchF; Reviewed	99.29
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.28
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.26
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.25
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.25
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.25
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.23
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	99.23
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.22
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.22
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	99.19
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	99.17
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.13
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.1
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.09
COG0012	372	Predicted GTPase, probable translation factor [Tra	99.09
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	99.09
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.08
KOG0082	354	consensus G-protein alpha subunit (small G protein	99.07
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.04
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.02
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.01
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.0
PRK00098	298	GTPase RsgA; Reviewed	99.0
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	99.0
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	99.0
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.99
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.99
KOG0410	410	consensus Predicted GTP binding protein [General f	98.94
PRK12289	352	GTPase RsgA; Reviewed	98.92
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.91
COG5019	373	CDC3 Septin family protein [Cell division and chro	98.91
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.87
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.87
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.86
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.84
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.84
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.83
COG1161	322	Predicted GTPases [General function prediction onl	98.82
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.82
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.81
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.79
PRK12288	347	GTPase RsgA; Reviewed	98.77
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	98.77
KOG2486	320	consensus Predicted GTPase [General function predi	98.76
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.75
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.75
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.74
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.72
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.71
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.7
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.7
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.68
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.65
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.64
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.63
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.63
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.62
KOG0460	449	consensus Mitochondrial translation elongation fac	98.6
KOG1143	591	consensus Predicted translation elongation factor	98.57
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.52
PRK12288	347	GTPase RsgA; Reviewed	98.52
PRK12289	352	GTPase RsgA; Reviewed	98.52
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.5
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	98.5
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.5
PRK10416	318	signal recognition particle-docking protein FtsY;	98.48
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.45
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.45
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.45
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.44
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.42
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.42
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.42
PRK14974	336	cell division protein FtsY; Provisional	98.4
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.4
PRK13796	365	GTPase YqeH; Provisional	98.4
PRK13796	365	GTPase YqeH; Provisional	98.39
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.38
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.37
cd03112	158	CobW_like The function of this protein family is u	98.36
PRK01889	356	GTPase RsgA; Reviewed	98.3
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.28
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	98.28
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.26
KOG0099	379	consensus G protein subunit Galphas, small G prote	98.23
PRK00098	298	GTPase RsgA; Reviewed	98.22
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.21
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	98.18
COG0523	323	Putative GTPases (G3E family) [General function pr	98.14
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.12
COG1162	301	Predicted GTPases [General function prediction onl	98.11
KOG2484	435	consensus GTPase [General function prediction only	98.11
COG1162	301	Predicted GTPases [General function prediction onl	98.07
cd03114	148	ArgK-like The function of this protein family is u	98.0
cd03115	173	SRP The signal recognition particle (SRP) mediates	97.99
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	97.97
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	97.96
KOG2423	572	consensus Nucleolar GTPase [General function predi	97.94
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.94
PRK13695	174	putative NTPase; Provisional	97.93
COG3523	1188	IcmF Type VI protein secretion system component Va	97.92
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.91
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.91
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	97.88
PRK10867	433	signal recognition particle protein; Provisional	97.88
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	97.87
TIGR00959	428	ffh signal recognition particle protein. This mode	97.85
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.84
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.84
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	97.83
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.83
KOG4273	418	consensus Uncharacterized conserved protein [Funct	97.79
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.78
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	97.77
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.73
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.69
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.65
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.65
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.59
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.49
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.48
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.47
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.42
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.42
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.4
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.4
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.39
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.36
PRK14738	206	gmk guanylate kinase; Provisional	97.35
PRK14737	186	gmk guanylate kinase; Provisional	97.34
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	97.34
cd03111	106	CpaE_like This protein family consists of proteins	97.33
PRK08118	167	topology modulation protein; Reviewed	97.33
KOG1970	634	consensus Checkpoint RAD17-RFC complex, RAD17/RAD2	97.31
PRK07261	171	topology modulation protein; Provisional	97.3
PF13521	163	AAA_28: AAA domain; PDB: 1LW7_A.	97.24
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	97.23
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.23
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	97.21
cd03110	179	Fer4_NifH_child This protein family's function is	97.18
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	97.17
PF03215	519	Rad17: Rad17 cell cycle checkpoint protein	97.13
cd02036	179	MinD Bacterial cell division requires the formatio	97.12
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.12
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	97.11
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	97.1
COG4088	261	Predicted nucleotide kinase [Nucleotide transport	97.06
PRK01889	356	GTPase RsgA; Reviewed	97.05
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.04
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.99
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.99
PF00004	132	AAA: ATPase family associated with various cellula	96.98
PRK06217	183	hypothetical protein; Validated	96.97
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.93
smart00382	148	AAA ATPases associated with a variety of cellular	96.93
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	96.92
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.91
PRK03839	180	putative kinase; Provisional	96.9
COG1161	322	Predicted GTPases [General function prediction onl	96.9
TIGR03263	180	guanyl_kin guanylate kinase. Members of this famil	96.89
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.88
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.87
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.86
PRK14530	215	adenylate kinase; Provisional	96.86
PF04665	241	Pox_A32: Poxvirus A32 protein; InterPro: IPR006758	96.85
PRK04195	482	replication factor C large subunit; Provisional	96.85
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.83
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.82
PF07728	139	AAA_5: AAA domain (dynein-related subfamily); Inte	96.82
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.79
TIGR00174	287	miaA tRNA isopentenyltransferase (miaA). Catalyzes	96.78
PRK13949	169	shikimate kinase; Provisional	96.77
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.73
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.71
PRK05480	209	uridine/cytidine kinase; Provisional	96.71
cd01120	165	RecA-like_NTPases RecA-like NTPases. This family i	96.7
PHA00729	226	NTP-binding motif containing protein	96.7
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.7
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.68
COG3638	258	ABC-type phosphate/phosphonate transport system, A	96.67
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	96.66
KOG2743	391	consensus Cobalamin synthesis protein [Coenzyme tr	96.65
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.64
PRK14532	188	adenylate kinase; Provisional	96.64
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.64
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.64
PRK08233	182	hypothetical protein; Provisional	96.62
PRK10646	153	ADP-binding protein; Provisional	96.62
PRK00625	173	shikimate kinase; Provisional	96.61
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	96.6
cd01428	194	ADK Adenylate kinase (ADK) catalyzes the reversibl	96.6
PRK10751	173	molybdopterin-guanine dinucleotide biosynthesis pr	96.59
PF05879	742	RHD3: Root hair defective 3 GTP-binding protein (R	96.59
PRK02496	184	adk adenylate kinase; Provisional	96.58
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.57
KOG2423	572	consensus Nucleolar GTPase [General function predi	96.57

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.1e-42  Score=244.65  Aligned_cols=200  Identities=45%  Similarity=0.759  Sum_probs=179.3

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      +..+|.+||+++|+.|||||+|+.||..+.|.+ +..|+|.++....+.++++.+.+++|||+|+++|+.....+|+++|
T Consensus         4 ~~~dylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ah   83 (205)
T KOG0084|consen    4 PEYDYLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAH   83 (205)
T ss_pred             cccceEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCC
Confidence            445799999999999999999999999999999 9999999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe-EEEecccCCcCHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVK  165 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~  165 (210)
                      ++|+|||+++..+|+.+. .|+..+.++. ..++|.++|+||+|+.+.+.++.++++.++..++.+ ++++||+++.|++
T Consensus        84 Gii~vyDiT~~~SF~~v~-~Wi~Ei~~~~-~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe  161 (205)
T KOG0084|consen   84 GIIFVYDITKQESFNNVK-RWIQEIDRYA-SENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVE  161 (205)
T ss_pred             eEEEEEEcccHHHhhhHH-HHHHHhhhhc-cCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHH
Confidence            999999999999999999 8999999888 677899999999999999999999999999999999 9999999999999


Q ss_pred             HHHHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          166 QCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      +.|..+...+..++......+....+...-.. .+..+.++.||+
T Consensus       162 ~~F~~la~~lk~~~~~~~~~~~~~~~~~ql~~-~p~~~~~~~~C~  205 (205)
T KOG0084|consen  162 DAFLTLAKELKQRKGLHVKWSTASLESVQLKG-TPVKKSNGGCCE  205 (205)
T ss_pred             HHHHHHHHHHHHhcccCCCCCcCCCCceeeCC-CCcccccCCCCC
Confidence            99999999999888877766542233322222 455566666885

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.2e-41  Score=235.75  Aligned_cols=196  Identities=40%  Similarity=0.648  Sum_probs=172.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+++||+++|..+||||||+.||..+.|.+ ..+|+|.-+.+..+.++...+.+.+|||+|+++|.++.+.||++++++|
T Consensus         3 ~~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAi   82 (200)
T KOG0092|consen    3 TREFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAI   82 (200)
T ss_pred             cceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEE
Confidence            568999999999999999999999999999 6999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||+++.+||..+. .|...+++.. .++.-+.+||||+|+...+.+..+++..++...+..+|++||++|.|++++|.
T Consensus        83 vvYDit~~~SF~~aK-~WvkeL~~~~-~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~  160 (200)
T KOG0092|consen   83 VVYDITDEESFEKAK-NWVKELQRQA-SPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQ  160 (200)
T ss_pred             EEEecccHHHHHHHH-HHHHHHHhhC-CCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHH
Confidence            999999999999999 8999998887 37777888999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccchhhhcccccc-cccccchhhhhhhcCCCCCCC
Q 028315          170 DLLYKILEVPSLLEQGSAVV-KNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       170 ~i~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      .|.+.+.............. ....++..+  ++.+...|||
T Consensus       161 ~Ia~~lp~~~~~~~~~~~~~~~g~~l~~~~--~~~~~~~~C~  200 (200)
T KOG0092|consen  161 AIAEKLPCSDPQERQGLPNRRQGVDLNSNQ--EPARPSGCCA  200 (200)
T ss_pred             HHHHhccCccccccccccccccceecccCC--CCcCcCCcCC
Confidence            99999998887666522211 111222222  5666667775

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.6e-40  Score=232.91  Aligned_cols=169  Identities=36%  Similarity=0.607  Sum_probs=158.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+|+|+.+|||||||+|++...|.. +.+|+|.++...++.+.++.+++++|||+|+|+|+.+.+.|++++.++|
T Consensus        20 ~k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vav   99 (221)
T KOG0094|consen   20 LKKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAV   99 (221)
T ss_pred             ceEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEE
Confidence            456999999999999999999999999988 9999999999999999999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||+++..+|+... .|+.-+.......++-+++|+||.||.+.+++..++....++++++.|+++||+.|.||.++|.
T Consensus       100 iVyDit~~~Sfe~t~-kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFr  178 (221)
T KOG0094|consen  100 IVYDITDRNSFENTS-KWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFR  178 (221)
T ss_pred             EEEeccccchHHHHH-HHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHH
Confidence            999999999999999 7888887776555688899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccch
Q 028315          170 DLLYKILEVPS  180 (210)
Q Consensus       170 ~i~~~~~~~~~  180 (210)
                      .|...+.....
T Consensus       179 rIaa~l~~~~~  189 (221)
T KOG0094|consen  179 RIAAALPGMEV  189 (221)
T ss_pred             HHHHhccCccc
Confidence            98877776544

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=4.9e-40  Score=223.40  Aligned_cols=202  Identities=60%  Similarity=1.045  Sum_probs=180.2

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      +.....+||+++|.+|+|||+|+.+|....|.+ ...|+|.++.++.+.+++..+++.+|||+|+++|+.+...||+.+.
T Consensus         6 s~~~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaq   85 (209)
T KOG0080|consen    6 SGYDTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQ   85 (209)
T ss_pred             cCcceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCc
Confidence            556789999999999999999999999999988 5555999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++|+|||++.+++|..+. .|+..+..++.++++-.++|+||+|....+.++.++...|++.+++.++++||++..||+.
T Consensus        86 GiIlVYDVT~Rdtf~kLd-~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~  164 (209)
T KOG0080|consen   86 GIILVYDVTSRDTFVKLD-IWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQC  164 (209)
T ss_pred             eeEEEEEccchhhHHhHH-HHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHH
Confidence            999999999999999996 9999999999888888999999999988899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          167 CFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       167 l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      .|+.++..+++.+...++.....+..+......+-.-....|||
T Consensus       165 ~FeelveKIi~tp~l~~~~n~~~~~~i~~~p~~~~~~~~g~~Cs  208 (209)
T KOG0080|consen  165 CFEELVEKIIETPSLWEEGNSSAGLDIASDPDGEASAHQGGCCS  208 (209)
T ss_pred             HHHHHHHHHhcCcchhhccCCccccccccCCCcccccccCCccC
Confidence            99999999999999998866655555554333333333344554

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.4e-39  Score=230.13  Aligned_cols=176  Identities=48%  Similarity=0.804  Sum_probs=166.1

Q ss_pred             CCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhh
Q 028315            4 KVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYY   82 (210)
Q Consensus         4 ~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   82 (210)
                      .+..++.++.+||+++|+++||||+|+.+|....|.. +..|+|.++....+.+++..+.+++|||+|+++|..+...|+
T Consensus         3 ~~~~~~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYy   82 (207)
T KOG0078|consen    3 AMAKEDYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYY   82 (207)
T ss_pred             ccccCCcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHH
Confidence            3455678999999999999999999999999999887 889999999999999999999999999999999999999999


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      +.|+++++|||+++..+|+++. .|+..+..+. +.++|.++||||+|+...+++..+.++.++.++|++++|+||++|.
T Consensus        83 rgA~gi~LvyDitne~Sfeni~-~W~~~I~e~a-~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~  160 (207)
T KOG0078|consen   83 RGAMGILLVYDITNEKSFENIR-NWIKNIDEHA-SDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNF  160 (207)
T ss_pred             hhcCeeEEEEEccchHHHHHHH-HHHHHHHhhC-CCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCC
Confidence            9999999999999999999999 6999999888 5689999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHccchh
Q 028315          163 DVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~  181 (210)
                      ||++.|..|.+.+..+...
T Consensus       161 NI~eaF~~La~~i~~k~~~  179 (207)
T KOG0078|consen  161 NIEEAFLSLARDILQKLED  179 (207)
T ss_pred             CHHHHHHHHHHHHHhhcch
Confidence            9999999999999975544

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=2.7e-38  Score=234.30  Aligned_cols=195  Identities=32%  Similarity=0.554  Sum_probs=173.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|++|||||||+++|.++.+.. +.++.+.++....+.++ +..+.+.+|||||++.+..++..+++++|++++|
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv   80 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIV   80 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEE
Confidence            589999999999999999999988876 78888888877777777 7789999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhc---cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCCcCHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYS---TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQC  167 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~---~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~l  167 (210)
                      ||++++.+|+.+. .|...+....   ...+.|+++|+||+|+.+.+.+..+++..++...+ ..++++||++|.|++++
T Consensus        81 ~D~t~~~s~~~~~-~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~  159 (201)
T cd04107          81 FDVTRPSTFEAVL-KWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEA  159 (201)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHH
Confidence            9999999999998 7777665432   13578999999999997667788888999999888 68999999999999999


Q ss_pred             HHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCC
Q 028315          168 FKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCC  209 (210)
Q Consensus       168 ~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  209 (210)
                      |.+|.+.+.+..+.........+..+...++..+..+.++||
T Consensus       160 f~~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  201 (201)
T cd04107         160 MRFLVKNILANDKNLQQAETPEDGSVIDLKQTTTKKKSKGCC  201 (201)
T ss_pred             HHHHHHHHHHhchhhHhhcCCCcccccccccceeccccCCCC
Confidence            999999999998888888888888888888888888899998

Rab32 and Rab38 are members of the Rab family of small GTPases. Human Rab32 was first identified in platelets but it is expressed in a variety of cell types, where it functions as an A-kinase anchoring protein (AKAP). Rab38 has been shown to be melanocyte-specific. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=4.3e-37  Score=229.46  Aligned_cols=205  Identities=77%  Similarity=1.184  Sum_probs=180.6

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      .+......+||+|+|++|||||||+++|.+..+..+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+
T Consensus         7 ~~~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   86 (211)
T PLN03118          7 QSSGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNA   86 (211)
T ss_pred             cccccCcceEEEEECcCCCCHHHHHHHHHhCCCCCcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcC
Confidence            34445678999999999999999999999998877888888888878888888889999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|||++++++|+.+...|...+.......+.|+++|+||+|+...+.+..++...++...++.++++||+++.|++
T Consensus        87 d~~vlv~D~~~~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~  166 (211)
T PLN03118         87 QGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVE  166 (211)
T ss_pred             CEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            99999999999999999987788877765544678999999999998777777788888888889999999999999999


Q ss_pred             HHHHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          166 QCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      ++|.+|.+.+.+.+...++.....+++.++.....++.-+..|||
T Consensus       167 ~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  211 (211)
T PLN03118        167 QCFEELALKIMEVPSLLEEGSTAVKRNILKQKPEHQPPPNGGCCS  211 (211)
T ss_pred             HHHHHHHHHHHhhhhhhhcccccccccccccccccCCCCcCCCCC
Confidence            999999999999998888888888888888877777766667775

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=1.4e-37  Score=216.07  Aligned_cols=171  Identities=33%  Similarity=0.603  Sum_probs=156.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      +...+||+++|++|+|||+|+++|.+.+|.. +..|++.++..+.+.++++.+.+++|||+|+++|.++...+|+++|++
T Consensus         6 K~~lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcC   85 (210)
T KOG0394|consen    6 KRTLLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCC   85 (210)
T ss_pred             cccceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceE
Confidence            3456999999999999999999999999988 999999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccC---CCCcEEEEEeCCCCCCC--CccCHHHHHHHHHHc-CCeEEEecccCCc
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTN---QDCVKILVGNKVDRDSE--RAVTREEGMILAQEH-KCLFLECSAKNTE  162 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~---~~~p~ivv~nK~Dl~~~--~~~~~~~~~~~~~~~-~~~~~~~sa~~~~  162 (210)
                      ++|||++++.+|+.+. .|+..+..+...   ..-|+||+|||+|+...  +.++...++.++... +++||++|||...
T Consensus        86 vlvydv~~~~Sfe~L~-~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~  164 (210)
T KOG0394|consen   86 VLVYDVNNPKSFENLE-NWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEAT  164 (210)
T ss_pred             EEEeecCChhhhccHH-HHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccc
Confidence            9999999999999999 888888777642   34699999999999753  789999999999876 5799999999999


Q ss_pred             CHHHHHHHHHHHHHccchh
Q 028315          163 DVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~  181 (210)
                      ||.+.|..+.+.++.....
T Consensus       165 NV~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  165 NVDEAFEEIARRALANEDR  183 (210)
T ss_pred             cHHHHHHHHHHHHHhccch
Confidence            9999999999998877654

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=1.3e-36  Score=222.34  Aligned_cols=168  Identities=39%  Similarity=0.654  Sum_probs=152.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|..|||||||+++|..+.+.. +.++.+.++....+.+++..+.+++|||+|++.|..++..+++++|++
T Consensus         3 ~~~~~KivviG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~i   82 (189)
T cd04121           3 YDYLLKFLLVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGI   82 (189)
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEE
Confidence            4578999999999999999999999988766 667888888777788899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |+|||++++.+|+.+. .|+..+....  ++.|++||+||.|+...+.+..++++.++...++++++|||++|.||+++|
T Consensus        83 llVfD~t~~~Sf~~~~-~w~~~i~~~~--~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F  159 (189)
T cd04121          83 ILVYDITNRWSFDGID-RWIKEIDEHA--PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESF  159 (189)
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHH
Confidence            9999999999999998 7888886654  579999999999998888889999999999999999999999999999999


Q ss_pred             HHHHHHHHccch
Q 028315          169 KDLLYKILEVPS  180 (210)
Q Consensus       169 ~~i~~~~~~~~~  180 (210)
                      .++.+.+.....
T Consensus       160 ~~l~~~i~~~~~  171 (189)
T cd04121         160 TELARIVLMRHG  171 (189)
T ss_pred             HHHHHHHHHhcC
Confidence            999998876555

This subfamily contains Rab40a, Rab40b, and Rab40c, which are all highly homologous. In rat, Rab40c is localized to the perinuclear recycling compartment (PRC), and is distributed in a tissue-specific manor, with high expression in brain, heart, kidney, and testis, low expression in lung and liver, and no expression in spleen and skeletal muscle. Rab40c is highly expressed in differentiated oligodendrocytes but minimally expressed in oligodendrocyte progenitors, suggesting a role in the vesicular transport of myelin components. Unlike most other Ras-superfamily proteins, Rab40c was shown to have a much lower affinity for GTP, and an affinity for GDP that is lower than for GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide d

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=7.4e-37  Score=212.91  Aligned_cols=169  Identities=46%  Similarity=0.811  Sum_probs=158.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+|++++|+.|||||+|+.+|+...|.. +..|+|.++....+++++..+++++|||+|++.|.+....+|+.+.++
T Consensus         3 ~~~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~Ga   82 (216)
T KOG0098|consen    3 YAYLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGA   82 (216)
T ss_pred             ccceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcce
Confidence            4678999999999999999999999999988 788999999999999999999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |+|||++.+++|..+. .|+..+.... ..+.-+++++||+|+...++++.++.+.|++++|..++++||+++.||+++|
T Consensus        83 lLVydit~r~sF~hL~-~wL~D~rq~~-~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF  160 (216)
T KOG0098|consen   83 LLVYDITRRESFNHLT-SWLEDARQHS-NENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAF  160 (216)
T ss_pred             EEEEEccchhhHHHHH-HHHHHHHHhc-CCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHH
Confidence            9999999999999999 7888887765 5788899999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHccch
Q 028315          169 KDLLYKILEVPS  180 (210)
Q Consensus       169 ~~i~~~~~~~~~  180 (210)
                      ......+++.-+
T Consensus       161 ~nta~~Iy~~~q  172 (216)
T KOG0098|consen  161 INTAKEIYRKIQ  172 (216)
T ss_pred             HHHHHHHHHHHH
Confidence            999888776544

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=3.3e-36  Score=222.17  Aligned_cols=163  Identities=43%  Similarity=0.796  Sum_probs=147.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +.|+++|..|||||||+++|..+.|.. +.+|.+.++....+.+++..+.+++|||+|++.|..++..+++++|++|+||
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVf   80 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVY   80 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEE
Confidence            358999999999999999999999877 7788888888888888999999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcCHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      |++++.+|+.+. .|+..+.... ..+.|+++|+||+|+...+.+..++++.++... ++.+++|||++|.||+++|.++
T Consensus        81 Dvtd~~Sf~~l~-~w~~~i~~~~-~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l  158 (202)
T cd04120          81 DITKKETFDDLP-KWMKMIDKYA-SEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKL  158 (202)
T ss_pred             ECcCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHH
Confidence            999999999998 7888776554 467999999999999888888888888888775 7889999999999999999999


Q ss_pred             HHHHHcc
Q 028315          172 LYKILEV  178 (210)
Q Consensus       172 ~~~~~~~  178 (210)
                      ++.+...
T Consensus       159 ~~~~~~~  165 (202)
T cd04120         159 VDDILKK  165 (202)
T ss_pred             HHHHHHh
Confidence            9988764

Rab12 was first identified in canine cells, where it was localized to the Golgi complex. The specific function of Rab12 remains unknown, and inconsistent results about its cellular localization have been reported. More recent studies have identified Rab12 associated with post-Golgi vesicles, or with other small vesicle-like structures but not with the Golgi complex. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.5e-36  Score=215.76  Aligned_cols=177  Identities=45%  Similarity=0.734  Sum_probs=165.5

Q ss_pred             CCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhh
Q 028315            4 KVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYY   82 (210)
Q Consensus         4 ~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   82 (210)
                      .-.+...+|.+||+++|++++|||-|+.|+....|.. ...|+|.++.+..+.+++..+..+||||+|+++|+.....+|
T Consensus         5 ~~~~~~~dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYY   84 (222)
T KOG0087|consen    5 RDKSEEYDYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYY   84 (222)
T ss_pred             cCCccccceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhh
Confidence            3445677899999999999999999999999999988 889999999999999999999999999999999999999999


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      +.+.++++|||++...+|+.+. .|+..++.+. ..++++++|+||+||...+.+..+++..+++..+..++++||.++.
T Consensus        85 rgAvGAllVYDITr~~Tfenv~-rWL~ELRdha-d~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~t  162 (222)
T KOG0087|consen   85 RGAVGALLVYDITRRQTFENVE-RWLKELRDHA-DSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDAT  162 (222)
T ss_pred             cccceeEEEEechhHHHHHHHH-HHHHHHHhcC-CCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccc
Confidence            9999999999999999999999 8999998887 6789999999999999999999999999999999999999999999


Q ss_pred             CHHHHHHHHHHHHHccchhh
Q 028315          163 DVKQCFKDLLYKILEVPSLL  182 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~~  182 (210)
                      |+++.|..++..+...-...
T Consensus       163 NVe~aF~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  163 NVEKAFERVLTEIYKIVSKK  182 (222)
T ss_pred             cHHHHHHHHHHHHHHHHHHH
Confidence            99999999999887665544

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=1.6e-35  Score=221.44  Aligned_cols=169  Identities=46%  Similarity=0.769  Sum_probs=152.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.+||+++|++|||||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+++
T Consensus         8 ~~~~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~   87 (216)
T PLN03110          8 EYDYLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVG   87 (216)
T ss_pred             ccCceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCE
Confidence            35688999999999999999999999988765 77888988888888888989999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.+|+.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        88 ~ilv~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~l  165 (216)
T PLN03110         88 ALLVYDITKRQTFDNVQ-RWLRELRDHA-DSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKA  165 (216)
T ss_pred             EEEEEECCChHHHHHHH-HHHHHHHHhC-CCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999988 7887776654 457899999999999887888888888888888999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |+++++.+.+..
T Consensus       166 f~~l~~~i~~~~  177 (216)
T PLN03110        166 FQTILLEIYHII  177 (216)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887643

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=1.2e-35  Score=218.00  Aligned_cols=183  Identities=32%  Similarity=0.536  Sum_probs=153.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..+||+++|++|+|||||++++.++.+.. +.++.+..+ .....+++..+.+.+|||||++.+..++..+++.+|++++
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iil   82 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLC   82 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEE
Confidence            45999999999999999999999988765 667766555 4556788888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|+.+. .|...+.......+.|+++|+||.|+...+.+..+++..+...++++++++||++|.|++++|.+
T Consensus        83 v~D~s~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~  161 (189)
T PTZ00369         83 VYSITSRSSFEEIA-SFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYE  161 (189)
T ss_pred             EEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHH
Confidence            99999999999998 56666655543568899999999999777777777888888888899999999999999999999


Q ss_pred             HHHHHHccchhhhcccccccccccchhhhhhhcCCCCCC
Q 028315          171 LLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCC  209 (210)
Q Consensus       171 i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  209 (210)
                      +++.+....+   +          ..+.+.+..++++||
T Consensus       162 l~~~l~~~~~---~----------~~~~~~~~~~~~~~~  187 (189)
T PTZ00369        162 LVREIRKYLK---E----------DMPSQKQKKKGGLCL  187 (189)
T ss_pred             HHHHHHHHhh---c----------cchhhhhhccCCeee
Confidence            9998864322   1          245556666778887

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=2.3e-35  Score=216.46  Aligned_cols=185  Identities=40%  Similarity=0.676  Sum_probs=157.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||+++|.++.+.. +.++.+.++....+.+++..+.+.+|||||.+.+...+..+++.+|++++||
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~   80 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVY   80 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEE
Confidence            589999999999999999999999877 7888888888777888888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|..+. .|+..+.... ....|+++|+||.|+.+.+.+..+++..++...+++++++||++|.|++++|.+++
T Consensus        81 d~~~~~s~~~i~-~~~~~i~~~~-~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~  158 (188)
T cd04125          81 DVTDQESFENLK-FWINEINRYA-RENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLV  158 (188)
T ss_pred             ECcCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999999999998 5887776654 34689999999999987777888888888888889999999999999999999999


Q ss_pred             HHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          173 YKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      +.+..+....+.          ...+.+++.+++.||+
T Consensus       159 ~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~  186 (188)
T cd04125         159 KLIIKRLEEQEL----------SPKNIKQQFKKKNNCF  186 (188)
T ss_pred             HHHHHHhhcCcC----------CccccccccccccCcc
Confidence            998754433322          2344555556666664

RabA was first identified in D. discoideum, where its expression levels were compared to other Rabs in growing and developing cells. The RabA mRNA levels were below the level of detection by Northern blot analysis, suggesting a very low level of expression. The function of RabA remains unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=3.8e-35  Score=217.00  Aligned_cols=169  Identities=46%  Similarity=0.742  Sum_probs=149.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.+||+++|++|||||||+++|.+..+.. +.++.+.++....+.+.+..+.+.+|||||++.+..++..+++++|+++
T Consensus         4 ~~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~ii   83 (199)
T cd04110           4 DHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVI   83 (199)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEE
Confidence            467999999999999999999999988866 7788888887777778888889999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|+..+....  ...|++||+||+|+.+.+.+..++...++...+.+++++||++|.||+++|+
T Consensus        84 lv~D~~~~~s~~~~~-~~~~~i~~~~--~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~  160 (199)
T cd04110          84 VVYDVTNGESFVNVK-RWLQEIEQNC--DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFN  160 (199)
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHH
Confidence            999999999999998 6777776543  5789999999999987777788888888888899999999999999999999


Q ss_pred             HHHHHHHccchhh
Q 028315          170 DLLYKILEVPSLL  182 (210)
Q Consensus       170 ~i~~~~~~~~~~~  182 (210)
                      +|.+.+.......
T Consensus       161 ~l~~~~~~~~~~~  173 (199)
T cd04110         161 CITELVLRAKKDN  173 (199)
T ss_pred             HHHHHHHHhhhcc
Confidence            9999998665544

Rab35 is one of several Rab proteins to be found to participate in the regulation of osteoclast cells in rats. In addition, Rab35 has been identified as a protein that interacts with nucleophosmin-anaplastic lymphoma kinase (NPM-ALK) in human cells. Overexpression of NPM-ALK is a key oncogenic event in some anaplastic large-cell lymphomas; since Rab35 interacts with N|PM-ALK, it may provide a target for cancer treatments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=4.7e-35  Score=219.49  Aligned_cols=167  Identities=25%  Similarity=0.486  Sum_probs=147.0

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .....+||+++|++|||||+|+.+|..+.|.. +.|+.+..+. ..+.+++..+.+.||||+|++.|..++..+++++|+
T Consensus         9 ~~~~~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~   87 (232)
T cd04174           9 PLVMRCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDA   87 (232)
T ss_pred             CceeeEEEEEECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcE
Confidence            33468999999999999999999999998877 7788877664 456788999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEE
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFL  154 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~  154 (210)
                      +++|||++++.+|+.+...|...+....  ++.|+++|+||+|+..            .+.+..++++.++..+++ .|+
T Consensus        88 vIlVyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~  165 (232)
T cd04174          88 VLLCFDISRPETVDSALKKWKAEIMDYC--PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYL  165 (232)
T ss_pred             EEEEEECCChHHHHHHHHHHHHHHHHhC--CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEE
Confidence            9999999999999986448888887654  4789999999999864            356888999999999998 699


Q ss_pred             EecccCCc-CHHHHHHHHHHHHHcc
Q 028315          155 ECSAKNTE-DVKQCFKDLLYKILEV  178 (210)
Q Consensus       155 ~~sa~~~~-~i~~l~~~i~~~~~~~  178 (210)
                      +|||++|. ||+++|..+++.+.+.
T Consensus       166 EtSAktg~~~V~e~F~~~~~~~~~~  190 (232)
T cd04174         166 ECSAFTSEKSIHSIFRSASLLCLNK  190 (232)
T ss_pred             EccCCcCCcCHHHHHHHHHHHHHHh
Confidence            99999997 8999999999988764

Rnd1/Rho6 is a member of the novel Rho subfamily Rnd, together with Rnd2/Rho7 and Rnd3/RhoE/Rho8. Rnd1/Rho6 binds GTP but does not hydrolyze it to GDP, indicating that it is constitutively active. In rat, Rnd1/Rho6 is highly expressed in the cerebral cortex and hippocampus during synapse formation, and plays a role in spine formation. Rnd1/Rho6 is also expressed in the liver and in endothelial cells, and is upregulated in uterine myometrial cells during pregnancy. Like Rnd3/RhoE/Rho8, Rnd1/Rho6 is believed to function as an antagonist to RhoA. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=1.8e-35  Score=217.33  Aligned_cols=185  Identities=31%  Similarity=0.506  Sum_probs=149.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|.+|||||||+++|..+.+.. +.++.+..+ .....+++..+.+.+|||||++.|..++..+++.+|++++|||
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYS   79 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEE
Confidence            58999999999999999999888876 556665443 3445678888899999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ++++.+|+.+. .|...+.....  ..+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|.++
T Consensus        80 ~~~~~s~~~~~-~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l  158 (190)
T cd04144          80 ITSRSTFERVE-RFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTL  158 (190)
T ss_pred             CCCHHHHHHHH-HHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHH
Confidence            99999999988 56665544332  2578999999999998777888888888888889999999999999999999999


Q ss_pred             HHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          172 LYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      ++.+......-.         .....+..++.++++|||
T Consensus       159 ~~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~  188 (190)
T cd04144         159 VRALRQQRQGGQ---------GPKGGPTKKKEKKKRKCV  188 (190)
T ss_pred             HHHHHHhhcccC---------CCcCCCCCcccccccCce
Confidence            998875444321         123444455555556664

The Ras2 subfamily, found exclusively in fungi, was first identified in Ustilago maydis. In U. maydis, Ras2 is regulated by Sql2, a protein that is homologous to GEFs (guanine nucleotide exchange factors) of the CDC25 family. Ras2 has been shown to induce filamentous growth, but the signaling cascade through which Ras2 and Sql2 regulate cell morphology is not known. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=4e-35  Score=215.66  Aligned_cols=189  Identities=38%  Similarity=0.686  Sum_probs=157.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|++|||||||++++.++.+..  +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++++|
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   80 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLL   80 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEE
Confidence            589999999999999999999988753  667777777766678888899999999999999998889999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +|++++.+++.+. .|...+.... ..+.|+++|+||+|+...+.+..++...+...++++|+++||++|.|++++|.+|
T Consensus        81 ~D~~~~~s~~~~~-~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l  158 (191)
T cd04112          81 YDITNKASFDNIR-AWLTEIKEYA-QEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAV  158 (191)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHH
Confidence            9999999999998 6777776654 4578999999999997777777888888888889999999999999999999999


Q ss_pred             HHHHHccchhhhcccccccccccchhhhhhhcCCCCCC
Q 028315          172 LYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCC  209 (210)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  209 (210)
                      .+.+.+.+..++......     -..-..+.++.+.||
T Consensus       159 ~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~  191 (191)
T cd04112         159 AKELKHRKYEQPDEGKFK-----ISDYVTKQKKISRCC  191 (191)
T ss_pred             HHHHHHhccccCCCCcEE-----eccccCcccccCCCC
Confidence            999998876544433222     222234445566776

First identified in rat pancreatic acinar cells, Rab26 is believed to play a role in recruiting mature granules to the plasma membrane upon beta-adrenergic stimulation. Rab26 belongs to the Rab functional group III, which are considered key regulators of intracellular vesicle transport during exocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2e-36  Score=203.16  Aligned_cols=165  Identities=46%  Similarity=0.760  Sum_probs=156.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .-++.+|+|++|+|||+|+.+|....|+. |..|+|.++...++.+++..+.+++|||+|++.|+.+...+++..+++++
T Consensus         7 hLfkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~v   86 (198)
T KOG0079|consen    7 HLFKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIV   86 (198)
T ss_pred             HHHHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEE
Confidence            34678999999999999999999999988 88999999999999999999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||+++.++|.+.. .|++.++..+  ..+|-++|+||.|.++.+.+..++++.++...|+.+|++||+...|++.+|.-
T Consensus        87 VYDVTn~ESF~Nv~-rWLeei~~nc--dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~c  163 (198)
T KOG0079|consen   87 VYDVTNGESFNNVK-RWLEEIRNNC--DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHC  163 (198)
T ss_pred             EEECcchhhhHhHH-HHHHHHHhcC--ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHH
Confidence            99999999999999 8999998877  58899999999999998999999999999999999999999999999999999


Q ss_pred             HHHHHHccc
Q 028315          171 LLYKILEVP  179 (210)
Q Consensus       171 i~~~~~~~~  179 (210)
                      |.+...+..
T Consensus       164 it~qvl~~k  172 (198)
T KOG0079|consen  164 ITKQVLQAK  172 (198)
T ss_pred             HHHHHHHHH
Confidence            999888766

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=5.3e-35  Score=218.01  Aligned_cols=166  Identities=33%  Similarity=0.531  Sum_probs=141.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|.+|||||||+++|..+.+..+.++.+.++.....    ..+.+.+|||+|++.|..++..+++++|++|+|||
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~~~~Tig~~~~~~~~----~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~D   76 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKDTVSTVGGAFYLKQW----GPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYD   76 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCCCCCccceEEEEEEe----eEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEE
Confidence            58999999999999999999999987777787776654432    46789999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC-------------------CCccCHHHHHHHHHHcC----
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS-------------------ERAVTREEGMILAQEHK----  150 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~~~~~~~~~~~~~~----  150 (210)
                      ++++.+|+.+..+|...... . ..+.|+++|+||+|+..                   .+.+..+++..+++..+    
T Consensus        77 vt~~~Sf~~l~~~~~~l~~~-~-~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~  154 (220)
T cd04126          77 VSNVQSLEELEDRFLGLTDT-A-NEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKM  154 (220)
T ss_pred             CCCHHHHHHHHHHHHHHHHh-c-CCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCcccc
Confidence            99999999998666655432 2 35789999999999975                   57788899999998876    


Q ss_pred             ----------CeEEEecccCCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          151 ----------CLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       151 ----------~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                                ++|++|||++|.||+++|.++++.+..........
T Consensus       155 ~~~~~~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~~  199 (220)
T cd04126         155 LDEDLSPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRAE  199 (220)
T ss_pred             ccccccccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhhh
Confidence                      68999999999999999999999988655555443

Rab20 is one of several Rab proteins that appear to be restricted in expression to the apical domain of murine polarized epithelial cells. It is expressed on the apical side of polarized kidney tubule and intestinal epithelial cells, and in non-polarized cells. It also localizes to vesico-tubular structures below the apical brush border of renal proximal tubule cells and in the apical region of duodenal epithelial cells. Rab20 has also been shown to colocalize with vacuolar H+-ATPases (V-ATPases) in mouse kidney cells, suggesting a role in the regulation of V-ATPase traffic in specific portions of the nephron. It was also shown to be one of several proteins whose expression is upregulated in human myelodysplastic syndrome (MDS) patients. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bo

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=8.3e-35  Score=211.78  Aligned_cols=163  Identities=23%  Similarity=0.518  Sum_probs=144.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...+||+++|++|||||||++++..+.+.. +.||.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|+++
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~~-~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~i   81 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVL   81 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeeeeE-EEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEE
Confidence            457899999999999999999999999877 7788876554 56778999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+|+.+...|...+....  ++.|+++|+||+|+.+            .+.++.++++.+++..++ +|++|
T Consensus        82 lvyDit~~~Sf~~~~~~w~~~i~~~~--~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~  159 (182)
T cd04172          82 ICFDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIEC  159 (182)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHHC--CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEEC
Confidence            99999999999998558988887654  5789999999999864            346889999999999996 89999


Q ss_pred             cccCCcC-HHHHHHHHHHHHH
Q 028315          157 SAKNTED-VKQCFKDLLYKIL  176 (210)
Q Consensus       157 sa~~~~~-i~~l~~~i~~~~~  176 (210)
                      ||++|.| |+++|..+++.++
T Consensus       160 SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         160 SALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CcCCCCCCHHHHHHHHHHHHh
Confidence            9999998 9999999998654

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=1e-34  Score=208.94  Aligned_cols=163  Identities=46%  Similarity=0.788  Sum_probs=146.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|+|||||++++.++.+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++++|++++|
T Consensus         2 ~~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   81 (166)
T cd04122           2 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMV   81 (166)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEE
Confidence            4899999999999999999999998877 667788888777778888899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|.++
T Consensus        82 ~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l  159 (166)
T cd04122          82 YDITRRSTYNHLS-SWLTDARNLT-NPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLET  159 (166)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHH
Confidence            9999999999998 6777665543 4578999999999998888888889999999889999999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      ++.+.+
T Consensus       160 ~~~~~~  165 (166)
T cd04122         160 AKKIYQ  165 (166)
T ss_pred             HHHHhh
Confidence            988764

Rab14 GTPases are localized to biosynthetic compartments, including the rough ER, the Golgi complex, and the trans-Golgi network, and to endosomal compartments, including early endosomal vacuoles and associated vesicles. Rab14 is believed to function in both the biosynthetic and recycling pathways between the Golgi and endosomal compartments. Rab14 has also been identified on GLUT4 vesicles, and has been suggested to help regulate GLUT4 translocation. In addition, Rab14 is believed to play a role in the regulation of phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GT

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.1e-34  Score=216.20  Aligned_cols=170  Identities=42%  Similarity=0.698  Sum_probs=148.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +.+||+++|++|||||||+++|.++.+.. +.++.+.++....+.+ ++..+.+++|||||++.+..++..+++++|+++
T Consensus         1 ~~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (211)
T cd04111           1 YQFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVL   80 (211)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEE
Confidence            46899999999999999999999988877 6678887877776666 466789999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|...+.........|++||+||.|+...+.+..++...++..++++++++||++|.|++++|+
T Consensus        81 lv~D~~~~~Sf~~l~-~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~  159 (211)
T cd04111          81 LVFDITNRESFEHVH-DWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFE  159 (211)
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999998 6777665554345678899999999988778888889999999999999999999999999999


Q ss_pred             HHHHHHHccchhh
Q 028315          170 DLLYKILEVPSLL  182 (210)
Q Consensus       170 ~i~~~~~~~~~~~  182 (210)
                      +|.+.+.+.....
T Consensus       160 ~l~~~~~~~~~~~  172 (211)
T cd04111         160 LLTQEIYERIKRG  172 (211)
T ss_pred             HHHHHHHHHhhcC
Confidence            9999888665433

Found in eukaryotes, Rab39 is mainly found in epithelial cell lines, but is distributed widely in various human tissues and cell lines. It is believed to be a novel Rab protein involved in regulating Golgi-associated vesicular transport during cellular endocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins.

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=1e-34  Score=210.06  Aligned_cols=160  Identities=31%  Similarity=0.588  Sum_probs=142.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||+|+.++..+.|.. +.+|.+..+ ...+.+++..+.+.+|||+|++.|..++..+++++|++|+||
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvy   80 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAF   80 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEE
Confidence            699999999999999999999999976 778887665 455678888999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC----------ccCHHHHHHHHHHcCC-eEEEecccCC
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER----------AVTREEGMILAQEHKC-LFLECSAKNT  161 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~----------~~~~~~~~~~~~~~~~-~~~~~sa~~~  161 (210)
                      |++++.+|+.+...|...+....  .+.|+++|+||+|+.+.+          .+..+++..++...+. .+++|||++|
T Consensus        81 d~~~~~Sf~~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~  158 (176)
T cd04133          81 SLISRASYENVLKKWVPELRHYA--PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQ  158 (176)
T ss_pred             EcCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcc
Confidence            99999999998547888876554  479999999999996543          4788899999999988 5999999999


Q ss_pred             cCHHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKIL  176 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~  176 (210)
                      .||+++|..+.+.+.
T Consensus       159 ~nV~~~F~~~~~~~~  173 (176)
T cd04133         159 QNVKAVFDAAIKVVL  173 (176)
T ss_pred             cCHHHHHHHHHHHHh
Confidence            999999999998764

The Rop (Rho-related protein from plants) subfamily plays a role in diverse cellular processes, including cytoskeletal organization, pollen and vegetative cell growth, hormone responses, stress responses, and pathogen resistance. Rops are able to regulate several downstream pathways to amplify a specific signal by acting as master switches early in the signaling cascade. They transmit a variety of extracellular and intracellular signals. Rops are involved in establishing cell polarity in root-hair development, root-hair elongation, pollen-tube growth, cell-shape formation, responses to hormones such as abscisic acid (ABA) and auxin, responses to abiotic stresses such as oxygen deprivation, and disease resistance and disease susceptibility. An individual Rop can have a unique function or an overlapping function shared with other Rop proteins; in addition, a given Rop-regulated function can be controlled by one or multiple Rop proteins. For example,

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=8.7e-35  Score=210.37  Aligned_cols=163  Identities=37%  Similarity=0.579  Sum_probs=144.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|.+|||||||++++..+.+.. +.++.+..+ ...+.+++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv   80 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIIC   80 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEE
Confidence            4899999999999999999999999876 667776444 44567788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.......+.|+++|+||+|+...+.++.++++.+++..++++++|||++|.||+++|+++
T Consensus        81 ~d~~~~~Sf~~~~-~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l  159 (172)
T cd04141          81 YSVTDRHSFQEAS-EFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGL  159 (172)
T ss_pred             EECCchhHHHHHH-HHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHH
Confidence            9999999999998 577777665435679999999999998778888889999998899999999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      ++.+.+
T Consensus       160 ~~~~~~  165 (172)
T cd04141         160 VREIRR  165 (172)
T ss_pred             HHHHHH
Confidence            998875

Rit (Ras-like protein in all tissues), Rin (Ras-like protein in neurons) and Ric (Ras-related protein which interacts with calmodulin) form a subfamily with several unique structural and functional characteristics. These proteins all lack a the C-terminal CaaX lipid-binding motif typical of Ras family proteins, and Rin and Ric contain calmodulin-binding domains. Rin, which is expressed only in neurons, induces neurite outgrowth in rat pheochromocytoma cells through its association with calmodulin and its activation of endogenous Rac/cdc42. Rit, which is ubiquitously expressed in mammals, inhibits growth-factor withdrawl-mediated apoptosis and induces neurite extension in pheochromocytoma cells. Rit and Rin are both able to form a ternary complex with PAR6, a cell polarity-regulating protein, and Rac/cdc42. This ternary complex is proposed to have physiological function in processes such as tumorigenesis. Activated Ric is likely to sign

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=1.9e-34  Score=207.75  Aligned_cols=165  Identities=50%  Similarity=0.832  Sum_probs=148.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.+||+++|++|+|||||++++.+..+.. +.++.+.++....+...+..+.+++|||||++.+...+..+++++|+++
T Consensus         1 ~~~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i   80 (167)
T cd01867           1 DYLFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGII   80 (167)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEE
Confidence            467999999999999999999999998877 7888888887777788888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++..++.+++++||++|.|++++|.
T Consensus        81 ~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  158 (167)
T cd01867          81 LVYDITDEKSFENIR-NWMRNIEEHA-SEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFF  158 (167)
T ss_pred             EEEECcCHHHHHhHH-HHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999998 6888776654 46789999999999987777788888888888899999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      ++.+++..
T Consensus       159 ~i~~~~~~  166 (167)
T cd01867         159 TLAKDIKK  166 (167)
T ss_pred             HHHHHHHh
Confidence            99998864

Rab8/Sec4/Ypt2 are known or suspected to be involved in post-Golgi transport to the plasma membrane. It is likely that these Rabs have functions that are specific to the mammalian lineage and have no orthologs in plants. Rab8 modulates polarized membrane transport through reorganization of actin and microtubules, induces the formation of new surface extensions, and has an important role in directed membrane transport to cell surfaces. The Ypt2 gene of the fission yeast Schizosaccharomyces pombe encodes a member of the Ypt/Rab family of small GTP-binding proteins, related in sequence to Sec4p of Saccharomyces cerevisiae but closer to mammalian Rab8. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhi

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=2.9e-34  Score=214.68  Aligned_cols=165  Identities=34%  Similarity=0.518  Sum_probs=146.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECC-eEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGG-KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|++|||||||+++|.+..+.. +.++.+.+++...+.+++ ..+.+.+|||||++.+..++..+++++|++|+|
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV   80 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLV   80 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEE
Confidence            589999999999999999999988877 788888888877777764 578999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      ||++++.+|+.+. .|...+.....  ..+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|+
T Consensus        81 ~D~t~~~s~~~~~-~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~  159 (215)
T cd04109          81 YDVTNSQSFENLE-DWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQ  159 (215)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHH
Confidence            9999999999998 68887766542  24568999999999987778888888899998999999999999999999999


Q ss_pred             HHHHHHHccc
Q 028315          170 DLLYKILEVP  179 (210)
Q Consensus       170 ~i~~~~~~~~  179 (210)
                      ++.+.+....
T Consensus       160 ~l~~~l~~~~  169 (215)
T cd04109         160 QLAAELLGVD  169 (215)
T ss_pred             HHHHHHHhcc
Confidence            9999988653

First identified in maize, Rab28 has been shown to be a late embryogenesis-abundant (Lea) protein that is regulated by the plant hormone abcisic acid (ABA). In Arabidopsis, Rab28 is expressed during embryo development and is generally restricted to provascular tissues in mature embryos. Unlike maize Rab28, it is not ABA-inducible. Characterization of the human Rab28 homolog revealed two isoforms, which differ by a 95-base pair insertion, producing an alternative sequence for the 30 amino acids at the C-terminus. The two human isoforms are presumbly the result of alternative splicing. Since they differ at the C-terminus but not in the GTP-binding region, they are predicted to be targeted to different cellular locations. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=2.5e-34  Score=209.54  Aligned_cols=166  Identities=35%  Similarity=0.640  Sum_probs=146.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC----------CeEEEEEEEeCCCCcccccchh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG----------GKRLKLTIWDTAGQERFGTLTS   79 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~----------~~~~~~~l~Dt~G~~~~~~~~~   79 (210)
                      ++.+||+++|++|||||||++++.++.+.. +.++.+.++....+.+.          +..+.+.+|||||++.+...+.
T Consensus         2 ~~~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~   81 (180)
T cd04127           2 DYLIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTT   81 (180)
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHH
Confidence            477999999999999999999999988877 77888877766655543          4568999999999999999999


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .+++++|++++|||++++.+|..+. .|+..+.......+.|+++|+||+|+.+.+.+..++...++..++++++++||+
T Consensus        82 ~~~~~~~~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak  160 (180)
T cd04127          82 AFFRDAMGFLLIFDLTNEQSFLNVR-NWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAA  160 (180)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCC
Confidence            9999999999999999999999998 788877665444678999999999998877888888999999999999999999


Q ss_pred             CCcCHHHHHHHHHHHHHc
Q 028315          160 NTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~  177 (210)
                      +|.|++++|++|.+.+.+
T Consensus       161 ~~~~v~~l~~~l~~~~~~  178 (180)
T cd04127         161 TGTNVEKAVERLLDLVMK  178 (180)
T ss_pred             CCCCHHHHHHHHHHHHHh
Confidence            999999999999988764

The Rab27a subfamily consists of Rab27a and its highly homologous isoform, Rab27b. Unlike most Rab proteins whose functions remain poorly defined, Rab27a has many known functions. Rab27a has multiple effector proteins, and depending on which effector it binds, Rab27a has different functions as well as tissue distribution and/or cellular localization. Putative functions have been assigned to Rab27a when associated with the effector proteins Slp1, Slp2, Slp3, Slp4, Slp5, DmSlp, rabphilin, Dm/Ce-rabphilin, Slac2-a, Slac2-b, Slac2-c, Noc2, JFC1, and Munc13-4. Rab27a has been associated with several human diseases, including hemophagocytic syndrome (Griscelli syndrome or GS), Hermansky-Pudlak syndrome, and choroidermia. In the case of GS, a rare, autosomal recessive disease, a Rab27a mutation is directly responsible for the disorder. When Rab27a is localized to the secretory granules of pancreatic beta cells, it is believed to mediate glucose-stimulated

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.5e-35  Score=201.01  Aligned_cols=170  Identities=44%  Similarity=0.741  Sum_probs=154.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .|++|++++|++-+|||+|++++..+++.+ ..||.|.+++..-+.+ ++..+++++|||+|+++|++..+.+++++-++
T Consensus         6 ~yqfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgv   85 (213)
T KOG0091|consen    6 HYQFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGV   85 (213)
T ss_pred             EEEEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccce
Confidence            689999999999999999999999999999 8899999888776655 57789999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      ++|||+++..+|+.+. .|..........+.+++ .+|++|+|+..+++++.++++.++..+|..++++||++|.||++.
T Consensus        86 llvyditnr~sfehv~-~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEA  164 (213)
T KOG0091|consen   86 LLVYDITNRESFEHVE-NWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEA  164 (213)
T ss_pred             EEEEeccchhhHHHHH-HHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHH
Confidence            9999999999999999 78777766665455554 588999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccchh
Q 028315          168 FKDLLYKILEVPSL  181 (210)
Q Consensus       168 ~~~i~~~~~~~~~~  181 (210)
                      |+.|.+.+....+.
T Consensus       165 F~mlaqeIf~~i~q  178 (213)
T KOG0091|consen  165 FDMLAQEIFQAIQQ  178 (213)
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999988876654

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=3.3e-34  Score=208.16  Aligned_cols=161  Identities=25%  Similarity=0.532  Sum_probs=141.6

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||++++.++.+.. +.|+.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|++|+|
T Consensus         1 ~~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilv   79 (178)
T cd04131           1 RCKIVVVGDVQCGKTALLQVFAKDCYPETYVPTVFENYT-ASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLIC   79 (178)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCcCCCCcCCceEEEEE-EEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEE
Confidence            3799999999999999999999998876 6778776654 5677888999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEEEecc
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFLECSA  158 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa  158 (210)
                      ||++++.+|+.+...|...+....  ++.|+++|+||.|+.+            .+.++.+++..++..+++ +|++|||
T Consensus        80 fdit~~~Sf~~~~~~w~~~i~~~~--~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA  157 (178)
T cd04131          80 FDISRPETLDSVLKKWRGEIQEFC--PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSA  157 (178)
T ss_pred             EECCChhhHHHHHHHHHHHHHHHC--CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECcc
Confidence            999999999997558888887654  5789999999999854            245888999999999997 7999999


Q ss_pred             cCCcC-HHHHHHHHHHHHH
Q 028315          159 KNTED-VKQCFKDLLYKIL  176 (210)
Q Consensus       159 ~~~~~-i~~l~~~i~~~~~  176 (210)
                      ++|.| |+++|..+++..+
T Consensus       158 ~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         158 FTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CcCCcCHHHHHHHHHHHHh
Confidence            99995 9999999998654

The Rnd subfamily contains Rnd1/Rho6, Rnd2/Rho7, and Rnd3/RhoE/Rho8. These novel Rho family proteins have substantial structural differences compared to other Rho members, including N- and C-terminal extensions relative to other Rhos. Rnd3/RhoE is farnesylated at the C-terminal prenylation site, unlike most other Rho proteins that are geranylgeranylated. In addition, Rnd members are unable to hydrolyze GTP and are resistant to GAP activity. They are believed to exist only in the GTP-bound conformation, and are antagonists of RhoA activity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=8.8e-36  Score=202.29  Aligned_cols=178  Identities=36%  Similarity=0.614  Sum_probs=160.6

Q ss_pred             CCCCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhh
Q 028315            2 GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSS   80 (210)
Q Consensus         2 ~~~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~   80 (210)
                      +.......+.+.+|++++|..-+|||+|+-|++..+|.. ...|....+....+.+.+....+.+|||+|+++|..+-+.
T Consensus         2 ~~~~~~~g~s~~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPI   81 (218)
T KOG0088|consen    2 MLETNVDGKSFKFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPI   81 (218)
T ss_pred             CccccccCCceeeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCce
Confidence            333444556789999999999999999999999999977 7777777788888888889999999999999999999999


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      +|+.++++++|||++|.++|+.+. .|...+.... ...+-+++|+||+|+..++.+..++++..++.-|+.|+++||++
T Consensus        82 YYRgSnGalLVyDITDrdSFqKVK-nWV~Elr~ml-Gnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~  159 (218)
T KOG0088|consen   82 YYRGSNGALLVYDITDRDSFQKVK-NWVLELRTML-GNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKD  159 (218)
T ss_pred             EEeCCCceEEEEeccchHHHHHHH-HHHHHHHHHh-CCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheeccccc
Confidence            999999999999999999999999 7888887766 57788999999999999999999999999999999999999999


Q ss_pred             CcCHHHHHHHHHHHHHccchh
Q 028315          161 TEDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~~  181 (210)
                      +.||.++|..+...+++..+.
T Consensus       160 N~Gi~elFe~Lt~~MiE~~s~  180 (218)
T KOG0088|consen  160 NVGISELFESLTAKMIEHSSQ  180 (218)
T ss_pred             ccCHHHHHHHHHHHHHHHhhh
Confidence            999999999999988876643

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=6.8e-34  Score=208.99  Aligned_cols=162  Identities=29%  Similarity=0.543  Sum_probs=141.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|+.|||||||+.++..+.|.. +.||.+..+. ..+.+++..+.+.+|||+|++.|..++..+++++|++|+|
T Consensus         3 ~~ki~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilv   81 (191)
T cd01875           3 SIKCVVVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYS-AQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIIC   81 (191)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCcCCCCceEeeeE-EEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEE
Confidence            5899999999999999999999999866 7788876554 4457888899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcC-CeEEEecc
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHK-CLFLECSA  158 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa  158 (210)
                      ||++++.+|+.+...|...+....  .+.|+++|+||.|+.+.            +.+..+++..++...+ .+++++||
T Consensus        82 ydit~~~Sf~~~~~~w~~~i~~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA  159 (191)
T cd01875          82 FSIASPSSYENVRHKWHPEVCHHC--PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSA  159 (191)
T ss_pred             EECCCHHHHHHHHHHHHHHHHhhC--CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCC
Confidence            999999999999767887766543  57999999999999654            2366778889998888 58999999


Q ss_pred             cCCcCHHHHHHHHHHHHHc
Q 028315          159 KNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~  177 (210)
                      ++|.||+++|.++++.+..
T Consensus       160 k~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         160 LNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCCCHHHHHHHHHHHHhc
Confidence            9999999999999998863

RhoG is a GTPase with high sequence similarity to members of the Rac subfamily, including the regions involved in effector recognition and binding. However, RhoG does not bind to known Rac1 and Cdc42 effectors, including proteins containing a Cdc42/Rac interacting binding (CRIB) motif. Instead, RhoG interacts directly with Elmo, an upstream regulator of Rac1, in a GTP-dependent manner and forms a ternary complex with Dock180 to induce activation of Rac1. The RhoG-Elmo-Dock180 pathway is required for activation of Rac1 and cell spreading mediated by integrin, as well as for neurite outgrowth induced by nerve growth factor. Thus RhoG activates Rac1 through Elmo and Dock180 to control cell morphology. RhoG has also been shown to play a role in caveolar trafficking and has a novel role in signaling the neutrophil respiratory burst stimulated by G protein-coupled receptor (GPCR) agonists. Most Rho proteins contain a lipid modification site at the C-termin

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.8e-35  Score=196.95  Aligned_cols=175  Identities=41%  Similarity=0.752  Sum_probs=160.3

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      +....-+||+++|+.|+|||+|+++|..+-|++ ...++|.++..+++.+.+..+++++|||+|+++|++....+++.++
T Consensus         2 edykflfkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsah   81 (213)
T KOG0095|consen    2 EDYKFLFKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAH   81 (213)
T ss_pred             cccceeEEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcc
Confidence            345568999999999999999999999999988 8899999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++|+|||++...+|.-+. .|+..++.+. +.++--++|+||.|+.+.+++.....+++.+.....+.++||++-.|++.
T Consensus        82 alilvydiscqpsfdclp-ewlreie~ya-n~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~  159 (213)
T KOG0095|consen   82 ALILVYDISCQPSFDCLP-EWLREIEQYA-NNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEK  159 (213)
T ss_pred             eEEEEEecccCcchhhhH-HHHHHHHHHh-hcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHH
Confidence            999999999999999999 8999999888 56777889999999999999999999999988877899999999999999


Q ss_pred             HHHHHHHHHHccchhhhc
Q 028315          167 CFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       167 l~~~i~~~~~~~~~~~~~  184 (210)
                      +|..+.-++.........
T Consensus       160 lf~~~a~rli~~ar~~d~  177 (213)
T KOG0095|consen  160 LFLDLACRLISEARQNDL  177 (213)
T ss_pred             HHHHHHHHHHHHHHhccc
Confidence            999998888765554433

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=1.1e-33  Score=203.30  Aligned_cols=162  Identities=46%  Similarity=0.761  Sum_probs=143.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++.+..+.. +.++.+.++....+...+..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~   81 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMY   81 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEE
Confidence            799999999999999999999998876 6788887777777777788899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+.... ....|+++|+||+|+.+.+.+..++...++..++.+++++||++|.|++++|+++.
T Consensus        82 d~~~~~s~~~~~-~~~~~i~~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (165)
T cd01865          82 DITNEESFNAVQ-DWSTQIKTYS-WDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLV  159 (165)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            999999999998 6877776544 35789999999999987777777888888888889999999999999999999999


Q ss_pred             HHHHc
Q 028315          173 YKILE  177 (210)
Q Consensus       173 ~~~~~  177 (210)
                      +.+.+
T Consensus       160 ~~~~~  164 (165)
T cd01865         160 DIICD  164 (165)
T ss_pred             HHHHh
Confidence            87653

The Rab3 subfamily contains Rab3A, Rab3B, Rab3C, and Rab3D. All four isoforms were found in mouse brain and endocrine tissues, with varying levels of expression. Rab3A, Rab3B, and Rab3C localized to synaptic and secretory vesicles; Rab3D was expressed at high levels only in adipose tissue, exocrine glands, and the endocrine pituitary, where it is localized to cytoplasmic secretory granules. Rab3 appears to control Ca2+-regulated exocytosis. The appropriate GDP/GTP exchange cycle of Rab3A is required for Ca2+-regulated exocytosis to occur, and interaction of the GTP-bound form of Rab3A with effector molecule(s) is widely believed to be essential for this process. Functionally, most studies point toward a role for Rab3 in the secretion of hormones and neurotransmitters. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promot

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=1.4e-33  Score=203.04  Aligned_cols=162  Identities=52%  Similarity=0.837  Sum_probs=145.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||++++.++.+.. +.++.+.++....+.+.+..+.+.+||+||++.+...+..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v   81 (166)
T cd01869           2 LFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIV   81 (166)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEE
Confidence            5899999999999999999999988766 677888788777778888889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|..+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|.++
T Consensus        82 ~d~~~~~s~~~l~-~~~~~~~~~~-~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i  159 (166)
T cd01869          82 YDVTDQESFNNVK-QWLQEIDRYA-SENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTM  159 (166)
T ss_pred             EECcCHHHHHhHH-HHHHHHHHhC-CCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHH
Confidence            9999999999998 6877776554 3578999999999998777788888888998899999999999999999999999


Q ss_pred             HHHHH
Q 028315          172 LYKIL  176 (210)
Q Consensus       172 ~~~~~  176 (210)
                      ++.+.
T Consensus       160 ~~~~~  164 (166)
T cd01869         160 AREIK  164 (166)
T ss_pred             HHHHH
Confidence            98875

Rab1 is found in every eukaryote and is a key regulatory component for the transport of vesicles from the ER to the Golgi apparatus. Studies on mutations of Ypt1, the yeast homolog of Rab1, showed that this protein is necessary for the budding of vesicles of the ER as well as for their transport to, and fusion with, the Golgi apparatus. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to t

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2e-34  Score=193.25  Aligned_cols=168  Identities=46%  Similarity=0.760  Sum_probs=157.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++-+|++++|+..+|||+|+.++.+..|.. ...|.|.++..+++.-....+.+++|||+|+++++.+...++++++++|
T Consensus        19 DymfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfi   98 (193)
T KOG0093|consen   19 DYMFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFI   98 (193)
T ss_pred             cceeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEE
Confidence            678999999999999999999999999988 8899999999998877778899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      ++||+++.++|..+. -|...+...+ ..+.|+++|+||+|+..++.++.+..+.++..+|+.+|++||+.+.|++++|.
T Consensus        99 LmyDitNeeSf~svq-dw~tqIktys-w~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe  176 (193)
T KOG0093|consen   99 LMYDITNEESFNSVQ-DWITQIKTYS-WDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFE  176 (193)
T ss_pred             EEEecCCHHHHHHHH-HHHHHheeee-ccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHH
Confidence            999999999999999 7888877776 67899999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHccch
Q 028315          170 DLLYKILEVPS  180 (210)
Q Consensus       170 ~i~~~~~~~~~  180 (210)
                      .++..+-+.+.
T Consensus       177 ~lv~~Ic~kms  187 (193)
T KOG0093|consen  177 RLVDIICDKMS  187 (193)
T ss_pred             HHHHHHHHHhh
Confidence            99998876654

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=9.7e-34  Score=211.38  Aligned_cols=164  Identities=24%  Similarity=0.523  Sum_probs=143.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||+|+.+|..+.+.. +.||.+..+. ..+.+++..+.+.+|||+|++.|..++..+++.+|++|+||
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvf   80 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICF   80 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEE
Confidence            799999999999999999999998877 7788876664 46678899999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEeccc
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLECSAK  159 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  159 (210)
                      |++++++|+.+...|...+....  .+.|+++|+||+|+...            ..++.+++..+++..++ +|+||||+
T Consensus        81 dis~~~Sf~~i~~~w~~~~~~~~--~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk  158 (222)
T cd04173          81 DISRPETLDSVLKKWQGETQEFC--PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSR  158 (222)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC--CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCC
Confidence            99999999999768887765443  67999999999999642            13677889999999996 89999999


Q ss_pred             CCcC-HHHHHHHHHHHHHccch
Q 028315          160 NTED-VKQCFKDLLYKILEVPS  180 (210)
Q Consensus       160 ~~~~-i~~l~~~i~~~~~~~~~  180 (210)
                      ++.+ |+++|..+....+.+.+
T Consensus       159 ~~~~~V~~~F~~~~~~~~~~~~  180 (222)
T cd04173         159 SSERSVRDVFHVATVASLGRGH  180 (222)
T ss_pred             cCCcCHHHHHHHHHHHHHhccC
Confidence            9885 99999999998876554

Rnd2/Rho7 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd3/RhoE/Rho8. Rnd2/Rho7 is transiently expressed in radially migrating cells in the brain while they are within the subventricular zone of the hippocampus and cerebral cortex. These migrating cells typically develop into pyramidal neurons. Cells that exogenously expressed Rnd2/Rho7 failed to migrate to upper layers of the brain, suggesting that Rnd2/Rho7 plays a role in the radial migration and morphological changes of developing pyramidal neurons, and that Rnd2/Rho7 degradation is necessary for proper cellular migration. The Rnd2/Rho7 GEF Rapostlin is found primarily in the brain and together with Rnd2/Rho7 induces dendrite branching. Unlike Rnd1/Rho6 and Rnd3/RhoE/Rho8, which are RhoA antagonists, Rnd2/Rho7 binds the GEF Pragmin and significantly stimulates RhoA activity and Rho-A mediated cell contraction. Rnd2/Rho7 is also found to be expressed in sperma

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=1.1e-33  Score=202.49  Aligned_cols=159  Identities=43%  Similarity=0.774  Sum_probs=143.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.++.+.. +.++.+.++....+.+.+..+.+.+|||+|++.+..++..+++.+|++++||
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVY   80 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEE
Confidence            489999999999999999999998876 7888888887777888888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|+.+. .|+..+.... ..+.|+++|+||.|+...+.+..+++..+++.++++|+++||++|.|++++|.+|.
T Consensus        81 d~~~~~sf~~~~-~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~  158 (161)
T cd04117          81 DISSERSYQHIM-KWVSDVDEYA-PEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLT  158 (161)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999998 6777776554 45789999999999988888888899999998999999999999999999999998


Q ss_pred             HH
Q 028315          173 YK  174 (210)
Q Consensus       173 ~~  174 (210)
                      +.
T Consensus       159 ~~  160 (161)
T cd04117         159 EL  160 (161)
T ss_pred             hh
Confidence            64

Rab15 colocalizes with the transferrin receptor in early endosome compartments, but not with late endosomal markers. It codistributes with Rab4 and Rab5 on early/sorting endosomes, and with Rab11 on pericentriolar recycling endosomes. It is believed to function as an inhibitory GTPase that regulates distinct steps in early endocytic trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=1.3e-33  Score=203.05  Aligned_cols=163  Identities=31%  Similarity=0.604  Sum_probs=145.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++.+..+.. +.++.+.++....+.+.+..+.+.+|||||++.+...+..+++.+|++|+|+
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVY   80 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEE
Confidence            589999999999999999999998776 7888888888888888889999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccC----CCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTN----QDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~----~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |++++.+++.+. .|...+......    .+.|+++|+||+|+...+.+..++...+....+++++++||++|.|++++|
T Consensus        81 D~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  159 (168)
T cd04119          81 DVTDRQSFEALD-SWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMF  159 (168)
T ss_pred             ECCCHHHHHhHH-HHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence            999999999988 788777665532    568999999999997666777888888888888999999999999999999


Q ss_pred             HHHHHHHHc
Q 028315          169 KDLLYKILE  177 (210)
Q Consensus       169 ~~i~~~~~~  177 (210)
                      ++|++.+++
T Consensus       160 ~~l~~~l~~  168 (168)
T cd04119         160 QTLFSSIVD  168 (168)
T ss_pred             HHHHHHHhC
Confidence            999988763

RJLs are found in many protists and as chimeras with C-terminal DNAJ domains in deuterostome metazoa. They are not found in plants, fungi, and protostome metazoa, suggesting a horizontal gene transfer between protists and deuterostome metazoa. RJLs lack any known membrane targeting signal and contain a degenerate phosphate/magnesium-binding 3 (PM3) motif, suggesting an impaired ability to hydrolyze GTP. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization.

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=1.5e-33  Score=204.44  Aligned_cols=160  Identities=27%  Similarity=0.518  Sum_probs=138.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||++++..+.+.. +.|+.+..+. ..+.+.+..+.+.+|||+|++.+...+..+++++|++|+|
T Consensus         1 ~~ki~vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv   79 (175)
T cd01874           1 TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVC   79 (175)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEE
Confidence            3799999999999999999999998865 7788876654 3456788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcC-CeEEEecc
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHK-CLFLECSA  158 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~sa  158 (210)
                      ||++++++|+.+...|...+....  .+.|+++|+||+|+.+.            +.+..++++.++...+ ..|++|||
T Consensus        80 ~d~~~~~s~~~~~~~w~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA  157 (175)
T cd01874          80 FSVVSPSSFENVKEKWVPEITHHC--PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSA  157 (175)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecC
Confidence            999999999999767888776543  57899999999998643            4677788888888887 68999999


Q ss_pred             cCCcCHHHHHHHHHHHH
Q 028315          159 KNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~  175 (210)
                      ++|.|++++|+.+++.+
T Consensus       158 ~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         158 LTQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCCCCHHHHHHHHHHHh
Confidence            99999999999998754

Cdc42 is an essential GTPase that belongs to the Rho family of Ras-like GTPases. These proteins act as molecular switches by responding to exogenous and/or endogenous signals and relaying those signals to activate downstream components of a biological pathway. Cdc42 transduces signals to the actin cytoskeleton to initiate and maintain polarized growth and to mitogen-activated protein morphogenesis. In the budding yeast Saccharomyces cerevisiae, Cdc42 plays an important role in multiple actin-dependent morphogenetic events such as bud emergence, mating-projection formation, and pseudohyphal growth. In mammalian cells, Cdc42 regulates a variety of actin-dependent events and induces the JNK/SAPK protein kinase cascade, which leads to the activation of transcription factors within the nucleus. Cdc42 mediates these processes through interactions with a myriad of downstream effectors, whose number and regulation we are just starting to understand. In addi

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=1.2e-33  Score=202.48  Aligned_cols=160  Identities=35%  Similarity=0.614  Sum_probs=138.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++..+.+.. +.++.+ +.+...+.+++..+.+.+|||||++.+..++..+++.+|++++||
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVY   80 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEE
Confidence            799999999999999999999988876 556654 444556677888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|+.+. .|...+.......+.|+++|+||+|+.+.+.+..++...+...++.+++++||++|.|++++|++++
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~  159 (163)
T cd04136          81 SITSQSSFNDLQ-DLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLV  159 (163)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHH
Confidence            999999999888 5666665554356789999999999977677777777888888888999999999999999999998


Q ss_pred             HHH
Q 028315          173 YKI  175 (210)
Q Consensus       173 ~~~  175 (210)
                      +.+
T Consensus       160 ~~~  162 (163)
T cd04136         160 RQI  162 (163)
T ss_pred             Hhc
Confidence            764

The Rap subfamily consists of the Rap1, Rap2, and RSR1. Rap subfamily proteins perform different cellular functions, depending on the isoform and its subcellular localization. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and microsomal membrane of the pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. Rap1 localizes in the nucleus of human oropharyngeal squamous cell carcinomas (SCCs) and cell lines. Rap1 plays a role in phagocytosis by controlling the binding of adhesion receptors (typically integrins) to their ligands. In yeast, Rap1 has been implicated in multiple functions, including activation and silencing of transcription and maintenance of telomeres.

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=3.7e-34  Score=193.33  Aligned_cols=180  Identities=46%  Similarity=0.723  Sum_probs=164.1

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      ++..++-+|++++|+.|+|||+|+++|...+|.. .+.++|.++....+.+.+..+++++|||+|+++|++..+.+++.+
T Consensus         3 sEtYDyLfKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGA   82 (214)
T KOG0086|consen    3 SETYDYLFKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGA   82 (214)
T ss_pred             chhhhhhheeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccc
Confidence            4567889999999999999999999999999988 889999999999999999999999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      .++++|||+++.++|+++. .|+.-.+... .+++-+++++||.|+.+++++...++..|+.+..+.+.++||++|.|++
T Consensus        83 AGAlLVYD~TsrdsfnaLt-nWL~DaR~lA-s~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVE  160 (214)
T KOG0086|consen   83 AGALLVYDITSRDSFNALT-NWLTDARTLA-SPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVE  160 (214)
T ss_pred             cceEEEEeccchhhHHHHH-HHHHHHHhhC-CCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHH
Confidence            9999999999999999999 8888877666 6788889999999999999999999999999988899999999999999


Q ss_pred             HHHHHHHHHHHccchhhhccccc
Q 028315          166 QCFKDLLYKILEVPSLLEQGSAV  188 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~~~~~  188 (210)
                      +.|-...+.++.+-..-+.+.+.
T Consensus       161 EaFl~c~~tIl~kIE~GElDPer  183 (214)
T KOG0086|consen  161 EAFLKCARTILNKIESGELDPER  183 (214)
T ss_pred             HHHHHHHHHHHHHHhhcCCCHHH
Confidence            99999998888665544444333

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=2e-33  Score=205.97  Aligned_cols=165  Identities=28%  Similarity=0.504  Sum_probs=139.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|++|+|||||+++|.++.+.. +.++.+..+.. .+... +..+.+.+|||||++.+..++..+++++|++++|
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v   79 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLIC   79 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEE
Confidence            589999999999999999999998876 66666665543 34444 6778999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC----CccCHHHHHHHHHHcCC-eEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE----RAVTREEGMILAQEHKC-LFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~  166 (210)
                      ||++++.+|+.+...|...+....  .+.|+++|+||.|+...    +.+..+++..++..++. +++++||++|.|+++
T Consensus        80 ~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  157 (187)
T cd04132          80 YAVDNPTSLDNVEDKWFPEVNHFC--PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEE  157 (187)
T ss_pred             EECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHH
Confidence            999999999999767877765443  57899999999998653    34667788888888888 899999999999999


Q ss_pred             HHHHHHHHHHccchh
Q 028315          167 CFKDLLYKILEVPSL  181 (210)
Q Consensus       167 l~~~i~~~~~~~~~~  181 (210)
                      +|.++.+.+......
T Consensus       158 ~f~~l~~~~~~~~~~  172 (187)
T cd04132         158 VFDTAIEEALKKEGK  172 (187)
T ss_pred             HHHHHHHHHHhhhhh
Confidence            999999998855543

Rho4 is a GTPase that controls septum degradation by regulating secretion of Eng1 or Agn1 during cytokinesis. Rho4 also plays a role in cell morphogenesis. Rho4 regulates septation and cell morphology by controlling the actin cytoskeleton and cytoplasmic microtubules. The localization of Rho4 is modulated by Rdi1, which may function as a GDI, and by Rga9, which is believed to function as a GAP. In S. pombe, both Rho4 deletion and Rho4 overexpression result in a defective cell wall, suggesting a role for Rho4 in maintaining cell wall integrity. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=5.7e-33  Score=204.55  Aligned_cols=164  Identities=30%  Similarity=0.535  Sum_probs=142.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|++|+|||||+++|.++.+..  +.++.+.++....+.+++..+.+.+|||||.+.+..++..+++.+|++++|
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv   80 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVC   80 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEE
Confidence            489999999999999999999998864  778888888777888898899999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC----CccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE----RAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      ||++++.+|+.+. .|+..+....  .+.|+++|+||+|+...    +.+..++...++...+++++++||++|.|++++
T Consensus        81 ~d~~~~~s~~~~~-~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  157 (193)
T cd04118          81 YDLTDSSSFERAK-FWVKELQNLE--EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDEL  157 (193)
T ss_pred             EECCCHHHHHHHH-HHHHHHHhcC--CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            9999999999887 6877775532  47899999999998532    345566777788888899999999999999999


Q ss_pred             HHHHHHHHHccch
Q 028315          168 FKDLLYKILEVPS  180 (210)
Q Consensus       168 ~~~i~~~~~~~~~  180 (210)
                      |+++.+.+.+...
T Consensus       158 ~~~i~~~~~~~~~  170 (193)
T cd04118         158 FQKVAEDFVSRAN  170 (193)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999976543

Rab24 is distinct from other Rabs in several ways. It exists primarily in the GTP-bound state, having a low intrinsic GTPase activity; it is not efficiently geranyl-geranylated at the C-terminus; it does not form a detectable complex with Rab GDP-dissociation inhibitors (GDIs); and it has recently been shown to undergo tyrosine phosphorylation when overexpressed in vitro. The specific function of Rab24 still remains unknown. It is found in a transport route between ER-cis-Golgi and late endocytic compartments. It is putatively involved in an autophagic pathway, possibly directing misfolded proteins in the ER to degradative pathways. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilita

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=6.1e-33  Score=207.82  Aligned_cols=165  Identities=30%  Similarity=0.522  Sum_probs=144.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...+||+++|.+|||||||++++..+.+.. +.++.+.++....+..++..+.+.+|||+|++.|..++..+++.+|++|
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i   90 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAI   90 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEE
Confidence            678999999999999999999999988876 8899998888877777788899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|...+....  .+.|+++|+||+|+.. +.+..++. .+....++.|++|||++|.|++++|.
T Consensus        91 lvfD~~~~~s~~~i~-~w~~~i~~~~--~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~  165 (219)
T PLN03071         91 IMFDVTARLTYKNVP-TWHRDLCRVC--ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFL  165 (219)
T ss_pred             EEEeCCCHHHHHHHH-HHHHHHHHhC--CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHH
Confidence            999999999999998 7877776554  5789999999999864 34444444 66777888999999999999999999


Q ss_pred             HHHHHHHccch
Q 028315          170 DLLYKILEVPS  180 (210)
Q Consensus       170 ~i~~~~~~~~~  180 (210)
                      +|++.+.+...
T Consensus       166 ~l~~~~~~~~~  176 (219)
T PLN03071        166 YLARKLAGDPN  176 (219)
T ss_pred             HHHHHHHcCcc
Confidence            99999876543

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=6.5e-33  Score=199.95  Aligned_cols=165  Identities=47%  Similarity=0.815  Sum_probs=147.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.+||+++|.+|+|||||++++.+..+.. +.++.+.++....+.+.+....+.+|||||++.+...+..+++.+|+++
T Consensus         2 ~~~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il   81 (168)
T cd01866           2 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGAL   81 (168)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEE
Confidence            467999999999999999999999988766 6677788887777888888899999999999999988999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++.+++.+. .|+..+.... .++.|+++|+||.|+.....+..++...++...+++++++||+++.|++++|.
T Consensus        82 ~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~  159 (168)
T cd01866          82 LVYDITRRETFNHLT-SWLEDARQHS-NSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFI  159 (168)
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999998 7887776554 46789999999999987777888888888888899999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      ++.+.+.+
T Consensus       160 ~~~~~~~~  167 (168)
T cd01866         160 NTAKEIYE  167 (168)
T ss_pred             HHHHHHHh
Confidence            99988764

Rab2 is localized on cis-Golgi membranes and interacts with Golgi matrix proteins. Rab2 is also implicated in the maturation of vesicular tubular clusters (VTCs), which are microtubule-associated intermediates in transport between the ER and Golgi apparatus. In plants, Rab2 regulates vesicle trafficking between the ER and the Golgi bodies and is important to pollen tube growth. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key featur

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=5.1e-33  Score=199.80  Aligned_cols=162  Identities=46%  Similarity=0.764  Sum_probs=145.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|||||||++++.+..+.. +.++.+.++....+..++..+.+.+||+||++.+..++..+++.++++++
T Consensus         2 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~   81 (165)
T cd01868           2 YLFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALL   81 (165)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEE
Confidence            56899999999999999999999888775 77888888888888888888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |+|++++.+++.+. .|+..+.... ..+.|+++|+||.|+...+.+..++...++...+++++++||++|.|++++|++
T Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  159 (165)
T cd01868          82 VYDITKKQTFENVE-RWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQ  159 (165)
T ss_pred             EEECcCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHH
Confidence            99999999999998 6877776654 346899999999999877777888888888888899999999999999999999


Q ss_pred             HHHHH
Q 028315          171 LLYKI  175 (210)
Q Consensus       171 i~~~~  175 (210)
                      +++.+
T Consensus       160 l~~~i  164 (165)
T cd01868         160 LLTEI  164 (165)
T ss_pred             HHHHh
Confidence            98765

Rab11a, Rab11b, and Rab25 are closely related, evolutionary conserved Rab proteins that are differentially expressed. Rab11a is ubiquitously synthesized, Rab11b is enriched in brain and heart and Rab25 is only found in epithelia. Rab11/25 proteins seem to regulate recycling pathways from endosomes to the plasma membrane and to the trans-Golgi network. Furthermore, Rab11a is thought to function in the histamine-induced fusion of tubulovesicles containing H+, K+ ATPase with the plasma membrane in gastric parietal cells and in insulin-stimulated insertion of GLUT4 in the plasma membrane of cardiomyocytes. Overexpression of Rab25 has recently been observed in ovarian cancer and breast cancer, and has been correlated with worsened outcomes in both diseases. In addition, Rab25 overexpression has also been observed in prostate cancer, transitional cell carcinoma of the bladder, and invasive breast tumor cells. GTPase activating proteins (GAPs) interact with GTP

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=4e-33  Score=200.22  Aligned_cols=162  Identities=35%  Similarity=0.599  Sum_probs=139.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|.+|||||||++++..+.+.. +.++.+..+ .....+.+..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         1 ~~ki~~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv   79 (164)
T cd04175           1 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLV   79 (164)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEE
Confidence            4799999999999999999999888766 566666544 35567788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.......+.|+++|+||+|+...+.+..++...+++.++++++++||++|.|++++|.++
T Consensus        80 ~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l  158 (164)
T cd04175          80 YSITAQSTFNDLQ-DLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDL  158 (164)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHH
Confidence            9999999999988 555555444435679999999999998777777777778888888999999999999999999999


Q ss_pred             HHHHH
Q 028315          172 LYKIL  176 (210)
Q Consensus       172 ~~~~~  176 (210)
                      ++.+.
T Consensus       159 ~~~l~  163 (164)
T cd04175         159 VRQIN  163 (164)
T ss_pred             HHHhh
Confidence            98764

The Rap1 subgroup is part of the Rap subfamily of the Ras family. It can be further divided into the Rap1a and Rap1b isoforms. In humans, Rap1a and Rap1b share 95% sequence homology, but are products of two different genes located on chromosomes 1 and 12, respectively. Rap1a is sometimes called smg p21 or Krev1 in the older literature. Rap1 proteins are believed to perform different cellular functions, depending on the isoform, its subcellular localization, and the effector proteins it binds. For example, in rat salivary gland, neutrophils, and platelets, Rap1 localizes to secretory granules and is believed to regulate exocytosis or the formation of secretory granules. Rap1 has also been shown to localize in the Golgi of rat fibroblasts, zymogen granules, plasma membrane, and the microsomal membrane of pancreatic acini, as well as in the endocytic compartment of skeletal muscle cells and fibroblasts. High expression of Rap1 has been observed in the n

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=5.4e-33  Score=202.54  Aligned_cols=167  Identities=26%  Similarity=0.508  Sum_probs=141.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|+.|||||||+++|.++.+.. +.||.+.++....+.+++..+.+.+|||+|++.|..++..+++++|++++||
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~   80 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMF   80 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEE
Confidence            589999999999999999999998877 8899998888878888988999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC-----CccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE-----RAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~-----~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      |++++.+|+.+. .|...+.... ....| ++|+||+|+...     .....++.+.++...+++++++||++|.|++++
T Consensus        81 D~t~~~s~~~i~-~~~~~~~~~~-~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~l  157 (182)
T cd04128          81 DLTRKSTLNSIK-EWYRQARGFN-KTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKI  157 (182)
T ss_pred             ECcCHHHHHHHH-HHHHHHHHhC-CCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            999999999998 6777776543 34566 678999998521     112235667788888899999999999999999


Q ss_pred             HHHHHHHHHccchhhh
Q 028315          168 FKDLLYKILEVPSLLE  183 (210)
Q Consensus       168 ~~~i~~~~~~~~~~~~  183 (210)
                      |.++.+.+.+.+....
T Consensus       158 f~~l~~~l~~~~~~~~  173 (182)
T cd04128         158 FKIVLAKAFDLPLTIP  173 (182)
T ss_pred             HHHHHHHHHhcCCChh
Confidence            9999999986554433

Spg1p (septum-promoting GTPase) was first identified in the fission yeast S. pombe, where it regulates septum formation in the septation initiation network (SIN) through the cdc7 protein kinase. Spg1p is an essential gene that localizes to the spindle pole bodies. When GTP-bound, it binds cdc7 and causes it to translocate to spindle poles. Sid4p (septation initiation defective) is required for localization of Spg1p to the spindle pole body, and the ability of Spg1p to promote septum formation from any point in the cell cycle depends on Sid4p. Spg1p is negatively regulated by Byr4 and cdc16, which form a two-component GTPase activating protein (GAP) for Spg1p. The existence of a SIN-related pathway in plants has been proposed. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=7.2e-33  Score=198.41  Aligned_cols=160  Identities=46%  Similarity=0.755  Sum_probs=149.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|+++||||||+++|.++.+.. +.++.+.+.....+.+++..+.+.+||++|++.+..++..+++++|++|+|||
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd   80 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFD   80 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEE
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            79999999999999999999999877 77888889999999999999999999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      ++++.+|+.+. .|+..+.... ..+.|++|++||.|+.+.+.++.++++.++..++.+|+++||+++.||.++|..+++
T Consensus        81 ~~~~~S~~~~~-~~~~~i~~~~-~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~  158 (162)
T PF00071_consen   81 VTDEESFENLK-KWLEEIQKYK-PEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIR  158 (162)
T ss_dssp             TTBHHHHHTHH-HHHHHHHHHS-TTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHH
T ss_pred             ccccccccccc-cccccccccc-cccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHH
Confidence            99999999999 8999888777 356899999999999888899999999999999999999999999999999999999


Q ss_pred             HHH
Q 028315          174 KIL  176 (210)
Q Consensus       174 ~~~  176 (210)
                      .+.
T Consensus       159 ~i~  161 (162)
T PF00071_consen  159 KIL  161 (162)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            875

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction; PDB: 1M7B_A 2V55_B 3EG5_C 3LAW_A 1YHN_A 1T91_B 1HE8_B 3SEA_B 3T5G_A 1XTS_A ....

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=6.8e-33  Score=199.21  Aligned_cols=161  Identities=46%  Similarity=0.779  Sum_probs=142.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|+|||||++++..+.+.. +.++.+.++....+.+++..+.+++|||||++.+...+..+++.+|++++
T Consensus         2 ~~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~ll   81 (165)
T cd01864           2 FLFKIILIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAII   81 (165)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            57999999999999999999999888776 66777777777777888888899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~l~~  169 (210)
                      |||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..+++..+. .++++||++|.|++++|.
T Consensus        82 v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~  159 (165)
T cd01864          82 AYDITRRSSFESVP-HWIEEVEKYG-ASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFL  159 (165)
T ss_pred             EEECcCHHHHHhHH-HHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHH
Confidence            99999999999988 7877776543 46789999999999987777888888888888776 689999999999999999


Q ss_pred             HHHHH
Q 028315          170 DLLYK  174 (210)
Q Consensus       170 ~i~~~  174 (210)
                      ++.+.
T Consensus       160 ~l~~~  164 (165)
T cd01864         160 LMATE  164 (165)
T ss_pred             HHHHh
Confidence            99875

Rab19 proteins are associated with Golgi stacks. Similarity analysis indicated that Rab41 is closely related to Rab19. However, the function of these Rabs is not yet chracterized. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=6.6e-33  Score=198.46  Aligned_cols=159  Identities=47%  Similarity=0.767  Sum_probs=143.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.+..+.. ..++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~   80 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEE
Confidence            589999999999999999999998766 7788888888888888888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|+..+.... ..+.|+++|+||.|+...+.+..+++..++...++.++++||+++.|++++|++++
T Consensus        81 d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~  158 (161)
T cd04113          81 DITNRTSFEALP-TWLSDARALA-SPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCA  158 (161)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHH
Confidence            999999999998 6777665544 46889999999999987777888888899999999999999999999999999998


Q ss_pred             HH
Q 028315          173 YK  174 (210)
Q Consensus       173 ~~  174 (210)
                      +.
T Consensus       159 ~~  160 (161)
T cd04113         159 RS  160 (161)
T ss_pred             Hh
Confidence            75

Rab4 has been implicated in numerous functions within the cell. It helps regulate endocytosis through the sorting, recycling, and degradation of early endosomes. Mammalian Rab4 is involved in the regulation of many surface proteins including G-protein-coupled receptors, transferrin receptor, integrins, and surfactant protein A. Experimental data implicate Rab4 in regulation of the recycling of internalized receptors back to the plasma membrane. It is also believed to influence receptor-mediated antigen processing in B-lymphocytes, in calcium-dependent exocytosis in platelets, in alpha-amylase secretion in pancreatic cells, and in insulin-induced translocation of Glut4 from internal vesicles to the cell surface. Rab4 is known to share effector proteins with Rab5 and Rab11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to p

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=8.6e-33  Score=202.90  Aligned_cols=160  Identities=30%  Similarity=0.506  Sum_probs=136.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|++|||||||+++|.++.+.. +.|+.+..+. ..+.+++..+.+.+|||+|++.+..++..+++.+|++++|||
T Consensus         2 kivivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~d   80 (189)
T cd04134           2 KVVVLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFS   80 (189)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEE
Confidence            79999999999999999999998877 6677766543 445677888999999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHcC-CeEEEecccC
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEHK-CLFLECSAKN  160 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~-~~~~~~sa~~  160 (210)
                      ++++.+|+.+...|...+....  .+.|+++|+||+|+...+            .+..+++..++...+ ++|++|||++
T Consensus        81 v~~~~sf~~~~~~~~~~i~~~~--~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~  158 (189)
T cd04134          81 VDSPDSLENVESKWLGEIREHC--PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKL  158 (189)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCc
Confidence            9999999998767887776543  578999999999996543            345666777777776 6899999999


Q ss_pred             CcCHHHHHHHHHHHHHc
Q 028315          161 TEDVKQCFKDLLYKILE  177 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~  177 (210)
                      |.|++++|.++.+.+..
T Consensus       159 ~~~v~e~f~~l~~~~~~  175 (189)
T cd04134         159 NRGVNEAFTEAARVALN  175 (189)
T ss_pred             CCCHHHHHHHHHHHHhc
Confidence            99999999999998873

Rho3 is a member of the Rho family found only in fungi. Rho3 is believed to regulate cell polarity by interacting with the diaphanous/formin family protein For3 to control both the actin cytoskeleton and microtubules. Rho3 is also believed to have a direct role in exocytosis that is independent of its role in regulating actin polarity. The function in exocytosis may be two-pronged: first, in the transport of post-Golgi vesicles from the mother cell to the bud, mediated by myosin (Myo2); second, in the docking and fusion of vesicles to the plasma membrane, mediated by an exocyst (Exo70) protein. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins.

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=7.6e-33  Score=198.54  Aligned_cols=161  Identities=34%  Similarity=0.590  Sum_probs=138.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|.+|+|||||++++..+.+.. +.++.+ ++....+.+++..+.+.+|||||++.|..++..+++++|++++|
T Consensus         1 ~~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v   79 (163)
T cd04176           1 EYKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVV   79 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEE
Confidence            3799999999999999999999998877 445543 45556677788888999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|.++
T Consensus        80 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd04176          80 YSLVNQQTFQDIK-PMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEI  158 (163)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHH
Confidence            9999999999998 566666554434689999999999997766777777788888888899999999999999999999


Q ss_pred             HHHH
Q 028315          172 LYKI  175 (210)
Q Consensus       172 ~~~~  175 (210)
                      .+.+
T Consensus       159 ~~~l  162 (163)
T cd04176         159 VRQM  162 (163)
T ss_pred             HHhc
Confidence            8754

The Rap2 subgroup is part of the Rap subfamily of the Ras family. It consists of Rap2a, Rap2b, and Rap2c. Both isoform 3 of the human mitogen-activated protein kinase kinase kinase kinase 4 (MAP4K4) and Traf2- and Nck-interacting kinase (TNIK) are putative effectors of Rap2 in mediating the activation of c-Jun N-terminal kinase (JNK) to regulate the actin cytoskeleton. In human platelets, Rap2 was shown to interact with the cytoskeleton by binding the actin filaments. In embryonic Xenopus development, Rap2 is necessary for the Wnt/beta-catenin signaling pathway. The Rap2 interacting protein 9 (RPIP9) is highly expressed in human breast carcinomas and correlates with a poor prognosis, suggesting a role for Rap2 in breast cancer oncogenesis. Rap2b, but not Rap2a, Rap2c, Rap1a, or Rap1b, is expressed in human red blood cells, where it is believed to be involved in vesiculation. A number of additional effector proteins for Rap2 have been identified, incl

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=1e-32  Score=197.97  Aligned_cols=161  Identities=37%  Similarity=0.626  Sum_probs=137.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++.+..+.. +.++.+ +.......+++..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVY   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEE
Confidence            489999999999999999999988876 445444 344455677888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|+.+. .|...+.......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++|++|+
T Consensus        80 d~~~~~s~~~~~-~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~  158 (164)
T smart00173       80 SITDRQSFEEIK-KFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHH
Confidence            999999999998 5555555444356789999999999987777777788888888899999999999999999999999


Q ss_pred             HHHH
Q 028315          173 YKIL  176 (210)
Q Consensus       173 ~~~~  176 (210)
                      +.+.
T Consensus       159 ~~~~  162 (164)
T smart00173      159 REIR  162 (164)
T ss_pred             HHHh
Confidence            8765

Similar in fold and function to the bacterial EF-Tu GTPase. p21Ras couples receptor Tyr kinases and G protein receptors to protein kinase cascades

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.8e-32  Score=197.88  Aligned_cols=162  Identities=31%  Similarity=0.552  Sum_probs=140.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|.+|||||||++++.++.+.. +.++.+.++....+.+.+..+.+++|||||++.|...+..+++++|++++|||
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   81 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFD   81 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEE
Confidence            79999999999999999999998876 78999888887788888888999999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc--cCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA--VTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ++++.++..+. .|...+.........|+++|+||.|+.+.+.  ...+++..++..++.+++++||++|.|++++|..+
T Consensus        82 ~~~~~s~~~~~-~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l  160 (170)
T cd04108          82 LTDVASLEHTR-QWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRV  160 (170)
T ss_pred             CcCHHHHHHHH-HHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHH
Confidence            99999999998 6777664433234578999999999865433  34556677778888899999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      .+.+.+
T Consensus       161 ~~~~~~  166 (170)
T cd04108         161 AALTFE  166 (170)
T ss_pred             HHHHHH
Confidence            998864

Rab34, found primarily in the Golgi, interacts with its effector, Rab-interacting lysosomal protein (RILP). This enables its participation in microtubular dynenin-dynactin-mediated repositioning of lysosomes from the cell periphery to the Golgi. A Rab34 (Rah) isoform that lacks the consensus GTP-binding region has been identified in mice. This isoform is associated with membrane ruffles and promotes macropinosome formation. Rab36 has been mapped to human chromosome 22q11.2, a region that is homozygously deleted in malignant rhabdoid tumors (MRTs). However, experimental assessments do not implicate Rab36 as a tumor suppressor that would enable tumor formation through a loss-of-function mechanism. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further re

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=1.2e-32  Score=199.43  Aligned_cols=158  Identities=29%  Similarity=0.507  Sum_probs=136.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|.+|||||||+.++..+.+.. +.++.+. .+...+.+++..+.+.+|||||++.+..++..+++++|++|+||
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~   80 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICF   80 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCccee-eeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEE
Confidence            799999999999999999999988866 6677654 44445677888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEeccc
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLECSAK  159 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  159 (210)
                      |++++.+|+.+...|...+....  .+.|+++|+||.|+.+.            +.+..+++..++..++. ++++|||+
T Consensus        81 d~~~~~sf~~~~~~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  158 (174)
T cd01871          81 SLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL  158 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeccc
Confidence            99999999999767887776543  57999999999999543            34778888999998885 89999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLYK  174 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~  174 (210)
                      +|.|++++|+.+.+.
T Consensus       159 ~~~~i~~~f~~l~~~  173 (174)
T cd01871         159 TQKGLKTVFDEAIRA  173 (174)
T ss_pred             ccCCHHHHHHHHHHh
Confidence            999999999998764

The Rac1-like subfamily consists of Rac1, Rac2, and Rac3 proteins, plus the splice variant Rac1b that contains a 19-residue insertion near switch II relative to Rac1. While Rac1 is ubiquitously expressed, Rac2 and Rac3 are largely restricted to hematopoietic and neural tissues respectively. Rac1 stimulates the formation of actin lamellipodia and membrane ruffles. It also plays a role in cell-matrix adhesion and cell anoikis. In intestinal epithelial cells, Rac1 is an important regulator of migration and mediates apoptosis. Rac1 is also essential for RhoA-regulated actin stress fiber and focal adhesion complex formation. In leukocytes, Rac1 and Rac2 have distinct roles in regulating cell morphology, migration, and invasion, but are not essential for macrophage migration or chemotaxis. Rac3 has biochemical properties that are closely related to Rac1, such as effector interaction, nucleotide binding, and hydrolysis; Rac2 has a slower nucleoti

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=9.9e-33  Score=197.65  Aligned_cols=158  Identities=35%  Similarity=0.582  Sum_probs=140.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC--CeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG--GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +||+++|++|+|||||++++.++.+.. +.++.+.++....+.+.  +..+.+++|||||++.+...+..+++.+|++++
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~   80 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACIL   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEE
Confidence            489999999999999999999988766 67888888776666666  778899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++++++.+. .|+..+....  .+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~l~-~~~~~~~~~~--~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  157 (162)
T cd04106          81 VFSTTDRESFEAIE-SWKEKVEAEC--GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEY  157 (162)
T ss_pred             EEECCCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHH
Confidence            99999999999988 7877776544  57899999999999877778888888899999999999999999999999999


Q ss_pred             HHHH
Q 028315          171 LLYK  174 (210)
Q Consensus       171 i~~~  174 (210)
                      |.+.
T Consensus       158 l~~~  161 (162)
T cd04106         158 LAEK  161 (162)
T ss_pred             HHHh
Confidence            8754

Rab23 is a member of the Rab family of small GTPases. In mouse, Rab23 has been shown to function as a negative regulator in the sonic hedgehog (Shh) signalling pathway. Rab23 mediates the activity of Gli2 and Gli3, transcription factors that regulate Shh signaling in the spinal cord, primarily by preventing Gli2 activation in the absence of Shh ligand. Rab23 also regulates a step in the cytoplasmic signal transduction pathway that mediates the effect of Smoothened (one of two integral membrane proteins that are essential components of the Shh signaling pathway in vertebrates). In humans, Rab23 is expressed in the retina. Mice contain an isoform that shares 93% sequence identity with the human Rab23 and an alternative splicing isoform that is specific to the brain. This isoform causes the murine open brain phenotype, indicating it may have a role in the development of the central nervous system. GTPase activating proteins (GAPs) interact with G

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=100.00  E-value=2.1e-32  Score=196.28  Aligned_cols=161  Identities=35%  Similarity=0.569  Sum_probs=137.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|+|||||++++.+..+.. +.++.+.. ......+++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv   80 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLV   80 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEE
Confidence            5899999999999999999999887765 55555533 344556788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.......+.|+++++||+|+...+.+..++...++...+++++++||++|.|++++|+++
T Consensus        81 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l  159 (164)
T cd04145          81 FSVTDRGSFEEVD-KFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDL  159 (164)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHH
Confidence            9999999999998 566655554435678999999999998777777777888888888999999999999999999999


Q ss_pred             HHHH
Q 028315          172 LYKI  175 (210)
Q Consensus       172 ~~~~  175 (210)
                      ++.+
T Consensus       160 ~~~~  163 (164)
T cd04145         160 VRVI  163 (164)
T ss_pred             HHhh
Confidence            8764

This subfamily contains R-Ras2/TC21, M-Ras/R-Ras3, and related members of the Ras family. M-Ras is expressed in lympho-hematopoetic cells. It interacts with some of the known Ras effectors, but appears to also have its own effectors. Expression of mutated M-Ras leads to transformation of several types of cell lines, including hematopoietic cells, mammary epithelial cells, and fibroblasts. Overexpression of M-Ras is observed in carcinomas from breast, uterus, thyroid, stomach, colon, kidney, lung, and rectum. In addition, expression of a constitutively active M-Ras mutant in murine bone marrow induces a malignant mast cell leukemia that is distinct from the monocytic leukemia induced by H-Ras. TC21, along with H-Ras, has been shown to regulate the branching morphogenesis of ureteric bud cell branching in mice. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an ali

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.6e-32  Score=196.43  Aligned_cols=161  Identities=30%  Similarity=0.566  Sum_probs=138.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++..+.+.. +.++.+.++....+..+...+.+.+|||||++.+..++..+++.+|++|+||
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMF   80 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEE
Confidence            589999999999999999999888765 7788888887777777788899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+....  .+.|+++|+||+|+.. +.+.. +...+....+.+++++||++|.|++++|++|.
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~--~~~piiiv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~  155 (166)
T cd00877          81 DVTSRVTYKNVP-NWHRDLVRVC--GNIPIVLCGNKVDIKD-RKVKA-KQITFHRKKNLQYYEISAKSNYNFEKPFLWLA  155 (166)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC--CCCcEEEEEEchhccc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCChHHHHHHHH
Confidence            999999999998 6888777665  3899999999999973 33333 34556667788999999999999999999999


Q ss_pred             HHHHccc
Q 028315          173 YKILEVP  179 (210)
Q Consensus       173 ~~~~~~~  179 (210)
                      +.+.+.+
T Consensus       156 ~~~~~~~  162 (166)
T cd00877         156 RKLLGNP  162 (166)
T ss_pred             HHHHhcc
Confidence            9987644

Ran GTPase is involved in diverse biological functions, such as nuclear transport, spindle formation during mitosis, DNA replication, and cell division. Among the Ras superfamily, Ran is a unique small G protein. It does not have a lipid modification motif at the C-terminus to bind to the membrane, which is often observed within the Ras superfamily. Ran may therefore interact with a wide range of proteins in various intracellular locations. Like other GTPases, Ran exists in GTP- and GDP-bound conformations that interact differently with effectors. Conversion between these forms and the assembly or disassembly of effector complexes requires the interaction of regulator proteins. The intrinsic GTPase activity of Ran is very low, but it is greatly stimulated by a GTPase-activating protein (RanGAP1) located in the cytoplasm. By contrast, RCC1, a guanine nucleotide exchange factor that generates RanGTP, is

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=2.4e-32  Score=197.32  Aligned_cols=163  Identities=37%  Similarity=0.665  Sum_probs=145.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-cchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-TLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~~~~~~~~~~d~~i   89 (210)
                      +.+||+++|++|+|||||++++..+.+.. +.++.+.++....+.+++..+.+.+|||||++.+. .++..+++++|+++
T Consensus         1 r~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i   80 (170)
T cd04115           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (170)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEE
Confidence            35899999999999999999999988876 77888888887778888889999999999999886 57888899999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC---CcCHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN---TEDVKQ  166 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~  166 (210)
                      +|||++++.+|+.+. .|+..+.......+.|+++|+||+|+...+.+..++...++...+++++++||++   +.++++
T Consensus        81 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~  159 (170)
T cd04115          81 FVYDVTNMASFHSLP-SWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEA  159 (170)
T ss_pred             EEEECCCHHHHHhHH-HHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHH
Confidence            999999999999998 7888877665456799999999999988888888888889988889999999999   899999


Q ss_pred             HHHHHHHHH
Q 028315          167 CFKDLLYKI  175 (210)
Q Consensus       167 l~~~i~~~~  175 (210)
                      +|..+++.+
T Consensus       160 ~f~~l~~~~  168 (170)
T cd04115         160 IFMTLAHKL  168 (170)
T ss_pred             HHHHHHHHh
Confidence            999998765

Rab33B is ubiquitously expressed in mouse tissues and cells, where it is localized to the medial Golgi cisternae. It colocalizes with alpha-mannose II. Together with the other cisternal Rabs, Rab6A and Rab6A', it is believed to regulate the Golgi response to stress and is likely a molecular target in stress-activated signaling pathways. Rab33A (previously known as S10) is expressed primarily in the brain and immune system cells. In humans, it is located on the X chromosome at Xq26 and its expression is down-regulated in tuberculosis patients. Experimental evidence suggests that Rab33A is a novel CD8+ T cell factor that likely plays a role in tuberculosis disease processes. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=100.00  E-value=3.4e-32  Score=194.61  Aligned_cols=160  Identities=31%  Similarity=0.574  Sum_probs=135.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|++|||||||+++|.++.+.. +.++.+..+ .....+++..+.+.+|||||++.+..++..+++.+|++++|
T Consensus         1 ~~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v   79 (162)
T cd04138           1 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   79 (162)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEE
Confidence            3799999999999999999999988766 556665443 45567788888999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|...+.......+.|+++|+||+|+.. +.+..++...+....+++++++||++|.|++++|.++
T Consensus        80 ~~~~~~~s~~~~~-~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  157 (162)
T cd04138          80 FAINSRKSFEDIH-TYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTL  157 (162)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999888 5666555554356889999999999865 4566677778888888999999999999999999999


Q ss_pred             HHHH
Q 028315          172 LYKI  175 (210)
Q Consensus       172 ~~~~  175 (210)
                      .+.+
T Consensus       158 ~~~~  161 (162)
T cd04138         158 VREI  161 (162)
T ss_pred             HHHh
Confidence            8754

H-Ras, N-Ras, and K-Ras4A/4B are the prototypical members of the Ras family. These isoforms generate distinct signal outputs despite interacting with a common set of activators and effectors, and are strongly associated with oncogenic progression in tumor initiation. Mutated versions of Ras that are insensitive to GAP stimulation (and are therefore constitutively active) are found in a significant fraction of human cancers. Many Ras guanine nucleotide exchange factors (GEFs) have been identified. They are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active (GTP-bound) Ras interacts with several effector proteins that stimulate a variety of diverse cytoplasmic signaling activities. Some are known to positively mediate the oncogenic properties of Ras, including Raf, phosphatidylinositol 3-kinase (PI3K), RalGEFs, and Tiam1.

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=5e-32  Score=195.61  Aligned_cols=163  Identities=37%  Similarity=0.627  Sum_probs=141.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ++..+||+++|++|+|||||++++.++.+.. +.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus         2 ~~~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~   81 (170)
T cd04116           2 KSSLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCC   81 (170)
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEE
Confidence            4577999999999999999999999888876 677888877777778889999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCCcCH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTEDV  164 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i  164 (210)
                      ++|||++++.+++.+. .|...+.....   ..+.|+++|+||.|+. .+.+..+++..++..++ .+++++||++|.|+
T Consensus        82 i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  159 (170)
T cd04116          82 LLTFAVDDSQSFQNLS-NWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNV  159 (170)
T ss_pred             EEEEECCCHHHHHhHH-HHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCH
Confidence            9999999999999988 67666544332   2568999999999986 45677788888888887 47999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          165 KQCFKDLLYK  174 (210)
Q Consensus       165 ~~l~~~i~~~  174 (210)
                      .++|.++++.
T Consensus       160 ~~~~~~~~~~  169 (170)
T cd04116         160 AAAFEEAVRR  169 (170)
T ss_pred             HHHHHHHHhh
Confidence            9999999875

Rab9 is found in late endosomes, together with mannose 6-phosphate receptors (MPRs) and the tail-interacting protein of 47 kD (TIP47). Rab9 is a key mediator of vesicular transport from late endosomes to the trans-Golgi network (TGN) by redirecting the MPRs. Rab9 has been identified as a key component for the replication of several viruses, including HIV1, Ebola, Marburg, and measles, making it a potential target for inhibiting a variety of viruses. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CX

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=5.2e-32  Score=194.17  Aligned_cols=162  Identities=54%  Similarity=0.872  Sum_probs=144.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.+..+.. ..++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++||
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~   80 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVY   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEE
Confidence            589999999999999999999888766 6688888888777888888889999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..+....+++++++||++|.|++++|+++.
T Consensus        81 d~~~~~s~~~~~-~~l~~~~~~~-~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~  158 (164)
T smart00175       81 DITNRESFENLK-NWLKELREYA-DPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELA  158 (164)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999999999988 6888776655 36899999999999977677788888888888899999999999999999999999


Q ss_pred             HHHHc
Q 028315          173 YKILE  177 (210)
Q Consensus       173 ~~~~~  177 (210)
                      +.+.+
T Consensus       159 ~~~~~  163 (164)
T smart00175      159 REILK  163 (164)
T ss_pred             HHHhh
Confidence            98764

Rab GTPases are implicated in vesicle trafficking.

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=5.9e-32  Score=193.63  Aligned_cols=159  Identities=35%  Similarity=0.565  Sum_probs=136.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|.+|||||||++++.++.+.+ +.++.+.+.......+++..+.+.+|||||++.|...+..+++.+|++++|+
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVF   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEE
Confidence            589999999999999999999988876 5667777777767778888999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|+..+....  .+.|+++|+||+|+...  . .++...++...+++++++||++|.|++++|+.+.
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~--~~~p~ivv~nK~Dl~~~--~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  154 (161)
T cd04124          81 DVTRKITYKNLS-KWYEELREYR--PEIPCIVVANKIDLDPS--V-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAI  154 (161)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC--CCCcEEEEEECccCchh--H-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            999999999887 7777775543  57899999999998432  1 2344556666788999999999999999999999


Q ss_pred             HHHHcc
Q 028315          173 YKILEV  178 (210)
Q Consensus       173 ~~~~~~  178 (210)
                      +.+.+.
T Consensus       155 ~~~~~~  160 (161)
T cd04124         155 KLAVSY  160 (161)
T ss_pred             HHHHhc
Confidence            988754

RabL2 (Rab-like2) subfamily. RabL2s are novel Rab proteins identified recently which display features that are distinct from other Rabs, and have been termed Rab-like. RabL2 contains RabL2a and RabL2b, two very similar Rab proteins that share 98% sequence identity in humans. RabL2b maps to the subtelomeric region of chromosome 22q13.3 and RabL2a maps to 2q13, a region that suggests it is also a subtelomeric gene. Both genes are believed to be expressed ubiquitously, suggesting that RabL2s are the first example of duplicated genes in human proximal subtelomeric regions that are both expressed actively. Like other Rab-like proteins, RabL2s lack a prenylation site at the C-terminus. The specific functions of RabL2a and RabL2b remain unknown. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-b

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=8.5e-32  Score=200.60  Aligned_cols=167  Identities=45%  Similarity=0.772  Sum_probs=148.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+.+..+.+.+|||+|++.+...+..+++.+|+++
T Consensus         4 ~~~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~v   83 (210)
T PLN03108          4 AYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGAL   83 (210)
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEE
Confidence            467999999999999999999999988766 6788888888777888888899999999999999989999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|...+.... ....|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.
T Consensus        84 lv~D~~~~~s~~~l~-~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~  161 (210)
T PLN03108         84 LVYDITRRETFNHLA-SWLEDARQHA-NANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFI  161 (210)
T ss_pred             EEEECCcHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999987 5666554443 35789999999999987777888889999999999999999999999999999


Q ss_pred             HHHHHHHccc
Q 028315          170 DLLYKILEVP  179 (210)
Q Consensus       170 ~i~~~~~~~~  179 (210)
                      ++++.+.+..
T Consensus       162 ~l~~~~~~~~  171 (210)
T PLN03108        162 KTAAKIYKKI  171 (210)
T ss_pred             HHHHHHHHHh
Confidence            9999987643

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=6.3e-32  Score=194.21  Aligned_cols=158  Identities=30%  Similarity=0.509  Sum_probs=134.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++.++.+.. +.++.+.++ ......+...+.+.+|||||++.+..++..+++.+|++++||
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   80 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVY   80 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEE
Confidence            799999999999999999999998866 556655444 444566777899999999999999988888999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |++++.+++.+. .|...+.....  ..+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|++
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~  159 (165)
T cd04140          81 SVTSKQSLEELK-PIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQE  159 (165)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHH
Confidence            999999999988 56555554331  257899999999999876778887888888888889999999999999999999


Q ss_pred             HHH
Q 028315          171 LLY  173 (210)
Q Consensus       171 i~~  173 (210)
                      |++
T Consensus       160 l~~  162 (165)
T cd04140         160 LLN  162 (165)
T ss_pred             HHh
Confidence            875

ARHI (A Ras homolog member I) is a member of the Ras family with several unique structural and functional properties. ARHI is expressed in normal human ovarian and breast tissue, but its expression is decreased or eliminated in breast and ovarian cancer. ARHI contains an N-terminal extension of 34 residues (human) that is required to retain its tumor suppressive activity. Unlike most other Ras family members, ARHI is maintained in the constitutively active (GTP-bound) state in resting cells and has modest GTPase activity. ARHI inhibits STAT3 (signal transducers and activators of transcription 3), a latent transcription factor whose abnormal activation plays a critical role in oncogenesis. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Due to

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=100.00  E-value=8.2e-32  Score=195.15  Aligned_cols=159  Identities=31%  Similarity=0.581  Sum_probs=136.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      |+++|++|||||||++++.++.+.. +.++....+ ...+.+++..+.+.+|||||++.+..++..+++.+|++++|||+
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~   79 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSV   79 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEEC
Confidence            5899999999999999999998877 556655444 44567788889999999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHcCC-eEEEecccCC
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEHKC-LFLECSAKNT  161 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~sa~~~  161 (210)
                      +++.+|+.+...|...+....  .+.|+++|+||+|+....            .++.+++..++...+. .++++||++|
T Consensus        80 ~~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~  157 (174)
T smart00174       80 DSPASFENVKEKWYPEVKHFC--PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQ  157 (174)
T ss_pred             CCHHHHHHHHHHHHHHHHhhC--CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCC
Confidence            999999999767888876654  579999999999986532            3677788889998886 8999999999


Q ss_pred             cCHHHHHHHHHHHHHc
Q 028315          162 EDVKQCFKDLLYKILE  177 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~  177 (210)
                      .|++++|+.+.+.+..
T Consensus       158 ~~v~~lf~~l~~~~~~  173 (174)
T smart00174      158 EGVREVFEEAIRAALN  173 (174)
T ss_pred             CCHHHHHHHHHHHhcC
Confidence            9999999999988753

Members of this subfamily of Ras-like small GTPases include Cdc42 and Rac, as well as Rho isoforms.

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=1.5e-31  Score=191.67  Aligned_cols=161  Identities=41%  Similarity=0.714  Sum_probs=144.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|++|+|||||++++.+..+.. ..++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++|
T Consensus         1 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v   80 (163)
T cd01860           1 QFKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVV   80 (163)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEE
Confidence            4899999999999999999999999877 788888888888888999999999999999999998999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +|++++.++.... .|+..+.... ....|+++++||+|+...+....++...+....+++++++||++|.|++++|+++
T Consensus        81 ~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l  158 (163)
T cd01860          81 YDITSEESFEKAK-SWVKELQRNA-SPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEI  158 (163)
T ss_pred             EECcCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHH
Confidence            9999999999988 7777776554 3678999999999997666777778888888888999999999999999999999


Q ss_pred             HHHH
Q 028315          172 LYKI  175 (210)
Q Consensus       172 ~~~~  175 (210)
                      ++.+
T Consensus       159 ~~~l  162 (163)
T cd01860         159 AKKL  162 (163)
T ss_pred             HHHh
Confidence            9876

This subfamily includes Rab5 and Rab22 of mammals, Ypt51/Ypt52/Ypt53 of yeast, and RabF of plants. The members of this subfamily are involved in endocytosis and endocytic-sorting pathways. In mammals, Rab5 GTPases localize to early endosomes and regulate fusion of clathrin-coated vesicles to early endosomes and fusion between early endosomes. In yeast, Ypt51p family members similarly regulate membrane trafficking through prevacuolar compartments. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence mo

>cd01873 RhoBTB RhoBTB subfamily

Probab=100.00  E-value=9.5e-32  Score=197.67  Aligned_cols=158  Identities=23%  Similarity=0.384  Sum_probs=128.8

Q ss_pred             EEEEEEEcCCCCcHHHHHH-HHhhCCC-----CC-CCCceee-EEEEEE--------EEECCeEEEEEEEeCCCCccccc
Q 028315           13 SFKILLIGDSGVGKSSILL-SLISNSV-----HD-PSPTIGV-DFKIKL--------LTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~-~l~~~~~-----~~-~~~~~~~-~~~~~~--------~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      .+||+++|+.|||||+|+. ++.++.+     .. +.||.+. +.+...        ..+++..+.+++|||+|++.  .
T Consensus         2 ~~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~--~   79 (195)
T cd01873           2 TIKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHD--K   79 (195)
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChh--h
Confidence            4799999999999999995 6655433     22 5677652 322221        25688899999999999875  3


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC-------------------CCcc
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS-------------------ERAV  137 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~-------------------~~~~  137 (210)
                      ....+++++|++++|||++++.+|+.+...|...+....  .+.|+++|+||+|+.+                   .+.+
T Consensus        80 ~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~--~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V  157 (195)
T cd01873          80 DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC--PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADIL  157 (195)
T ss_pred             hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhccccccchhhhcccccccccccCCcc
Confidence            455678999999999999999999999766888776554  4789999999999864                   3678


Q ss_pred             CHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          138 TREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       138 ~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ..++++.+++.++++|++|||++|.||+++|..+++.
T Consensus       158 ~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         158 PPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            8999999999999999999999999999999998864

Members of the RhoBTB subfamily of Rho GTPases are present in vertebrates, Drosophila, and Dictyostelium. RhoBTB proteins are characterized by a modular organization, consisting of a GTPase domain, a proline rich region, a tandem of two BTB (Broad-Complex, Tramtrack, and Bric a brac) domains, and a C-terminal region of unknown function. RhoBTB proteins may act as docking points for multiple components participating in signal transduction cascades. RhoBTB genes appeared upregulated in some cancer cell lines, suggesting a participation of RhoBTB proteins in the pathogenesis of particular tumors. Note that the Dictyostelium RacA GTPase domain is more closely related to Rac proteins than to RhoBTB proteins, where RacA actually belongs. Thus, the Dictyostelium RacA is not included here. Most Rho proteins contain a lipid modification site at the C-terminus; however, RhoBTB is one of few Rho subfamilies that lack this feature.

>cd04177 RSR1 RSR1 subgroup

Probab=100.00  E-value=2.3e-31  Score=191.88  Aligned_cols=162  Identities=33%  Similarity=0.579  Sum_probs=139.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|.+|+|||||++++.++.+.. +.++.+.. ......+++..+.+.+|||||++.|..++..+++.++++++|
T Consensus         1 ~~ki~liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv   79 (168)
T cd04177           1 DYKIVVLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLV   79 (168)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEE
Confidence            3799999999999999999999888766 55666544 345667788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCCcCHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~l~~~  170 (210)
                      ||++++.+++... .|...+.......+.|+++++||.|+...+.+..++...+++.++ ++++++||++|.|++++|.+
T Consensus        80 ~~~~~~~s~~~~~-~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~  158 (168)
T cd04177          80 YSVTSEASLNELG-ELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFID  158 (168)
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHH
Confidence            9999999999998 677766654445689999999999998777777777778888887 78999999999999999999


Q ss_pred             HHHHHH
Q 028315          171 LLYKIL  176 (210)
Q Consensus       171 i~~~~~  176 (210)
                      +++.++
T Consensus       159 i~~~~~  164 (168)
T cd04177         159 LVRQII  164 (168)
T ss_pred             HHHHHh
Confidence            998764

RSR1/Bud1p is a member of the Rap subfamily of the Ras family that is found in fungi. In budding yeasts, RSR1 is involved in selecting a site for bud growth on the cell cortex, which directs the establishment of cell polarization. The Rho family GTPase cdc42 and its GEF, cdc24, then establish an axis of polarized growth by organizing the actin cytoskeleton and secretory apparatus at the bud site. It is believed that cdc42 interacts directly with RSR1 in vivo. In filamentous fungi, polar growth occurs at the tips of hypha and at novel growth sites along the extending hypha. In Ashbya gossypii, RSR1 is a key regulator of hyphal growth, localizing at the tip region and regulating in apical polarization of the actin cytoskeleton. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key featu

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=1.9e-31  Score=196.72  Aligned_cols=167  Identities=25%  Similarity=0.392  Sum_probs=135.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc--------hhhhhcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL--------TSSYYRG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~--------~~~~~~~   84 (210)
                      +||+++|.+|||||||++++.++.+.. +.|+.+.+.+...+.+++..+.+++|||||.+.+...        ....++.
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~   80 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRN   80 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhcc
Confidence            589999999999999999999998877 6777776666666677888899999999997654321        2234789


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc--cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-HcCCeEEEecccCC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYS--TNQDCVKILVGNKVDRDSERAVTREEGMILAQ-EHKCLFLECSAKNT  161 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~  161 (210)
                      +|++++|||++++.+|+.+. .|...+....  ...+.|+++|+||+|+...+.+..++...++. .++++|++|||++|
T Consensus        81 ad~iilv~D~~~~~S~~~~~-~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g  159 (198)
T cd04142          81 SRAFILVYDICSPDSFHYVK-LLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYN  159 (198)
T ss_pred             CCEEEEEEECCCHHHHHHHH-HHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCC
Confidence            99999999999999999988 5665554432  24678999999999997766666666666644 56889999999999


Q ss_pred             cCHHHHHHHHHHHHHccchh
Q 028315          162 EDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~  181 (210)
                      .|++++|+.+++.+..+...
T Consensus       160 ~~v~~lf~~i~~~~~~~~~~  179 (198)
T cd04142         160 WHILLLFKELLISATTRGRS  179 (198)
T ss_pred             CCHHHHHHHHHHHhhccCCC
Confidence            99999999999988866654

RRP22 (Ras-related protein on chromosome 22) subfamily consists of proteins that inhibit cell growth and promote caspase-independent cell death. Unlike most Ras proteins, RRP22 is down-regulated in many human tumor cells due to promoter methylation. RRP22 localizes to the nucleolus in a GTP-dependent manner, suggesting a novel function in modulating transport of nucleolar components. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins. Like most Ras family proteins, RRP22 is farnesylated.

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=1.9e-31  Score=190.81  Aligned_cols=159  Identities=38%  Similarity=0.662  Sum_probs=140.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|||||||++++.+..+.. +.++.+.++....+..++..+.+++|||||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~   80 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEE
Confidence            489999999999999999999988876 6788888888888888888889999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|+.+. .|+..+.... ..+.|+++++||+|+...+....++...+....+++++++||+++.|++++|.++.
T Consensus        81 d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~  158 (161)
T cd01861          81 DITNRQSFDNTD-KWIDDVRDER-GNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIA  158 (161)
T ss_pred             ECcCHHHHHHHH-HHHHHHHHhC-CCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999988 6766665443 24799999999999976677778888888888889999999999999999999998


Q ss_pred             HH
Q 028315          173 YK  174 (210)
Q Consensus       173 ~~  174 (210)
                      +.
T Consensus       159 ~~  160 (161)
T cd01861         159 SA  160 (161)
T ss_pred             Hh
Confidence            75

Rab6 is involved in microtubule-dependent transport pathways through the Golgi and from endosomes to the Golgi. Rab6A of mammals is implicated in retrograde transport through the Golgi stack, and is also required for a slow, COPI-independent, retrograde transport pathway from the Golgi to the endoplasmic reticulum (ER). This pathway may allow Golgi residents to be recycled through the ER for scrutiny by ER quality-control systems. Yeast Ypt6p, the homolog of the mammalian Rab6 GTPase, is not essential for cell viability. Ypt6p acts in endosome-to-Golgi, in intra-Golgi retrograde transport, and possibly also in Golgi-to-ER trafficking. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=4.3e-34  Score=194.19  Aligned_cols=178  Identities=32%  Similarity=0.583  Sum_probs=159.4

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC---------CeEEEEEEEeCCCCccccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG---------GKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~---------~~~~~~~l~Dt~G~~~~~~   76 (210)
                      +...+|-||.+.+|++|+|||+|+.++..+.|.. -..|.++++..+.+.+.         +..+.+++|||+|+++|++
T Consensus         3 ~GdydylikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRS   82 (219)
T KOG0081|consen    3 DGDYDYLIKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRS   82 (219)
T ss_pred             CccHHHHHHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHH
Confidence            3455678899999999999999999999999877 77888888888776652         3368999999999999999


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEe
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      +...|++.+-+++++||+++.++|.++. .|+..++.+....+.-+++++||+|+.+.+.++.+++..++.++++|||++
T Consensus        83 LTTAFfRDAMGFlLiFDlT~eqSFLnvr-nWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfET  161 (219)
T KOG0081|consen   83 LTTAFFRDAMGFLLIFDLTSEQSFLNVR-NWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFET  161 (219)
T ss_pred             HHHHHHHhhccceEEEeccchHHHHHHH-HHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeee
Confidence            9999999999999999999999999999 899999888766677789999999999999999999999999999999999


Q ss_pred             cccCCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      ||-+|.||++..+.++..++++.+..-+.
T Consensus       162 SA~tg~Nv~kave~LldlvM~Rie~~v~~  190 (219)
T KOG0081|consen  162 SACTGTNVEKAVELLLDLVMKRIEQCVEK  190 (219)
T ss_pred             ccccCcCHHHHHHHHHHHHHHHHHHHHhh
Confidence            99999999999999999998877755443

>cd01863 Rab18 Rab18 subfamily

Probab=100.00  E-value=3.1e-31  Score=189.75  Aligned_cols=159  Identities=64%  Similarity=1.030  Sum_probs=141.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.+..+.. ..++.+.++....+.+.+..+.+.+|||||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVY   80 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEE
Confidence            589999999999999999999988766 7788888887777778888899999999999999989999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+.......+.|+++|+||+|+. ......++...+....+++++++||++|.|+++++++++
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~  158 (161)
T cd01863          81 DVTRRDTFTNLE-TWLNELETYSTNNDIVKMLVGNKIDKE-NREVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELV  158 (161)
T ss_pred             ECCCHHHHHhHH-HHHHHHHHhCCCCCCcEEEEEECCccc-ccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHH
Confidence            999999999988 588888777656789999999999996 345667778888888899999999999999999999988


Q ss_pred             HH
Q 028315          173 YK  174 (210)
Q Consensus       173 ~~  174 (210)
                      +.
T Consensus       159 ~~  160 (161)
T cd01863         159 EK  160 (161)
T ss_pred             Hh
Confidence            75

Mammalian Rab18 is implicated in endocytic transport and is expressed most highly in polarized epithelial cells. However, trypanosomal Rab, TbRAB18, is upregulated in the BSF (Blood Stream Form) stage and localized predominantly to elements of the Golgi complex. In human and mouse cells, Rab18 has been identified in lipid droplets, organelles that store neutral lipids. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of mos

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=2.7e-31  Score=195.73  Aligned_cols=156  Identities=28%  Similarity=0.534  Sum_probs=137.8

Q ss_pred             EcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH
Q 028315           19 IGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR   97 (210)
Q Consensus        19 ~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   97 (210)
                      +|.+|||||||+++++.+.+.. +.++.+.++....+.+++..+.+.+|||+|++.|..++..+++++|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            6999999999999999888876 788999899888888888899999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315           98 ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .+|+.+. .|+..+....  .+.|+++|+||+|+.. +.+..+. ..++...++.|++|||++|.||+++|.+|.+.+.+
T Consensus        81 ~S~~~i~-~w~~~i~~~~--~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~  155 (200)
T smart00176       81 VTYKNVP-NWHRDLVRVC--ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  155 (200)
T ss_pred             HHHHHHH-HHHHHHHHhC--CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999998 7888887654  5799999999999854 3455443 46777788999999999999999999999999876


Q ss_pred             cc
Q 028315          178 VP  179 (210)
Q Consensus       178 ~~  179 (210)
                      ..
T Consensus       156 ~~  157 (200)
T smart00176      156 DP  157 (200)
T ss_pred             cc
Confidence            53

Ran is involved in the active transport of proteins through nuclear pores.

>cd04135 Tc10 TC10 subfamily

Probab=100.00  E-value=3.6e-31  Score=191.80  Aligned_cols=159  Identities=30%  Similarity=0.542  Sum_probs=136.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++..+.+.. +.++... .....+.+++..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~   79 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICF   79 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceee-eeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEE
Confidence            589999999999999999999998866 5555543 33445677888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEeccc
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLECSAK  159 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  159 (210)
                      |++++.+|+.+...|...+...  ..+.|+++|+||+|+.+.            ..+..+++..++...+. ++++|||+
T Consensus        80 ~~~~~~s~~~~~~~~~~~l~~~--~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~  157 (174)
T cd04135          80 SVVNPASFQNVKEEWVPELKEY--APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSAL  157 (174)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhh--CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCC
Confidence            9999999999987788887654  467999999999998543            35667788888888886 79999999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLYKI  175 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~  175 (210)
                      +|.|++++|+.+++.+
T Consensus       158 ~~~gi~~~f~~~~~~~  173 (174)
T cd04135         158 TQKGLKTVFDEAILAI  173 (174)
T ss_pred             cCCCHHHHHHHHHHHh
Confidence            9999999999998875

TC10 is a Rho family protein that has been shown to induce microspike formation and neurite outgrowth in vitro. Its expression changes dramatically after peripheral nerve injury, suggesting an important role in promoting axonal outgrowth and regeneration. TC10 regulates translocation of insulin-stimulated GLUT4 in adipocytes and has also been shown to bind directly to Golgi COPI coat proteins. GTP-bound TC10 in vitro can bind numerous potential effectors. Depending on its subcellular localization and distinct functional domains, TC10 can differentially regulate two types of filamentous actin in adipocytes. TC10 mRNAs are highly expressed in three types of mouse muscle tissues: leg skeletal muscle, cardiac muscle, and uterus; they were also present in brain, with higher levels in adults than in newborns. TC10 has also been shown to play a role in regulating the expression of cystic fibrosis transmembrane conductance regulator (CFTR) through interacti

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=100.00  E-value=3.4e-31  Score=191.86  Aligned_cols=157  Identities=30%  Similarity=0.522  Sum_probs=134.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +|++++|++|+|||||++++.++.+.. +.++. .+.......+++..+.+.+|||||++.+..++..+++++|++++||
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~   79 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCF   79 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEE
Confidence            589999999999999999999888877 44444 4555566778888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEEEeccc
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFLECSAK  159 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa~  159 (210)
                      |++++.+|+.+...|...+....  .+.|+++|+||.|+..            .+.+..+++..++...+. +++++||+
T Consensus        80 d~~~~~sf~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~  157 (173)
T cd04130          80 SVVNPSSFQNISEKWIPEIRKHN--PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSAL  157 (173)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC--CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCC
Confidence            99999999998767887776432  5689999999999863            356777888899988887 89999999


Q ss_pred             CCcCHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLY  173 (210)
Q Consensus       160 ~~~~i~~l~~~i~~  173 (210)
                      +|.|++++|+.++-
T Consensus       158 ~~~~v~~lf~~~~~  171 (173)
T cd04130         158 TQKNLKEVFDTAIL  171 (173)
T ss_pred             CCCCHHHHHHHHHh
Confidence            99999999988764

Wrch-1 (Wnt-1 responsive Cdc42 homolog) is a Rho family GTPase that shares significant sequence and functional similarity with Cdc42. Wrch-1 was first identified in mouse mammary epithelial cells, where its transcription is upregulated in Wnt-1 transformation. Wrch-1 contains N- and C-terminal extensions relative to cdc42, suggesting potential differences in cellular localization and function. The Wrch-1 N-terminal extension contains putative SH3 domain-binding motifs and has been shown to bind the SH3 domain-containing protein Grb2, which increases the level of active Wrch-1 in cells. Unlike Cdc42, which localizes to the cytosol and perinuclear membranes, Wrch-1 localizes extensively with the plasma membrane and endosomes. The membrane association, localization, and biological activity of Wrch-1 indicate an atypical model of regulation distinct from other Rho family GTPases. Most Rho proteins contain a lipid modification site at the C-terminus,

>cd01862 Rab7 Rab7 subfamily

Probab=100.00  E-value=6.1e-31  Score=190.08  Aligned_cols=165  Identities=37%  Similarity=0.642  Sum_probs=141.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.+..+.. ..++.+.++....+.+.+..+.+.+||+||++.+...+..+++.+|++|+||
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~   80 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVY   80 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEE
Confidence            589999999999999999999988766 6677777777777788888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCCcCHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~~l~  168 (210)
                      |++++.+++... .|...+.....   ..+.|+++|+||+|+..++.+..++...+....+ .+++++||++|.|++++|
T Consensus        81 d~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~  159 (172)
T cd01862          81 DVTNPKSFESLD-SWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAF  159 (172)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHH
Confidence            999999998887 56665444332   2378999999999997666677777777877776 789999999999999999


Q ss_pred             HHHHHHHHccc
Q 028315          169 KDLLYKILEVP  179 (210)
Q Consensus       169 ~~i~~~~~~~~  179 (210)
                      +++.+.+.+..
T Consensus       160 ~~i~~~~~~~~  170 (172)
T cd01862         160 ETIARKALEQE  170 (172)
T ss_pred             HHHHHHHHhcc
Confidence            99999888653

Rab7 is a small Rab GTPase that regulates vesicular traffic from early to late endosomal stages of the endocytic pathway. The yeast Ypt7 and mammalian Rab7 are both involved in transport to the vacuole/lysosome, whereas Ypt7 is also required for homotypic vacuole fusion. Mammalian Rab7 is an essential participant in the autophagic pathway for sequestration and targeting of cytoplasmic components to the lytic compartment. Mammalian Rab7 is also proposed to function as a tumor suppressor. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-

>cd04103 Centaurin_gamma Centaurin gamma

Probab=100.00  E-value=3.8e-31  Score=188.64  Aligned_cols=154  Identities=20%  Similarity=0.337  Sum_probs=128.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|+.|||||||+.++..+.+....++.+..+ ...+.+++..+.+.+|||+|++.     ..+++.+|++++|||
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~~~~~~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d   74 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQLESPEGGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFS   74 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCCCCCCccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEE
Confidence            489999999999999999999988877433334343 45677888889999999999975     346788999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC--CCCccCHHHHHHHHHHc-CCeEEEecccCCcCHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD--SERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      ++++.+|+.+. .|...+.......+.|+++|+||.|+.  +.+.+..+++..+++.. ++.|++|||++|.||+++|.+
T Consensus        75 ~~~~~sf~~~~-~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~  153 (158)
T cd04103          75 LENEASFQTVY-NLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQE  153 (158)
T ss_pred             CCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHH
Confidence            99999999998 577777665544678999999999985  35778888888888776 589999999999999999999


Q ss_pred             HHHH
Q 028315          171 LLYK  174 (210)
Q Consensus       171 i~~~  174 (210)
                      +.+.
T Consensus       154 ~~~~  157 (158)
T cd04103         154 AAQK  157 (158)
T ss_pred             HHhh
Confidence            8864

The centaurins (alpha, beta, gamma, and delta) are large, multi-domain proteins that all contain an ArfGAP domain and ankyrin repeats, and in some cases, numerous additional domains. Centaurin gamma contains an additional GTPase domain near its N-terminus. The specific function of this GTPase domain has not been well characterized, but centaurin gamma 2 (CENTG2) may play a role in the development of autism. Centaurin gamma 1 is also called PIKE (phosphatidyl inositol (PI) 3-kinase enhancer) and centaurin gamma 2 is also known as AGAP (ArfGAP protein with a GTPase-like domain, ankyrin repeats and a Pleckstrin homology domain) or GGAP. Three isoforms of PIKE have been identified. PIKE-S (short) and PIKE-L (long) are brain-specific isoforms, with PIKE-S restricted to the nucleus and PIKE-L found in multiple cellular compartments. A third isoform, PIKE-A was identified in human glioblastoma brain cancers and has been found in various tissues.

>cd04147 Ras_dva Ras-dva subfamily

Probab=100.00  E-value=4.6e-31  Score=195.12  Aligned_cols=193  Identities=25%  Similarity=0.387  Sum_probs=148.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|++|||||||++++.+..+.. +.++.. ......+.+.+..+.+.+||+||+..+..++..++..+|++++|||
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d   79 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYA   79 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEE
Confidence            68999999999999999999988877 445543 4455566777888999999999999998888889999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC-CCccCHHHHHHHHH-HcCCeEEEecccCCcCHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS-ERAVTREEGMILAQ-EHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ++++.+++.+. .|...+.......+.|+++|+||+|+.. .+.+..++...... .++.+++++||++|.|++++|+++
T Consensus        80 ~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l  158 (198)
T cd04147          80 VDDPESFEEVE-RLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKEL  158 (198)
T ss_pred             CCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHH
Confidence            99999999998 6666655554346799999999999865 35555545444433 456789999999999999999999


Q ss_pred             HHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          172 LYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       172 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      .+.+...+...+..+...+... ...+...+.++.+.|+
T Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~  196 (198)
T cd04147         159 LRQANLPYNLSPALRRRRESLP-SEIQRRPPMNKTNSCS  196 (198)
T ss_pred             HHHhhcccccchhhHHHHhhcc-HhhhcCCCCCCCCccc
Confidence            9988765555554433333333 3355555666666664

Ras-dva (Ras - dorsal-ventral anterior localization) subfamily consists of a set of proteins characterized only in Xenopus leavis, to date. In Xenopus Ras-dva expression is activated by the transcription factor Otx2 and begins during gastrulation throughout the anterior ectoderm. Ras-dva expression is inhibited in the anterior neural plate by factor Xanf1. Downregulation of Ras-dva results in head development abnormalities through the inhibition of several regulators of the anterior neural plate and folds patterning, including Otx2, BF-1, Xag2, Pax6, Slug, and Sox9. Downregulation of Ras-dva also interferes with the FGF-8a signaling within the anterior ectoderm. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Ras proteins.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=100.00  E-value=5.4e-31  Score=189.04  Aligned_cols=159  Identities=31%  Similarity=0.489  Sum_probs=137.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC--CCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISN--SVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~--~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +||+++|++|||||||++++...  .+.. +.++.+.++....+.++ +..+.+.+|||||++.+..++..+++.+|+++
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii   80 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFI   80 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEE
Confidence            58999999999999999999864  4544 77888888877766665 56799999999999999888999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++.++..+. .|+..+....  .+.|+++|+||+|+.....+...+...+....+.+++++||++|.|++++|+
T Consensus        81 ~v~d~~~~~s~~~~~-~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  157 (164)
T cd04101          81 LVYDVSNKASFENCS-RWVNKVRTAS--KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFE  157 (164)
T ss_pred             EEEECcCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHH
Confidence            999999999999887 7777766543  5689999999999977777777777777777888999999999999999999


Q ss_pred             HHHHHH
Q 028315          170 DLLYKI  175 (210)
Q Consensus       170 ~i~~~~  175 (210)
                      ++.+.+
T Consensus       158 ~l~~~~  163 (164)
T cd04101         158 SLARAF  163 (164)
T ss_pred             HHHHHh
Confidence            998865

RabL4s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL4 lacks a prenylation site at the C-terminus. The specific function of RabL4 remains unknown.

>cd04148 RGK RGK subfamily

Probab=100.00  E-value=6.1e-31  Score=197.28  Aligned_cols=168  Identities=26%  Similarity=0.339  Sum_probs=139.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCC-C-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc-cccEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVH-D-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR-GAHGIIL   90 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~-~~d~~i~   90 (210)
                      +||+++|++|||||||+++|..+.+. . +.++.+.++....+.+++..+.+.+|||||++  ......++. .+|++++
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~--~~~~~~~~~~~ad~iil   78 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQE--MWTEDSCMQYQGDAFVV   78 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcc--hHHHhHHhhcCCCEEEE
Confidence            58999999999999999999888875 3 55555556777777888889999999999998  223445566 8999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|+.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        79 V~d~td~~S~~~~~-~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~  157 (221)
T cd04148          79 VYSVTDRSSFERAS-ELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEG  157 (221)
T ss_pred             EEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHH
Confidence            99999999999888 67776665543467999999999999887788888888888888899999999999999999999


Q ss_pred             HHHHHHccchhhhc
Q 028315          171 LLYKILEVPSLLEQ  184 (210)
Q Consensus       171 i~~~~~~~~~~~~~  184 (210)
                      +++.+.......+.
T Consensus       158 l~~~~~~~~~~~~~  171 (221)
T cd04148         158 IVRQIRLRRDSKEK  171 (221)
T ss_pred             HHHHHHhhhccccc
Confidence            99998755544333

The RGK (Rem, Rem2, Rad, Gem/Kir) subfamily of Ras GTPases are expressed in a tissue-specific manner and are dynamically regulated by transcriptional and posttranscriptional mechanisms in response to environmental cues. RGK proteins bind to the beta subunit of L-type calcium channels, causing functional down-regulation of these voltage-dependent calcium channels, and either termination of calcium-dependent secretion or modulation of electrical conduction and contractile function. Inhibition of L-type calcium channels by Rem2 may provide a mechanism for modulating calcium-triggered exocytosis in hormone-secreting cells, and has been proposed to influence the secretion of insulin in pancreatic beta cells. RGK proteins also interact with and inhibit the Rho/Rho kinase pathway to modulate remodeling of the cytoskeleton. Two characteristics of RGK proteins cited in the literature are N-terminal and C-terminal extensions beyond the GTPase domain typical of Ra

>cd04123 Rab21 Rab21 subfamily

Probab=100.00  E-value=1e-30  Score=186.95  Aligned_cols=160  Identities=36%  Similarity=0.669  Sum_probs=139.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++.+..+.. ..++...+.....+...+..+.+.+||+||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVY   80 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEE
Confidence            589999999999999999999988766 5556666666666677777889999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+.... ..+.|+++++||+|+...+.+..++...+....+.+++++|++++.|++++++++.
T Consensus        81 d~~~~~s~~~~~-~~~~~i~~~~-~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~  158 (162)
T cd04123          81 DITDADSFQKVK-KWIKELKQMR-GNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLA  158 (162)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999999988 6777766555 34789999999999987777777778888888899999999999999999999998


Q ss_pred             HHH
Q 028315          173 YKI  175 (210)
Q Consensus       173 ~~~  175 (210)
                      +.+
T Consensus       159 ~~~  161 (162)
T cd04123         159 KRM  161 (162)
T ss_pred             HHh
Confidence            765

The localization and function of Rab21 are not clearly defined, with conflicting data reported. Rab21 has been reported to localize in the ER in human intestinal epithelial cells, with partial colocalization with alpha-glucosidase, a late endosomal/lysosomal marker. More recently, Rab21 was shown to colocalize with and affect the morphology of early endosomes. In Dictyostelium, GTP-bound Rab21, together with two novel LIM domain proteins, LimF and ChLim, has been shown to regulate phagocytosis. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=100.00  E-value=5.9e-31  Score=189.14  Aligned_cols=160  Identities=33%  Similarity=0.510  Sum_probs=134.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc-cccchhhhhccccEEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER-FGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~~d~~i~v~   92 (210)
                      ||+++|++|+|||||+++++...+.. +.++....+ .....+++..+.+.+|||||++. +......+++.+|++++|+
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~   79 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFIGEYDPNLESLY-SRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVY   79 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccccccCCChHHhc-eEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEE
Confidence            58999999999999999999887765 555554333 44557788889999999999885 3455677899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc-CHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE-DVKQCFKD  170 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~l~~~  170 (210)
                      |++++.+|+.+. .|...+..... ..+.|+++|+||+|+...+.+..+++..++...+.+|+++||++|. |++++|.+
T Consensus        80 d~~~~~s~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~  158 (165)
T cd04146          80 SITDRSSFDEIS-QLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHE  158 (165)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHH
Confidence            999999999998 67777766542 4579999999999997777788888888898889999999999994 99999999


Q ss_pred             HHHHHH
Q 028315          171 LLYKIL  176 (210)
Q Consensus       171 i~~~~~  176 (210)
                      +.+.+.
T Consensus       159 l~~~~~  164 (165)
T cd04146         159 LCREVR  164 (165)
T ss_pred             HHHHHh
Confidence            998764

RERG (Ras-related and Estrogen- Regulated Growth inhibitor) and Ras-like 11 are members of a novel subfamily of Ras that were identified based on their behavior in breast and prostate tumors, respectively. RERG expression was decreased or lost in a significant fraction of primary human breast tumors that lack estrogen receptor and are correlated with poor clinical prognosis. Elevated RERG expression correlated with favorable patient outcome in a breast tumor subtype that is positive for estrogen receptor expression. In contrast to most Ras proteins, RERG overexpression inhibited the growth of breast tumor cells in vitro and in vivo. RasL11 was found to be ubiquitously expressed in human tissue, but down-regulated in prostate tumors. Both RERG and RasL11 lack the C-terminal CaaX prenylation motif, where a = an aliphatic amino acid and X = any amino acid, and are localized primarily in the cytoplasm. Both are believed to have tu

>cd01892 Miro2 Miro2 subfamily

Probab=99.98  E-value=9.6e-31  Score=188.74  Aligned_cols=161  Identities=20%  Similarity=0.228  Sum_probs=136.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCC-C-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVH-D-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +.+||+++|.+|||||||+++|.++.+. . +.||.+..+....+.+++..+.+.+||++|.+.+...+..+++++|+++
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~l   82 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVAC   82 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEE
Confidence            5799999999999999999999999986 4 7788888777677778888889999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVKQCF  168 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~l~  168 (210)
                      +|+|++++.+++.+. .|...+..   ..+.|+++|+||+|+.+.+.....+...+.+.++. .++++||++|.|++++|
T Consensus        83 lv~d~~~~~s~~~~~-~~~~~~~~---~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf  158 (169)
T cd01892          83 LVYDSSDPKSFSYCA-EVYKKYFM---LGEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELF  158 (169)
T ss_pred             EEEeCCCHHHHHHHH-HHHHHhcc---CCCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHH
Confidence            999999999999887 56554422   24789999999999965554444455667777776 47999999999999999


Q ss_pred             HHHHHHHH
Q 028315          169 KDLLYKIL  176 (210)
Q Consensus       169 ~~i~~~~~  176 (210)
                      +.+.+.+.
T Consensus       159 ~~l~~~~~  166 (169)
T cd01892         159 TKLATAAQ  166 (169)
T ss_pred             HHHHHHhh
Confidence            99999876

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the putative GTPase domain in the C terminus of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>cd04114 Rab30 Rab30 subfamily

Probab=99.98  E-value=3.5e-30  Score=185.73  Aligned_cols=163  Identities=42%  Similarity=0.780  Sum_probs=142.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.++|+++|++|+|||||++++..+.+.. +.++.+.+.....+.+.+..+.+.+||+||++.+...+..+++.+|+++
T Consensus         5 ~~~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i   84 (169)
T cd04114           5 DFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALI   84 (169)
T ss_pred             CceeEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEE
Confidence            457999999999999999999998877765 6777777777777788888899999999999999988899999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..+....+......+++++||++|.|++++|+
T Consensus        85 ~v~d~~~~~s~~~~~-~~~~~l~~~~-~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  162 (169)
T cd04114          85 LTYDITCEESFRCLP-EWLREIEQYA-NNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFL  162 (169)
T ss_pred             EEEECcCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHH
Confidence            999999999999888 6877776554 45789999999999987777777777777777778899999999999999999


Q ss_pred             HHHHHH
Q 028315          170 DLLYKI  175 (210)
Q Consensus       170 ~i~~~~  175 (210)
                      ++.+.+
T Consensus       163 ~i~~~~  168 (169)
T cd04114         163 DLACRL  168 (169)
T ss_pred             HHHHHh
Confidence            998765

Rab30 appears to be associated with the Golgi stack. It is expressed in a wide variety of tissue types and in humans maps to chromosome 11. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide dissociation inhibitors (GDIs), which facilitate Rab recycling by masking C-terminal lipid binding and promoting cytosolic localization. Most Rab GTPases contain a lipid modification site at the C-terminus, with sequence motifs CC, CXC, or CCX. Lipid binding is essential for membrane attachment, a key feature of most Rab proteins. Due to the presence of truncated sequences in this CD, the lipid modification site is not available for annotation.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.98  E-value=2.7e-30  Score=185.22  Aligned_cols=162  Identities=31%  Similarity=0.553  Sum_probs=135.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||++++....+.. +.++.... ......+++..+.+.+|||||++.+...+..+++.+|++++|+
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVF   79 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhh-EEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEE
Confidence            589999999999999999999888766 44554433 3445577888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|..... |...+.......+.|+++|+||+|+...+....++...+...++++++++||++|.|++++|.++.
T Consensus        80 d~~~~~s~~~~~~-~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  158 (164)
T cd04139          80 SITDMESFTATAE-FREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLV  158 (164)
T ss_pred             ECCCHHHHHHHHH-HHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999984 544444443346799999999999976555666777778888889999999999999999999999


Q ss_pred             HHHHc
Q 028315          173 YKILE  177 (210)
Q Consensus       173 ~~~~~  177 (210)
                      +.+.+
T Consensus       159 ~~~~~  163 (164)
T cd04139         159 REIRQ  163 (164)
T ss_pred             HHHHh
Confidence            87753

The Ral (Ras-like) subfamily consists of the highly homologous RalA and RalB. Ral proteins are believed to play a crucial role in tumorigenesis, metastasis, endocytosis, and actin cytoskeleton dynamics. Despite their high sequence similarity (80% sequence identity), nonoverlapping and opposing functions have been assigned to RalA and RalBs in tumor migration. In human bladder and prostate cancer cells, RalB promotes migration while RalA inhibits it. A Ral-specific set of GEFs has been identified that are activated by Ras binding. This RalGEF activity is enhanced by Ras binding to another of its target proteins, phosphatidylinositol 3-kinase (PI3K). Ral effectors include RLIP76/RalBP1, a Rac/cdc42 GAP, and the exocyst (Sec6/8) complex, a heterooctomeric protein complex that is involved in tethering vesicles to specific sites on the plasma membrane prior to exocytosis. In rat kidney cells, RalB is required for functional assembly of the exo

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.98  E-value=1.7e-30  Score=197.30  Aligned_cols=161  Identities=28%  Similarity=0.488  Sum_probs=135.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|.+|||||||+++|+++.+.. +.++.+ ++....+.+++..+.+.||||+|++.|...+..++..+|++|+||
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVf   79 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVF   79 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEE
Confidence            589999999999999999999988876 566665 555566788888999999999999999888888899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhc--------cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-cCCeEEEecccCCcC
Q 028315           93 DVTRRETFTNLSSVWAKEVELYS--------TNQDCVKILVGNKVDRDSERAVTREEGMILAQE-HKCLFLECSAKNTED  163 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~--------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~  163 (210)
                      |++++.+|+.+. .|...+....        ...+.|+++|+||+|+...+.+..++...+... .++.++++||++|.|
T Consensus        80 dv~~~~Sf~~i~-~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~g  158 (247)
T cd04143          80 SLDNRESFEEVC-RLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSN  158 (247)
T ss_pred             eCCCHHHHHHHH-HHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCC
Confidence            999999999998 5655554321        135789999999999976667777777776653 467899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKIL  176 (210)
Q Consensus       164 i~~l~~~i~~~~~  176 (210)
                      ++++|++|.+.+.
T Consensus       159 I~elf~~L~~~~~  171 (247)
T cd04143         159 LDEMFRALFSLAK  171 (247)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998653

This subfamily includes Rhes (Ras homolog enriched in striatum) and Dexras1/AGS1 (activator of G-protein signaling 1). These proteins are homologous, but exhibit significant differences in tissue distribution and subcellular localization. Rhes is found primarily in the striatum of the brain, but is also expressed in other areas of the brain, such as the cerebral cortex, hippocampus, inferior colliculus, and cerebellum. Rhes expression is controlled by thyroid hormones. In rat PC12 cells, Rhes is farnesylated and localizes to the plasma membrane. Rhes binds and activates PI3K, and plays a role in coupling serpentine membrane receptors with heterotrimeric G-protein signaling. Rhes has recently been shown to be reduced under conditions of dopamine supersensitivity and may play a role in determining dopamine receptor sensitivity. Dexras1/AGS1 is a dexamethasone-induced Ras protein that is expressed primarily in the brain, with low expression l

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.97  E-value=8.9e-31  Score=175.00  Aligned_cols=172  Identities=44%  Similarity=0.735  Sum_probs=156.8

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      -...|.+|.+++|+-|+|||+|++.|...+|.. -..+++.++....+.+.+..+.+++|||+|+++|+...+.+++.+.
T Consensus         6 ynysyifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaa   85 (215)
T KOG0097|consen    6 YNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAA   85 (215)
T ss_pred             cchhheEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhcccc
Confidence            345688999999999999999999999999877 7788999999999999999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +.++|||++.+.++..+. .|+.-..... +++.-+++++||.|+..++.+..+++..|+++.|..+.++||++|.|+++
T Consensus        86 galmvyditrrstynhls-swl~dar~lt-npnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nved  163 (215)
T KOG0097|consen   86 GALMVYDITRRSTYNHLS-SWLTDARNLT-NPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVED  163 (215)
T ss_pred             ceeEEEEehhhhhhhhHH-HHHhhhhccC-CCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHH
Confidence            999999999999999888 7877766555 67788899999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccchh
Q 028315          167 CFKDLLYKILEVPSL  181 (210)
Q Consensus       167 l~~~i~~~~~~~~~~  181 (210)
                      .|-...+.+.++-+.
T Consensus       164 afle~akkiyqniqd  178 (215)
T KOG0097|consen  164 AFLETAKKIYQNIQD  178 (215)
T ss_pred             HHHHHHHHHHHhhhc
Confidence            998888877766553

>cd04149 Arf6 Arf6 subfamily

Probab=99.97  E-value=8.8e-31  Score=188.73  Aligned_cols=155  Identities=23%  Similarity=0.353  Sum_probs=123.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ..+||+++|++|||||||++++..+.+..+.|+.+.++..    +....+.+++|||||++.+...+..+++.+|++++|
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~~~~t~g~~~~~----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v   83 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVET----VTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   83 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCccccCCcccceEE----EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEE
Confidence            4589999999999999999999887776677777765542    223468899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-----cCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-----HKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----~~~~~~~~sa~~~~~i~~  166 (210)
                      ||++++.++.....+|...+.... ..+.|+++|+||+|+.+  .+..+++..+...     ....++++||++|.|+++
T Consensus        84 ~D~t~~~s~~~~~~~~~~~~~~~~-~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~  160 (168)
T cd04149          84 VDSADRDRIDEARQELHRIINDRE-MRDALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  160 (168)
T ss_pred             EeCCchhhHHHHHHHHHHHhcCHh-hcCCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHH
Confidence            999999999888866666654322 25689999999999864  2455555554321     234689999999999999


Q ss_pred             HHHHHHH
Q 028315          167 CFKDLLY  173 (210)
Q Consensus       167 l~~~i~~  173 (210)
                      +|+||.+
T Consensus       161 ~~~~l~~  167 (168)
T cd04149         161 GLTWLSS  167 (168)
T ss_pred             HHHHHhc
Confidence            9999864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd00154 Rab Rab family

Probab=99.97  E-value=6.4e-30  Score=181.82  Aligned_cols=157  Identities=54%  Similarity=0.890  Sum_probs=140.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++++|||||++++.+..+.. +.++.+.++.......+.....+.+||+||++.+...+..+++++|++++|+
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~   80 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVY   80 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEE
Confidence            589999999999999999999998887 6888898888888888888899999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+.... ....|+++++||+|+........++...+....+.+++++||+++.|+++++++|.
T Consensus        81 d~~~~~~~~~~~-~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          81 DITNRESFENLD-KWLKELKEYA-PENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            999999999888 5777776554 35789999999999975566777888888888899999999999999999999986

Rab GTPases form the largest family within the Ras superfamily. There are at least 60 Rab genes in the human genome, and a number of Rab GTPases are conserved from yeast to humans. Rab GTPases are small, monomeric proteins that function as molecular switches to regulate vesicle trafficking pathways. The different Rab GTPases are localized to the cytosolic face of specific intracellular membranes, where they regulate distinct steps in membrane traffic pathways. In the GTP-bound form, Rab GTPases recruit specific sets of effector proteins onto membranes. Through their effectors, Rab GTPases regulate vesicle formation, actin- and tubulin-dependent vesicle movement, and membrane fusion. GTPase activating proteins (GAPs) interact with GTP-bound Rab and accelerate the hydrolysis of GTP to GDP. Guanine nucleotide exchange factors (GEFs) interact with GDP-bound Rabs to promote the formation of the GTP-bound state. Rabs are further regulated by guanine nucleotide di

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.97  E-value=1.9e-30  Score=189.52  Aligned_cols=169  Identities=25%  Similarity=0.361  Sum_probs=133.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||++++....+....|+.+.+.....+.. ++..+.+.+|||||++.+...+..+++.+|++++|
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v   82 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNTVPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFV   82 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCcCCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEE
Confidence            58999999999999999999998887776677776665555444 34678999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH--H----cCCeEEEecccCCcCHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ--E----HKCLFLECSAKNTEDVK  165 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~--~----~~~~~~~~sa~~~~~i~  165 (210)
                      +|++++.+++.+. .|+..+.......+.|+++|+||+|+...  ...++...+..  .    .+++++++||++|.|++
T Consensus        83 ~D~~~~~~~~~~~-~~~~~i~~~~~~~~~p~iiv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~  159 (183)
T cd04152          83 VDSVDVERMEEAK-TELHKITRFSENQGVPVLVLANKQDLPNA--LSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQ  159 (183)
T ss_pred             EECCCHHHHHHHH-HHHHHHHhhhhcCCCcEEEEEECcCcccc--CCHHHHHHHhCccccCCCCceEEEEeecccCCCHH
Confidence            9999999888877 55555444333467899999999998542  33444443332  1    12468999999999999


Q ss_pred             HHHHHHHHHHHccchhhhc
Q 028315          166 QCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~  184 (210)
                      +++++|.+.+.+.++..+.
T Consensus       160 ~l~~~l~~~l~~~~~~~~~  178 (183)
T cd04152         160 EGLEKLYEMILKRRKMLRQ  178 (183)
T ss_pred             HHHHHHHHHHHHHHhhhhh
Confidence            9999999999866665554

Arl4 (Arf-like 4) is highly expressed in testicular germ cells, and is found in the nucleus and nucleolus. In mice, Arl4 is developmentally expressed during embryogenesis, and a role in somite formation and central nervous system differentiation has been proposed. Arl7 has been identified as the only Arf/Arl protein to be induced by agonists of liver X-receptor and retinoid X-receptor and by cholesterol loading in human macrophages. Arl7 is proposed to play a role in transport between a perinuclear compartment and the plasma membrane, apparently linked to the ABCA1-mediated cholesterol secretion pathway. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily.

>cd04158 ARD1 ARD1 subfamily

Probab=99.97  E-value=2.2e-30  Score=186.90  Aligned_cols=159  Identities=27%  Similarity=0.441  Sum_probs=126.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      ||+++|.++||||||++++.+..+..+.+|.+.....    ++...+.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~~~~~T~~~~~~~----~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   76 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFMQPIPTIGFNVET----VEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDS   76 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCCCcCCcCceeEEE----EEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeC
Confidence            6899999999999999999988776677777655542    233467899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC------CeEEEecccCCcCHHHHH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK------CLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~l~  168 (210)
                      +++.++..+..++...+.... ..+.|+++|+||+|+.+  .++.++.+.+....+      +.++++||++|.|++++|
T Consensus        77 s~~~s~~~~~~~~~~~~~~~~-~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f  153 (169)
T cd04158          77 SHRDRVSEAHSELAKLLTEKE-LRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGL  153 (169)
T ss_pred             CcHHHHHHHHHHHHHHhcChh-hCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHH
Confidence            999999988855554443322 34689999999999954  355666665543221      258899999999999999


Q ss_pred             HHHHHHHHccch
Q 028315          169 KDLLYKILEVPS  180 (210)
Q Consensus       169 ~~i~~~~~~~~~  180 (210)
                      +||.+.+.+..+
T Consensus       154 ~~l~~~~~~~~~  165 (169)
T cd04158         154 DWLSRQLVAAGV  165 (169)
T ss_pred             HHHHHHHhhccc
Confidence            999998887654

ARD1 (ADP-ribosylation factor domain protein 1) is an unusual member of the Arf family. In addition to the C-terminal Arf domain, ARD1 has an additional 46-kDa N-terminal domain that contains a RING finger domain, two predicted B-Boxes, and a coiled-coil protein interaction motif. This domain belongs to the TRIM (tripartite motif) or RBCC (RING, B-Box, coiled-coil) family. Like most Arfs, the ARD1 Arf domain lacks detectable GTPase activity. However, unlike most Arfs, the full-length ARD1 protein has significant GTPase activity due to the GAP (GTPase-activating protein) activity exhibited by the 46-kDa N-terminal domain. The GAP domain of ARD1 is specific for its own Arf domain and does not bind other Arfs. The rate of GDP dissociation from the ARD1 Arf domain is slowed by the adjacent 15 amino acids, which act as a GDI (GDP-dissociation inhibitor) domain. ARD1 is ubiquitously expressed in cells and localizes to the Golgi and to the lysosomal membra

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.97  E-value=6.3e-31  Score=190.73  Aligned_cols=158  Identities=22%  Similarity=0.353  Sum_probs=122.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ...+||+++|++|||||||++++..+.+..+.||.+.++...  ..  ..+.+++|||||++.+...+..+++++|++|+
T Consensus        11 ~~~~ki~l~G~~~~GKTsL~~~~~~~~~~~~~~t~~~~~~~~--~~--~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~   86 (175)
T smart00177       11 NKEMRILMVGLDAAGKTTILYKLKLGESVTTIPTIGFNVETV--TY--KNISFTVWDVGGQDKIRPLWRHYYTNTQGLIF   86 (175)
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHhcCCCCCcCCccccceEEE--EE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            446999999999999999999998777766677777655432  22  45789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.....|...+.... ..+.|++||+||.|+.+..  ..++......     ...+.++++||++|.|++
T Consensus        87 v~D~t~~~s~~~~~~~l~~~~~~~~-~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  163 (175)
T smart00177       87 VVDSNDRDRIDEAREELHRMLNEDE-LRDAVILVFANKQDLPDAM--KAAEITEKLGLHSIRDRNWYIQPTCATSGDGLY  163 (175)
T ss_pred             EEECCCHHHHHHHHHHHHHHhhCHh-hcCCcEEEEEeCcCcccCC--CHHHHHHHhCccccCCCcEEEEEeeCCCCCCHH
Confidence            9999999999988855555554322 2568999999999986432  3333222211     123357789999999999


Q ss_pred             HHHHHHHHHH
Q 028315          166 QCFKDLLYKI  175 (210)
Q Consensus       166 ~l~~~i~~~~  175 (210)
                      ++|+||.+.+
T Consensus       164 e~~~~l~~~~  173 (175)
T smart00177      164 EGLTWLSNNL  173 (175)
T ss_pred             HHHHHHHHHh
Confidence            9999998765

Ras homologues involved in vesicular transport. Activator of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. ARFs are N-terminally myristoylated. Contains ATP/GTP-binding motif (P-loop).

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.97  E-value=1e-29  Score=184.30  Aligned_cols=159  Identities=29%  Similarity=0.546  Sum_probs=133.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .||+++|++|||||||+++|.+..+.. +.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~   80 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCF   80 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEE
Confidence            589999999999999999999988876 6666665543 35577888899999999999999888888899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEeccc
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLECSAK  159 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~sa~  159 (210)
                      |++++.+|+.+...|...+....  .+.|+++|+||.|+.+.            ..+...+.+.++...+. ++++|||+
T Consensus        81 ~~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~  158 (175)
T cd01870          81 SIDSPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAK  158 (175)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC--CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccc
Confidence            99999999998767888776543  57899999999998543            23456677777777765 79999999


Q ss_pred             CCcCHHHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLYKI  175 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~  175 (210)
                      +|.|++++|.++.+.+
T Consensus       159 ~~~~v~~lf~~l~~~~  174 (175)
T cd01870         159 TKEGVREVFEMATRAA  174 (175)
T ss_pred             cCcCHHHHHHHHHHHh
Confidence            9999999999998764

The RhoA subfamily consists of RhoA, RhoB, and RhoC. RhoA promotes the formation of stress fibers and focal adhesions, regulating cell shape, attachment, and motility. RhoA can bind to multiple effector proteins, thereby triggering different downstream responses. In many cell types, RhoA mediates local assembly of the contractile ring, which is necessary for cytokinesis. RhoA is vital for muscle contraction; in vascular smooth muscle cells, RhoA plays a key role in cell contraction, differentiation, migration, and proliferation. RhoA activities appear to be elaborately regulated in a time- and space-dependent manner to control cytoskeletal changes. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho proteins. RhoA and RhoC are observed only in geranyl

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=4e-30  Score=187.32  Aligned_cols=160  Identities=23%  Similarity=0.359  Sum_probs=124.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ...+||+++|.++||||||++++..+.+..+.||.+.+...    ++...+.+++||+||++.+..+|..+++++|++|+
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~~~~pt~g~~~~~----~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~   90 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIF   90 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCccccCCcceeEEE----EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            45689999999999999999999887776677777765542    33346789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-----CCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-----KCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.++..+...+...+.... ..+.|++|++||+|+.+.  ...++......-.     .+.++++||++|.|++
T Consensus        91 V~D~s~~~s~~~~~~~l~~~l~~~~-~~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~  167 (181)
T PLN00223         91 VVDSNDRDRVVEARDELHRMLNEDE-LRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLY  167 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHhcCHh-hCCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEEEeccCCCCCCHH
Confidence            9999999999888755544443221 357899999999998654  3333333222111     1246689999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|+||.+.+..
T Consensus       168 e~~~~l~~~~~~  179 (181)
T PLN00223        168 EGLDWLSNNIAN  179 (181)
T ss_pred             HHHHHHHHHHhh
Confidence            999999988764

>cd04129 Rho2 Rho2 subfamily

Probab=99.97  E-value=2.5e-29  Score=184.28  Aligned_cols=165  Identities=31%  Similarity=0.493  Sum_probs=137.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .||+++|++|+|||||++++..+.+.. +.++....+. ..+.+++..+.+.+||++|++.+......+++.+|+++++|
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~   80 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEEYHPTVFENYV-TDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGF   80 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEE-EEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEE
Confidence            589999999999999999998777765 5555544433 35567778889999999999988877777889999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC----------CCccCHHHHHHHHHHcCC-eEEEecccCC
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS----------ERAVTREEGMILAQEHKC-LFLECSAKNT  161 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~----------~~~~~~~~~~~~~~~~~~-~~~~~sa~~~  161 (210)
                      |+++.++|+.+...|...+....  .+.|+++|+||+|+..          .+.+..+++..+++..+. ++|+|||++|
T Consensus        81 ~i~~~~s~~~~~~~~~~~i~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~  158 (187)
T cd04129          81 AVDTPDSLENVRTKWIEEVRRYC--PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTG  158 (187)
T ss_pred             ECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCC
Confidence            99999999999867888886544  4699999999999854          234556778888888885 7999999999


Q ss_pred             cCHHHHHHHHHHHHHccchh
Q 028315          162 EDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~  181 (210)
                      .|++++|+++.+.+...++.
T Consensus       159 ~~v~~~f~~l~~~~~~~~~~  178 (187)
T cd04129         159 EGVDDVFEAATRAALLVRKS  178 (187)
T ss_pred             CCHHHHHHHHHHHHhcccCc
Confidence            99999999999988766653

Rho2 is a fungal GTPase that plays a role in cell morphogenesis, control of cell wall integrity, control of growth polarity, and maintenance of growth direction. Rho2 activates the protein kinase C homolog Pck2, and Pck2 controls Mok1, the major (1-3) alpha-D-glucan synthase. Together with Rho1 (RhoA), Rho2 regulates the construction of the cell wall. Unlike Rho1, Rho2 is not an essential protein, but its overexpression is lethal. Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for proper intracellular localization via membrane attachment. As with other Rho family GTPases, the GDP/GTP cycling is regulated by GEFs (guanine nucleotide exchange factors), GAPs (GTPase-activating proteins) and GDIs (guanine nucleotide dissociation inhibitors).

>cd00157 Rho Rho (Ras homology) family

Probab=99.97  E-value=2.9e-29  Score=181.11  Aligned_cols=157  Identities=34%  Similarity=0.594  Sum_probs=132.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|++|+|||||+++|.+..+.. +.++.. +.........+..+.+++||+||++.+.......++.+|++++||
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~   79 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICF   79 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEE
Confidence            589999999999999999999998855 445544 344455577788899999999999998888888899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC-----------ccCHHHHHHHHHHcCC-eEEEecccC
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER-----------AVTREEGMILAQEHKC-LFLECSAKN  160 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~-----------~~~~~~~~~~~~~~~~-~~~~~sa~~  160 (210)
                      |++++.+|.....+|...+....  .+.|+++|+||+|+.+..           .+..++...+...++. +++++||++
T Consensus        80 d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  157 (171)
T cd00157          80 SVDSPSSFENVKTKWIPEIRHYC--PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALT  157 (171)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhC--CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCC
Confidence            99999999888878888777654  479999999999986554           3356677777777877 899999999


Q ss_pred             CcCHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLY  173 (210)
Q Consensus       161 ~~~i~~l~~~i~~  173 (210)
                      |.|++++|+++.+
T Consensus       158 ~~gi~~l~~~i~~  170 (171)
T cd00157         158 QEGVKEVFEEAIR  170 (171)
T ss_pred             CCCHHHHHHHHhh
Confidence            9999999999875

Members of the Rho family include RhoA, Cdc42, Rac, Rnd, Wrch1, RhoBTB, and Rop. There are 22 human Rho family members identified currently. These proteins are all involved in the reorganization of the actin cytoskeleton in response to external stimuli. They also have roles in cell transformation by Ras in cytokinesis, in focal adhesion formation and in the stimulation of stress-activated kinase. These various functions are controlled through distinct effector proteins and mediated through a GTP-binding/GTPase cycle involving three classes of regulating proteins: GAPs (GTPase-activating proteins), GEFs (guanine nucleotide exchange factors), and GDIs (guanine nucleotide dissociation inhibitors). Most Rho proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of most Rho protein

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.97  E-value=1.1e-30  Score=186.72  Aligned_cols=153  Identities=23%  Similarity=0.383  Sum_probs=118.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|.++||||||++++..+.+..+.|+.+.+...  +.  ...+.+.+|||||++.+...+..+++++|++++|+|
T Consensus         1 ~kv~~~G~~~~GKTsli~~l~~~~~~~~~pt~g~~~~~--~~--~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D   76 (159)
T cd04150           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVET--VE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (159)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCcccCCCCCcceEE--EE--ECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEe
Confidence            48999999999999999999888777677777765432  22  246889999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHH-HHHHH----HcCCeEEEecccCCcCHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEG-MILAQ----EHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~----~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++++.++..+...|...+.... ....|+++++||+|+.+.  ...++. ..+..    ...+.++++||++|.|++++|
T Consensus        77 ~~~~~s~~~~~~~~~~~~~~~~-~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~  153 (159)
T cd04150          77 SNDRERIGEAREELQRMLNEDE-LRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGL  153 (159)
T ss_pred             CCCHHHHHHHHHHHHHHHhcHH-hcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHH
Confidence            9999999988866665554322 346899999999998543  222222 22211    123457899999999999999


Q ss_pred             HHHHH
Q 028315          169 KDLLY  173 (210)
Q Consensus       169 ~~i~~  173 (210)
                      +||.+
T Consensus       154 ~~l~~  158 (159)
T cd04150         154 DWLSN  158 (159)
T ss_pred             HHHhc
Confidence            99864

This subfamily contains Arf1, Arf2, Arf3, Arf4, Arf5, and related proteins. Arfs1-5 are soluble proteins that are crucial for assembling coat proteins during vesicle formation. Each contains an N-terminal myristoylated amphipathic helix that is folded into the protein in the GDP-bound state. GDP/GTP exchange exposes the helix, which anchors to the membrane. Following GTP hydrolysis, the helix dissociates from the membrane and folds back into the protein. A general feature of Arf1-5 signaling may be the cooperation of two Arfs at the same site. Arfs1-5 are generally considered to be interchangeable in function and location, but some specific functions have been assigned. Arf1 localizes to the early/cis-Golgi, where it is activated by GBF1 and recruits the coat protein COPI. It also localizes to the trans-Golgi network (TGN), where it is activated by BIG1/BIG2 and recruits the AP1, AP3, AP4, and GGA proteins. Humans, but not rodents

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.97  E-value=8.1e-30  Score=185.94  Aligned_cols=161  Identities=25%  Similarity=0.390  Sum_probs=124.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ..+||+++|++|||||||++++..+.+..+.||.+.++..    ++...+.+++|||||++.+...+..+++++|++|+|
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~~~~T~~~~~~~----~~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v   91 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVTTIPTIGFNVET----VEYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFV   91 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccccCCccccceEE----EEECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEE
Confidence            4689999999999999999999888777666777765542    223468899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|++++.++......+...+.... ....|++||+||.|+.+.  +..++......     ...+.++++||++|.|+++
T Consensus        92 ~D~t~~~s~~~~~~~l~~~~~~~~-~~~~piilv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e  168 (182)
T PTZ00133         92 VDSNDRERIGDAREELERMLSEDE-LRDAVLLVFANKQDLPNA--MSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYE  168 (182)
T ss_pred             EeCCCHHHHHHHHHHHHHHHhCHh-hcCCCEEEEEeCCCCCCC--CCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHH
Confidence            999999999988865655554322 346899999999998542  23332222111     1123577999999999999


Q ss_pred             HHHHHHHHHHccc
Q 028315          167 CFKDLLYKILEVP  179 (210)
Q Consensus       167 l~~~i~~~~~~~~  179 (210)
                      +|+||.+.+.+..
T Consensus       169 ~~~~l~~~i~~~~  181 (182)
T PTZ00133        169 GLDWLSANIKKSM  181 (182)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999887654

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.97  E-value=4.1e-29  Score=182.00  Aligned_cols=165  Identities=36%  Similarity=0.571  Sum_probs=137.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .||+++|++|+|||||++++.+..+.. +.++....+ .....+.+..+.+.+|||||++.+...+..++..+|++++||
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVY   80 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEE
Confidence            689999999999999999999888765 555554433 344566777889999999999999989999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |+++..+++.+..+|...+... ...+.|+++|+||+|+...+.+..++...+...++.+++++||+++.|+.++|.++.
T Consensus        81 d~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~  159 (180)
T cd04137          81 SVTSRKSFEVVKVIYDKILDML-GKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLI  159 (180)
T ss_pred             ECCCHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999986555555543 246789999999999976666777677777788888999999999999999999999


Q ss_pred             HHHHccch
Q 028315          173 YKILEVPS  180 (210)
Q Consensus       173 ~~~~~~~~  180 (210)
                      +.+...+.
T Consensus       160 ~~~~~~~~  167 (180)
T cd04137         160 EEIEKVEN  167 (180)
T ss_pred             HHHHHhcC
Confidence            98875543

Rheb was initially identified in rat brain, where its expression is elevated by seizures or by long-term potentiation. It is expressed ubiquitously, with elevated levels in muscle and brain. Rheb functions as an important mediator between the tuberous sclerosis complex proteins, TSC1 and TSC2, and the mammalian target of rapamycin (TOR) kinase to stimulate cell growth. TOR kinase regulates cell growth by controlling nutrient availability, growth factors, and the energy status of the cell. TSC1 and TSC2 form a dimeric complex that has tumor suppressor activity, and TSC2 is a GTPase activating protein (GAP) for Rheb. The TSC1/TSC2 complex inhibits the activation of TOR kinase through Rheb. Rheb has also been shown to induce the formation of large cytoplasmic vacuoles in a process that is dependent on the GTPase cycle of Rheb, but independent of the TOR kinase, suggesting Rheb plays a role in endocytic trafficking that le

>cd00876 Ras Ras family

Probab=99.97  E-value=3.7e-29  Score=178.49  Aligned_cols=158  Identities=38%  Similarity=0.649  Sum_probs=134.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      ||+++|++|+|||||++++++..+.. +.++.. +.......+.+..+.+.+||+||++.+...+..+++.+|++++|+|
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d   79 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYS   79 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEE
Confidence            68999999999999999999887655 445544 5555566677778999999999999998899999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      +++++++..+.. |...+.........|+++|+||+|+...+.+..+++..+...++.+++++||+++.|++++|++|.+
T Consensus        80 ~~~~~s~~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~  158 (160)
T cd00876          80 ITDRESFEEIKG-YREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVR  158 (160)
T ss_pred             CCCHHHHHHHHH-HHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHh
Confidence            999999999884 4444444442368999999999999876777888888888888899999999999999999999987


Q ss_pred             H
Q 028315          174 K  174 (210)
Q Consensus       174 ~  174 (210)
                      .
T Consensus       159 ~  159 (160)
T cd00876         159 E  159 (160)
T ss_pred             h
Confidence            5

The Ras family of the Ras superfamily includes classical N-Ras, H-Ras, and K-Ras, as well as R-Ras, Rap, Ral, Rheb, Rhes, ARHI, RERG, Rin/Rit, RSR1, RRP22, Ras2, Ras-dva, and RGK proteins. Ras proteins regulate cell growth, proliferation and differentiation. Ras is activated by guanine nucleotide exchange factors (GEFs) that release GDP and allow GTP binding. Many RasGEFs have been identified. These are sequestered in the cytosol until activation by growth factors triggers recruitment to the plasma membrane or Golgi, where the GEF colocalizes with Ras. Active GTP-bound Ras interacts with several effector proteins: among the best characterized are the Raf kinases, phosphatidylinositol 3-kinase (PI3K), RalGEFs and NORE/MST1. Most Ras proteins contain a lipid modification site at the C-terminus, with a typical sequence motif CaaX, where a = an aliphatic amino acid and X = any amino acid. Lipid binding is essential for membrane attachment, a key feature of m

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.97  E-value=2.1e-29  Score=184.32  Aligned_cols=167  Identities=36%  Similarity=0.559  Sum_probs=149.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..+||+++|.+|+|||+|..++.++.|.+ +.|++. +.+...+.+++..+.+.++||+|++.+..+...+++++|++++
T Consensus         2 ~~~kvvvlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~l   80 (196)
T KOG0395|consen    2 REYKVVVLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLL   80 (196)
T ss_pred             CceEEEEECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEE
Confidence            46899999999999999999999999988 566665 7777888999999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      ||+++++.||+.+.. ++..+.+.......|+++|+||+|+.+.+.+..++++.++..++++++++||+.+.+++++|..
T Consensus        81 Vysitd~~SF~~~~~-l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~  159 (196)
T KOG0395|consen   81 VYSITDRSSFEEAKQ-LREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYE  159 (196)
T ss_pred             EEECCCHHHHHHHHH-HHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHH
Confidence            999999999999994 5555544444567899999999999998999999999999999999999999999999999999


Q ss_pred             HHHHHHccch
Q 028315          171 LLYKILEVPS  180 (210)
Q Consensus       171 i~~~~~~~~~  180 (210)
                      |++.+...+.
T Consensus       160 L~r~~~~~~~  169 (196)
T KOG0395|consen  160 LVREIRLPRE  169 (196)
T ss_pred             HHHHHHhhhc
Confidence            9998876333

>cd04154 Arl2 Arl2 subfamily

Probab=99.97  E-value=1.7e-29  Score=183.00  Aligned_cols=157  Identities=24%  Similarity=0.360  Sum_probs=122.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+..++|+++|++|+|||||++++.+..+..+.++.+....  .+.++  .+.+.+|||||++.+...+..+++.+|+++
T Consensus        11 ~~~~~kv~ivG~~~~GKTsL~~~l~~~~~~~~~~t~g~~~~--~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i   86 (173)
T cd04154          11 KEREMRILILGLDNAGKTTILKKLLGEDIDTISPTLGFQIK--TLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALI   86 (173)
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHccCCCCCcCCccccceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEE
Confidence            35679999999999999999999998866667777764333  33343  578999999999998889999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDV  164 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i  164 (210)
                      +|+|++++.++.....++...+.... ..+.|+++|+||+|+.+..  ..++...+..     ..+++++++||++|.|+
T Consensus        87 ~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  163 (173)
T cd04154          87 WVVDSSDRLRLDDCKRELKELLQEER-LAGATLLILANKQDLPGAL--SEEEIREALELDKISSHHWRIQPCSAVTGEGL  163 (173)
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhChh-hcCCCEEEEEECcccccCC--CHHHHHHHhCccccCCCceEEEeccCCCCcCH
Confidence            99999999999888744444433222 3679999999999986543  3444444432     23568999999999999


Q ss_pred             HHHHHHHHH
Q 028315          165 KQCFKDLLY  173 (210)
Q Consensus       165 ~~l~~~i~~  173 (210)
                      +++|+++.+
T Consensus       164 ~~l~~~l~~  172 (173)
T cd04154         164 LQGIDWLVD  172 (173)
T ss_pred             HHHHHHHhc
Confidence            999999864

Arl2 (Arf-like 2) GTPases are members of the Arf family that bind GDP and GTP with very low affinity. Unlike most Arf family proteins, Arl2 is not myristoylated at its N-terminal helix. The protein PDE-delta, first identified in photoreceptor rod cells, binds specifically to Arl2 and is structurally very similar to RhoGDI. Despite the high structural similarity between Arl2 and Rho proteins and between PDE-delta and RhoGDI, the interactions between the GTPases and their effectors are very different. In its GTP bound form, Arl2 interacts with the protein Binder of Arl2 (BART), and the complex is believed to play a role in mitochondrial adenine nucleotide transport. In its GDP bound form, Arl2 interacts with tubulin- folding Cofactor D; this interaction is believed to play a role in regulation of microtubule dynamics that impact the cytoskeleton, cell division, and cytokinesis.

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=99.97  E-value=2.9e-31  Score=175.47  Aligned_cols=164  Identities=36%  Similarity=0.632  Sum_probs=150.0

Q ss_pred             EEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCC
Q 028315           18 LIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVT   95 (210)
Q Consensus        18 i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   95 (210)
                      ++|++++|||+|+-|+..+.|-.  ...+.++++-.+.+..++..+.+++|||+|+++|++....+++.+|+.+++||+.
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydia   81 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIA   81 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecc
Confidence            68999999999999988777655  6788899999999999999999999999999999999999999999999999999


Q ss_pred             CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHH
Q 028315           96 RRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      +..+|++.. .|+..+..+. +..+.+.+++||+|+.+++.+..++.+.+++.+++|++++||++|.|++..|-.|.+.+
T Consensus        82 nkasfdn~~-~wlsei~ey~-k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l  159 (192)
T KOG0083|consen   82 NKASFDNCQ-AWLSEIHEYA-KEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEEL  159 (192)
T ss_pred             cchhHHHHH-HHHHHHHHHH-HhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHH
Confidence            999999999 8999988877 56778899999999999999999999999999999999999999999999999999998


Q ss_pred             Hccchhhh
Q 028315          176 LEVPSLLE  183 (210)
Q Consensus       176 ~~~~~~~~  183 (210)
                      .+..-..+
T Consensus       160 ~k~~~~~~  167 (192)
T KOG0083|consen  160 KKLKMGAP  167 (192)
T ss_pred             HHhccCCC
Confidence            76554433

>cd01893 Miro1 Miro1 subfamily

Probab=99.97  E-value=6.6e-29  Score=178.67  Aligned_cols=161  Identities=30%  Similarity=0.405  Sum_probs=126.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|.+|||||||+++|.++.+....++..... .....+++..+.+.+|||||.+.+...+..++..+|++++|||
T Consensus         1 ~kv~ivG~~~vGKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d   79 (166)
T cd01893           1 VRIVLIGDEGVGKSSLIMSLVSEEFPENVPRVLPEI-TIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYS   79 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCccCCCcccce-EeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEE
Confidence            489999999999999999999988866444333222 2333556678899999999998887777788899999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHHHHHHHc-C-CeEEEecccCCcCHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGMILAQEH-K-CLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~-~-~~~~~~sa~~~~~i~~l~~  169 (210)
                      ++++.+++.+...|...+....  .+.|+++|+||+|+.+.....  .++...+...+ + .+++++||++|.|++++|.
T Consensus        80 ~~~~~s~~~~~~~~~~~i~~~~--~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~  157 (166)
T cd01893          80 VDRPSTLERIRTKWLPLIRRLG--VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFY  157 (166)
T ss_pred             CCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHH
Confidence            9999999998767888877654  478999999999997654321  23333333333 2 3799999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      .+.+.+..
T Consensus       158 ~~~~~~~~  165 (166)
T cd01893         158 YAQKAVLH  165 (166)
T ss_pred             HHHHHhcC
Confidence            99887753

Miro (mitochondrial Rho) proteins have tandem GTP-binding domains separated by a linker region containing putative calcium-binding EF hand motifs. Genes encoding Miro-like proteins were found in several eukaryotic organisms. This CD represents the N-terminal GTPase domain of Miro proteins. These atypical Rho GTPases have roles in mitochondrial homeostasis and apoptosis. Most Rho proteins contain a lipid modification site at the C-terminus; however, Miro is one of few Rho subfamilies that lack this feature.

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.97  E-value=1.4e-29  Score=181.67  Aligned_cols=167  Identities=34%  Similarity=0.557  Sum_probs=151.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .+.+|++++|+..+|||+|+-.+..+.|+. +.||.. +-+...+.++ +..+.+.+|||+|++.|+.++...|..+|++
T Consensus         2 ~~~~K~VvVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvf   80 (198)
T KOG0393|consen    2 SRRIKCVVVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVF   80 (198)
T ss_pred             ceeeEEEEECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEE
Confidence            467999999999999999999999999988 888887 5566667884 9999999999999999999998899999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEE
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLE  155 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~  155 (210)
                      ++||++.++.+|+++...|.+.+..+.  ++.|+++||+|.||.+.            ..+..++++.+++..|+ .|++
T Consensus        81 l~cfsv~~p~S~~nv~~kW~pEi~~~c--p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~E  158 (198)
T KOG0393|consen   81 LLCFSVVSPESFENVKSKWIPEIKHHC--PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLE  158 (198)
T ss_pred             EEEEEcCChhhHHHHHhhhhHHHHhhC--CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeee
Confidence            999999999999999999999999887  89999999999999742            46778889999999995 5999


Q ss_pred             ecccCCcCHHHHHHHHHHHHHccch
Q 028315          156 CSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      |||++..|++++|+..+..++..++
T Consensus       159 cSa~tq~~v~~vF~~a~~~~l~~~~  183 (198)
T KOG0393|consen  159 CSALTQKGVKEVFDEAIRAALRPPQ  183 (198)
T ss_pred             ehhhhhCCcHHHHHHHHHHHhcccc
Confidence            9999999999999999999987665

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.97  E-value=5.9e-28  Score=180.70  Aligned_cols=176  Identities=28%  Similarity=0.497  Sum_probs=147.7

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ......+||+++|++|||||||++++..+.+.. +.++.+.++....+..++..+.+.+|||+|++.+...+..+++.++
T Consensus         4 ~~~~~~~kv~liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~   83 (215)
T PTZ00132          4 MDEVPEFKLILVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQ   83 (215)
T ss_pred             ccCCCCceEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCC
Confidence            344567999999999999999999988888765 8899998888877777888999999999999999989999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++++|||+++..+|..+. .|...+....  .+.|+++++||+|+.+. .+..+ ...+....++.++++||++|.|+++
T Consensus        84 ~~i~v~d~~~~~s~~~~~-~~~~~i~~~~--~~~~i~lv~nK~Dl~~~-~~~~~-~~~~~~~~~~~~~e~Sa~~~~~v~~  158 (215)
T PTZ00132         84 CAIIMFDVTSRITYKNVP-NWHRDIVRVC--ENIPIVLVGNKVDVKDR-QVKAR-QITFHRKKNLQYYDISAKSNYNFEK  158 (215)
T ss_pred             EEEEEEECcCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECccCccc-cCCHH-HHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999998 6777665543  56899999999998643 33333 3456667788999999999999999


Q ss_pred             HHHHHHHHHHccchhhhccccc
Q 028315          167 CFKDLLYKILEVPSLLEQGSAV  188 (210)
Q Consensus       167 l~~~i~~~~~~~~~~~~~~~~~  188 (210)
                      .|.+|.+.+...+..+-.+++.
T Consensus       159 ~f~~ia~~l~~~p~~~~ldEp~  180 (215)
T PTZ00132        159 PFLWLARRLTNDPNLVFVGAPA  180 (215)
T ss_pred             HHHHHHHHHhhcccceecCCcc
Confidence            9999999999887766555444

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.96  E-value=3.5e-29  Score=179.72  Aligned_cols=151  Identities=23%  Similarity=0.334  Sum_probs=119.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      |+++|++|||||||+++|.+..+.. +.|+.+...    ..++...+.+.+||+||++.+...+..+++++|++++|||+
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~   77 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDS   77 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEEC
Confidence            7899999999999999999887655 667776543    24455678999999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH----HHHHHHHHHcCCeEEEecccC------CcCH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR----EEGMILAQEHKCLFLECSAKN------TEDV  164 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~----~~~~~~~~~~~~~~~~~sa~~------~~~i  164 (210)
                      +++.++.... .|...+...  ..+.|+++|+||.|+...+.+..    .+...++...++.++++||++      ++||
T Consensus        78 t~~~s~~~~~-~~l~~~~~~--~~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v  154 (164)
T cd04162          78 ADSERLPLAR-QELHQLLQH--PPDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAV  154 (164)
T ss_pred             CCHHHHHHHH-HHHHHHHhC--CCCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHH
Confidence            9999998887 444444322  26799999999999976553321    123444555677899999998      9999


Q ss_pred             HHHHHHHHH
Q 028315          165 KQCFKDLLY  173 (210)
Q Consensus       165 ~~l~~~i~~  173 (210)
                      +++|+.++.
T Consensus       155 ~~~~~~~~~  163 (164)
T cd04162         155 KDLLSQLIN  163 (164)
T ss_pred             HHHHHHHhc
Confidence            999988763

Arl9 (Arf-like 9) was first identified as part of the Human Cancer Genome Project. It maps to chromosome 4q12 and is sometimes referred to as Arfrp2 (Arf-related protein 2). This is a novel subfamily identified in human cancers that is uncharacterized to date.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.96  E-value=2.6e-28  Score=176.90  Aligned_cols=155  Identities=25%  Similarity=0.412  Sum_probs=121.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ..+||+++|++|+|||||++++..+.+..+.++.+.++..  ...  ..+.+.+|||||++.+...+..+++.+|++++|
T Consensus        14 ~~~kv~~~G~~~~GKTsl~~~l~~~~~~~~~~t~~~~~~~--~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V   89 (174)
T cd04153          14 KEYKVIIVGLDNAGKTTILYQFLLGEVVHTSPTIGSNVEE--IVY--KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILV   89 (174)
T ss_pred             CccEEEEECCCCCCHHHHHHHHccCCCCCcCCccccceEE--EEE--CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEE
Confidence            3589999999999999999999988887777777766542  223  357899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHH-HHHH----HHcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEG-MILA----QEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~----~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|++++.++......+...+.... ..+.|+++++||+|+...  ...++. ..+.    ...+++++++||++|.|+++
T Consensus        90 ~D~s~~~~~~~~~~~l~~~~~~~~-~~~~p~viv~NK~Dl~~~--~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e  166 (174)
T cd04153          90 IDSTDRERLPLTKEELYKMLAHED-LRKAVLLVLANKQDLKGA--MTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPE  166 (174)
T ss_pred             EECCCHHHHHHHHHHHHHHHhchh-hcCCCEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEecccCCCCCHHH
Confidence            999999988877755555544322 356899999999998542  333332 2222    22345799999999999999


Q ss_pred             HHHHHHH
Q 028315          167 CFKDLLY  173 (210)
Q Consensus       167 l~~~i~~  173 (210)
                      +|++|.+
T Consensus       167 ~~~~l~~  173 (174)
T cd04153         167 GLDWIAS  173 (174)
T ss_pred             HHHHHhc
Confidence            9999865

Arl5 (Arf-like 5) and Arl8, like Arl4 and Arl7, are localized to the nucleus and nucleolus. Arl5 is developmentally regulated during embryogenesis in mice. Human Arl5 interacts with the heterochromatin protein 1-alpha (HP1alpha), a nonhistone chromosomal protein that is associated with heterochromatin and telomeres, and prevents telomere fusion. Arl5 may also play a role in embryonic nuclear dynamics and/or signaling cascades. Arl8 was identified from a fetal cartilage cDNA library. It is found in brain, heart, lung, cartilage, and kidney. No function has been assigned for Arl8 to date.

>cd04151 Arl1 Arl1 subfamily

Probab=99.96  E-value=8.1e-29  Score=176.80  Aligned_cols=152  Identities=26%  Similarity=0.359  Sum_probs=116.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      ||+++|++++|||||++++..+.+....++.+.+...    ++...+.+++|||||++.+...+..+++.+|++++|+|+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~~~~t~~~~~~~----~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~   76 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVTTIPTIGFNVET----VTYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDS   76 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcCcCCccCcCeEE----EEECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEEC
Confidence            6899999999999999999887776666666655432    223457899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HHHH----HcCCeEEEecccCCcCHHHHHH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-ILAQ----EHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +++.++......|...+.... ..+.|+++|+||+|+.+..  ...+.. .+..    ..+.+++++||++|.|++++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~-~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  153 (158)
T cd04151          77 TDRDRLGTAKEELHAMLEEEE-LKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMD  153 (158)
T ss_pred             CCHHHHHHHHHHHHHHHhchh-hcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHH
Confidence            999888776655655554322 3578999999999986432  222222 1211    1234699999999999999999


Q ss_pred             HHHH
Q 028315          170 DLLY  173 (210)
Q Consensus       170 ~i~~  173 (210)
                      +|.+
T Consensus       154 ~l~~  157 (158)
T cd04151         154 WLVN  157 (158)
T ss_pred             HHhc
Confidence            9875

Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability.

>cd00879 Sar1 Sar1 subfamily

Probab=99.96  E-value=6e-28  Score=177.33  Aligned_cols=157  Identities=23%  Similarity=0.328  Sum_probs=123.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.++|+++|++|||||||++++.+..+..+.++.+....  .+.++  +..+.+||+||++.+...+..+++.+|++++
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~~~~~T~~~~~~--~i~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iil   92 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLAQHVPTLHPTSE--ELTIG--NIKFKTFDLGGHEQARRLWKDYFPEVDGIVF   92 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCcccCCccCcceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEE
Confidence            3568999999999999999999998887666666665433  33344  4678999999999988888999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH----------------cCCeEE
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE----------------HKCLFL  154 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----------------~~~~~~  154 (210)
                      |+|+++..++.....++...+.. ....+.|+++++||+|+.+  .+..++.+.+...                ....++
T Consensus        93 V~D~~~~~s~~~~~~~~~~i~~~-~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  169 (190)
T cd00879          93 LVDAADPERFQESKEELDSLLSD-EELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVF  169 (190)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcC-ccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEE
Confidence            99999998888777444444432 2235689999999999854  4555555555432                224689


Q ss_pred             EecccCCcCHHHHHHHHHHH
Q 028315          155 ECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~  174 (210)
                      +|||++|.|++++|.||.+.
T Consensus       170 ~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         170 MCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             EeEecCCCChHHHHHHHHhh
Confidence            99999999999999999875

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=2.3e-27  Score=174.75  Aligned_cols=147  Identities=29%  Similarity=0.464  Sum_probs=123.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-----CeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-----GKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +||+++|+.+||||||++++.++.+.. +.+|.+.++....+.+.     +..+.+.+|||+|++.|..++..+++++|+
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~   80 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNG   80 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCE
Confidence            589999999999999999999998877 77888877777666653     467899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhc------------------cCCCCcEEEEEeCCCCCCCCccCHHH----HHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYS------------------TNQDCVKILVGNKVDRDSERAVTREE----GMIL  145 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~------------------~~~~~p~ivv~nK~Dl~~~~~~~~~~----~~~~  145 (210)
                      +|+|||++++.+|+.+. .|+..+....                  ...+.|+++|+||.|+.+.+.+..+.    ...+
T Consensus        81 iIlVyDvtn~~Sf~~l~-~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~i  159 (202)
T cd04102          81 IILVHDLTNRKSSQNLQ-RWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFV  159 (202)
T ss_pred             EEEEEECcChHHHHHHH-HHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhH
Confidence            99999999999999998 7877775432                  12468999999999997766665543    4456


Q ss_pred             HHHcCCeEEEecccCC
Q 028315          146 AQEHKCLFLECSAKNT  161 (210)
Q Consensus       146 ~~~~~~~~~~~sa~~~  161 (210)
                      +...+++.++.++++.
T Consensus       160 a~~~~~~~i~~~c~~~  175 (202)
T cd04102         160 AEQGNAEEINLNCTNG  175 (202)
T ss_pred             HHhcCCceEEEecCCc
Confidence            7888999999998854

RabL3s are novel proteins that have high sequence similarity with Rab family members, but display features that are distinct from Rabs, and have been termed Rab-like. As in other Rab-like proteins, RabL3 lacks a prenylation site at the C-terminus. The specific function of RabL3 remains unknown.

>PF00025 Arf: ADP-ribosylation factor family The prints entry specific to Sar1 proteins The Prosite entry specific to Sar1 proteins; InterPro: IPR006689 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.96  E-value=1.2e-27  Score=173.36  Aligned_cols=158  Identities=30%  Similarity=0.445  Sum_probs=128.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+++||+++|..|||||||++++..+......||.+.+...  +.+  .++.+.+||.+|+..++..|+.++..+|++|+
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~~~pT~g~~~~~--i~~--~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIf   87 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISETIPTIGFNIEE--IKY--KGYSLTIWDLGGQESFRPLWKSYFQNADGIIF   87 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEEEEEESSEEEEE--EEE--TTEEEEEEEESSSGGGGGGGGGGHTTESEEEE
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccccCcccccccce--eee--CcEEEEEEeccccccccccceeeccccceeEE
Confidence            67899999999999999999999887766677777766553  333  45678999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH------HcCCeEEEecccCCcCH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ------EHKCLFLECSAKNTEDV  164 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~------~~~~~~~~~sa~~~~~i  164 (210)
                      |+|.++.+.+.+....+...+.... ..++|++|++||.|+.+.  +..++......      ...+.++.|||.+|.|+
T Consensus        88 VvDssd~~~l~e~~~~L~~ll~~~~-~~~~piLIl~NK~D~~~~--~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv  164 (175)
T PF00025_consen   88 VVDSSDPERLQEAKEELKELLNDPE-LKDIPILILANKQDLPDA--MSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGV  164 (175)
T ss_dssp             EEETTGGGGHHHHHHHHHHHHTSGG-GTTSEEEEEEESTTSTTS--STHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTH
T ss_pred             EEecccceeecccccchhhhcchhh-cccceEEEEeccccccCc--chhhHHHhhhhhhhcccCCceEEEeeeccCCcCH
Confidence            9999999999888866666665443 468999999999998653  44444443322      12345999999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          165 KQCFKDLLYKI  175 (210)
Q Consensus       165 ~~l~~~i~~~~  175 (210)
                      .+.++||.+.+
T Consensus       165 ~e~l~WL~~~~  175 (175)
T PF00025_consen  165 DEGLEWLIEQI  175 (175)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHhcC
Confidence            99999999875

This superfamily contains proteins that control a vast number of important processes and possess a common, structurally preserved GTP-binding domain [, ]. Sequence comparisons of small G proteins from various species have revealed that they are conserved in primary structures at the level of 30-55% similarity []. Crystallographic analysis of various small G proteins revealed the presence of a 20 kDa catalytic domain that is unique for the whole superfamily [, ]. The domain is built of five alpha helices (A1-A5), six beta-strands (B1-B6) and five polypeptide loops (G1-G5). A structural comparison of the GTP- and GDP-bound form, allows one to distinguish two functional loop regions: switch I and switch II that surround the gamma-phosphate group of the nucleotide. The G1 loop (also called the P-loop) that connects the B1 strand and the A1 helix is responsible for the binding of the phosphate groups. The G3 loop provides residues for Mg(2+) and phosphate binding and is located at the N terminus of the A2 helix. The G1 and G3 loops are sequentially similar to Walker A and Walker B boxes that are found in other nucleotide binding motifs. The G2 loop connects the A1 helix and the B2 strand and contains a conserved Thr residue responsible for Mg(2+) binding. The guanine base is recognised by the G4 and G5 loops. The consensus sequence NKXD of the G4 loop contains Lys and Asp residues directly interacting with the nucleotide. Part of the G5 loop located between B6 and A5 acts as a recognition site for the guanine base []. The small GTPase superfamily can be divided into at least 8 different families, including: Arf small GTPases. GTP-binding proteins involved in protein trafficking by modulating vesicle budding and uncoating within the Golgi apparatus. Ran small GTPases. GTP-binding proteins involved in nucleocytoplasmic transport. Required for the import of proteins into the nucleus and also for RNA export. Rab small GTPases. GTP-binding proteins involved in vesicular traffic. Rho small GTPases. GTP-binding proteins that control cytoskeleton reorganisation. Ras small GTPases. GTP-binding proteins involved in signalling pathways. Sar1 small GTPases. Small GTPase component of the coat protein complex II (COPII) which promotes the formation of transport vesicles from the endoplasmic reticulum (ER). Mitochondrial Rho (Miro). Small GTPase domain found in mitochondrial proteins involved in mitochondrial trafficking. Roc small GTPases domain. Small GTPase domain always found associated with the COR domain. This entry represents a branch of the small GTPase superfamily that includes the ADP ribosylation factor Arf, Arl (Arf-like), Arp (Arf-related proteins) and the remotely related Sar (Secretion-associated and Ras-related) proteins. Arf proteins are major regulators of vesicle biogenesis in intracellular traffic []. They cycle between inactive GDP-bound and active GTP-bound forms that bind selectively to effectors. The classical structural GDP/GTP switch is characterised by conformational changes at the so-called switch 1 and switch 2 regions, which bind tightly to the gamma-phosphate of GTP but poorly or not at all to the GDP nucleotide. Structural studies of Arf1 and Arf6 have revealed that although these proteins feature the switch 1 and 2 conformational changes, they depart from other small GTP-binding proteins in that they use an additional, unique switch to propagate structural information from one side of the protein to the other. The GDP/GTP structural cycles of human Arf1 and Arf6 feature a unique conformational change that affects the beta2-beta3 strands connecting switch 1 and switch 2 (interswitch) and also the amphipathic helical N terminus. In GDP-bound Arf1 and Arf6, the interswitch is retracted and forms a pocket to which the N-terminal helix binds, the latter serving as a molecular hasp to maintain the inactive conformation. In the GTP-bound form of these proteins, the interswitch undergoes a two-residue register shift that pulls switch 1 and switch 2 up, restoring an active conformation that can bind GTP. In this conformation, the interswitch projects out of the protein and extrudes the N-terminal hasp by occluding its binding pocket.; GO: 0005525 GTP binding; PDB: 2H57_B 2W83_B 3N5C_B 2J5X_A 3LVR_E 2BAO_A 3LVQ_E 2A5F_A 3PCR_B 1E0S_A ....

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.96  E-value=7.4e-28  Score=172.05  Aligned_cols=153  Identities=25%  Similarity=0.418  Sum_probs=117.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      +|+++|++|||||||++++.+..+....++.+.+...  +.. ...+.+.+|||||++.+...+..++..+|++++|+|+
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~~~t~~~~~~~--~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~   77 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTTIPTVGFNVEM--LQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDS   77 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccccCccCcceEE--EEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEEC
Confidence            5899999999999999999998887766777655432  222 3457899999999999988899999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH------HHcCCeEEEecccCCcCHHHHH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA------QEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~------~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      +++.++.....++...+.... ..+.|+++|+||+|+...  ...++.....      ...+.++++|||++|.|++++|
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~  154 (160)
T cd04156          78 SDEARLDESQKELKHILKNEH-IKGVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAF  154 (160)
T ss_pred             CcHHHHHHHHHHHHHHHhchh-hcCCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHH
Confidence            999988888744444443322 357999999999998542  2233332221      1224569999999999999999


Q ss_pred             HHHHH
Q 028315          169 KDLLY  173 (210)
Q Consensus       169 ~~i~~  173 (210)
                      ++|.+
T Consensus       155 ~~i~~  159 (160)
T cd04156         155 RKLAS  159 (160)
T ss_pred             HHHhc
Confidence            99864

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in h

>cd04157 Arl6 Arl6 subfamily

Probab=99.96  E-value=2.7e-28  Score=174.59  Aligned_cols=152  Identities=21%  Similarity=0.276  Sum_probs=114.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC-C-CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV-H-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +|+++|++|||||||++++.+..+ . .+.|+.+.+...    +....+.+.+|||||++.+...+..+++.+|++++|+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~   76 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES----FEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVI   76 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceecCccccceEE----EEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEE
Confidence            589999999999999999988753 3 366777754432    2234678999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhc--cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYS--TNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~--~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++.++.... .|...+....  ...+.|+++|+||+|+.+..  ..++......     ....+++++||++|.|++
T Consensus        77 D~~~~~~~~~~~-~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~  153 (162)
T cd04157          77 DSSDRLRLVVVK-DELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLD  153 (162)
T ss_pred             eCCcHHHHHHHH-HHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchH
Confidence            999999888777 4444432221  13579999999999986532  2222222111     113358999999999999


Q ss_pred             HHHHHHHH
Q 028315          166 QCFKDLLY  173 (210)
Q Consensus       166 ~l~~~i~~  173 (210)
                      ++|++|.+
T Consensus       154 ~~~~~l~~  161 (162)
T cd04157         154 EGVQWLQA  161 (162)
T ss_pred             HHHHHHhc
Confidence            99999864

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that A

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.96  E-value=9.3e-28  Score=171.24  Aligned_cols=152  Identities=26%  Similarity=0.401  Sum_probs=120.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      ||+++|.+|+|||||++++.+..+....++.+.+....  .+  ..+.+.+||+||++.+...+..+++.+|++++|+|+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~~~~~~t~~~~~~~~--~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~   76 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEVVTTIPTIGFNVETV--EY--KNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDS   76 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCCCCCCCCcCcceEEE--EE--CCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEEC
Confidence            68999999999999999999988666777777655432  22  257899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHHHHHH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +++.++.....++...+.... ..+.|+++++||+|+....  ..++......     ...++++++||++|.|++++|+
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~~-~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~  153 (158)
T cd00878          77 SDRERIEEAKEELHKLLNEEE-LKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLD  153 (158)
T ss_pred             CCHHHHHHHHHHHHHHHhCcc-cCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHH
Confidence            999999988855555544332 4689999999999986543  2223332222     2345799999999999999999


Q ss_pred             HHHH
Q 028315          170 DLLY  173 (210)
Q Consensus       170 ~i~~  173 (210)
                      +|..
T Consensus       154 ~l~~  157 (158)
T cd00878         154 WLLQ  157 (158)
T ss_pred             HHhh
Confidence            9875

Arf proteins are activators of phospholipase D isoforms. Unlike Ras proteins they lack cysteine residues at their C-termini and therefore are unlikely to be prenylated. Arfs are N-terminally myristoylated. Members of the Arf family are regulators of vesicle formation in intracellular traffic that interact reversibly with membranes of the secretory and endocytic compartments in a GTP-dependent manner. They depart from other small GTP-binding proteins by a unique structural device, interswitch toggle, that implements front-back communication from N-terminus to the nucleotide binding site. Arf-like (Arl) proteins are close relatives of the Arf, but only Arl1 has been shown to function in membrane traffic like the Arf proteins. Arl2 has an unrelated function in the folding of native tubulin, and Arl4 may function in the nucleus. Most other Arf family proteins are so far relatively poorly characterized. Thu

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=7.9e-28  Score=173.22  Aligned_cols=154  Identities=21%  Similarity=0.339  Sum_probs=115.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      +|+++|++|||||||++++.+.....+.|+.+.+..  .+..  ..+.+++||+||++.+...+..+++++|++++|||+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~~~~~~~t~g~~~~--~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~   76 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEIPKKVAPTVGFTPT--KLRL--DKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDS   76 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCCccccCcccceEE--EEEE--CCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEEC
Confidence            479999999999999999987733347778776533  2333  457899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH-HHH---HHHHHHc--CCeEEEecccCC------c
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR-EEG---MILAQEH--KCLFLECSAKNT------E  162 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~-~~~---~~~~~~~--~~~~~~~sa~~~------~  162 (210)
                      +++.+++.+. .|+..+.......+.|+++|+||.|+.+.+.... .+.   ..++...  .+.+++|||++|      .
T Consensus        77 s~~~s~~~~~-~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~  155 (167)
T cd04161          77 SDDDRVQEVK-EILRELLQHPRVSGKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDP  155 (167)
T ss_pred             CchhHHHHHH-HHHHHHHcCccccCCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCcccc
Confidence            9999999888 4544444332235789999999999976542111 111   1222222  245788999998      8


Q ss_pred             CHHHHHHHHHH
Q 028315          163 DVKQCFKDLLY  173 (210)
Q Consensus       163 ~i~~l~~~i~~  173 (210)
                      |+++.|+||.+
T Consensus       156 g~~~~~~wl~~  166 (167)
T cd04161         156 SIVEGLRWLLA  166 (167)
T ss_pred             CHHHHHHHHhc
Confidence            99999999975

Arl2l1 (Arl2-like protein 1) and Arl13 form a subfamily of the Arf family of small GTPases. Arl2l1 was identified in human cells during a search for the gene(s) responsible for Bardet-Biedl syndrome (BBS). Like Arl6, the identified BBS gene, Arl2l1 is proposed to have cilia-specific functions. Arl13 is found on the X chromosome, but its expression has not been confirmed; it may be a pseudogene.

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=8.8e-27  Score=168.66  Aligned_cols=143  Identities=39%  Similarity=0.604  Sum_probs=126.0

Q ss_pred             CCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc
Q 028315           37 SVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS  115 (210)
Q Consensus        37 ~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~  115 (210)
                      .|.+ +.+|.+.++....+.+++..+.+.||||||++.+..++..+++++|++|+|||++++.+|+.+. .|+..+....
T Consensus         4 ~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~-~w~~~i~~~~   82 (176)
T PTZ00099          4 TFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTT-KWIQDILNER   82 (176)
T ss_pred             CcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHH-HHHHHHHHhc
Confidence            4555 7899999998888889999999999999999999999999999999999999999999999998 6777665443


Q ss_pred             cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHccchh
Q 028315          116 TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       116 ~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~  181 (210)
                       ..+.|+++|+||+|+...+.+..+++..++..++..++++||++|.||+++|++|.+.+.+.+..
T Consensus        83 -~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~~~~  147 (176)
T PTZ00099         83 -GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNLDNS  147 (176)
T ss_pred             -CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhcccc
Confidence             35789999999999987777888888888888888999999999999999999999999876544

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.95  E-value=3.1e-27  Score=172.69  Aligned_cols=157  Identities=21%  Similarity=0.268  Sum_probs=120.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.++|+++|.+|||||||++++.+..+..+.|+.+.+..  .+.+  .++.+.+||+||++.+...+..+++++|++++
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~   90 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQHQPTQHPTSE--ELAI--GNIKFTTFDLGGHQQARRLWKDYFPEVNGIVY   90 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCcccCCccccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            3459999999999999999999998877666566555433  2223  35789999999999998999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH------------cCCeEEEecc
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE------------HKCLFLECSA  158 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  158 (210)
                      |+|++++.++......+...+... ...+.|+++|+||+|+..  .++.++.......            ....+++|||
T Consensus        91 vvD~~~~~~~~~~~~~l~~l~~~~-~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa  167 (184)
T smart00178       91 LVDAYDKERFAESKRELDALLSDE-ELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSV  167 (184)
T ss_pred             EEECCcHHHHHHHHHHHHHHHcCh-hhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeec
Confidence            999999999888774444444322 135789999999999853  3455444432211            1224999999


Q ss_pred             cCCcCHHHHHHHHHHH
Q 028315          159 KNTEDVKQCFKDLLYK  174 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~  174 (210)
                      ++|.|++++++||.+.
T Consensus       168 ~~~~g~~~~~~wl~~~  183 (184)
T smart00178      168 VRRMGYGEGFKWLSQY  183 (184)
T ss_pred             ccCCChHHHHHHHHhh
Confidence            9999999999999865

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.95  E-value=1.2e-26  Score=158.77  Aligned_cols=163  Identities=24%  Similarity=0.364  Sum_probs=135.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++++++|+++|..|+||||++++|.+.......|+.+.+..+    +....+++++||.+|+..++..|+.||..+|++
T Consensus        12 ~kerE~riLiLGLdNsGKTti~~kl~~~~~~~i~pt~gf~Ikt----l~~~~~~L~iwDvGGq~~lr~~W~nYfestdgl   87 (185)
T KOG0073|consen   12 LKEREVRILILGLDNSGKTTIVKKLLGEDTDTISPTLGFQIKT----LEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGL   87 (185)
T ss_pred             hhhheeEEEEEecCCCCchhHHHHhcCCCccccCCccceeeEE----EEecceEEEEEEcCCcchhHHHHHHhhhccCeE
Confidence            3578999999999999999999999888877788999877774    344578999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH------HHHHHHHcCCeEEEecccCCc
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE------GMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~------~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      |+|+|.+|+.++++........+.... ..+.|++|++||.|+...  +..++      ...+++...++++.|||.+|+
T Consensus        88 IwvvDssD~~r~~e~~~~L~~lL~eer-laG~~~Lvlank~dl~~~--l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge  164 (185)
T KOG0073|consen   88 IWVVDSSDRMRMQECKQELTELLVEER-LAGAPLLVLANKQDLPGA--LSLEEISKALDLEELAKSHHWRLVKCSAVTGE  164 (185)
T ss_pred             EEEEECchHHHHHHHHHHHHHHHhhhh-hcCCceEEEEecCcCccc--cCHHHHHHhhCHHHhccccCceEEEEeccccc
Confidence            999999999999988866666654322 467899999999999632  32222      223345567789999999999


Q ss_pred             CHHHHHHHHHHHHHcc
Q 028315          163 DVKQCFKDLLYKILEV  178 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~  178 (210)
                      ++.+-++|++..+.++
T Consensus       165 ~l~~gidWL~~~l~~r  180 (185)
T KOG0073|consen  165 DLLEGIDWLCDDLMSR  180 (185)
T ss_pred             cHHHHHHHHHHHHHHH
Confidence            9999999999998874

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=3.4e-27  Score=169.75  Aligned_cols=152  Identities=29%  Similarity=0.450  Sum_probs=114.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCC-------CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVH-------DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ||+++|++|+|||||++++.+....       .+.++.+....  .+.++  ...+.+|||||++.+...+..+++.+|+
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~   76 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEVG--NARLKFWDLGGQESLRSLWDKYYAECHA   76 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEEC--CEEEEEEECCCChhhHHHHHHHhCCCCE
Confidence            6899999999999999999764321       13455554443  22333  5789999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-------cCCeEEEecccC
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-------HKCLFLECSAKN  160 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~~~~~~~sa~~  160 (210)
                      +++|+|++++.++.....++...+. .....+.|+++++||+|+...  ...++...+...       .+++++++||++
T Consensus        77 ~v~vvd~~~~~~~~~~~~~~~~~~~-~~~~~~~p~ilv~NK~D~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  153 (167)
T cd04160          77 IIYVIDSTDRERFEESKSALEKVLR-NEALEGVPLLILANKQDLPDA--LSVEEIKEVFQDKAEEIGRRDCLVLPVSALE  153 (167)
T ss_pred             EEEEEECchHHHHHHHHHHHHHHHh-ChhhcCCCEEEEEEccccccC--CCHHHHHHHhccccccccCCceEEEEeeCCC
Confidence            9999999999888887744444443 222457899999999998553  333444433322       245799999999


Q ss_pred             CcCHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLY  173 (210)
Q Consensus       161 ~~~i~~l~~~i~~  173 (210)
                      |.|++++++||.+
T Consensus       154 g~gv~e~~~~l~~  166 (167)
T cd04160         154 GTGVREGIEWLVE  166 (167)
T ss_pred             CcCHHHHHHHHhc
Confidence            9999999999865

Arfrp1 (Arf-related protein 1), formerly known as ARP, is a membrane-associated Arf family member that lacks the N-terminal myristoylation motif. Arfrp1 is mainly associated with the trans-Golgi compartment and the trans-Golgi network, where it regulates the targeting of Arl1 and the GRIP domain-containing proteins, golgin-97 and golgin-245, onto Golgi membranes. It is also involved in the anterograde transport of the vesicular stomatitis virus G protein from the Golgi to the plasma membrane, and in the retrograde transport of TGN38 and Shiga toxin from endosomes to the trans-Golgi network. Arfrp1 also inhibits Arf/Sec7-dependent activation of phospholipase D. Deletion of Arfrp1 in mice causes embryonic lethality at the gastrulation stage and apoptosis of mesodermal cells, indicating its importance in development.

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.95  E-value=4.5e-29  Score=173.05  Aligned_cols=176  Identities=28%  Similarity=0.439  Sum_probs=162.5

Q ss_pred             CCCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhh
Q 028315            3 SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY   81 (210)
Q Consensus         3 ~~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   81 (210)
                      .++...+.++-||++++|..++||||+|++++.+-|.. +..+++.++....+.+..+.+++.+|||+|+++|+.....+
T Consensus        10 ~am~e~d~e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAy   89 (246)
T KOG4252|consen   10 MAMDETDYERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAY   89 (246)
T ss_pred             CCCCchhhhhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHH
Confidence            34566777899999999999999999999999999888 88999999998888899999999999999999999999999


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ++++.+.++||+.+|..+|+... .|...+....  ..+|.++|-||+|+.++..+...+++.+++.+...++.+|++..
T Consensus        90 yrgaqa~vLVFSTTDr~SFea~~-~w~~kv~~e~--~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked  166 (246)
T KOG4252|consen   90 YRGAQASVLVFSTTDRYSFEATL-EWYNKVQKET--ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKED  166 (246)
T ss_pred             hccccceEEEEecccHHHHHHHH-HHHHHHHHHh--ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhh
Confidence            99999999999999999999999 7888877655  78999999999999999999999999999999999999999999


Q ss_pred             cCHHHHHHHHHHHHHccchh
Q 028315          162 EDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~  181 (210)
                      .|+..+|..|.+.+.+....
T Consensus       167 ~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  167 FNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             hhhHHHHHHHHHHHHHHHHH
Confidence            99999999999988866554

>PLN00023 GTP-binding protein; Provisional

Probab=99.95  E-value=9.5e-26  Score=174.08  Aligned_cols=169  Identities=28%  Similarity=0.458  Sum_probs=133.1

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECC-------------eEEEEEEEeCCCCcccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGG-------------KRLKLTIWDTAGQERFG   75 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-------------~~~~~~l~Dt~G~~~~~   75 (210)
                      ....+||+++|+.|||||||+++|.++.+.. +.+|.+.++....+.+++             ..+.++||||+|++.|.
T Consensus        18 ~~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfr   97 (334)
T PLN00023         18 PCGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYK   97 (334)
T ss_pred             CccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhh
Confidence            4568999999999999999999999998876 778998888777666642             46889999999999999


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-----------CCCCcEEEEEeCCCCCCCC---c---cC
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-----------NQDCVKILVGNKVDRDSER---A---VT  138 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-----------~~~~p~ivv~nK~Dl~~~~---~---~~  138 (210)
                      .++..+++++|++|+|||+++..+|+.+. .|+..+.....           ..++|++||+||+|+...+   .   +.
T Consensus        98 sL~~~yyr~AdgiILVyDITdr~SFenL~-kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~  176 (334)
T PLN00023         98 DCRSLFYSQINGVIFVHDLSQRRTKTSLQ-KWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNL  176 (334)
T ss_pred             hhhHHhccCCCEEEEEEeCCCHHHHHHHH-HHHHHHHHhcccccccccccccCCCCcEEEEEECcccccccccccccccc
Confidence            99999999999999999999999999998 78888766531           1258999999999996542   2   35


Q ss_pred             HHHHHHHHHHcCCe-E---------------EEecccCCcCHHHHHHHHHHHHHccc
Q 028315          139 REEGMILAQEHKCL-F---------------LECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       139 ~~~~~~~~~~~~~~-~---------------~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      .++++.+++..++. .               ....|+.+.-=.+.+..+.+.++.++
T Consensus       177 ~e~a~~~A~~~g~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  233 (334)
T PLN00023        177 VDAARQWVEKQGLLPSSEELPLTESFPGNGGLIAAAKEARYDKEALIKFFRMLIRRR  233 (334)
T ss_pred             HHHHHHHHHHcCCCccccccccccccCCCccHhhhhhhhcccHHHHHHHHHHHHHHH
Confidence            78899999887742 1               22345555444555666666666544

>cd01890 LepA LepA subfamily

Probab=99.94  E-value=3.6e-26  Score=166.26  Aligned_cols=153  Identities=20%  Similarity=0.219  Sum_probs=112.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC-------CC-CCC------ceeeEEEEEEEEE-----CCeEEEEEEEeCCCCcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV-------HD-PSP------TIGVDFKIKLLTV-----GGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~-------~~-~~~------~~~~~~~~~~~~~-----~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ||+++|++++|||||+++|.+...       .. +.+      +.+.++.......     ++..+.+++|||||++.+.
T Consensus         2 ni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   81 (179)
T cd01890           2 NFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFS   81 (179)
T ss_pred             cEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhH
Confidence            689999999999999999987421       11 112      2233443333222     5667899999999999999


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC---e
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC---L  152 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~---~  152 (210)
                      ..+..+++.+|++|+|+|++++.+++... .|....     ..++|+++|+||+|+.+..  ..+....+...++.   .
T Consensus        82 ~~~~~~~~~ad~~i~v~D~~~~~~~~~~~-~~~~~~-----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~  153 (179)
T cd01890          82 YEVSRSLAACEGALLLVDATQGVEAQTLA-NFYLAL-----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSE  153 (179)
T ss_pred             HHHHHHHHhcCeEEEEEECCCCccHhhHH-HHHHHH-----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCccc
Confidence            99999999999999999999876666555 443332     2467999999999985432  12223345555555   4


Q ss_pred             EEEecccCCcCHHHHHHHHHHHH
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ++++||++|.|++++|+++.+.+
T Consensus       154 ~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         154 AILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             EEEeeccCCCCHHHHHHHHHhhC
Confidence            89999999999999999998765

LepA belongs to the GTPase family of and exhibits significant homology to the translation factors EF-G and EF-Tu, indicating its possible involvement in translation and association with the ribosome. LepA is ubiquitous in bacteria and eukaryota (e.g. yeast GUF1p), but is missing from archaea. This pattern of phyletic distribution suggests that LepA evolved through a duplication of the EF-G gene in bacteria, followed by early transfer into the eukaryotic lineage, most likely from the promitochondrial endosymbiont. Yeast GUF1p is not essential and mutant cells did not reveal any marked phenotype.

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=4.8e-26  Score=161.87  Aligned_cols=151  Identities=23%  Similarity=0.392  Sum_probs=116.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      |+++|++|+|||||++++.+..+.. +.++.+.....  ....  .+.+.+||+||++.+...+..++..+|++++|+|+
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~~--~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~   77 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTKG--NVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDA   77 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEEC--CEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEEC
Confidence            7899999999999999999988766 66776655542  2222  37899999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHHHHHH
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      ++..++.....++...+... ...+.|+++|+||+|+......  ++.....     ....++++++|+++|.|++++++
T Consensus        78 ~~~~~~~~~~~~~~~~~~~~-~~~~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  154 (159)
T cd04159          78 ADRTALEAAKNELHDLLEKP-SLEGIPLLVLGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCKEKTNIDIVLD  154 (159)
T ss_pred             CCHHHHHHHHHHHHHHHcCh-hhcCCCEEEEEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEeccCCChHHHHH
Confidence            99988887774454444322 2357899999999998654322  2221111     12235799999999999999999


Q ss_pred             HHHH
Q 028315          170 DLLY  173 (210)
Q Consensus       170 ~i~~  173 (210)
                      +|.+
T Consensus       155 ~l~~  158 (159)
T cd04159         155 WLIK  158 (159)
T ss_pred             HHhh
Confidence            9875

Arl9/Arl10 was identified from a human cancer-derived EST dataset. No functional information about the subfamily is available at the current time, but crystal structures of human Arl10b and Arl10c have been solved.

>cd04155 Arl3 Arl3 subfamily

Probab=99.94  E-value=1.9e-25  Score=161.61  Aligned_cols=153  Identities=23%  Similarity=0.347  Sum_probs=117.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ...++|+++|++|+|||||++++.+..+....++.+.+..  .+...  +..+.+||+||+..+...+..+++.+|++++
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~~~~t~g~~~~--~i~~~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~   87 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISHITPTQGFNIK--TVQSD--GFKLNVWDIGGQRAIRPYWRNYFENTDCLIY   87 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcccCCCCCcceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEE
Confidence            4479999999999999999999998877666677665443  23333  4678999999998888888889999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--------CeEEEecccCCc
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--------CLFLECSAKNTE  162 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--------~~~~~~sa~~~~  162 (210)
                      |+|+++..++.....++...+.... ..+.|+++++||+|+.....  .++.   ....+        .+++++||++|.
T Consensus        88 v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~--~~~i---~~~l~~~~~~~~~~~~~~~Sa~~~~  161 (173)
T cd04155          88 VIDSADKKRLEEAGAELVELLEEEK-LAGVPVLVFANKQDLATAAP--AEEI---AEALNLHDLRDRTWHIQACSAKTGE  161 (173)
T ss_pred             EEeCCCHHHHHHHHHHHHHHHhChh-hcCCCEEEEEECCCCccCCC--HHHH---HHHcCCcccCCCeEEEEEeECCCCC
Confidence            9999999888877744444443322 35789999999999864322  2222   22222        247899999999


Q ss_pred             CHHHHHHHHHH
Q 028315          163 DVKQCFKDLLY  173 (210)
Q Consensus       163 ~i~~l~~~i~~  173 (210)
                      |++++|+||++
T Consensus       162 gi~~~~~~l~~  172 (173)
T cd04155         162 GLQEGMNWVCK  172 (173)
T ss_pred             CHHHHHHHHhc
Confidence            99999999875

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.94  E-value=2.1e-25  Score=160.58  Aligned_cols=155  Identities=15%  Similarity=0.092  Sum_probs=106.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc---------chhhhhccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT---------LTSSYYRGA   85 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~---------~~~~~~~~~   85 (210)
                      +|+++|++|+|||||+++|.+..+.. .+..+.+.......+....+.+++|||||......         ........+
T Consensus         2 ~i~~~G~~~~GKssli~~l~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~   80 (168)
T cd01897           2 TLVIAGYPNVGKSSLVNKLTRAKPEV-APYPFTTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLR   80 (168)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCcc-CCCCCcccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhcc
Confidence            78999999999999999999887643 12222222222223333467899999999742110         011112336


Q ss_pred             cEEEEEEeCCCHhhH--HHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           86 HGIILVYDVTRRETF--TNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        86 d~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      |++++|+|+++..++  +... .|...+....  .+.|+++|+||+|+.....+..  ...+....+.+++++||++|.|
T Consensus        81 d~~l~v~d~~~~~~~~~~~~~-~~~~~l~~~~--~~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~g  155 (168)
T cd01897          81 AAVLFLFDPSETCGYSLEEQL-SLFEEIKPLF--KNKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEG  155 (168)
T ss_pred             CcEEEEEeCCcccccchHHHH-HHHHHHHhhc--CcCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCC
Confidence            899999999987653  4443 4555554322  4789999999999976544332  3444444567899999999999


Q ss_pred             HHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKI  175 (210)
Q Consensus       164 i~~l~~~i~~~~  175 (210)
                      ++++|+++.+.+
T Consensus       156 i~~l~~~l~~~~  167 (168)
T cd01897         156 VDEVKNKACELL  167 (168)
T ss_pred             HHHHHHHHHHHh
Confidence            999999999876

NOG1 is functionally linked to ribosome biogenesis and found in association with the nuclear pore complexes and identified in many preribosomal complexes. Thus, defects in NOG1 can lead to defects in 60S biogenesis. The S. cerevisiae NOG1 gene is essential for cell viability, and mutations in the predicted G motifs abrogate function. It is a member of the ODN family of GTP-binding proteins that also includes the bacterial Obg and DRG proteins.

>cd01898 Obg Obg subfamily

Probab=99.94  E-value=1.7e-25  Score=161.31  Aligned_cols=157  Identities=19%  Similarity=0.192  Sum_probs=107.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCc----ccccchhhhh---cccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE----RFGTLTSSYY---RGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~----~~~~~~~~~~---~~~d   86 (210)
                      +|+++|.+|||||||++++.+..... ..+....+.......+.+ ...+.+|||||..    .+......++   ..+|
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d   80 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTR   80 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCC
Confidence            68999999999999999998755421 111111111111222222 2478999999963    2223333443   4599


Q ss_pred             EEEEEEeCCCH-hhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-cCCeEEEecccCCcC
Q 028315           87 GIILVYDVTRR-ETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQE-HKCLFLECSAKNTED  163 (210)
Q Consensus        87 ~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~  163 (210)
                      ++++|+|++++ .+++.+. .|...+..... ....|+++|+||+|+.+.... .+....+... .+.+++++||+++.|
T Consensus        81 ~vi~v~D~~~~~~~~~~~~-~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~g  158 (170)
T cd01898          81 LLLHVIDLSGDDDPVEDYK-TIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEG  158 (170)
T ss_pred             EEEEEEecCCCCCHHHHHH-HHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCC
Confidence            99999999998 7888777 67776654431 246899999999998765443 2334444444 367899999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          164 VKQCFKDLLYK  174 (210)
Q Consensus       164 i~~l~~~i~~~  174 (210)
                      ++++|+++.+.
T Consensus       159 i~~l~~~i~~~  169 (170)
T cd01898         159 LDELLRKLAEL  169 (170)
T ss_pred             HHHHHHHHHhh
Confidence            99999998865

The Obg nucleotide binding protein subfamily has been implicated in stress response, chromosome partitioning, replication initiation, mycelium development, and sporulation. Obg proteins are among a large group of GTP binding proteins conserved from bacteria to humans. The E. coli homolog, ObgE is believed to function in ribosomal biogenesis. Members of the subfamily contain two equally and highly conserved domains, a C-terminal GTP binding domain and an N-terminal glycine-rich domain.

>PRK15494 era GTPase Era; Provisional

Probab=99.94  E-value=2.8e-25  Score=175.97  Aligned_cols=168  Identities=20%  Similarity=0.272  Sum_probs=120.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc-cccchh-------hhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER-FGTLTS-------SYY   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~-------~~~   82 (210)
                      .+.++|+++|.+|||||||+++|.+..+..+++..+++.......+...+.++.||||||... +..+..       ..+
T Consensus        50 ~k~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~k~~tTr~~~~~~~~~~~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l  129 (339)
T PRK15494         50 QKTVSVCIIGRPNSGKSTLLNRIIGEKLSIVTPKVQTTRSIITGIITLKDTQVILYDTPGIFEPKGSLEKAMVRCAWSSL  129 (339)
T ss_pred             cceeEEEEEcCCCCCHHHHHHHHhCCceeeccCCCCCccCcEEEEEEeCCeEEEEEECCCcCCCcccHHHHHHHHHHHHh
Confidence            567899999999999999999999888766555555544433333333345789999999743 332221       236


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--CeEEEecccC
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--CLFLECSAKN  160 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~  160 (210)
                      ..+|++++|+|..+.  +......|...+..    .+.|.++|+||+|+.+.   ...+...+....+  ..++++||++
T Consensus       130 ~~aDvil~VvD~~~s--~~~~~~~il~~l~~----~~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAkt  200 (339)
T PRK15494        130 HSADLVLLIIDSLKS--FDDITHNILDKLRS----LNIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALS  200 (339)
T ss_pred             hhCCEEEEEEECCCC--CCHHHHHHHHHHHh----cCCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccC
Confidence            789999999998763  44444345555432    34677889999998643   1334444444333  5799999999


Q ss_pred             CcCHHHHHHHHHHHHHccchhhhcccc
Q 028315          161 TEDVKQCFKDLLYKILEVPSLLEQGSA  187 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~~~~~~~~  187 (210)
                      |.|++++|++|.+.+.+.+..++++..
T Consensus       201 g~gv~eL~~~L~~~l~~~~~~~~~~~~  227 (339)
T PRK15494        201 GKNIDGLLEYITSKAKISPWLYAEDDI  227 (339)
T ss_pred             ccCHHHHHHHHHHhCCCCCCCCCCCCC
Confidence            999999999999999999998888743

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.93  E-value=1.7e-24  Score=153.54  Aligned_cols=158  Identities=25%  Similarity=0.417  Sum_probs=125.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|.+|+|||||++++....+.. +.++.+.+.....+...+..+.+.+||+||+..+...+..+++.++.++.+
T Consensus         1 ~~ki~~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~   80 (161)
T TIGR00231         1 EIKIVIVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRV   80 (161)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEE
Confidence            4799999999999999999999888544 556777676666666777668899999999999988888889999999999


Q ss_pred             EeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           92 YDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        92 ~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      +|.... .++......|...+...... +.|+++++||.|+.... ........+......+++++||++|.|+.+++++
T Consensus        81 ~d~~~~v~~~~~~~~~~~~~~~~~~~~-~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~  158 (161)
T TIGR00231        81 FDIVILVLDVEEILEKQTKEIIHHAES-NVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKI  158 (161)
T ss_pred             EEEeeeehhhhhHhHHHHHHHHHhccc-CCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHH
Confidence            999887 66666654566665555422 88999999999996544 3344444444445667999999999999999988


Q ss_pred             HH
Q 028315          171 LL  172 (210)
Q Consensus       171 i~  172 (210)
                      |.
T Consensus       159 l~  160 (161)
T TIGR00231       159 VE  160 (161)
T ss_pred             hh
Confidence            63

This model recognizes a large number of small GTP-binding proteins and related domains in larger proteins. Note that the alpha chains of heterotrimeric G proteins are larger proteins in which the NKXD motif is separated from the GxxxxGK[ST] motif (P-loop) by a long insert and are not easily detected by this model.

>TIGR00436 era GTP-binding protein Era

Probab=99.93  E-value=3.6e-25  Score=170.83  Aligned_cols=163  Identities=17%  Similarity=0.080  Sum_probs=116.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-c-------chhhhhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-T-------LTSSYYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~-------~~~~~~~~~d   86 (210)
                      +|+++|.+|||||||+|+|.+......++.++++.............++.||||||..... .       ....+++.+|
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aD   81 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITSPKAQTTRNRISGIHTTGASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVD   81 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecCCCCCcccCcEEEEEEcCCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCC
Confidence            6899999999999999999998876655555554443332222234579999999965432 1       1234578999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVK  165 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  165 (210)
                      ++++|+|+++..+..  . .+...+.    ..+.|+++|+||+|+.+.... .+....+....+. +++++||++|.|++
T Consensus        82 vvl~VvD~~~~~~~~--~-~i~~~l~----~~~~p~ilV~NK~Dl~~~~~~-~~~~~~~~~~~~~~~v~~iSA~~g~gi~  153 (270)
T TIGR00436        82 LILFVVDSDQWNGDG--E-FVLTKLQ----NLKRPVVLTRNKLDNKFKDKL-LPLIDKYAILEDFKDIVPISALTGDNTS  153 (270)
T ss_pred             EEEEEEECCCCCchH--H-HHHHHHH----hcCCCEEEEEECeeCCCHHHH-HHHHHHHHhhcCCCceEEEecCCCCCHH
Confidence            999999999876554  2 4444443    357899999999998643222 2233344444444 79999999999999


Q ss_pred             HHHHHHHHHHHccchhhhcc
Q 028315          166 QCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~~  185 (210)
                      ++++++.+.+...+..++.+
T Consensus       154 ~L~~~l~~~l~~~~~~~~~~  173 (270)
T TIGR00436       154 FLAAFIEVHLPEGPFRYPED  173 (270)
T ss_pred             HHHHHHHHhCCCCCCCCCCc
Confidence            99999999998888777665

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.93  E-value=4.5e-25  Score=154.68  Aligned_cols=161  Identities=21%  Similarity=0.323  Sum_probs=133.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      -.+.+|+++|.-++||||+++++..+......||.|.......+    ..+++.+||..|++.++.+|+.++++.+++|+
T Consensus        15 ~~e~~IlmlGLD~AGKTTILykLk~~E~vttvPTiGfnVE~v~y----kn~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIf   90 (181)
T KOG0070|consen   15 KKEMRILMVGLDAAGKTTILYKLKLGEIVTTVPTIGFNVETVEY----KNISFTVWDVGGQEKLRPLWKHYFQNTQGLIF   90 (181)
T ss_pred             cceEEEEEEeccCCCceeeeEeeccCCcccCCCccccceeEEEE----cceEEEEEecCCCcccccchhhhccCCcEEEE
Confidence            46899999999999999999999999988889999987775544    37899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|.+|++++....+.+...+.... ....|+++.+||.|++....  ..++....     ......+..|+|.+|.|+.
T Consensus        91 VvDS~Dr~Ri~eak~eL~~~l~~~~-l~~~~llv~aNKqD~~~als--~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~  167 (181)
T KOG0070|consen   91 VVDSSDRERIEEAKEELHRMLAEPE-LRNAPLLVFANKQDLPGALS--AAEITNKLGLHSLRSRNWHIQSTCAISGEGLY  167 (181)
T ss_pred             EEeCCcHHHHHHHHHHHHHHHcCcc-cCCceEEEEechhhccccCC--HHHHHhHhhhhccCCCCcEEeeccccccccHH
Confidence            9999999999998866666654432 46899999999999976533  33322222     2234568899999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      +.++|+.+.+...
T Consensus       168 egl~wl~~~~~~~  180 (181)
T KOG0070|consen  168 EGLDWLSNNLKKR  180 (181)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999987653

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.93  E-value=1.2e-24  Score=171.33  Aligned_cols=162  Identities=18%  Similarity=0.132  Sum_probs=115.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECC-eEEEEEEEeCCCCcc----cccchhh---hhccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGG-KRLKLTIWDTAGQER----FGTLTSS---YYRGA   85 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~----~~~~~~~---~~~~~   85 (210)
                      ..|+++|.|+||||||++++++.... ..+.+++|.......+.. ....+.+||+||.-.    ...+...   +++.+
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~-va~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a  237 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPK-IADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHIERT  237 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCc-cCCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHhhhc
Confidence            35899999999999999999876533 222223333332222221 335689999999632    1123333   45679


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +++++|+|+++.++++.+. .|...+..+.. ..++|+++|+||+|+.+...+..++...+....+.+++++||+++.|+
T Consensus       238 ~vlI~ViD~s~~~s~e~~~-~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI  316 (335)
T PRK12299        238 RLLLHLVDIEAVDPVEDYK-TIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGL  316 (335)
T ss_pred             CEEEEEEcCCCCCCHHHHH-HHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCH
Confidence            9999999999887888887 78787766542 247899999999999765544443444444556678999999999999


Q ss_pred             HHHHHHHHHHHHc
Q 028315          165 KQCFKDLLYKILE  177 (210)
Q Consensus       165 ~~l~~~i~~~~~~  177 (210)
                      ++++++|.+.+.+
T Consensus       317 ~eL~~~L~~~l~~  329 (335)
T PRK12299        317 DELLRALWELLEE  329 (335)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988764

>cd01878 HflX HflX subfamily

Probab=99.93  E-value=1.3e-24  Score=161.38  Aligned_cols=157  Identities=18%  Similarity=0.122  Sum_probs=109.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-c-ch------hhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-T-LT------SSY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~-~~------~~~   81 (210)
                      ++.++|+++|++|||||||++++.+..+.. ..+....+.....+.+.+. ..+.+|||||..... . ..      ...
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~  117 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTLEE  117 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHHHH
Confidence            445899999999999999999998876432 2222222223333333332 378999999973211 0 00      113


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      +..+|++++|+|++++.++.... .|...+.... ..+.|+++|+||+|+.+.....     ......+.+++++||+++
T Consensus       118 ~~~~d~ii~v~D~~~~~~~~~~~-~~~~~l~~~~-~~~~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~  190 (204)
T cd01878         118 VAEADLLLHVVDASDPDYEEQIE-TVEKVLKELG-AEDIPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTG  190 (204)
T ss_pred             HhcCCeEEEEEECCCCChhhHHH-HHHHHHHHcC-cCCCCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCC
Confidence            56899999999999988877765 5666665443 3568999999999986543221     334445678999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKI  175 (210)
Q Consensus       162 ~~i~~l~~~i~~~~  175 (210)
                      .|+++++++|.+.+
T Consensus       191 ~gi~~l~~~L~~~~  204 (204)
T cd01878         191 EGLDELLEAIEELL  204 (204)
T ss_pred             CCHHHHHHHHHhhC
Confidence            99999999988753

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd04171 SelB SelB subfamily

Probab=99.92  E-value=4.5e-24  Score=152.81  Aligned_cols=150  Identities=21%  Similarity=0.164  Sum_probs=100.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC---CCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNS---VHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~---~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .|+++|++|||||||+++|.+..   +.. ..+....+.......+.. ...+.+|||||++.+......+++.+|++++
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~   80 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLL   80 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEE
Confidence            68999999999999999998643   221 222223333323333332 4589999999999887666677889999999


Q ss_pred             EEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHHHHHHHHHH---cCCeEEEecccCCc
Q 028315           91 VYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TREEGMILAQE---HKCLFLECSAKNTE  162 (210)
Q Consensus        91 v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~---~~~~~~~~sa~~~~  162 (210)
                      |+|+++   +++.+.+     ..+..   ....|+++++||+|+......  ..++.......   .+.+++++||++|.
T Consensus        81 V~d~~~~~~~~~~~~~-----~~~~~---~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  152 (164)
T cd04171          81 VVAADEGIMPQTREHL-----EILEL---LGIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGE  152 (164)
T ss_pred             EEECCCCccHhHHHHH-----HHHHH---hCCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCc
Confidence            999987   3332222     12221   123489999999999653211  11223333333   35789999999999


Q ss_pred             CHHHHHHHHHH
Q 028315          163 DVKQCFKDLLY  173 (210)
Q Consensus       163 ~i~~l~~~i~~  173 (210)
                      |++++++.+.+
T Consensus       153 ~v~~l~~~l~~  163 (164)
T cd04171         153 GIEELKEYLDE  163 (164)
T ss_pred             CHHHHHHHHhh
Confidence            99999988753

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec, and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and eukaryo

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.92  E-value=2e-23  Score=156.64  Aligned_cols=171  Identities=39%  Similarity=0.564  Sum_probs=137.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..+||+++|++|||||||+++|....+.. +.++.+..+...........+.+.+|||+|+++++..+..++..++++++
T Consensus         4 ~~~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~   83 (219)
T COG1100           4 KEFKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILI   83 (219)
T ss_pred             ceEEEEEEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEE
Confidence            34999999999999999999999999988 66777777766666666668899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHc---CCeEEE
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEH---KCLFLE  155 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~---~~~~~~  155 (210)
                      |+|..+..++......|...+.... ....|+++++||+|+....            ..............   ...+++
T Consensus        84 ~~d~~~~~~~~~~~~~~~~~l~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  162 (219)
T COG1100          84 VYDSTLRESSDELTEEWLEELRELA-PDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLE  162 (219)
T ss_pred             EEecccchhhhHHHHHHHHHHHHhC-CCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeE
Confidence            9999997777777779998887665 2578999999999997653            22222222222222   334899


Q ss_pred             eccc--CCcCHHHHHHHHHHHHHccchhhh
Q 028315          156 CSAK--NTEDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       156 ~sa~--~~~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      +|++  ++.++.++|..+.+.+........
T Consensus       163 ~s~~~~~~~~v~~~~~~~~~~~~~~~~~~~  192 (219)
T COG1100         163 TSAKSLTGPNVNELFKELLRKLLEEIEKLV  192 (219)
T ss_pred             eecccCCCcCHHHHHHHHHHHHHHhhhhhh
Confidence            9999  999999999999999876554443

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.92  E-value=1.3e-24  Score=152.41  Aligned_cols=134  Identities=22%  Similarity=0.203  Sum_probs=98.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc-----ccccchhhhhccccEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE-----RFGTLTSSYYRGAHGII   89 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~-----~~~~~~~~~~~~~d~~i   89 (210)
                      ||+++|++|||||||+++|.+..+. +.++.+.++.            -.+|||||..     .+..... .++++|+++
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~-~~~t~~~~~~------------~~~iDt~G~~~~~~~~~~~~~~-~~~~ad~vi   67 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL-YKKTQAVEYN------------DGAIDTPGEYVENRRLYSALIV-TAADADVIA   67 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc-cccceeEEEc------------CeeecCchhhhhhHHHHHHHHH-HhhcCCEEE
Confidence            8999999999999999999877652 3333322221            1579999973     2333322 478999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVKQCF  168 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~l~  168 (210)
                      +|+|++++.++...  .|...+       ..|+++|+||+|+.+ +....++...+....+. +++++||++|.|++++|
T Consensus        68 lv~d~~~~~s~~~~--~~~~~~-------~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  137 (142)
T TIGR02528        68 LVQSATDPESRFPP--GFASIF-------VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALV  137 (142)
T ss_pred             EEecCCCCCcCCCh--hHHHhc-------cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHH
Confidence            99999999887552  343322       239999999999864 33455566666666665 79999999999999999


Q ss_pred             HHHH
Q 028315          169 KDLL  172 (210)
Q Consensus       169 ~~i~  172 (210)
                      +++.
T Consensus       138 ~~l~  141 (142)
T TIGR02528       138 DYLN  141 (142)
T ss_pred             HHHh
Confidence            8874

This protein is found within operons which code for polyhedral organelles containing the enzyme ethanolamine ammonia lyase. The function of this gene is unknown, although the presence of an N-terminal GxxGxGK motif implies a GTP-binding site.

>PRK04213 GTP-binding protein; Provisional

Probab=99.92  E-value=2.9e-24  Score=159.16  Aligned_cols=154  Identities=21%  Similarity=0.209  Sum_probs=102.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC-----------cccccchh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ-----------ERFGTLTS   79 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~-----------~~~~~~~~   79 (210)
                      ...++|+++|.+|+|||||++++.+..+.. ...++.++........    .+.+|||||.           +.+...+.
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~~~-~~~~~~t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~   81 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKVRV-GKRPGVTRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIV   81 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcc-CCCCceeeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHH
Confidence            456899999999999999999998877543 2333545544433332    5899999993           44444554


Q ss_pred             hhhc----cccEEEEEEeCCCHhhHHH---------HHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH
Q 028315           80 SYYR----GAHGIILVYDVTRRETFTN---------LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA  146 (210)
Q Consensus        80 ~~~~----~~d~~i~v~d~~~~~~~~~---------~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~  146 (210)
                      .++.    .++++++|+|..+...+..         ....+...+.    ..++|+++|+||+|+.+..   .+....+.
T Consensus        82 ~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~----~~~~p~iiv~NK~Dl~~~~---~~~~~~~~  154 (201)
T PRK04213         82 RYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLR----ELGIPPIVAVNKMDKIKNR---DEVLDEIA  154 (201)
T ss_pred             HHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHH----HcCCCeEEEEECccccCcH---HHHHHHHH
Confidence            5543    3578888888765322100         0001122222    3578999999999986543   23444555


Q ss_pred             HHcCC---------eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          147 QEHKC---------LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       147 ~~~~~---------~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..++.         +++++||++| |+++++++|.+.+.+
T Consensus       155 ~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        155 ERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             HHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence            55554         5899999999 999999999987654

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.92  E-value=2.2e-23  Score=149.96  Aligned_cols=156  Identities=18%  Similarity=0.154  Sum_probs=106.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .|+++|++|+|||||+++|....+.. ..+....+.....+... .....+.+|||||++.+...+...++.+|++++|+
T Consensus         2 ~i~iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~   81 (168)
T cd01887           2 VVTVMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVV   81 (168)
T ss_pred             EEEEEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEE
Confidence            48999999999999999999887665 22333333332333332 24678999999999988888888899999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHHHH------HcCCeEEEecccCCcCHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMILAQ------EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~------~~~~~~~~~sa~~~~~i~  165 (210)
                      |+++....+... .+ ..+.    ..+.|+++|+||+|+....... .++...+..      ....+++++||++|.|++
T Consensus        82 d~~~~~~~~~~~-~~-~~~~----~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  155 (168)
T cd01887          82 AADDGVMPQTIE-AI-KLAK----AANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGID  155 (168)
T ss_pred             ECCCCccHHHHH-HH-HHHH----HcCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHH
Confidence            999853222111 11 1222    2568999999999986432111 111111111      113579999999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          166 QCFKDLLYKIL  176 (210)
Q Consensus       166 ~l~~~i~~~~~  176 (210)
                      +++++|.+...
T Consensus       156 ~l~~~l~~~~~  166 (168)
T cd01887         156 DLLEAILLLAE  166 (168)
T ss_pred             HHHHHHHHhhh
Confidence            99999987654

IF2/eIF5B contribute to ribosomal subunit joining and function as GTPases that are maximally activated by the presence of both ribosomal subunits. As seen in other GTPases, IF2/IF5B undergoes conformational changes between its GTP- and GDP-bound states. Eukaryotic IF2/eIF5Bs possess three characteristic segments, including a divergent N-terminal region followed by conserved central and C-terminal segments. This core region is conserved among all known eukaryotic and archaeal IF2/eIF5Bs and eubacterial IF2s.

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.91  E-value=2.9e-23  Score=147.76  Aligned_cols=147  Identities=18%  Similarity=0.210  Sum_probs=107.3

Q ss_pred             EEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc------chhhhhc--cccEE
Q 028315           18 LIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT------LTSSYYR--GAHGI   88 (210)
Q Consensus        18 i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~------~~~~~~~--~~d~~   88 (210)
                      ++|.+|+|||||++++.+..+.. ..+..+.+.....+.+++  ..+.+|||||+..+..      ++..++.  .+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            57999999999999998876333 334444444444445554  5789999999877654      3455564  89999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|+.++....    .|...+.    ..++|+++++||+|+.+...+..+ ...+...++.+++++||.+|.|+++++
T Consensus        79 i~v~d~~~~~~~~----~~~~~~~----~~~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~iSa~~~~~~~~l~  149 (158)
T cd01879          79 VNVVDATNLERNL----YLTLQLL----ELGLPVVVALNMIDEAEKRGIKID-LDKLSELLGVPVVPTSARKGEGIDELK  149 (158)
T ss_pred             EEEeeCCcchhHH----HHHHHHH----HcCCCEEEEEehhhhcccccchhh-HHHHHHhhCCCeEEEEccCCCCHHHHH
Confidence            9999999865422    2222222    246899999999999765544433 456667778899999999999999999


Q ss_pred             HHHHHHH
Q 028315          169 KDLLYKI  175 (210)
Q Consensus       169 ~~i~~~~  175 (210)
                      +++.+.+
T Consensus       150 ~~l~~~~  156 (158)
T cd01879         150 DAIAELA  156 (158)
T ss_pred             HHHHHHh
Confidence            9988764

E. coli has an iron(II) transport system, known as feo, which may make an important contribution to the iron supply of the cell under anaerobic conditions. FeoB has been identified as part of this transport system. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent.

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.91  E-value=7.6e-25  Score=147.24  Aligned_cols=157  Identities=18%  Similarity=0.326  Sum_probs=128.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++.+.++|..++|||||++....+.+.+ ..|+.|....    .++...+.+.+||.||+.+|+..|+.|.+.+++++||
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmr----k~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~   95 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMR----KVTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYV   95 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccchhhhcccccceeE----EeccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEE
Confidence            5788999999999999999998888888 8899998777    5667788999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|+.+++..+.....+..++.... ..++|++|.+||.|+.+.  ++..+...-.     ....+.+|.+|+++..|++.
T Consensus        96 VDaad~~k~~~sr~EL~~LL~k~~-l~gip~LVLGnK~d~~~A--L~~~~li~rmgL~sitdREvcC~siScke~~Nid~  172 (186)
T KOG0075|consen   96 VDAADPDKLEASRSELHDLLDKPS-LTGIPLLVLGNKIDLPGA--LSKIALIERMGLSSITDREVCCFSISCKEKVNIDI  172 (186)
T ss_pred             eecCCcccchhhHHHHHHHhcchh-hcCCcEEEecccccCccc--ccHHHHHHHhCccccccceEEEEEEEEcCCccHHH
Confidence            999999888888766666665544 578999999999998653  3332211111     11224589999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          167 CFKDLLYKIL  176 (210)
Q Consensus       167 l~~~i~~~~~  176 (210)
                      +.+||++...
T Consensus       173 ~~~Wli~hsk  182 (186)
T KOG0075|consen  173 TLDWLIEHSK  182 (186)
T ss_pred             HHHHHHHHhh
Confidence            9999998654

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.91  E-value=5.5e-23  Score=144.49  Aligned_cols=153  Identities=47%  Similarity=0.717  Sum_probs=119.5

Q ss_pred             EEcCCCCcHHHHHHHHhhCCC-CC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCC
Q 028315           18 LIGDSGVGKSSILLSLISNSV-HD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVT   95 (210)
Q Consensus        18 i~G~~~~GKSsli~~l~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   95 (210)
                      ++|++|+|||||++++.+... .. ..++. .+..............+.+||+||...+...+..+++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            589999999999999998887 34 44444 6667666677777889999999999888877788899999999999999


Q ss_pred             CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH-HHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           96 RRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE-GMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        96 ~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      ++.++.....++..... .....+.|+++++||+|+.......... ..........+++++|+.++.|+.+++++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~-~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILI-NKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHH-hhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            99988888733222222 2225789999999999987654433322 3344555678899999999999999999875

The Ras-like superfamily of small GTPases consists of several families with an extremely high degree of structural and functional similarity. The Ras superfamily is divided into at least four families in eukaryotes: the Ras, Rho, Rab, and Sar1/Arf families. This superfamily also includes proteins like the GTP translation factors, Era-like GTPases, and G-alpha chain of the heterotrimeric G proteins. Members of the Ras superfamily regulate a wide variety of cellular functions: the Ras family regulates gene expression, the Rho family regulates cytoskeletal reorganization and gene expression, the Rab and Sar1/Arf families regulate vesicle trafficking, and the Ran family regulates nucleocytoplasmic transport and microtubule organization. The GTP translation factor family regulate initiation, elongation, termination, and release in translation, and the Era-like GTPase family regulates cell division, sporulation, and DNA replication. Memb

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.91  E-value=2.2e-23  Score=148.11  Aligned_cols=147  Identities=22%  Similarity=0.206  Sum_probs=105.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc--------hhhhhccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL--------TSSYYRGA   85 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~--------~~~~~~~~   85 (210)
                      ++|+++|++|+|||||++++.+.......+..+.+.......+......+.+|||||...+...        ...++..+
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~   81 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDIGGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEA   81 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEeCCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhC
Confidence            5899999999999999999988765433333333322222222223467899999997665432        22456789


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|+|++++.+..... .+..       ....|+++|+||+|+.+....       .....+.+++++||+++.|++
T Consensus        82 ~~~v~v~d~~~~~~~~~~~-~~~~-------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~  146 (157)
T cd04164          82 DLVLFVIDASRGLDEEDLE-ILEL-------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLD  146 (157)
T ss_pred             CEEEEEEECCCCCCHHHHH-HHHh-------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHH
Confidence            9999999999877665544 2222       357899999999998654432       334456789999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          166 QCFKDLLYKI  175 (210)
Q Consensus       166 ~l~~~i~~~~  175 (210)
                      +++++|.+.+
T Consensus       147 ~l~~~l~~~~  156 (157)
T cd04164         147 ELKEALLELA  156 (157)
T ss_pred             HHHHHHHHhh
Confidence            9999987754

It controls modification of the uridine at the wobble position (U34) of tRNAs that read codons ending with A or G in the mixed codon family boxes. TrmE contains a GTPase domain that forms a canonical Ras-like fold. It functions a molecular switch GTPase, and apparently uses a conformational change associated with GTP hydrolysis to promote the tRNA modification reaction, in which the conserved cysteine in the C-terminal domain is thought to function as a catalytic residue. In bacteria that are able to survive in extremely low pH conditions, TrmE regulates glutamate-dependent acid resistance.

>COG1159 Era GTPase [General function prediction only]

Probab=99.91  E-value=8.4e-24  Score=159.27  Aligned_cols=172  Identities=19%  Similarity=0.123  Sum_probs=131.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc--------cchhhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG--------TLTSSYY   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~--------~~~~~~~   82 (210)
                      .+.--|+++|.|+||||||+|++.+.+....++.+.+|+......+.....++.|+||||...-.        ......+
T Consensus         4 ~ksGfVaIiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl   83 (298)
T COG1159           4 FKSGFVAIIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKPKHALGELMNKAARSAL   83 (298)
T ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEEcCCceEEEEeCCCCCCcchHHHHHHHHHHHHHh
Confidence            35567999999999999999999999999999999999988887777778899999999943322        2334457


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCC
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNT  161 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~  161 (210)
                      ..+|++++|+|+.++..-  ........+.    ..+.|+++++||+|...+..........+..... ..++++||++|
T Consensus        84 ~dvDlilfvvd~~~~~~~--~d~~il~~lk----~~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g  157 (298)
T COG1159          84 KDVDLILFVVDADEGWGP--GDEFILEQLK----KTKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKG  157 (298)
T ss_pred             ccCcEEEEEEeccccCCc--cHHHHHHHHh----hcCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeecccc
Confidence            889999999999986432  2213334443    2467999999999987655422223333333333 36999999999


Q ss_pred             cCHHHHHHHHHHHHHccchhhhccccc
Q 028315          162 EDVKQCFKDLLYKILEVPSLLEQGSAV  188 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~~~~~~~~  188 (210)
                      .|++.+.+.+...+.+.+..++++...
T Consensus       158 ~n~~~L~~~i~~~Lpeg~~~yp~d~it  184 (298)
T COG1159         158 DNVDTLLEIIKEYLPEGPWYYPEDQIT  184 (298)
T ss_pred             CCHHHHHHHHHHhCCCCCCcCChhhcc
Confidence            999999999999999999999887443

>PF02421 FeoB_N: Ferrous iron transport protein B; InterPro: IPR011619 Escherichia coli has an iron(II) transport system (feo) which may make an important contribution to the iron supply of the cell under anaerobic conditions

Probab=99.91  E-value=1.6e-24  Score=151.92  Aligned_cols=147  Identities=20%  Similarity=0.277  Sum_probs=99.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc------cchhhhh--cc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG------TLTSSYY--RG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~------~~~~~~~--~~   84 (210)
                      |+|+++|.|++|||||+|+|++..... ..|....+.....+.+.+  ..+.++|+||.-...      .....++  ..
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v~n~pG~Tv~~~~g~~~~~~--~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~   78 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKVGNWPGTTVEKKEGIFKLGD--QQVELVDLPGIYSLSSKSEEERVARDYLLSEK   78 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEEEESTTSSSEEEEEEEEETT--EEEEEEE----SSSSSSSHHHHHHHHHHHHTS
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCceecCCCCCCeeeeeEEEEecC--ceEEEEECCCcccCCCCCcHHHHHHHHHhhcC
Confidence            689999999999999999999888433 333333334434444444  567888999943322      2223333  58


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      .|++++|+|+++.+.   -. ++...+.    ..+.|+++++||+|....+.+.. +...+.+.++++++.+||+++.|+
T Consensus        79 ~D~ii~VvDa~~l~r---~l-~l~~ql~----e~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~  149 (156)
T PF02421_consen   79 PDLIIVVVDATNLER---NL-YLTLQLL----ELGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGI  149 (156)
T ss_dssp             SSEEEEEEEGGGHHH---HH-HHHHHHH----HTTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTH
T ss_pred             CCEEEEECCCCCHHH---HH-HHHHHHH----HcCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCH
Confidence            999999999987533   22 2222222    25799999999999876555443 466778889999999999999999


Q ss_pred             HHHHHHH
Q 028315          165 KQCFKDL  171 (210)
Q Consensus       165 ~~l~~~i  171 (210)
                      +++++.|
T Consensus       150 ~~L~~~I  156 (156)
T PF02421_consen  150 DELKDAI  156 (156)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhhC
Confidence            9998865

FeoB has been identified as part of this transport system and may play a role in the transport of ferrous iron. FeoB is a large 700-800 amino acid integral membrane protein. The N terminus contains a P-loop motif suggesting that iron transport may be ATP dependent [].; GO: 0005525 GTP binding, 0015093 ferrous iron transmembrane transporter activity, 0015684 ferrous iron transport, 0016021 integral to membrane; PDB: 3TAH_B 3B1X_A 3SS8_A 3B1W_C 3B1V_A 3LX5_A 3B1Y_A 3LX8_A 3B1Z_A 3K53_B ....

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.91  E-value=5.8e-24  Score=175.71  Aligned_cols=161  Identities=23%  Similarity=0.189  Sum_probs=110.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCCCcc----------cccch-
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQER----------FGTLT-   78 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~----------~~~~~-   78 (210)
                      ..++|+++|.+|+|||||+++|++..+....+..+++..  ...+.+++.  .+.+|||||...          +.... 
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~~--~~~l~DTaG~~~~~~~~~~~e~~~~~~~  287 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGGK--TWRFVDTAGLRRRVKQASGHEYYASLRT  287 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECCE--EEEEEECCCccccccccchHHHHHHHHH
Confidence            569999999999999999999998876544444444433  333444444  567999999532          22221 


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHH-HHHHHcCCeEEE
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGM-ILAQEHKCLFLE  155 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~-~~~~~~~~~~~~  155 (210)
                      ..+++.+|++++|+|++++.+++...  +...+.    ..+.|+++|+||+|+.+.....  .++.. .+.....+++++
T Consensus       288 ~~~i~~ad~vilV~Da~~~~s~~~~~--~~~~~~----~~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~  361 (472)
T PRK03003        288 HAAIEAAEVAVVLIDASEPISEQDQR--VLSMVI----EAGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVN  361 (472)
T ss_pred             HHHHhcCCEEEEEEeCCCCCCHHHHH--HHHHHH----HcCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEE
Confidence            23568999999999999988877664  223332    2578999999999996432111  11111 122223468999


Q ss_pred             ecccCCcCHHHHHHHHHHHHHccch
Q 028315          156 CSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +||++|.|++++|+.+.+.+.....
T Consensus       362 ~SAk~g~gv~~lf~~i~~~~~~~~~  386 (472)
T PRK03003        362 ISAKTGRAVDKLVPALETALESWDT  386 (472)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999987764444

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.91  E-value=1.4e-23  Score=152.04  Aligned_cols=155  Identities=23%  Similarity=0.266  Sum_probs=103.8

Q ss_pred             EEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----cccch---hhhhccccEEE
Q 028315           18 LIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----FGTLT---SSYYRGAHGII   89 (210)
Q Consensus        18 i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----~~~~~---~~~~~~~d~~i   89 (210)
                      ++|++|||||||++++.+..... ..+.+..+.....+.+. ....+.+|||||...    ...++   ...++.+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            58999999999999998876511 11111112222222222 156789999999632    22222   23467899999


Q ss_pred             EEEeCCCH------hhHHHHHHHHHHHHhhhccC------CCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEec
Q 028315           90 LVYDVTRR------ETFTNLSSVWAKEVELYSTN------QDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus        90 ~v~d~~~~------~~~~~~~~~~~~~~~~~~~~------~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      +|+|+.+.      .++.... .|...+......      .+.|+++|+||+|+..................+..++++|
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  158 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYE-ILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPIS  158 (176)
T ss_pred             EEEeccCCccccccCHHHHHH-HHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEe
Confidence            99999988      4666666 555555433211      4789999999999976544433222333444566799999


Q ss_pred             ccCCcCHHHHHHHHHHH
Q 028315          158 AKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~  174 (210)
                      |+++.|++++++++.+.
T Consensus       159 a~~~~gl~~l~~~l~~~  175 (176)
T cd01881         159 AKTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhhcCHHHHHHHHHhh
Confidence            99999999999998764

Four of these groups (Obg, DRG, YyaF/YchF, and Ygr210) are characterized by a distinct glycine-rich motif immediately following the Walker B motif (G3 box). Obg/CgtA is an essential gene that is involved in the initiation of sporulation and DNA replication in the bacteria Caulobacter and Bacillus, but its exact molecular role is unknown. Furthermore, several OBG family members possess a C-terminal RNA-binding domain, the TGS domain, which is also present in threonyl-tRNA synthetase and in bacterial guanosine polyphosphatase SpoT. Nog1 is a nucleolar protein that might function in ribosome assembly. The DRG and Nog1 subfamilies are ubiquitous in archaea and eukaryotes, the Ygr210 subfamily is present in archaea and fungi, and the Obg and YyaF/YchF subfamilies are ubiquitous in bacteria and eukaryotes. The Obg/Nog1 and DRG subfamilies appear to

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.91  E-value=2.3e-23  Score=153.48  Aligned_cols=148  Identities=23%  Similarity=0.243  Sum_probs=104.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh--CCCCCC-------------CCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch
Q 028315           14 FKILLIGDSGVGKSSILLSLIS--NSVHDP-------------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT   78 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~--~~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   78 (210)
                      -+|+++|.+++|||||+++|++  +.+...             ..+.+.++......+....+.+.+|||||++.|...+
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~   82 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEV   82 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHH
Confidence            3899999999999999999987  444332             1234555555555566667899999999999999999


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHHHHHH-------HcC
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGMILAQ-------EHK  150 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~  150 (210)
                      ..+++.+|++++|+|+++.. +.... .+...+.    ..+.|+++|+||+|+...+.. ..++...+..       ..+
T Consensus        83 ~~~~~~~d~~ilV~d~~~~~-~~~~~-~~~~~~~----~~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~  156 (194)
T cd01891          83 ERVLSMVDGVLLLVDASEGP-MPQTR-FVLKKAL----ELGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLD  156 (194)
T ss_pred             HHHHHhcCEEEEEEECCCCc-cHHHH-HHHHHHH----HcCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCc
Confidence            99999999999999998742 22222 2322222    247899999999999643221 1233333332       236


Q ss_pred             CeEEEecccCCcCHHHH
Q 028315          151 CLFLECSAKNTEDVKQC  167 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l  167 (210)
                      ++++++||++|.|+.++
T Consensus       157 ~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         157 FPVLYASAKNGWASLNL  173 (194)
T ss_pred             cCEEEeehhcccccccc
Confidence            78999999999887543

BipA is a protein belonging to the ribosome-binding family of GTPases and is widely distributed in bacteria and plants. BipA was originally described as a protein that is induced in Salmonella typhimurium after exposure to bactericidal/permeability-inducing protein (a cationic antimicrobial protein produced by neutrophils), and has since been identified in E. coli as well. The properties thus far described for BipA are related to its role in the process of pathogenesis by enteropathogenic E. coli. It appears to be involved in the regulation of several processes important for infection, including rearrangements of the cytoskeleton of the host, bacterial resistance to host defense peptides, flagellum-mediated cell motility, and expression of K5 capsular genes. It has been proposed that BipA may utilize a novel mechanism to regulate the expression of target genes. In addition, BipA from enteropathogenic E. co

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.91  E-value=1.7e-22  Score=136.84  Aligned_cols=167  Identities=25%  Similarity=0.351  Sum_probs=140.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC---CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-ccchhhhhccccE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD---PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-GTLTSSYYRGAHG   87 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-~~~~~~~~~~~d~   87 (210)
                      +..||++.|..++|||++++.++.+....   ..||+...+....-+-.+..-.+.||||.|...+ ..+.+.++.-+|+
T Consensus         8 k~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDa   87 (198)
T KOG3883|consen    8 KVCKVVVCGMKSVGKTAILEQLLYGNHVPGTELHPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADA   87 (198)
T ss_pred             cceEEEEECCccccHHHHHHHHHhccCCCCCccccchhhheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCce
Confidence            45799999999999999999998776544   4455544333322233455668899999997777 5677788899999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++||+..++++|+.+. .+...+.....+..+|++|.+||+|+.++++++.+.++.++....+..++++|.+...+-+.
T Consensus        88 fVLVYs~~d~eSf~rv~-llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~ep  166 (198)
T KOG3883|consen   88 FVLVYSPMDPESFQRVE-LLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEP  166 (198)
T ss_pred             EEEEecCCCHHHHHHHH-HHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhH
Confidence            99999999999999988 78888888777889999999999999999999999999999999999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |..+..++..-+
T Consensus       167 f~~l~~rl~~pq  178 (198)
T KOG3883|consen  167 FTYLASRLHQPQ  178 (198)
T ss_pred             HHHHHHhccCCc
Confidence            999998876443

>cd01894 EngA1 EngA1 subfamily

Probab=99.90  E-value=2.7e-23  Score=147.68  Aligned_cols=147  Identities=21%  Similarity=0.097  Sum_probs=99.5

Q ss_pred             EEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc--------chhhhhccccEE
Q 028315           17 LLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT--------LTSSYYRGAHGI   88 (210)
Q Consensus        17 ~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~--------~~~~~~~~~d~~   88 (210)
                      +++|.+|+|||||++++.+.......+..+.+...........+..+.+|||||+..+..        .....++.+|++
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~i   80 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEWGGREFILIDTGGIEPDDEGISKEIREQAELAIEEADVI   80 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEECCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCEE
Confidence            478999999999999998875322222222222222222222346789999999877543        334567889999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVKQC  167 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~l  167 (210)
                      ++|+|+.++.+....  .+...+.    ..+.|+++|+||+|+......     .......+. +++++|+++|.|++++
T Consensus        81 i~v~d~~~~~~~~~~--~~~~~~~----~~~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l  149 (157)
T cd01894          81 LFVVDGREGLTPADE--EIAKYLR----KSKKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDL  149 (157)
T ss_pred             EEEEeccccCCccHH--HHHHHHH----hcCCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHH
Confidence            999999876544332  2223332    245899999999998654322     222333455 6899999999999999


Q ss_pred             HHHHHHH
Q 028315          168 FKDLLYK  174 (210)
Q Consensus       168 ~~~i~~~  174 (210)
                      ++++.+.
T Consensus       150 ~~~l~~~  156 (157)
T cd01894         150 LDAILEL  156 (157)
T ss_pred             HHHHHhh
Confidence            9999875

This CD represents the first GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.90  E-value=1.1e-22  Score=160.16  Aligned_cols=159  Identities=17%  Similarity=0.164  Sum_probs=111.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc----ccchhhh---hccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF----GTLTSSY---YRGA   85 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~----~~~~~~~---~~~~   85 (210)
                      ..|+++|.|+||||||++++....... .++.+........+.+++ ...+.+|||||....    ..+...+   ++.+
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhiera  236 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERT  236 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhh
Confidence            468999999999999999998765432 222222222222333332 367899999996422    1233344   4569


Q ss_pred             cEEEEEEeCCCH---hhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           86 HGIILVYDVTRR---ETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        86 d~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      +++++|+|+++.   .+++.+. .|...+..+.. ..+.|++||+||+|+.+... ..+..+.+....+.+++++||+++
T Consensus       237 d~ll~VvD~s~~~~~~~~e~l~-~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg  314 (329)
T TIGR02729       237 RVLLHLIDISPLDGRDPIEDYE-IIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTG  314 (329)
T ss_pred             CEEEEEEcCccccccCHHHHHH-HHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCC
Confidence            999999999976   5677776 67666655432 24789999999999965533 233445556666788999999999


Q ss_pred             cCHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKI  175 (210)
Q Consensus       162 ~~i~~l~~~i~~~~  175 (210)
                      .|+++++++|.+.+
T Consensus       315 ~GI~eL~~~I~~~l  328 (329)
T TIGR02729       315 EGLDELLYALAELL  328 (329)
T ss_pred             cCHHHHHHHHHHHh
Confidence            99999999998764

This model describes a univeral, mostly one-gene-per-genome GTP-binding protein that associates with ribosomal subunits and appears to play a role in ribosomal RNA maturation. This GTPase, related to the nucleolar protein Obg, is designated CgtA in bacteria. Mutations in this gene are pleiotropic, but it appears that effects on cellular functions such as chromosome partition may be secondary to the effect on ribosome structure. Recent work done in Vibrio cholerae shows an essential role in the stringent response, in which RelA-dependent ability to synthesize the alarmone ppGpp is required for deletion of this GTPase to be lethal.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.90  E-value=8.4e-23  Score=166.53  Aligned_cols=152  Identities=23%  Similarity=0.215  Sum_probs=110.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCCCcccccch--------hh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQERFGTLT--------SS   80 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~   80 (210)
                      ...++|+++|++|||||||+|+|++.......+.++++..  ...+.++  +..+.+|||||...+...+        ..
T Consensus       201 ~~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~--g~~v~l~DTaG~~~~~~~ie~~gi~~~~~  278 (442)
T TIGR00450       201 DDGFKLAIVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELN--GILIKLLDTAGIREHADFVERLGIEKSFK  278 (442)
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEEC--CEEEEEeeCCCcccchhHHHHHHHHHHHH
Confidence            3568999999999999999999998765443334444443  3344444  4567899999986554322        34


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      +++.+|++++|+|++++.+++..   |...+.    ..+.|+++|+||+|+...      +...+...++.+++.+||++
T Consensus       279 ~~~~aD~il~V~D~s~~~s~~~~---~l~~~~----~~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~  345 (442)
T TIGR00450       279 AIKQADLVIYVLDASQPLTKDDF---LIIDLN----KSKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ  345 (442)
T ss_pred             HHhhCCEEEEEEECCCCCChhHH---HHHHHh----hCCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec
Confidence            67899999999999998776543   433332    246899999999998543      12334556677899999998


Q ss_pred             CcCHHHHHHHHHHHHHcc
Q 028315          161 TEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~  178 (210)
                       .||+++|+.+.+.+.+.
T Consensus       346 -~gI~~~~~~L~~~i~~~  362 (442)
T TIGR00450       346 -LKIKALVDLLTQKINAF  362 (442)
T ss_pred             -CCHHHHHHHHHHHHHHH
Confidence             69999999999887653

TrmE, also called MnmE and previously designated ThdF (thiophene and furan oxidation protein), is a GTPase involved in tRNA modification to create 5-methylaminomethyl-2-thiouridine in the wobble position of some tRNAs. This protein and GidA form an alpha2/beta2 heterotetramer.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.90  E-value=6.5e-23  Score=168.26  Aligned_cols=162  Identities=25%  Similarity=0.189  Sum_probs=112.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch-----------h
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT-----------S   79 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-----------~   79 (210)
                      ...++|+++|.+++|||||+++|++.......+..+++.......+...+..+.+|||||...+....           .
T Consensus       170 ~~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~  249 (429)
T TIGR03594       170 DGPIKIAIIGRPNVGKSTLVNALLGEERVIVSDIAGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTL  249 (429)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCeeecCCCCCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHH
Confidence            45689999999999999999999987755444455555444333332233478999999976543321           2


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHH-HHHHHH----cCCeEE
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEG-MILAQE----HKCLFL  154 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~~----~~~~~~  154 (210)
                      ..++.+|++++|+|++++.+.+...  +...+.    ..+.|+++|+||+|+.... ...++. ..+...    .+++++
T Consensus       250 ~~~~~ad~~ilV~D~~~~~~~~~~~--~~~~~~----~~~~~iiiv~NK~Dl~~~~-~~~~~~~~~~~~~~~~~~~~~vi  322 (429)
T TIGR03594       250 KAIERADVVLLVLDATEGITEQDLR--IAGLIL----EAGKALVIVVNKWDLVKDE-KTREEFKKELRRKLPFLDFAPIV  322 (429)
T ss_pred             HHHHhCCEEEEEEECCCCccHHHHH--HHHHHH----HcCCcEEEEEECcccCCCH-HHHHHHHHHHHHhcccCCCCceE
Confidence            3578899999999999887766543  222222    3578999999999996211 111111 122222    246899


Q ss_pred             EecccCCcCHHHHHHHHHHHHHccc
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ++||++|.|++++|+++.+.+....
T Consensus       323 ~~SA~~g~~v~~l~~~i~~~~~~~~  347 (429)
T TIGR03594       323 FISALTGQGVDKLLDAIDEVYENAN  347 (429)
T ss_pred             EEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            9999999999999999998765443

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00089 era GTPase Era; Reviewed

Probab=99.90  E-value=8.5e-23  Score=159.52  Aligned_cols=168  Identities=17%  Similarity=0.135  Sum_probs=117.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc--------cchhhhhc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG--------TLTSSYYR   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~--------~~~~~~~~   83 (210)
                      +.-.|+++|.+|||||||+|++++......++.+.++.............++.+|||||.....        ......+.
T Consensus         4 ~~g~V~iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~   83 (292)
T PRK00089          4 KSGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLK   83 (292)
T ss_pred             eeEEEEEECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEEcCCceEEEEECCCCCCchhHHHHHHHHHHHHHHh
Confidence            4567999999999999999999988876655555544444333333334789999999964432        12233567


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCCc
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNTE  162 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~  162 (210)
                      .+|++++|+|+++...  .....+...+.    ..+.|+++|+||+|+.............+....+ ..++.+||+++.
T Consensus        84 ~~D~il~vvd~~~~~~--~~~~~i~~~l~----~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~  157 (292)
T PRK00089         84 DVDLVLFVVDADEKIG--PGDEFILEKLK----KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGD  157 (292)
T ss_pred             cCCEEEEEEeCCCCCC--hhHHHHHHHHh----hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCC
Confidence            8999999999998322  22213333333    3468999999999996432222333444444343 569999999999


Q ss_pred             CHHHHHHHHHHHHHccchhhhcc
Q 028315          163 DVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      |++++++++.+.+...+..++.+
T Consensus       158 gv~~L~~~L~~~l~~~~~~y~~~  180 (292)
T PRK00089        158 NVDELLDVIAKYLPEGPPYYPED  180 (292)
T ss_pred             CHHHHHHHHHHhCCCCCCCCCCC
Confidence            99999999999998887766665

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.90  E-value=4.7e-23  Score=170.31  Aligned_cols=155  Identities=20%  Similarity=0.182  Sum_probs=110.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc--------cccchhhhhcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER--------FGTLTSSYYRG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--------~~~~~~~~~~~   84 (210)
                      ..+|+++|.+|||||||+++|.+.......++++.+.......+...+..+.+|||||.+.        +...+..+++.
T Consensus        38 ~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~  117 (472)
T PRK03003         38 LPVVAVVGRPNVGKSTLVNRILGRREAVVEDVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRT  117 (472)
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCcCcccccCCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHh
Confidence            4689999999999999999999877655555555554444433333345688999999763        22334556889


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|++|+|+|++++.++...  .+...+.    ..++|+++|+||+|+....   .+....+....+ .++++||++|.|+
T Consensus       118 aD~il~VvD~~~~~s~~~~--~i~~~l~----~~~~piilV~NK~Dl~~~~---~~~~~~~~~g~~-~~~~iSA~~g~gi  187 (472)
T PRK03003        118 ADAVLFVVDATVGATATDE--AVARVLR----RSGKPVILAANKVDDERGE---ADAAALWSLGLG-EPHPVSALHGRGV  187 (472)
T ss_pred             CCEEEEEEECCCCCCHHHH--HHHHHHH----HcCCCEEEEEECccCCccc---hhhHHHHhcCCC-CeEEEEcCCCCCc
Confidence            9999999999988665432  3444444    3578999999999985421   112222222223 3579999999999


Q ss_pred             HHHHHHHHHHHHc
Q 028315          165 KQCFKDLLYKILE  177 (210)
Q Consensus       165 ~~l~~~i~~~~~~  177 (210)
                      +++|+++.+.+.+
T Consensus       188 ~eL~~~i~~~l~~  200 (472)
T PRK03003        188 GDLLDAVLAALPE  200 (472)
T ss_pred             HHHHHHHHhhccc
Confidence            9999999998865

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.90  E-value=4.8e-23  Score=168.75  Aligned_cols=150  Identities=21%  Similarity=0.204  Sum_probs=109.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch--------hhhhc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT--------SSYYR   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~~~~   83 (210)
                      ..++|+++|.+|+|||||+|+|++.......+.++++.......+...+..+.+|||||...+....        ..++.
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~  293 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLDGIPLRLIDTAGIRETDDEVEKIGIERSREAIE  293 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEECCeEEEEEeCCCCCCCccHHHHHHHHHHHHHHH
Confidence            3589999999999999999999987754433444444333332232234578999999986554321        23578


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|+|++++.+++... .|..       ..+.|+++|+||+|+.+.....        ...+.+++++||++|.|
T Consensus       294 ~aD~il~VvD~s~~~s~~~~~-~l~~-------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~G  357 (449)
T PRK05291        294 EADLVLLVLDASEPLTEEDDE-ILEE-------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEG  357 (449)
T ss_pred             hCCEEEEEecCCCCCChhHHH-HHHh-------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCC
Confidence            899999999999987776543 3332       3568999999999996543221        33456799999999999


Q ss_pred             HHHHHHHHHHHHHc
Q 028315          164 VKQCFKDLLYKILE  177 (210)
Q Consensus       164 i~~l~~~i~~~~~~  177 (210)
                      +++++++|.+.+..
T Consensus       358 I~~L~~~L~~~l~~  371 (449)
T PRK05291        358 IDELREAIKELAFG  371 (449)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998764

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.90  E-value=1.6e-22  Score=160.64  Aligned_cols=153  Identities=21%  Similarity=0.175  Sum_probs=106.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCc---------ccccchhhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE---------RFGTLTSSY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~---------~~~~~~~~~   81 (210)
                      ..++|+++|.+|+|||||+|+|.+..... ..+.+..+.....+.+.+ +..+.+|||||..         .|...+ ..
T Consensus       188 ~~~~ValvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G~~~~l~~~lie~f~~tl-e~  265 (351)
T TIGR03156       188 DVPTVALVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVGFIRDLPHELVAAFRATL-EE  265 (351)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCcccccCCHHHHHHHHHHH-HH
Confidence            44899999999999999999999876432 222222333444445532 3578999999972         122222 23


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      +.++|++++|+|++++.+++... .|...+.... ..+.|+++|+||+|+.+...+     ..+. ....+++.+||++|
T Consensus       266 ~~~ADlil~VvD~s~~~~~~~~~-~~~~~L~~l~-~~~~piIlV~NK~Dl~~~~~v-----~~~~-~~~~~~i~iSAktg  337 (351)
T TIGR03156       266 VREADLLLHVVDASDPDREEQIE-AVEKVLEELG-AEDIPQLLVYNKIDLLDEPRI-----ERLE-EGYPEAVFVSAKTG  337 (351)
T ss_pred             HHhCCEEEEEEECCCCchHHHHH-HHHHHHHHhc-cCCCCEEEEEEeecCCChHhH-----HHHH-hCCCCEEEEEccCC
Confidence            77899999999999988777665 5656655443 357899999999998643221     1111 12346899999999


Q ss_pred             cCHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYK  174 (210)
Q Consensus       162 ~~i~~l~~~i~~~  174 (210)
                      .|+++++++|.+.
T Consensus       338 ~GI~eL~~~I~~~  350 (351)
T TIGR03156       338 EGLDLLLEAIAER  350 (351)
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999998764

This protein family is one of a number of homologous small, well-conserved GTP-binding proteins with pleiotropic effects. Bacterial members are designated HflX, following the naming convention in Escherichia coli where HflX is encoded immediately downstream of the RNA chaperone Hfq, and immediately upstream of HflKC, a membrane-associated protease pair with an important housekeeping function. Over large numbers of other bacterial genomes, the pairing with hfq is more significant than with hflK and hlfC. The gene from Homo sapiens in this family has been named PGPL (pseudoautosomal GTP-binding protein-like).

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.90  E-value=1.9e-22  Score=169.84  Aligned_cols=157  Identities=18%  Similarity=0.203  Sum_probs=116.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC-------CCC-CCC------ceeeEEEEEEEEE-----CCeEEEEEEEeCCCCcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS-------VHD-PSP------TIGVDFKIKLLTV-----GGKRLKLTIWDTAGQER   73 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~-------~~~-~~~------~~~~~~~~~~~~~-----~~~~~~~~l~Dt~G~~~   73 (210)
                      .-||+++|+.++|||||+++|+...       +.. +.+      ..+.++....+.+     ++..+.++||||||+..
T Consensus         3 iRNi~IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~d   82 (595)
T TIGR01393         3 IRNFSIIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVD   82 (595)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHH
Confidence            3489999999999999999998752       111 222      2355555443333     45678999999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC--
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC--  151 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--  151 (210)
                      |...+..+++.+|++++|+|++++.+++... .|.....     .+.|+++|+||+|+....  ..+...++...++.  
T Consensus        83 F~~~v~~~l~~aD~aILVvDat~g~~~qt~~-~~~~~~~-----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~  154 (595)
T TIGR01393        83 FSYEVSRSLAACEGALLLVDAAQGIEAQTLA-NVYLALE-----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDA  154 (595)
T ss_pred             HHHHHHHHHHhCCEEEEEecCCCCCCHhHHH-HHHHHHH-----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCc
Confidence            9999999999999999999999977776665 4444332     467999999999986432  12223344555554  


Q ss_pred             -eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 -LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 -~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                       .++++||++|.|++++|++|.+.+..
T Consensus       155 ~~vi~vSAktG~GI~~Lle~I~~~lp~  181 (595)
T TIGR01393       155 SEAILASAKTGIGIEEILEAIVKRVPP  181 (595)
T ss_pred             ceEEEeeccCCCCHHHHHHHHHHhCCC
Confidence             48999999999999999999987753

LepA (GUF1 in Saccaromyces) is a GTP-binding membrane protein related to EF-G and EF-Tu. Two types of phylogenetic tree, rooted by other GTP-binding proteins, suggest that eukaryotic homologs (including GUF1 of yeast) originated within the bacterial LepA family. The function is unknown.

>PF08477 Miro: Miro-like protein; InterPro: IPR013684 Mitochondrial Rho proteins (Miro-1, Q8IXI2 from SWISSPROT and Miro-2, Q8IXI1 from SWISSPROT) are atypical Rho GTPases

Probab=99.90  E-value=2.1e-22  Score=136.86  Aligned_cols=114  Identities=36%  Similarity=0.646  Sum_probs=89.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCC---CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVH---DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ||+|+|++|||||||+++|.+..+.   ...++.+.++.............+.+||++|.+.+...+..++..+|++++|
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv   80 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILV   80 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEE
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEE
Confidence            7999999999999999999999887   2444555555555667777777799999999999988888889999999999


Q ss_pred             EeCCCHhhHHHHHHH--HHHHHhhhccCCCCcEEEEEeCCC
Q 028315           92 YDVTRRETFTNLSSV--WAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~--~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                      ||++++.+++.+...  |+..+...  ..+.|+++|+||.|
T Consensus        81 ~D~s~~~s~~~~~~~~~~l~~~~~~--~~~~piilv~nK~D  119 (119)
T PF08477_consen   81 YDLSDPESLEYLSQLLKWLKNIRKR--DKNIPIILVGNKSD  119 (119)
T ss_dssp             EECCGHHHHHHHHHHHHHHHHHHHH--SSCSEEEEEEE-TC
T ss_pred             EcCCChHHHHHHHHHHHHHHHHHcc--CCCCCEEEEEeccC
Confidence            999999999987633  44444433  35699999999998

They have a unique domain organisation, with tandem GTP-binding domains and two EF hand domains (IPR002048 from INTERPRO), that may bind calcium. They are also larger than classical small GTPases. It has been proposed that they are involved in mitochondrial homeostasis and apoptosis []. ; GO: 0005525 GTP binding, 0007264 small GTPase mediated signal transduction, 0005622 intracellular; PDB: 2IWR_A 2BMJ_A 3IHW_A 2ZEJ_A 3D6T_B 3DPU_A.

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.89  E-value=3e-22  Score=146.55  Aligned_cols=156  Identities=18%  Similarity=0.138  Sum_probs=109.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCc---------------eeeEEEEEEEEECCeEEEEEEEeCCCCcccccchh
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPT---------------IGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTS   79 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~---------------~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   79 (210)
                      +|+++|.+|+|||||++++.+.........               .+.+.......+......+.+|||||...+...+.
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   80 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVI   80 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHH
Confidence            589999999999999999988876552211               11222222222333356899999999988888888


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHHHHHHH---------
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGMILAQE---------  148 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~---------  148 (210)
                      .+++.+|++++|+|+.++.......  +...+.    ..+.|+++++||+|+..+....  .++.......         
T Consensus        81 ~~~~~~d~~i~v~d~~~~~~~~~~~--~~~~~~----~~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (189)
T cd00881          81 RGLSVSDGAILVVDANEGVQPQTRE--HLRIAR----EGGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEE  154 (189)
T ss_pred             HHHHhcCEEEEEEECCCCCcHHHHH--HHHHHH----HCCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhh
Confidence            8899999999999999865443222  222222    2578999999999997532221  1222233322         


Q ss_pred             -----cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          149 -----HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       149 -----~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                           ...+++++||++|.|++++++++.+.+.
T Consensus       155 ~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l~  187 (189)
T cd00881         155 GTRNGLLVPIVPGSALTGIGVEELLEAIVEHLP  187 (189)
T ss_pred             hcccCCcceEEEEecccCcCHHHHHHHHHhhCC
Confidence                 3567999999999999999999998763

This family consists primarily of translation initiation, elongation, and release factors, which play specific roles in protein translation. In addition, the family includes Snu114p, a component of the U5 small nuclear riboprotein particle which is a component of the spliceosome and is involved in excision of introns, TetM, a tetracycline resistance gene that protects the ribosome from tetracycline binding, and the unusual subfamily CysN/ATPS, which has an unrelated function (ATP sulfurylase) acquired through lateral transfer of the EF1-alpha gene and development of a new function.

>cd04163 Era Era subfamily

Probab=99.89  E-value=4.2e-22  Score=142.60  Aligned_cols=156  Identities=17%  Similarity=0.125  Sum_probs=106.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc--------chhhhhcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT--------LTSSYYRG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~--------~~~~~~~~   84 (210)
                      ..+|+++|.+|+|||||++++.+.......+....+..............+.+|||||......        .....+..
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~   82 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKD   82 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCCCCceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHh
Confidence            5789999999999999999998876544333333333322333334457899999999654332        23345788


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTED  163 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~  163 (210)
                      +|++++|+|++++..  .....+...+.    ..+.|+++|+||+|+........+....+.... ..+++.+|++++.+
T Consensus        83 ~d~i~~v~d~~~~~~--~~~~~~~~~~~----~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~  156 (168)
T cd04163          83 VDLVLFVVDASEPIG--EGDEFILELLK----KSKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGEN  156 (168)
T ss_pred             CCEEEEEEECCCccC--chHHHHHHHHH----HhCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCC
Confidence            999999999998722  22213333333    236899999999998743333233333444444 35799999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          164 VKQCFKDLLYK  174 (210)
Q Consensus       164 i~~l~~~i~~~  174 (210)
                      +++++++|.+.
T Consensus       157 ~~~l~~~l~~~  167 (168)
T cd04163         157 VDELLEEIVKY  167 (168)
T ss_pred             hHHHHHHHHhh
Confidence            99999998765

Era (E. coli Ras-like protein) is a multifunctional GTPase found in all bacteria except some eubacteria. It binds to the 16S ribosomal RNA (rRNA) of the 30S subunit and appears to play a role in the assembly of the 30S subunit, possibly by chaperoning the 16S rRNA. It also contacts several assembly elements of the 30S subunit. Era couples cell growth with cytokinesis and plays a role in cell division and energy metabolism. Homologs have also been found in eukaryotes. Era contains two domains: the N-terminal GTPase domain and a C-terminal domain KH domain that is critical for RNA binding. Both domains are important for Era function. Era is functionally able to compensate for deletion of RbfA, a cold-shock adaptation protein that is required for efficient processing of the 16S rRNA.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=8.6e-22  Score=158.98  Aligned_cols=161  Identities=18%  Similarity=0.166  Sum_probs=113.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCe-EEEEEEEeCCCCcc----cccchhhh---hcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK-RLKLTIWDTAGQER----FGTLTSSY---YRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~Dt~G~~~----~~~~~~~~---~~~~d   86 (210)
                      .|+++|.|+||||||++++++..... .+.++++.......+... ...+.+||+||...    ...+...+   ++.++
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~kI-a~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhier~~  238 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPKI-ANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTR  238 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCcc-ccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHHhhCC
Confidence            78999999999999999998876432 222333333222222212 45789999999632    22233444   45699


Q ss_pred             EEEEEEeCCCH---hhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc
Q 028315           87 GIILVYDVTRR---ETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        87 ~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      ++++|+|+++.   +++++.. .|...+..+.. ..++|.+||+||+|+...    .+....+...++.+++.+||+++.
T Consensus       239 llI~VID~s~~~~~dp~e~~~-~i~~EL~~y~~~L~~kP~IVV~NK~DL~~~----~e~l~~l~~~l~~~i~~iSA~tge  313 (424)
T PRK12297        239 VIVHVIDMSGSEGRDPIEDYE-KINKELKLYNPRLLERPQIVVANKMDLPEA----EENLEEFKEKLGPKVFPISALTGQ  313 (424)
T ss_pred             EEEEEEeCCccccCChHHHHH-HHHHHHhhhchhccCCcEEEEEeCCCCcCC----HHHHHHHHHHhCCcEEEEeCCCCC
Confidence            99999999864   5666665 67777766532 247899999999998432    234455566666789999999999


Q ss_pred             CHHHHHHHHHHHHHccchh
Q 028315          163 DVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~  181 (210)
                      |+++++++|.+.+.+.+..
T Consensus       314 GI~eL~~~L~~~l~~~~~~  332 (424)
T PRK12297        314 GLDELLYAVAELLEETPEF  332 (424)
T ss_pred             CHHHHHHHHHHHHHhCccc
Confidence            9999999999988776543

>cd01895 EngA2 EngA2 subfamily

Probab=99.89  E-value=6.5e-22  Score=142.63  Aligned_cols=154  Identities=25%  Similarity=0.203  Sum_probs=101.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEE--EEEEECCeEEEEEEEeCCCCccccc-----------chh
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKI--KLLTVGGKRLKLTIWDTAGQERFGT-----------LTS   79 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~~~-----------~~~   79 (210)
                      +++|+++|.+|+|||||++++.+.......+..+.+...  ......  +..+.+|||||......           ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~   79 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYD--GKKYTLIDTAGIRRKGKVEEGIEKYSVLRTL   79 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEEC--CeeEEEEECCCCccccchhccHHHHHHHHHH
Confidence            579999999999999999999887643322222222222  222333  34578999999643311           112


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH-HHHHHHHc----CCeEE
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE-GMILAQEH----KCLFL  154 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~----~~~~~  154 (210)
                      ..++.+|++++|+|++++.+.....  +...+.    ..+.|+++++||+|+.+......++ ...+...+    ..+++
T Consensus        80 ~~~~~~d~vi~v~d~~~~~~~~~~~--~~~~~~----~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  153 (174)
T cd01895          80 KAIERADVVLLVIDATEGITEQDLR--IAGLIL----EEGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIV  153 (174)
T ss_pred             HHHhhcCeEEEEEeCCCCcchhHHH--HHHHHH----hcCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceE
Confidence            3467899999999999987655433  222222    2468999999999987653222222 22233333    36799


Q ss_pred             EecccCCcCHHHHHHHHHHH
Q 028315          155 ECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ++||+++.|++++++++.+.
T Consensus       154 ~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         154 FISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             EEeccCCCCHHHHHHHHHHh
Confidence            99999999999999987653

This CD represents the second GTPase domain of EngA and its orthologs, which are composed of two adjacent GTPase domains. Since the sequences of the two domains are more similar to each other than to other GTPases, it is likely that an ancient gene duplication, rather than a fusion of evolutionarily distinct GTPases, gave rise to this family. Although the exact function of these proteins has not been elucidated, studies have revealed that the E. coli EngA homolog, Der, and Neisseria gonorrhoeae EngA are essential for cell viability. A recent report suggests that E. coli Der functions in ribosome assembly and stability.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.89  E-value=5.7e-22  Score=132.45  Aligned_cols=158  Identities=23%  Similarity=0.379  Sum_probs=131.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+++|+++|..++||||++.++..+......||.|....    .+....+.+.+||.+|++..+.+|+.++....++|+|
T Consensus        16 KE~~ilmlGLd~aGKTtiLyKLkl~~~~~~ipTvGFnve----tVtykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV   91 (180)
T KOG0071|consen   16 KEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   91 (180)
T ss_pred             ccceEEEEecccCCceehhhHHhcCCCcccccccceeEE----EEEeeeeEEeeeeccCchhhhHHHHhhccCCceEEEE
Confidence            479999999999999999999988888888899987776    3445678999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|..+.+..++++..+...+.... ....|++|.+||.|+++.+  .++++.....     .....+..++|.+|.++.+
T Consensus        92 ~Dsa~~dr~eeAr~ELh~ii~~~e-m~~~~~LvlANkQDlp~A~--~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~e  168 (180)
T KOG0071|consen   92 VDSADRDRIEEARNELHRIINDRE-MRDAIILILANKQDLPDAM--KPQEIQDKLELERIRDRNWYVQPSCALSGDGLKE  168 (180)
T ss_pred             EeccchhhHHHHHHHHHHHhCCHh-hhcceEEEEecCccccccc--CHHHHHHHhccccccCCccEeeccccccchhHHH
Confidence            999999999988876666665443 4678999999999997653  4455554432     2234588999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          167 CFKDLLYKIL  176 (210)
Q Consensus       167 l~~~i~~~~~  176 (210)
                      -|.|+++.+.
T Consensus       169 glswlsnn~~  178 (180)
T KOG0071|consen  169 GLSWLSNNLK  178 (180)
T ss_pred             HHHHHHhhcc
Confidence            9999988654

>cd01889 SelB_euk SelB subfamily

Probab=99.89  E-value=4.3e-22  Score=146.49  Aligned_cols=157  Identities=20%  Similarity=0.138  Sum_probs=101.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC----CCCC------CCCceeeEEEEEEEE----------ECCeEEEEEEEeCCCCcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISN----SVHD------PSPTIGVDFKIKLLT----------VGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~----~~~~------~~~~~~~~~~~~~~~----------~~~~~~~~~l~Dt~G~~~   73 (210)
                      +||+++|++++|||||+++|.+.    .+..      ...|.........+.          ..+..+.+.+|||||+..
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~   80 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHAS   80 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHH
Confidence            58999999999999999999863    1111      112333232222222          123367899999999865


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHHHHHH-HHH---
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TREEGMI-LAQ---  147 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~-~~~---  147 (210)
                      +..........+|++++|+|+.+........ .+. ...    ..+.|+++++||+|+......  ..++... +..   
T Consensus        81 ~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~-~~~-~~~----~~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~  154 (192)
T cd01889          81 LIRTIIGGAQIIDLMLLVVDATKGIQTQTAE-CLV-IGE----ILCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLE  154 (192)
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHHHHH-HHH-HHH----HcCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHH
Confidence            5333333456789999999999854433332 222 111    135699999999998643221  1122221 111   


Q ss_pred             ---HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          148 ---EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       148 ---~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                         ..+++++++||++|.|++++++++...+.
T Consensus       155 ~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         155 KTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             hcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence               13568999999999999999999988876

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=4.9e-22  Score=162.36  Aligned_cols=164  Identities=17%  Similarity=0.131  Sum_probs=110.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc----ccc---hhhhhcccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF----GTL---TSSYYRGAH   86 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~----~~~---~~~~~~~~d   86 (210)
                      ..|+|+|.|+||||||+++|++..... .+.+++|.......+......+++|||||....    ..+   .-.+++.+|
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkI-adypfTTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhierad  238 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKI-ADYPFTTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCA  238 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccc-cccCcccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcC
Confidence            478999999999999999998875433 333333433333333333467999999995321    111   122457799


Q ss_pred             EEEEEEeCCCH----hhHHHHHHHHHHHHhhhc----------cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe
Q 028315           87 GIILVYDVTRR----ETFTNLSSVWAKEVELYS----------TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL  152 (210)
Q Consensus        87 ~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~----------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  152 (210)
                      ++++|+|+++.    +.++.+. .|...+..+.          ....+|++||+||+|+.+...+.. .........+++
T Consensus       239 vLv~VVD~s~~e~~rdp~~d~~-~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el~e-~l~~~l~~~g~~  316 (500)
T PRK12296        239 VLVHVVDCATLEPGRDPLSDID-ALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDARELAE-FVRPELEARGWP  316 (500)
T ss_pred             EEEEEECCcccccccCchhhHH-HHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHHHH-HHHHHHHHcCCe
Confidence            99999999853    3444444 4444444332          134689999999999965433222 222223345788


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ++.+||+++.|+++++.+|.+.+...+.
T Consensus       317 Vf~ISA~tgeGLdEL~~~L~ell~~~r~  344 (500)
T PRK12296        317 VFEVSAASREGLRELSFALAELVEEARA  344 (500)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHHHhhhc
Confidence            9999999999999999999998876654

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.88  E-value=2e-21  Score=162.94  Aligned_cols=154  Identities=16%  Similarity=0.192  Sum_probs=108.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+..+|+++|++++|||||+++|.+..+.. ..+.+..+.....+...+. ..+.||||||++.|..++...+..+|++
T Consensus        84 ~~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDia  162 (587)
T TIGR00487        84 VERPPVVTIMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIV  162 (587)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEE
Confidence            3567899999999999999999998877655 3333333333333333322 2789999999999999988889999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-------cC--CeEEEeccc
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-------HK--CLFLECSAK  159 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~--~~~~~~sa~  159 (210)
                      ++|+|+++...-+... .+.. ..    ..++|+++++||+|+...   ..++.......       ++  .+++++||+
T Consensus       163 ILVVda~dgv~~qT~e-~i~~-~~----~~~vPiIVviNKiDl~~~---~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAk  233 (587)
T TIGR00487       163 VLVVAADDGVMPQTIE-AISH-AK----AANVPIIVAINKIDKPEA---NPDRVKQELSEYGLVPEDWGGDTIFVPVSAL  233 (587)
T ss_pred             EEEEECCCCCCHhHHH-HHHH-HH----HcCCCEEEEEECcccccC---CHHHHHHHHHHhhhhHHhcCCCceEEEEECC
Confidence            9999998753222222 2211 11    357899999999998542   22233222222       22  469999999


Q ss_pred             CCcCHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLY  173 (210)
Q Consensus       160 ~~~~i~~l~~~i~~  173 (210)
                      +|.|++++|+++..
T Consensus       234 tGeGI~eLl~~I~~  247 (587)
T TIGR00487       234 TGDGIDELLDMILL  247 (587)
T ss_pred             CCCChHHHHHhhhh
Confidence            99999999999874

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.88  E-value=9.5e-22  Score=157.88  Aligned_cols=169  Identities=18%  Similarity=0.123  Sum_probs=116.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCe-EEEEEEEeCCCCcccc-------cchhhhhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK-RLKLTIWDTAGQERFG-------TLTSSYYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~Dt~G~~~~~-------~~~~~~~~~~d   86 (210)
                      -|+|+|.||||||||+|++++... ...+.+++|.......+... ...++|+||||...-.       ...-.+++.+|
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~-~vs~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~rad  239 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKP-KVADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKHLERCR  239 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcc-cccCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHHHHhCC
Confidence            689999999999999999987764 44444444444443333222 3468999999964211       11123477899


Q ss_pred             EEEEEEeCC---CHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--CeEEEecccC
Q 028315           87 GIILVYDVT---RRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--CLFLECSAKN  160 (210)
Q Consensus        87 ~~i~v~d~~---~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~  160 (210)
                      ++++|+|++   +...++... .|...+..... ..+.|+++|+||+|+.....+ .+....+....+  .+++.+||++
T Consensus       240 vlL~VVD~s~~~~~d~~e~~~-~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~t  317 (390)
T PRK12298        240 VLLHLIDIAPIDGSDPVENAR-IIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAAS  317 (390)
T ss_pred             EEEEEeccCcccccChHHHHH-HHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCC
Confidence            999999998   445566665 56666654421 246899999999998654333 233334444433  3699999999


Q ss_pred             CcCHHHHHHHHHHHHHccchhhhccc
Q 028315          161 TEDVKQCFKDLLYKILEVPSLLEQGS  186 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~~~~~~~  186 (210)
                      +.|+++++++|.+.+.+.+..++++.
T Consensus       318 g~GIdeLl~~I~~~L~~~~~~~~~~~  343 (390)
T PRK12298        318 GLGVKELCWDLMTFIEENPREEAEEA  343 (390)
T ss_pred             CcCHHHHHHHHHHHhhhCcccCCccc
Confidence            99999999999999988777666553

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.88  E-value=6.6e-22  Score=140.94  Aligned_cols=140  Identities=19%  Similarity=0.138  Sum_probs=96.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc----chhhhhccccEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT----LTSSYYRGAHGIIL   90 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~----~~~~~~~~~d~~i~   90 (210)
                      +|+++|.+|+|||||++++.+.. ....++.+.       .+...    .+|||||......    .....+..+|++++
T Consensus         3 ~i~~iG~~~~GKstl~~~l~~~~-~~~~~~~~v-------~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~   70 (158)
T PRK15467          3 RIAFVGAVGAGKTTLFNALQGNY-TLARKTQAV-------EFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLIY   70 (158)
T ss_pred             EEEEECCCCCCHHHHHHHHcCCC-ccCccceEE-------EECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEEE
Confidence            79999999999999999986543 222222221       12221    2699999632221    11233689999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC--eEEEecccCCcCHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC--LFLECSAKNTEDVKQCF  168 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--~~~~~sa~~~~~i~~l~  168 (210)
                      |+|+++..++..   .|...+     ..+.|+++++||+|+.+   ...+....+....++  +++++||++|.|++++|
T Consensus        71 v~d~~~~~s~~~---~~~~~~-----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~  139 (158)
T PRK15467         71 VHGANDPESRLP---AGLLDI-----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLV  139 (158)
T ss_pred             EEeCCCcccccC---HHHHhc-----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHH
Confidence            999998876532   222222     24678999999999854   234455666666664  89999999999999999


Q ss_pred             HHHHHHHHc
Q 028315          169 KDLLYKILE  177 (210)
Q Consensus       169 ~~i~~~~~~  177 (210)
                      +++.+.+.+
T Consensus       140 ~~l~~~~~~  148 (158)
T PRK15467        140 DYLASLTKQ  148 (158)
T ss_pred             HHHHHhchh
Confidence            998877643

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.88  E-value=8.2e-22  Score=146.10  Aligned_cols=160  Identities=18%  Similarity=0.134  Sum_probs=100.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCC--CCCCceeeEEEEEEEEEC-----------------------------C----
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVH--DPSPTIGVDFKIKLLTVG-----------------------------G----   58 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~-----------------------------~----   58 (210)
                      ++|+++|+.|+|||||+..+.+....  ......+.+.........                             +    
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            48999999999999999999654211  111111111111100000                             0    


Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      ...++.||||||++.+...+...+..+|++++|+|+.++.........+. .+..   ....|+++|+||+|+.+.....
T Consensus        81 ~~~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~-~~~~---~~~~~iiivvNK~Dl~~~~~~~  156 (203)
T cd01888          81 LVRHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLA-ALEI---MGLKHIIIVQNKIDLVKEEQAL  156 (203)
T ss_pred             cccEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHH-HHHH---cCCCcEEEEEEchhccCHHHHH
Confidence            12689999999999887777777888999999999997421111111221 1211   1235789999999986432211


Q ss_pred             --HHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          139 --REEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       139 --~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                        .++...+...   .+.+++.+||++|.|+++++++|.+.+..
T Consensus       157 ~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l~~  200 (203)
T cd01888         157 ENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKIPT  200 (203)
T ss_pred             HHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhCCC
Confidence              1222233322   25679999999999999999999876654

eIF2 is a heterotrimeric translation initiation factor that consists of alpha, beta, and gamma subunits. The GTP-bound gamma subunit also binds initiator methionyl-tRNA and delivers it to the 40S ribosomal subunit. Following hydrolysis of GTP to GDP, eIF2:GDP is released from the ribosome. The gamma subunit has no intrinsic GTPase activity, but is stimulated by the GTPase activating protein (GAP) eIF5, and GDP/GTP exchange is stimulated by the guanine nucleotide exchange factor (GEF) eIF2B. eIF2B is a heteropentamer, and the epsilon chain binds eIF2. Both eIF5 and eIF2B-epsilon are known to bind strongly to eIF2-beta, but have also been shown to bind directly to eIF2-gamma. It is possible that eIF2-beta serves simply as a high-affinity docking site for eIF5 and eIF2B-epsilon, or that eIF2-beta serves a regulatory role. eIF2-gamma is found only in eukaryotes and archaea. It is closely related to SelB, the sel

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.88  E-value=2.9e-21  Score=142.42  Aligned_cols=160  Identities=19%  Similarity=0.177  Sum_probs=106.8

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCC-CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc----------ccccc
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE----------RFGTL   77 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~----------~~~~~   77 (210)
                      ..+..++|+++|.+|+|||||++++.+..+ ..+.++++.+........   ...+.+|||||..          .+...
T Consensus        20 ~~~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~   96 (196)
T PRK00454         20 PPDDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKL   96 (196)
T ss_pred             CCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHH
Confidence            334678999999999999999999998764 346666665554433332   3679999999953          22233


Q ss_pred             hhhhhcc---ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHHHHHHHcCCe
Q 028315           78 TSSYYRG---AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGMILAQEHKCL  152 (210)
Q Consensus        78 ~~~~~~~---~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~  152 (210)
                      ...+++.   .+++++|+|..++.+....  .+...+.    ..+.|+++++||+|+....+..  .++..........+
T Consensus        97 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~--~i~~~l~----~~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~  170 (196)
T PRK00454         97 IEEYLRTRENLKGVVLLIDSRHPLKELDL--QMIEWLK----EYGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDE  170 (196)
T ss_pred             HHHHHHhCccceEEEEEEecCCCCCHHHH--HHHHHHH----HcCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCc
Confidence            3444544   4678889998876443321  1222232    2468899999999986433221  11222333333578


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHHc
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ++++||+++.|++++++.|.+.+.+
T Consensus       171 ~~~~Sa~~~~gi~~l~~~i~~~~~~  195 (196)
T PRK00454        171 VILFSSLKKQGIDELRAAIAKWLAE  195 (196)
T ss_pred             eEEEEcCCCCCHHHHHHHHHHHhcC
Confidence            9999999999999999998876653

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.87  E-value=9.9e-22  Score=161.28  Aligned_cols=152  Identities=23%  Similarity=0.157  Sum_probs=107.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc--------cccchhhhhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER--------FGTLTSSYYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--------~~~~~~~~~~~~d   86 (210)
                      +|+++|.+|||||||+++|.+.......+.++.+.......+...+..+.+|||||...        +......+++.+|
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad   80 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVSDTPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEAD   80 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceecCCCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCC
Confidence            58999999999999999999877544455555544433333333345699999999632        2334455678999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVK  165 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  165 (210)
                      ++++|+|+.++.+....  .+...+..    .++|+++|+||+|+......    ..+ ...+++ +++++||++|.|++
T Consensus        81 ~vl~vvD~~~~~~~~d~--~i~~~l~~----~~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~  149 (429)
T TIGR03594        81 VILFVVDGREGLTPEDE--EIAKWLRK----SGKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIG  149 (429)
T ss_pred             EEEEEEeCCCCCCHHHH--HHHHHHHH----hCCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChH
Confidence            99999999876443322  23333432    46899999999998654321    122 334566 69999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++++++.+.+..
T Consensus       150 ~ll~~i~~~l~~  161 (429)
T TIGR03594       150 DLLDAILELLPE  161 (429)
T ss_pred             HHHHHHHHhcCc
Confidence            999999988754

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=3e-21  Score=158.68  Aligned_cols=160  Identities=24%  Similarity=0.182  Sum_probs=111.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc-----------hhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL-----------TSS   80 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~-----------~~~   80 (210)
                      ..++|+++|.+|+|||||++++++.......+..+++.......+...+..+.+|||||.......           ...
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~~~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~  251 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSDIAGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLK  251 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecCCCCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHH
Confidence            579999999999999999999998776555555566655544444334456889999996433211           123


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH----cCCeEEEe
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE----HKCLFLEC  156 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~----~~~~~~~~  156 (210)
                      +++.+|++++|+|++++.+.+...  +...+.    ..+.|+++++||+|+.+.... .+....+...    ..++++++
T Consensus       252 ~~~~ad~~ilViD~~~~~~~~~~~--i~~~~~----~~~~~~ivv~NK~Dl~~~~~~-~~~~~~~~~~l~~~~~~~i~~~  324 (435)
T PRK00093        252 AIERADVVLLVIDATEGITEQDLR--IAGLAL----EAGRALVIVVNKWDLVDEKTM-EEFKKELRRRLPFLDYAPIVFI  324 (435)
T ss_pred             HHHHCCEEEEEEeCCCCCCHHHHH--HHHHHH----HcCCcEEEEEECccCCCHHHH-HHHHHHHHHhcccccCCCEEEE
Confidence            578899999999999987666543  222222    246899999999998633211 1111122222    24689999


Q ss_pred             cccCCcCHHHHHHHHHHHHHcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ||++|.|++++++.+.+.....
T Consensus       325 SA~~~~gv~~l~~~i~~~~~~~  346 (435)
T PRK00093        325 SALTGQGVDKLLEAIDEAYENA  346 (435)
T ss_pred             eCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999988766543

>PRK11058 GTPase HflX; Provisional

Probab=99.87  E-value=2.4e-21  Score=157.19  Aligned_cols=157  Identities=18%  Similarity=0.146  Sum_probs=106.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc--ccchhh------hhcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF--GTLTSS------YYRG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~~~~------~~~~   84 (210)
                      .+|+++|.+|||||||+|+|.+..... ..+..+.+.....+.+.+. ..+.+|||||....  ...+..      .++.
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~~-~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~  276 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVADV-GETVLADTVGFIRHLPHDLVAAFKATLQETRQ  276 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCCC-CeEEEEecCcccccCCHHHHHHHHHHHHHhhc
Confidence            589999999999999999998876532 2222222333333344332 26789999997332  222222      3578


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe-EEEecccCCcC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTED  163 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~  163 (210)
                      +|++++|+|++++.+++.+. .|...+.... ..+.|+++|+||+|+.+...  . .. . ....+.+ ++.+||++|.|
T Consensus       277 ADlIL~VvDaS~~~~~e~l~-~v~~iL~el~-~~~~pvIiV~NKiDL~~~~~--~-~~-~-~~~~~~~~~v~ISAktG~G  349 (426)
T PRK11058        277 ATLLLHVVDAADVRVQENIE-AVNTVLEEID-AHEIPTLLVMNKIDMLDDFE--P-RI-D-RDEENKPIRVWLSAQTGAG  349 (426)
T ss_pred             CCEEEEEEeCCCccHHHHHH-HHHHHHHHhc-cCCCCEEEEEEcccCCCchh--H-HH-H-HHhcCCCceEEEeCCCCCC
Confidence            99999999999998777765 4555554433 35789999999999864311  1 11 1 1123444 58899999999


Q ss_pred             HHHHHHHHHHHHHcc
Q 028315          164 VKQCFKDLLYKILEV  178 (210)
Q Consensus       164 i~~l~~~i~~~~~~~  178 (210)
                      +++++++|.+.+...
T Consensus       350 IdeL~e~I~~~l~~~  364 (426)
T PRK11058        350 IPLLFQALTERLSGE  364 (426)
T ss_pred             HHHHHHHHHHHhhhc
Confidence            999999999988543

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.87  E-value=5.4e-21  Score=162.75  Aligned_cols=157  Identities=15%  Similarity=0.185  Sum_probs=111.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCcee--eEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIG--VDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~--~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ..+..+|+++|++++|||||+++|....+.. ....+.  ...+...+...+....+.||||||++.|..++...+..+|
T Consensus       241 ~~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aD  320 (742)
T CHL00189        241 INRPPIVTILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTD  320 (742)
T ss_pred             cccCCEEEEECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCC
Confidence            4577899999999999999999998776654 222222  1222223333445689999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HH------HHHcC--CeEEEec
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-IL------AQEHK--CLFLECS  157 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~------~~~~~--~~~~~~s  157 (210)
                      ++++|+|+.++...+... .|.. +.    ..++|++|++||+|+....   .++.. .+      ...++  ++++++|
T Consensus       321 iaILVVDA~dGv~~QT~E-~I~~-~k----~~~iPiIVViNKiDl~~~~---~e~v~~eL~~~~ll~e~~g~~vpvv~VS  391 (742)
T CHL00189        321 IAILIIAADDGVKPQTIE-AINY-IQ----AANVPIIVAINKIDKANAN---TERIKQQLAKYNLIPEKWGGDTPMIPIS  391 (742)
T ss_pred             EEEEEEECcCCCChhhHH-HHHH-HH----hcCceEEEEEECCCccccC---HHHHHHHHHHhccchHhhCCCceEEEEE
Confidence            999999998853322222 2221 11    3578999999999986532   12211 11      22233  6899999


Q ss_pred             ccCCcCHHHHHHHHHHHH
Q 028315          158 AKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~  175 (210)
                      |++|.|+++++++|....
T Consensus       392 AktG~GIdeLle~I~~l~  409 (742)
T CHL00189        392 ASQGTNIDKLLETILLLA  409 (742)
T ss_pred             CCCCCCHHHHHHhhhhhh
Confidence            999999999999988754

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.87  E-value=1.2e-20  Score=139.66  Aligned_cols=119  Identities=18%  Similarity=0.284  Sum_probs=90.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc-cEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA-HGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~-d~~i~v~d   93 (210)
                      +|+++|++|+|||+|+++|....+....+++.................+.+||+||+..+...+..+++.+ +++|+|+|
T Consensus         2 ~vll~G~~~sGKTsL~~~l~~~~~~~t~~s~~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD   81 (203)
T cd04105           2 TVLLLGPSDSGKTALFTKLTTGKYRSTVTSIEPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVD   81 (203)
T ss_pred             eEEEEcCCCCCHHHHHHHHhcCCCCCccCcEeecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEE
Confidence            68999999999999999999887766444443333322222224457899999999999988888889998 99999999


Q ss_pred             CCCH-hhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCC
Q 028315           94 VTRR-ETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        94 ~~~~-~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~  133 (210)
                      +.+. .++.....++...+.... ...+.|+++++||+|+..
T Consensus        82 ~~~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          82 SATFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             CccchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            9997 677777755555544322 136899999999999854

SR-beta and SR-alpha form the heterodimeric signal recognition particle (SRP or SR) receptor that binds SRP to regulate protein translocation across the ER membrane. Nascent polypeptide chains are synthesized with an N-terminal hydrophobic signal sequence that binds SRP54, a component of the SRP. SRP directs targeting of the ribosome-nascent chain complex (RNC) to the ER membrane via interaction with the SR, which is localized to the ER membrane. The RNC is then transferred to the protein-conducting channel, or translocon, which facilitates polypeptide translation across the ER membrane or integration into the ER membrane. SR-beta is found only in eukaryotes; it is believed to control the release of the signal sequence from SRP54 upon binding of the ribosome to the translocon. High expression of SR-beta has been observed in human colon cancer, suggesting it may play a role in the development of this typ

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.87  E-value=3.1e-21  Score=140.37  Aligned_cols=150  Identities=18%  Similarity=0.204  Sum_probs=100.2

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCC-CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc----------ccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE----------RFG   75 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~----------~~~   75 (210)
                      +.++...++|+++|.+|+|||||++++.+..+ ..+.++.+.+.....+..+.   .+.+|||||..          .+.
T Consensus        12 ~~~~~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~liDtpG~~~~~~~~~~~~~~~   88 (179)
T TIGR03598        12 QLPPDDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVND---GFRLVDLPGYGYAKVSKEEKEKWQ   88 (179)
T ss_pred             hCCCCCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeCC---cEEEEeCCCCccccCChhHHHHHH
Confidence            34456788999999999999999999998763 33566666665544444432   68999999953          222


Q ss_pred             cchhhhhcc---ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHHHHHHHHHHcC
Q 028315           76 TLTSSYYRG---AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TREEGMILAQEHK  150 (210)
Q Consensus        76 ~~~~~~~~~---~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~  150 (210)
                      .....+++.   +|++++|+|++++.+.....  +...+.    ..+.|+++++||+|+......  ..++.+......+
T Consensus        89 ~~~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~--~~~~~~----~~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~  162 (179)
T TIGR03598        89 KLIEEYLEKRENLKGVVLLMDIRHPLKELDLE--MLEWLR----ERGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDA  162 (179)
T ss_pred             HHHHHHHHhChhhcEEEEEecCCCCCCHHHHH--HHHHHH----HcCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhcc
Confidence            333345543   58999999998865544432  223332    247899999999998643222  1223333333333


Q ss_pred             --CeEEEecccCCcCHH
Q 028315          151 --CLFLECSAKNTEDVK  165 (210)
Q Consensus       151 --~~~~~~sa~~~~~i~  165 (210)
                        ..++++||++|.|++
T Consensus       163 ~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       163 DDPSVQLFSSLKKTGID  179 (179)
T ss_pred             CCCceEEEECCCCCCCC
Confidence              479999999999973

Members of this protein family are a GTPase associated with ribosome biogenesis, typified by YsxC from Bacillus subutilis. The family is widely but not universally distributed among bacteria. Members commonly are called EngB based on homology to EngA, one of several other GTPases of ribosome biogenesis. Cutoffs as set find essentially all bacterial members, but also identify large numbers of eukaryotic (probably organellar) sequences. This protein is found in about 80 percent of bacterial genomes.

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.87  E-value=5.2e-21  Score=161.27  Aligned_cols=159  Identities=19%  Similarity=0.196  Sum_probs=114.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCC------C------CCceeeEEEEEEEEE-----CCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHD------P------SPTIGVDFKIKLLTV-----GGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~------~------~~~~~~~~~~~~~~~-----~~~~~~~~l~Dt~G~   71 (210)
                      ++.-||+++|+.++|||||+.+|+...  ...      .      ..+.+.++....+.+     ++..+.++||||||+
T Consensus         5 ~~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh   84 (600)
T PRK05433          5 KNIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGH   84 (600)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCc
Confidence            344589999999999999999997632  111      1      122344443333222     455789999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  151 (210)
                      ..|...+..+++.+|++|+|+|++++...+... .|....     ..+.|+++|+||+|+....  .......+...++.
T Consensus        85 ~dF~~~v~~sl~~aD~aILVVDas~gv~~qt~~-~~~~~~-----~~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~  156 (600)
T PRK05433         85 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLA-NVYLAL-----ENDLEIIPVLNKIDLPAAD--PERVKQEIEDVIGI  156 (600)
T ss_pred             HHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHH-HHHHHH-----HCCCCEEEEEECCCCCccc--HHHHHHHHHHHhCC
Confidence            999999999999999999999999876655554 444332     2468999999999985432  12222344444454


Q ss_pred             ---eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 ---LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 ---~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                         .++.+||++|.|+++++++|.+.+..
T Consensus       157 ~~~~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        157 DASDAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             CcceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence               38999999999999999999987753

>PF00009 GTP_EFTU: Elongation factor Tu GTP binding domain; InterPro: IPR000795 Elongation factors belong to a family of proteins that promote the GTP-dependent binding of aminoacyl tRNA to the A site of ribosomes during protein biosynthesis, and catalyse the translocation of the synthesised protein chain from the A to the P site

Probab=99.87  E-value=1.2e-21  Score=143.65  Aligned_cols=159  Identities=21%  Similarity=0.178  Sum_probs=106.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC-----------------CCceeeEEEEEEEEE--CCeEEEEEEEeCCCCc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP-----------------SPTIGVDFKIKLLTV--GGKRLKLTIWDTAGQE   72 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~-----------------~~~~~~~~~~~~~~~--~~~~~~~~l~Dt~G~~   72 (210)
                      +.++|+++|+.++|||||+.+|+.......                 ....+.+........  ......+.++||||+.
T Consensus         2 ~~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~   81 (188)
T PF00009_consen    2 NIRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHE   81 (188)
T ss_dssp             TEEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSH
T ss_pred             CEEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeeccccccc
Confidence            468999999999999999999975442110                 000111111112222  2456789999999999


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHH-HHHHHc-
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGM-ILAQEH-  149 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~-~~~~~~-  149 (210)
                      .|.......+..+|++|+|+|+.++...+... .+.. +.    ..+.|++|++||+|+...+.. ..++.. .+.+.. 
T Consensus        82 ~f~~~~~~~~~~~D~ailvVda~~g~~~~~~~-~l~~-~~----~~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~  155 (188)
T PF00009_consen   82 DFIKEMIRGLRQADIAILVVDANDGIQPQTEE-HLKI-LR----ELGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYG  155 (188)
T ss_dssp             HHHHHHHHHHTTSSEEEEEEETTTBSTHHHHH-HHHH-HH----HTT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTT
T ss_pred             ceeecccceecccccceeeeeccccccccccc-cccc-cc----ccccceEEeeeeccchhhhHHHHHHHHHHHhccccc
Confidence            99888888899999999999999775443332 2322 22    357789999999998721110 011111 232222 


Q ss_pred             -----CCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          150 -----KCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       150 -----~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                           .++++.+||.+|.|+++|++.|.+.+.
T Consensus       156 ~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  156 ENGEEIVPVIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             STTTSTEEEEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             cCccccceEEEEecCCCCCHHHHHHHHHHhCc
Confidence                 257999999999999999999988754

The proteins are all relatively similar in the vicinity of their C-termini, and are also highly similar to a range of proteins that includes the nodulation Q protein from Rhizobium meliloti (Sinorhizobium meliloti), bacterial tetracycline resistance proteins [] and the omnipotent suppressor protein 2 from yeast. In both prokaryotes and eukaryotes, there are three distinct types of elongation factors, EF-1alpha (EF-Tu), which binds GTP and an aminoacyl-tRNAand delivers the latter to the A site of ribosomes; EF-1beta (EF-Ts), which interacts with EF-1a/EF-Tu to displace GDP and thus allows the regeneration of GTP-EF-1a; and EF-2 (EF-G), which binds GTP and peptidyl-tRNA and translocates the latter from the A site to the P site. In EF-1-alpha, a specific region has been shown [] to be involved in a conformational change mediated by the hydrolysis of GTP to GDP. This region is conserved in both EF-1alpha/EF-Tu as well as EF-2/EF-G and thus seems typical for GTP-dependent proteins which bind non-initiator tRNAs to the ribosome. The GTP-binding protein synthesis factor family also includes the eukaryotic peptide chain release factor GTP-binding subunits [] and prokaryotic peptide chain release factor 3 (RF-3) []; the prokaryotic GTP-binding protein lepA and its homologue in yeast (GUF1) and Caenorhabditis elegans (ZK1236.1); yeast HBS1 []; rat statin S1 []; and the prokaryotic selenocysteine-specific elongation factor selB [].; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 3IZW_C 1DG1_G 2BVN_B 3IZV_C 3MMP_C 1OB2_A 1EFU_A 3FIH_Z 3TR5_A 1TUI_C ....

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.86  E-value=3.8e-21  Score=130.68  Aligned_cols=176  Identities=25%  Similarity=0.458  Sum_probs=141.5

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      ..+.+..-++||.++|++..|||||+-++.++.+.+ +..+.|..+..+.+.+.+.++.+.+||+.|++++.......-.
T Consensus        12 ~~a~~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~   91 (205)
T KOG1673|consen   12 IPAVSNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACK   91 (205)
T ss_pred             CcccccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeec
Confidence            344455678999999999999999999999998866 8889999999999999999999999999999999888887778


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC--CCccCH---HHHHHHHHHcCCeEEEecc
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS--ERAVTR---EEGMILAQEHKCLFLECSA  158 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~--~~~~~~---~~~~~~~~~~~~~~~~~sa  158 (210)
                      ++-+++++||++.+.++..+. .|.......- +..+| ++|++|.|+--  +.+..+   .+++..++..+++.|+||+
T Consensus        92 dsvaIlFmFDLt~r~TLnSi~-~WY~QAr~~N-ktAiP-ilvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~St  168 (205)
T KOG1673|consen   92 DSVAILFMFDLTRRSTLNSIK-EWYRQARGLN-KTAIP-ILVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCST  168 (205)
T ss_pred             CcEEEEEEEecCchHHHHHHH-HHHHHHhccC-Cccce-EEeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeec
Confidence            889999999999999999999 5555443222 34456 66799999621  111111   2345566777899999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccchhhh
Q 028315          159 KNTEDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      ....|++.+|.-++-++..-+-.-+
T Consensus       169 s~sINv~KIFK~vlAklFnL~~ti~  193 (205)
T KOG1673|consen  169 SHSINVQKIFKIVLAKLFNLPWTIP  193 (205)
T ss_pred             cccccHHHHHHHHHHHHhCCceecc
Confidence            9999999999999988886654333

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.86  E-value=1e-20  Score=162.38  Aligned_cols=154  Identities=18%  Similarity=0.220  Sum_probs=108.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+..+|+++|+.++|||||+++|....+.. ....+..+.....+...  +..+.||||||++.|..++...+..+|++
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~m~~rga~~aDia  364 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTAMRARGAQVTDIV  364 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchhHHHhhhhhCCEE
Confidence            4678899999999999999999998766544 22222222222223333  46799999999999999998889999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-H------HHHHcC--CeEEEeccc
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-I------LAQEHK--CLFLECSAK  159 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~------~~~~~~--~~~~~~sa~  159 (210)
                      |+|+|+++...-+... .|.. ..    ..++|++|++||+|+....   .+... .      +...++  ++++++||+
T Consensus       365 ILVVdAddGv~~qT~e-~i~~-a~----~~~vPiIVviNKiDl~~a~---~e~V~~eL~~~~~~~e~~g~~vp~vpvSAk  435 (787)
T PRK05306        365 VLVVAADDGVMPQTIE-AINH-AK----AAGVPIIVAINKIDKPGAN---PDRVKQELSEYGLVPEEWGGDTIFVPVSAK  435 (787)
T ss_pred             EEEEECCCCCCHhHHH-HHHH-HH----hcCCcEEEEEECccccccC---HHHHHHHHHHhcccHHHhCCCceEEEEeCC
Confidence            9999999843222222 2221 11    3578999999999995432   11111 1      122333  679999999


Q ss_pred             CCcCHHHHHHHHHHH
Q 028315          160 NTEDVKQCFKDLLYK  174 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~  174 (210)
                      +|.|++++|++|...
T Consensus       436 tG~GI~eLle~I~~~  450 (787)
T PRK05306        436 TGEGIDELLEAILLQ  450 (787)
T ss_pred             CCCCchHHHHhhhhh
Confidence            999999999998753

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.86  E-value=4.5e-21  Score=157.64  Aligned_cols=148  Identities=22%  Similarity=0.134  Sum_probs=102.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeE--EEEEEEEECCeEEEEEEEeCCCCccc--------ccchhhhhc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVD--FKIKLLTVGGKRLKLTIWDTAGQERF--------GTLTSSYYR   83 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~l~Dt~G~~~~--------~~~~~~~~~   83 (210)
                      .+|+++|.+|||||||+++|.+.........++.+  ........++  ..+.+|||||.+..        ......+++
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~~--~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~   79 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWLG--REFILIDTGGIEPDDDGFEKQIREQAELAIE   79 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEECC--cEEEEEECCCCCCcchhHHHHHHHHHHHHHH
Confidence            47999999999999999999887754433333333  3333334444  78999999998762        222345678


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe-EEEecccCCc
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTE  162 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~  162 (210)
                      .+|++++|+|+.++.+....  .+...+.    ..+.|+++|+||+|+...    .+...++ ..+++. ++++||++|.
T Consensus        80 ~ad~il~vvd~~~~~~~~~~--~~~~~l~----~~~~piilv~NK~D~~~~----~~~~~~~-~~lg~~~~~~iSa~~g~  148 (435)
T PRK00093         80 EADVILFVVDGRAGLTPADE--EIAKILR----KSNKPVILVVNKVDGPDE----EADAYEF-YSLGLGEPYPISAEHGR  148 (435)
T ss_pred             hCCEEEEEEECCCCCCHHHH--HHHHHHH----HcCCcEEEEEECccCccc----hhhHHHH-HhcCCCCCEEEEeeCCC
Confidence            99999999999886443221  1222232    237899999999997431    1222222 345654 8999999999


Q ss_pred             CHHHHHHHHHHH
Q 028315          163 DVKQCFKDLLYK  174 (210)
Q Consensus       163 ~i~~l~~~i~~~  174 (210)
                      |++++++++.+.
T Consensus       149 gv~~l~~~I~~~  160 (435)
T PRK00093        149 GIGDLLDAILEE  160 (435)
T ss_pred             CHHHHHHHHHhh
Confidence            999999999873

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.86  E-value=9.1e-21  Score=163.50  Aligned_cols=154  Identities=16%  Similarity=0.094  Sum_probs=109.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc--------ccchhhhhcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF--------GTLTSSYYRG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--------~~~~~~~~~~   84 (210)
                      ..+|+++|.++||||||+|+|++.......++++.+...........+..+.+|||||.+..        ......+++.
T Consensus       275 ~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~  354 (712)
T PRK09518        275 VGVVAIVGRPNVGKSTLVNRILGRREAVVEDTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSL  354 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCCceeecCCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHh
Confidence            46899999999999999999998776555666666665554443333457899999997632        2233446789


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTED  163 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  163 (210)
                      +|++++|+|+.+...  .....|...+.    ..+.|+++|+||+|+....   . ....+. .++. ..+++||++|.|
T Consensus       355 aD~iL~VvDa~~~~~--~~d~~i~~~Lr----~~~~pvIlV~NK~D~~~~~---~-~~~~~~-~lg~~~~~~iSA~~g~G  423 (712)
T PRK09518        355 ADAVVFVVDGQVGLT--STDERIVRMLR----RAGKPVVLAVNKIDDQASE---Y-DAAEFW-KLGLGEPYPISAMHGRG  423 (712)
T ss_pred             CCEEEEEEECCCCCC--HHHHHHHHHHH----hcCCCEEEEEECcccccch---h-hHHHHH-HcCCCCeEEEECCCCCC
Confidence            999999999987532  22224545554    3678999999999985421   1 112221 2233 367999999999


Q ss_pred             HHHHHHHHHHHHHc
Q 028315          164 VKQCFKDLLYKILE  177 (210)
Q Consensus       164 i~~l~~~i~~~~~~  177 (210)
                      +++++++|++.+..
T Consensus       424 I~eLl~~i~~~l~~  437 (712)
T PRK09518        424 VGDLLDEALDSLKV  437 (712)
T ss_pred             chHHHHHHHHhccc
Confidence            99999999998754

>cd00880 Era_like Era (E

Probab=99.86  E-value=9.3e-21  Score=134.39  Aligned_cols=151  Identities=23%  Similarity=0.170  Sum_probs=103.1

Q ss_pred             EEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECC-eEEEEEEEeCCCCccccc-------chhhhhccccEEE
Q 028315           18 LIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGG-KRLKLTIWDTAGQERFGT-------LTSSYYRGAHGII   89 (210)
Q Consensus        18 i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~-------~~~~~~~~~d~~i   89 (210)
                      ++|++|+|||||++++.+..........+.+.......... ....+.+|||||...+..       ....+++.+|+++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~il   80 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGREREELARRVLERADLIL   80 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEEE
Confidence            58999999999999998876653222222222222222221 156899999999766543       3334678999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH---HHHHHHHcCCeEEEecccCCcCHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE---GMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|+|+.+........  +.....    ..+.|+++|+||+|+..........   ........+.+++++||+++.|+++
T Consensus        81 ~v~~~~~~~~~~~~~--~~~~~~----~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~  154 (163)
T cd00880          81 FVVDADLRADEEEEK--LLELLR----ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDE  154 (163)
T ss_pred             EEEeCCCCCCHHHHH--HHHHHH----hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHH
Confidence            999999987655443  222221    4688999999999987654332211   1222333467899999999999999


Q ss_pred             HHHHHHHH
Q 028315          167 CFKDLLYK  174 (210)
Q Consensus       167 l~~~i~~~  174 (210)
                      +++++.+.
T Consensus       155 l~~~l~~~  162 (163)
T cd00880         155 LREALIEA  162 (163)
T ss_pred             HHHHHHhh
Confidence            99998765

coli Ras-like protein)-like. This family includes several distinct subfamilies (TrmE/ThdF, FeoB, YihA (EngG), Era, and EngA/YfgK) that generally show sequence conservation in the region between the Walker A and B motifs (G1 and G3 box motifs), to the exclusion of other GTPases. TrmE is ubiquitous in bacteria and is a widespread mitochondrial protein in eukaryotes, but is absent from archaea. The yeast member of TrmE family, MSS1, is involved in mitochondrial translation; bacterial members are often present in translation-related operons. FeoB represents an unusual adaptation of GTPases for high-affinity iron (II) transport. YihA (EngB) family of GTPases is typified by the E. coli YihA, which is an essential protein involved in cell division control. Era is characterized by a distinct derivative of the KH domain (the pseudo-KH domain) which is located C-terminal to the GTPase domain. EngA and its orthologs are composed of two GTPase domains and, since the se

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.86  E-value=1.6e-20  Score=158.07  Aligned_cols=155  Identities=19%  Similarity=0.221  Sum_probs=110.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC---CCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS---VHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~---~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++|+++|++++|||||+++|.+..   +.+ ..+.++.+.....+...+  ..+.+||+||++.|...+...+..+|+++
T Consensus         1 ~~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aI   78 (581)
T TIGR00475         1 MIIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAAL   78 (581)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEE
Confidence            478999999999999999998643   222 333444444433344443  78999999999999888888889999999


Q ss_pred             EEEeCCCH---hhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC--HHHHHHHHHHc----CCeEEEeccc
Q 028315           90 LVYDVTRR---ETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT--REEGMILAQEH----KCLFLECSAK  159 (210)
Q Consensus        90 ~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~----~~~~~~~sa~  159 (210)
                      +|+|++++   ++++.+.     .+.    ..++| ++||+||+|+.+...+.  .++...+....    +++++++||+
T Consensus        79 LVVDa~~G~~~qT~ehl~-----il~----~lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~  149 (581)
T TIGR00475        79 LVVDADEGVMTQTGEHLA-----VLD----LLGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAK  149 (581)
T ss_pred             EEEECCCCCcHHHHHHHH-----HHH----HcCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCC
Confidence            99999984   3333222     222    23567 99999999997544321  23344444433    4689999999


Q ss_pred             CCcCHHHHHHHHHHHHHccc
Q 028315          160 NTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +|.|+++++.++.+.+....
T Consensus       150 tG~GI~eL~~~L~~l~~~~~  169 (581)
T TIGR00475       150 TGQGIGELKKELKNLLESLD  169 (581)
T ss_pred             CCCCchhHHHHHHHHHHhCC
Confidence            99999999999877765443

In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3-prime or 5-prime non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation. This model describes the elongation factor SelB, a close homolog rf EF-Tu. It may function by replacing EF-Tu. A C-terminal domain not found in EF-Tu is in all SelB sequences in the seed alignment except that from Methanococcus jannaschii. This model does not find an equivalent protein for eukaryotes.

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.86  E-value=3e-20  Score=160.10  Aligned_cols=153  Identities=16%  Similarity=0.143  Sum_probs=117.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc----------hhhhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL----------TSSYY   82 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~----------~~~~~   82 (210)
                      .++|+++|++|+|||||+|++.+... ...+.++.+.......+...+..+.+|||||...+...          ...++
T Consensus         3 ~~~IaLvG~pNvGKSTLfN~Ltg~~~-~vgn~pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l   81 (772)
T PRK09554          3 KLTIGLIGNPNSGKTTLFNQLTGARQ-RVGNWAGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYI   81 (772)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCC-ccCCCCCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHH
Confidence            47899999999999999999987654 45666788887777777777788999999998766431          12232


Q ss_pred             --ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           83 --RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        83 --~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                        ..+|++++|+|+++.++.   . ++...+.    ..+.|+++++||+|+.+.+.+. .+...+.+.++++++.+||++
T Consensus        82 ~~~~aD~vI~VvDat~ler~---l-~l~~ql~----e~giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~  152 (772)
T PRK09554         82 LSGDADLLINVVDASNLERN---L-YLTLQLL----ELGIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTR  152 (772)
T ss_pred             hccCCCEEEEEecCCcchhh---H-HHHHHHH----HcCCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeec
Confidence              479999999999986442   2 2323332    2578999999999987555553 356677888999999999999


Q ss_pred             CcCHHHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLYKI  175 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~  175 (210)
                      |.|++++++.+.+..
T Consensus       153 g~GIdeL~~~I~~~~  167 (772)
T PRK09554        153 GRGIEALKLAIDRHQ  167 (772)
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999887765

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.86  E-value=1.2e-21  Score=131.40  Aligned_cols=161  Identities=25%  Similarity=0.347  Sum_probs=128.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++.+++++|.-|+|||++..++--+......|+++....    .+......+++||+.|+-..+..|+-++.+.|.+||
T Consensus        16 e~e~rililgldGaGkttIlyrlqvgevvttkPtigfnve----~v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIy   91 (182)
T KOG0072|consen   16 EREMRILILGLDGAGKTTILYRLQVGEVVTTKPTIGFNVE----TVPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIY   91 (182)
T ss_pred             ccceEEEEeeccCCCeeEEEEEcccCcccccCCCCCcCcc----ccccccccceeeEccCcccccHHHHHHhcccceEEE
Confidence            4789999999999999999999877777778888887766    445578899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-----HHHHHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-----ILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-----~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|.+|.+........+..++.... ..+.-++|++||.|.....  ...++.     ...+..-+.+|++||.+|.|++
T Consensus        92 VVDssd~dris~a~~el~~mL~E~e-Lq~a~llv~anKqD~~~~~--t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld  168 (182)
T KOG0072|consen   92 VVDSSDRDRISIAGVELYSMLQEEE-LQHAKLLVFANKQDYSGAL--TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLD  168 (182)
T ss_pred             EEeccchhhhhhhHHHHHHHhccHh-hcCceEEEEeccccchhhh--hHHHHHHHhChHHHhhheeEEEeeccccccCCc
Confidence            9999999888777766777765544 3557788999999985432  222221     1122233679999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ..++|+.+.+..+
T Consensus       169 ~~~DWL~~~l~~~  181 (182)
T KOG0072|consen  169 PAMDWLQRPLKSR  181 (182)
T ss_pred             HHHHHHHHHHhcc
Confidence            9999999887653

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.86  E-value=3.5e-21  Score=166.05  Aligned_cols=158  Identities=20%  Similarity=0.179  Sum_probs=107.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCCCccc----------ccch-
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQERF----------GTLT-   78 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~----------~~~~-   78 (210)
                      ..+||+++|.+|||||||+++|++.......+..+++..  ...+.+++.  .+.+|||||....          .... 
T Consensus       449 ~~~kI~ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~~--~~~liDTaG~~~~~~~~~~~e~~~~~r~  526 (712)
T PRK09518        449 GLRRVALVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDGE--DWLFIDTAGIKRRQHKLTGAEYYSSLRT  526 (712)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECCC--EEEEEECCCcccCcccchhHHHHHHHHH
Confidence            458999999999999999999998875433333333333  333444544  5679999995321          1111 


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HHHHH----cCCeE
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-ILAQE----HKCLF  153 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~  153 (210)
                      ...++.+|++++|+|++++.+++... .+....     ..++|+++|+||+|+.+...  .+... .+...    ..+++
T Consensus       527 ~~~i~~advvilViDat~~~s~~~~~-i~~~~~-----~~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~i  598 (712)
T PRK09518        527 QAAIERSELALFLFDASQPISEQDLK-VMSMAV-----DAGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARR  598 (712)
T ss_pred             HHHhhcCCEEEEEEECCCCCCHHHHH-HHHHHH-----HcCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCE
Confidence            23468899999999999988777665 333222     25789999999999964322  11111 12222    13468


Q ss_pred             EEecccCCcCHHHHHHHHHHHHHccc
Q 028315          154 LECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +.+||++|.|++++++.+.+.+....
T Consensus       599 i~iSAktg~gv~~L~~~i~~~~~~~~  624 (712)
T PRK09518        599 VNLSAKTGWHTNRLAPAMQEALESWD  624 (712)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999999877543

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=1.7e-20  Score=148.88  Aligned_cols=163  Identities=23%  Similarity=0.183  Sum_probs=122.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----------cccc-hhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----------FGTL-TSS   80 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----------~~~~-~~~   80 (210)
                      ..+||+++|.|++|||||+|++++......++..|++.......+...+..+.++||+|...          |... ...
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~~aGTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~  256 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSDIAGTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLK  256 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecCCCCccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHh
Confidence            46999999999999999999999999988999999999988877775666788889999322          2111 123


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HHHHH----cCCeEEE
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-ILAQE----HKCLFLE  155 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~~----~~~~~~~  155 (210)
                      .+..+|++++|+|++.+.+.++..  ....+.    ..+.++++++||+|+.+......++.. .+...    ..++++.
T Consensus       257 aI~~a~vvllviDa~~~~~~qD~~--ia~~i~----~~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~  330 (444)
T COG1160         257 AIERADVVLLVIDATEGISEQDLR--IAGLIE----EAGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVF  330 (444)
T ss_pred             HHhhcCEEEEEEECCCCchHHHHH--HHHHHH----HcCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEE
Confidence            467899999999999987655543  333333    478899999999998765333333322 22222    2568999


Q ss_pred             ecccCCcCHHHHHHHHHHHHHccch
Q 028315          156 CSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +||++|.++.++|+.+.+.......
T Consensus       331 iSA~~~~~i~~l~~~i~~~~~~~~~  355 (444)
T COG1160         331 ISALTGQGLDKLFEAIKEIYECATR  355 (444)
T ss_pred             EEecCCCChHHHHHHHHHHHHHhcc
Confidence            9999999999999998876654443

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.85  E-value=1.8e-20  Score=157.88  Aligned_cols=146  Identities=18%  Similarity=0.177  Sum_probs=104.3

Q ss_pred             cCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc------hhhhh--ccccEEEEE
Q 028315           20 GDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL------TSSYY--RGAHGIILV   91 (210)
Q Consensus        20 G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~------~~~~~--~~~d~~i~v   91 (210)
                      |++|+|||||+|++.+... ...+.++.+.......+...+..+++|||||+..+...      ...++  +.+|++++|
T Consensus         1 G~pNvGKSSL~N~Ltg~~~-~v~n~pG~Tv~~~~~~i~~~~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~V   79 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ-TVGNWPGVTVEKKEGKLGFQGEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVNV   79 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC-eecCCCCeEEEEEEEEEEECCeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEEE
Confidence            8999999999999988765 33334444444333333223346789999998877543      33333  378999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +|+++.+..   . ++...+.    ..+.|+++++||+|+.+.+.+. .+.+.+.+..+++++++||++|.|++++++++
T Consensus        80 vDat~ler~---l-~l~~ql~----~~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i  150 (591)
T TIGR00437        80 VDASNLERN---L-YLTLQLL----ELGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAI  150 (591)
T ss_pred             ecCCcchhh---H-HHHHHHH----hcCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHH
Confidence            999875431   1 2222221    2578999999999986655554 34677888889999999999999999999999


Q ss_pred             HHHH
Q 028315          172 LYKI  175 (210)
Q Consensus       172 ~~~~  175 (210)
                      .+.+
T Consensus       151 ~~~~  154 (591)
T TIGR00437       151 RKAI  154 (591)
T ss_pred             HHHh
Confidence            8764

FeoB (773 amino acids in E. coli), a cytoplasmic membrane protein required for iron(II) update, is encoded in an operon with FeoA (75 amino acids), which is also required, and is regulated by Fur. There appear to be two copies in Archaeoglobus fulgidus and Clostridium acetobutylicum.

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.85  E-value=2.8e-21  Score=133.77  Aligned_cols=159  Identities=29%  Similarity=0.385  Sum_probs=122.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCC---C-----CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSV---H-----DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (210)
                      .+.|+|+|.-++|||||+........   .     ...+|.+....    +++-....+.|||..|++..+++|..+|..
T Consensus        17 ~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig----~i~v~~~~l~fwdlgGQe~lrSlw~~yY~~   92 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIG----TIEVCNAPLSFWDLGGQESLRSLWKKYYWL   92 (197)
T ss_pred             hhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeec----ceeeccceeEEEEcCChHHHHHHHHHHHHH
Confidence            57899999999999999998744321   1     13445444433    233336789999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH---HHHc---CCeEEEecc
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL---AQEH---KCLFLECSA  158 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~---~~~~---~~~~~~~sa  158 (210)
                      +|++|+++|+++++.|+.....+...+.... -.+.|+++.+||.|+.+..+.  .+....   +...   ..++..+||
T Consensus        93 ~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~-leg~p~L~lankqd~q~~~~~--~El~~~~~~~e~~~~rd~~~~pvSa  169 (197)
T KOG0076|consen   93 AHGIIYVIDATDRERFEESKTAFEKVVENEK-LEGAPVLVLANKQDLQNAMEA--AELDGVFGLAELIPRRDNPFQPVSA  169 (197)
T ss_pred             hceeEEeecCCCHHHHHHHHHHHHHHHHHHH-hcCCchhhhcchhhhhhhhhH--HHHHHHhhhhhhcCCccCccccchh
Confidence            9999999999999999998877766665444 578999999999998654332  222211   2222   346999999


Q ss_pred             cCCcCHHHHHHHHHHHHHcc
Q 028315          159 KNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~  178 (210)
                      .+|.||++...|+.+.+..+
T Consensus       170 l~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  170 LTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             hhcccHHHHHHHHHHHHhhc
Confidence            99999999999999999877

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.85  E-value=8.1e-21  Score=150.69  Aligned_cols=152  Identities=20%  Similarity=0.094  Sum_probs=114.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc---------cchhhhhcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG---------TLTSSYYRG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~---------~~~~~~~~~   84 (210)
                      ..|+++|.||||||||+|||.+.....+..++|.|...........+..+.++||+|.+...         ......+..
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~D~pGvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~e   83 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVSDTPGVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEE   83 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEeecCCCCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHh
Confidence            46899999999999999999999988888888888776655554445668999999966432         122334678


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTED  163 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  163 (210)
                      ||++|+|+|...+.+-.+.  .....+.    ..++|+++|+||+|-..     .++.......+|+ .++.+||..|.|
T Consensus        84 ADvilfvVD~~~Git~~D~--~ia~~Lr----~~~kpviLvvNK~D~~~-----~e~~~~efyslG~g~~~~ISA~Hg~G  152 (444)
T COG1160          84 ADVILFVVDGREGITPADE--EIAKILR----RSKKPVILVVNKIDNLK-----AEELAYEFYSLGFGEPVPISAEHGRG  152 (444)
T ss_pred             CCEEEEEEeCCCCCCHHHH--HHHHHHH----hcCCCEEEEEEcccCch-----hhhhHHHHHhcCCCCceEeehhhccC
Confidence            9999999999986543322  3344444    35789999999999642     2222233334555 599999999999


Q ss_pred             HHHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKIL  176 (210)
Q Consensus       164 i~~l~~~i~~~~~  176 (210)
                      +.+|++++++.+.
T Consensus       153 i~dLld~v~~~l~  165 (444)
T COG1160         153 IGDLLDAVLELLP  165 (444)
T ss_pred             HHHHHHHHHhhcC
Confidence            9999999999984

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.84  E-value=1.4e-20  Score=125.96  Aligned_cols=160  Identities=24%  Similarity=0.339  Sum_probs=127.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+++||+++|..++|||||+..|.........||.|.....  +..+ .++++.+||.+|+...+..|..||.+.|++||
T Consensus        15 ~rEirilllGldnAGKTT~LKqL~sED~~hltpT~GFn~k~--v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIy   91 (185)
T KOG0074|consen   15 RREIRILLLGLDNAGKTTFLKQLKSEDPRHLTPTNGFNTKK--VEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGLIY   91 (185)
T ss_pred             cceEEEEEEecCCCcchhHHHHHccCChhhccccCCcceEE--Eeec-CcEEEEEEecCCccccchhhhhhhhccceEEE
Confidence            67899999999999999999999888887788888865553  3333 45899999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH----HHHcCCeEEEecccCCcCHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL----AQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~----~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      |+|.+|...|+++...+.++++... ...+|+.+..||.|+..+..+.+ .++.+    .+...+.+-+|||.+++|+.+
T Consensus        92 VIDS~D~krfeE~~~el~ELleeeK-l~~vpvlIfankQdlltaa~~ee-ia~klnl~~lrdRswhIq~csals~eg~~d  169 (185)
T KOG0074|consen   92 VIDSTDEKRFEEISEELVELLEEEK-LAEVPVLIFANKQDLLTAAKVEE-IALKLNLAGLRDRSWHIQECSALSLEGSTD  169 (185)
T ss_pred             EEeCCchHhHHHHHHHHHHHhhhhh-hhccceeehhhhhHHHhhcchHH-HHHhcchhhhhhceEEeeeCccccccCccC
Confidence            9999999999988867766665544 57899999999999865443322 11111    111234689999999999999


Q ss_pred             HHHHHHHHH
Q 028315          167 CFKDLLYKI  175 (210)
Q Consensus       167 l~~~i~~~~  175 (210)
                      -.+|+....
T Consensus       170 g~~wv~sn~  178 (185)
T KOG0074|consen  170 GSDWVQSNP  178 (185)
T ss_pred             cchhhhcCC
Confidence            888876543

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.84  E-value=1.9e-20  Score=131.41  Aligned_cols=175  Identities=27%  Similarity=0.481  Sum_probs=146.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...++++++|..|.|||+++.+++.+.|.. +.++.|...+.....-+...+++..|||.|++.+..+...++-.+.+++
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAi   87 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAI   87 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeE
Confidence            368999999999999999999999999988 8899998888776555555699999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      ++||+....++.++. .|..-+.+.+  .++|+++++||.|.... . .......+.+..++.|+++||+.+.|.+.-|.
T Consensus        88 imFdVtsr~t~~n~~-rwhrd~~rv~--~NiPiv~cGNKvDi~~r-~-~k~k~v~~~rkknl~y~~iSaksn~NfekPFl  162 (216)
T KOG0096|consen   88 IMFDVTSRFTYKNVP-RWHRDLVRVR--ENIPIVLCGNKVDIKAR-K-VKAKPVSFHRKKNLQYYEISAKSNYNFERPFL  162 (216)
T ss_pred             EEeeeeehhhhhcch-HHHHHHHHHh--cCCCeeeeccceecccc-c-cccccceeeecccceeEEeecccccccccchH
Confidence            999999999999999 5666665555  46999999999997543 2 22234455666778899999999999999999


Q ss_pred             HHHHHHHccchhhhccccccc
Q 028315          170 DLLYKILEVPSLLEQGSAVVK  190 (210)
Q Consensus       170 ~i~~~~~~~~~~~~~~~~~~~  190 (210)
                      |+.+.+...+....-.....-
T Consensus       163 ~LarKl~G~p~Lefva~paLa  183 (216)
T KOG0096|consen  163 WLARKLTGDPSLEFVAMPALA  183 (216)
T ss_pred             HHhhhhcCCCCeEEEeccccC
Confidence            999999998886655544333

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.84  E-value=4.3e-20  Score=151.19  Aligned_cols=155  Identities=17%  Similarity=0.098  Sum_probs=104.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~   60 (210)
                      -..++|+++|++++|||||+++|+......                              .....|.+.......+....
T Consensus         4 k~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~   83 (425)
T PRK12317          4 KPHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDK   83 (425)
T ss_pred             CCEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCC
Confidence            357999999999999999999997432111                              11245666666666666677


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc----
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA----  136 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~----  136 (210)
                      +.+.||||||++.|.......+..+|++++|+|++++..+......+...+..   ....|++|++||+|+.+...    
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~---~~~~~iivviNK~Dl~~~~~~~~~  160 (425)
T PRK12317         84 YYFTIVDCPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLART---LGINQLIVAINKMDAVNYDEKRYE  160 (425)
T ss_pred             eEEEEEECCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHH---cCCCeEEEEEEccccccccHHHHH
Confidence            89999999999888766556678999999999999731121111122222221   12246899999999864211    


Q ss_pred             cCHHHHHHHHHHcC-----CeEEEecccCCcCHHHHH
Q 028315          137 VTREEGMILAQEHK-----CLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       137 ~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~l~  168 (210)
                      ...++...+....+     ++++++||++|.|++++.
T Consensus       161 ~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        161 EVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHHHHHHHHHhhCCCcCcceEEEeecccCCCccccc
Confidence            11223444444444     469999999999998744

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.84  E-value=7.8e-20  Score=145.51  Aligned_cols=155  Identities=19%  Similarity=0.161  Sum_probs=121.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch--------hhhhc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT--------SSYYR   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~~~~   83 (210)
                      .-+|++++|.||||||||+|.|++.....+++.+|+|+......+.-.++.+.+.||+|..+-....        ...+.
T Consensus       216 ~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTdI~GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~  295 (454)
T COG0486         216 EGLKVVIIGRPNVGKSSLLNALLGRDRAIVTDIAGTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIE  295 (454)
T ss_pred             cCceEEEECCCCCcHHHHHHHHhcCCceEecCCCCCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHH
Confidence            4689999999999999999999999999999999999999999888888999999999966443322        33578


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .||.+++|+|++.+.+-....  ...     ....+.|+++|.||.|+........     +....+.+++.+|+++|.|
T Consensus       296 ~ADlvL~v~D~~~~~~~~d~~--~~~-----~~~~~~~~i~v~NK~DL~~~~~~~~-----~~~~~~~~~i~iSa~t~~G  363 (454)
T COG0486         296 EADLVLFVLDASQPLDKEDLA--LIE-----LLPKKKPIIVVLNKADLVSKIELES-----EKLANGDAIISISAKTGEG  363 (454)
T ss_pred             hCCEEEEEEeCCCCCchhhHH--HHH-----hcccCCCEEEEEechhcccccccch-----hhccCCCceEEEEecCccC
Confidence            899999999999863322222  111     1146789999999999976543211     1122344699999999999


Q ss_pred             HHHHHHHHHHHHHcc
Q 028315          164 VKQCFKDLLYKILEV  178 (210)
Q Consensus       164 i~~l~~~i~~~~~~~  178 (210)
                      ++.+.+.|.+.+...
T Consensus       364 l~~L~~~i~~~~~~~  378 (454)
T COG0486         364 LDALREAIKQLFGKG  378 (454)
T ss_pred             HHHHHHHHHHHHhhc
Confidence            999999988887765

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.83  E-value=3.1e-20  Score=138.15  Aligned_cols=148  Identities=18%  Similarity=0.132  Sum_probs=95.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCC------------------------------CCceeeEEEEEEEEECCeEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDP------------------------------SPTIGVDFKIKLLTVGGKRLKLT   64 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~~   64 (210)
                      ||+++|++++|||||+++|+.......                              ....+.+.......+...+..+.
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~   80 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFI   80 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEE
Confidence            689999999999999999975432111                              01133344444444444566889


Q ss_pred             EEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc----CHH
Q 028315           65 IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV----TRE  140 (210)
Q Consensus        65 l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~----~~~  140 (210)
                      +|||||++.|...+...++.+|++++|+|++++..-+..  .....+..   ....++++|+||+|+.+....    ...
T Consensus        81 liDTpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~~--~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~i~~  155 (208)
T cd04166          81 IADTPGHEQYTRNMVTGASTADLAILLVDARKGVLEQTR--RHSYILSL---LGIRHVVVAVNKMDLVDYSEEVFEEIVA  155 (208)
T ss_pred             EEECCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhHH--HHHHHHHH---cCCCcEEEEEEchhcccCCHHHHHHHHH
Confidence            999999988866666678899999999999876422211  11122221   122457889999998643211    112


Q ss_pred             HHHHHHHHcC---CeEEEecccCCcCHHHH
Q 028315          141 EGMILAQEHK---CLFLECSAKNTEDVKQC  167 (210)
Q Consensus       141 ~~~~~~~~~~---~~~~~~sa~~~~~i~~l  167 (210)
                      +...+...++   .+++.+||++|.|+.+.
T Consensus       156 ~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         156 DYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            3334444555   35999999999998863

CysN, together with protein CysD, form the ATP sulfurylase (ATPS) complex in some bacteria and lower eukaryotes. ATPS catalyzes the production of ATP sulfurylase (APS) and pyrophosphate (PPi) from ATP and sulfate. CysD, which catalyzes ATP hydrolysis, is a member of the ATP pyrophosphatase (ATP PPase) family. CysN hydrolysis of GTP is required for CysD hydrolysis of ATP; however, CysN hydrolysis of GTP is not dependent on CysD hydrolysis of ATP. CysN is an example of lateral gene transfer followed by acquisition of new function. In many organisms, an ATPS exists which is not GTP-dependent and shares no sequence or structural similarity to CysN.

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.83  E-value=9.8e-20  Score=137.15  Aligned_cols=173  Identities=20%  Similarity=0.175  Sum_probs=125.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc------c------ccch
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER------F------GTLT   78 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~------~------~~~~   78 (210)
                      .+.++|+++|.|++|||||.|.+.+.+....+....++.......+.....++.|+||||.-.      +      ....
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~  149 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNP  149 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCccccccccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCH
Confidence            578999999999999999999999999988777777778877778888888999999999211      1      1122


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC-------------ccCH---HHH
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER-------------AVTR---EEG  142 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~-------------~~~~---~~~  142 (210)
                      ...+..||++++|+|+++....-.-  ..+..+..+   ..+|-++|+||.|...+.             .+..   +..
T Consensus       150 ~~a~q~AD~vvVv~Das~tr~~l~p--~vl~~l~~y---s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~  224 (379)
T KOG1423|consen  150 RDAAQNADCVVVVVDASATRTPLHP--RVLHMLEEY---SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQ  224 (379)
T ss_pred             HHHHhhCCEEEEEEeccCCcCccCh--HHHHHHHHH---hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHH
Confidence            3346789999999999964221111  234445544   378889999999975331             1111   111


Q ss_pred             HHHHHHc---------CC----eEEEecccCCcCHHHHHHHHHHHHHccchhhhccccc
Q 028315          143 MILAQEH---------KC----LFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAV  188 (210)
Q Consensus       143 ~~~~~~~---------~~----~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~~~~~~~~  188 (210)
                      +.+....         |+    .+|.+||++|.||+++-++|...+...+-+++.+...
T Consensus       225 ~~f~~~p~~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa~~gpW~y~a~i~T  283 (379)
T KOG1423|consen  225 EKFTDVPSDEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQAPPGPWKYPADIVT  283 (379)
T ss_pred             HHhccCCcccccccccCcccceeEEEEecccccCHHHHHHHHHhcCCCCCCCCCccccc
Confidence            1111111         12    3899999999999999999999999999888876433

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.83  E-value=9.4e-20  Score=149.15  Aligned_cols=155  Identities=19%  Similarity=0.143  Sum_probs=104.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--CCCC----------------------------CCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--SVHD----------------------------PSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~----------------------------~~~~~~~~~~~~~~~~~~~~   60 (210)
                      -..++|+++|+.++|||||+.+|+..  ....                            .....+.+.......+....
T Consensus         5 ~~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~   84 (426)
T TIGR00483         5 KEHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDK   84 (426)
T ss_pred             CceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCC
Confidence            35699999999999999999999752  1110                            11223445555555666667


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHH-HHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSS-VWAKEVELYSTNQDCVKILVGNKVDRDSERAV--  137 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~-~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--  137 (210)
                      +.+.||||||++.|.......+..+|++++|+|++++..+..... .+..... .  ....|++|++||+|+.+....  
T Consensus        85 ~~i~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~~-~--~~~~~iIVviNK~Dl~~~~~~~~  161 (426)
T TIGR00483        85 YEVTIVDCPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLAR-T--LGINQLIVAINKMDSVNYDEEEF  161 (426)
T ss_pred             eEEEEEECCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHHH-H--cCCCeEEEEEEChhccCccHHHH
Confidence            899999999999887666666789999999999998743211110 1111121 1  123579999999999642211  


Q ss_pred             --CHHHHHHHHHHcC-----CeEEEecccCCcCHHHHH
Q 028315          138 --TREEGMILAQEHK-----CLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       138 --~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~l~  168 (210)
                        ..++...+....+     ++++++||++|.|+.+++
T Consensus       162 ~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       162 EAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHHHHHHHHHcCCCcccceEEEeeccccccccccc
Confidence              1234445555544     579999999999998744

This model represents the counterpart of bacterial EF-Tu for the Archaea (aEF-1 alpha) and Eukaryotes (eEF-1 alpha). The trusted cutoff is set fairly high so that incomplete sequences will score between suggested and trusted cutoff levels.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.83  E-value=1.3e-19  Score=152.52  Aligned_cols=158  Identities=19%  Similarity=0.237  Sum_probs=113.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC--CCCCC-------------CCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchh
Q 028315           15 KILLIGDSGVGKSSILLSLISN--SVHDP-------------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTS   79 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~--~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   79 (210)
                      ||+++|+.++|||||+++|+..  .+...             ....+.+.......+...++.+.+|||||+..|...+.
T Consensus         3 NIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~   82 (594)
T TIGR01394         3 NIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVE   82 (594)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHH
Confidence            7999999999999999999863  22221             12335555555555666678999999999999998899


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHHHHHH-------HcCC
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGMILAQ-------EHKC  151 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~-------~~~~  151 (210)
                      .+++.+|++++|+|+.+... .... .|...+.    ..++|++|++||+|+...+.. ..++...+..       ...+
T Consensus        83 ~~l~~aD~alLVVDa~~G~~-~qT~-~~l~~a~----~~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~  156 (594)
T TIGR01394        83 RVLGMVDGVLLLVDASEGPM-PQTR-FVLKKAL----ELGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDF  156 (594)
T ss_pred             HHHHhCCEEEEEEeCCCCCc-HHHH-HHHHHHH----HCCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccC
Confidence            99999999999999987532 2223 2333332    256899999999998654311 1223333332       2356


Q ss_pred             eEEEecccCCc----------CHHHHHHHHHHHHHcc
Q 028315          152 LFLECSAKNTE----------DVKQCFKDLLYKILEV  178 (210)
Q Consensus       152 ~~~~~sa~~~~----------~i~~l~~~i~~~~~~~  178 (210)
                      +++.+||++|.          |+..+|+.+++.+...
T Consensus       157 pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP~P  193 (594)
T TIGR01394       157 PIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVPAP  193 (594)
T ss_pred             cEEechhhcCcccccCcccccCHHHHHHHHHHhCCCC
Confidence            89999999996          7999999999887643

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PRK10218 GTP-binding protein; Provisional

Probab=99.83  E-value=5.9e-19  Score=148.43  Aligned_cols=160  Identities=19%  Similarity=0.192  Sum_probs=117.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh--CCCCC-------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS--NSVHD-------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~--~~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      +.-||+++|+.++|||||+++|+.  +.+..             ...+.+.++......+...++.+.+|||||+..|..
T Consensus         4 ~iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~   83 (607)
T PRK10218          4 KLRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGG   83 (607)
T ss_pred             CceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHH
Confidence            346899999999999999999986  33322             123556777777777777788999999999999999


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHHHHHHH-------
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGMILAQE-------  148 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~-------  148 (210)
                      .+..+++.+|++++|+|+.+....+... .|....     ..+.|.++++||+|+...+.. ..++...+...       
T Consensus        84 ~v~~~l~~aDg~ILVVDa~~G~~~qt~~-~l~~a~-----~~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~  157 (607)
T PRK10218         84 EVERVMSMVDSVLLVVDAFDGPMPQTRF-VTKKAF-----AYGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQ  157 (607)
T ss_pred             HHHHHHHhCCEEEEEEecccCccHHHHH-HHHHHH-----HcCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccc
Confidence            9999999999999999999864333322 333322     257889999999998643221 11233333211       


Q ss_pred             cCCeEEEecccCCc----------CHHHHHHHHHHHHHc
Q 028315          149 HKCLFLECSAKNTE----------DVKQCFKDLLYKILE  177 (210)
Q Consensus       149 ~~~~~~~~sa~~~~----------~i~~l~~~i~~~~~~  177 (210)
                      ..++++.+||.+|.          ++..+++.|+..+..
T Consensus       158 ~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP~  196 (607)
T PRK10218        158 LDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVPA  196 (607)
T ss_pred             cCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCCC
Confidence            34679999999998          588888888887753

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.82  E-value=4.4e-19  Score=130.25  Aligned_cols=147  Identities=13%  Similarity=0.061  Sum_probs=99.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCC----------C-----CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSV----------H-----DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL   77 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~----------~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   77 (210)
                      +++|+++|+.++|||||+++|+....          .     ......+.+.......+.....++.|+||||+..|...
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~   81 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKN   81 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHH
Confidence            58999999999999999999976410          0     01123455555555555556678899999999888777


Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC---HHHHHHHHHHc----
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT---REEGMILAQEH----  149 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~----  149 (210)
                      ....+..+|++++|+|+..+..-+... .| ..+.    ..+.| +++++||+|+.......   .++...+....    
T Consensus        82 ~~~~~~~~D~~ilVvda~~g~~~~~~~-~~-~~~~----~~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~  155 (195)
T cd01884          82 MITGAAQMDGAILVVSATDGPMPQTRE-HL-LLAR----QVGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDG  155 (195)
T ss_pred             HHHHhhhCCEEEEEEECCCCCcHHHHH-HH-HHHH----HcCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccc
Confidence            777788999999999998753322222 22 2222    24556 78999999985332211   12333333333    


Q ss_pred             -CCeEEEecccCCcCHH
Q 028315          150 -KCLFLECSAKNTEDVK  165 (210)
Q Consensus       150 -~~~~~~~sa~~~~~i~  165 (210)
                       +++++.+||.+|.|+.
T Consensus       156 ~~v~iipiSa~~g~n~~  172 (195)
T cd01884         156 DNTPIVRGSALKALEGD  172 (195)
T ss_pred             cCCeEEEeeCccccCCC
Confidence             3679999999999853

This subfamily includes orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts. It is one of several GTP-binding translation factors found in the larger family of GTP-binding elongation factors. The eukaryotic counterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this family. EF-Tu is one of the most abundant proteins in bacteria, as well as, one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>cd01896 DRG The developmentally regulated GTP-binding protein (DRG) subfamily is an uncharacterized member of the Obg family, an evolutionary branch of GTPase superfamily proteins

Probab=99.82  E-value=7.4e-19  Score=132.66  Aligned_cols=152  Identities=22%  Similarity=0.145  Sum_probs=98.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-------cchhhhhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-------TLTSSYYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-------~~~~~~~~~~d   86 (210)
                      +|+++|++|+|||||+++|.+..... ..+....+.....+.+.  +..+++|||||.....       ......++++|
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~~--~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad   79 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEYK--GAKIQLLDLPGIIEGAADGKGRGRQVIAVARTAD   79 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEEC--CeEEEEEECCCcccccccchhHHHHHHHhhccCC
Confidence            78999999999999999998765322 22222222222223333  4678999999964332       12234688999


Q ss_pred             EEEEEEeCCCHhh-HHHHHHHHHH-----------------------------------------HHhhh----------
Q 028315           87 GIILVYDVTRRET-FTNLSSVWAK-----------------------------------------EVELY----------  114 (210)
Q Consensus        87 ~~i~v~d~~~~~~-~~~~~~~~~~-----------------------------------------~~~~~----------  114 (210)
                      ++++|+|++++.. ...+. ..+.                                         .+..+          
T Consensus        80 ~il~V~D~t~~~~~~~~~~-~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~  158 (233)
T cd01896          80 LILMVLDATKPEGHREILE-RELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIR  158 (233)
T ss_pred             EEEEEecCCcchhHHHHHH-HHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEc
Confidence            9999999987653 22222 1111                                         11111          


Q ss_pred             -------------ccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          115 -------------STNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       115 -------------~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                                   ....-.|+++|+||+|+..     .++...++..  ..++++||++|.|++++|+.+.+.+-
T Consensus       159 ~~~~~~~~~~~~~~~~~y~p~iiV~NK~Dl~~-----~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L~  226 (233)
T cd01896         159 EDITVDDLIDVIEGNRVYIPCLYVYNKIDLIS-----IEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKLG  226 (233)
T ss_pred             cCCCHHHHHHHHhCCceEeeEEEEEECccCCC-----HHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHhC
Confidence                         0012358999999999853     3344444433  35899999999999999999988654

GTPases act as molecular switches regulating diverse cellular processes. DRG2 and DRG1 comprise the DRG subfamily in eukaryotes. In view of their widespread expression in various tissues and high conservation among distantly related species in eukaryotes and archaea, DRG proteins may regulate fundamental cellular processes. It is proposed that the DRG subfamily proteins play their physiological roles through RNA binding.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.82  E-value=2.2e-19  Score=135.68  Aligned_cols=112  Identities=19%  Similarity=0.194  Sum_probs=81.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-----------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-----------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL   77 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   77 (210)
                      ||+++|+.|+|||||+++|+......                 .....+.+.......+...+.++.+|||||+..|...
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~   80 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAE   80 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHH
Confidence            68999999999999999997642110                 0112233344444455556788999999999999888


Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +..+++.+|++++|+|+.+....+. . .+...+.    ..+.|+++++||+|+.
T Consensus        81 ~~~~l~~aD~~IlVvd~~~g~~~~~-~-~~~~~~~----~~~~P~iivvNK~D~~  129 (237)
T cd04168          81 VERSLSVLDGAILVISAVEGVQAQT-R-ILWRLLR----KLNIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHHHHhCeEEEEEeCCCCCCHHH-H-HHHHHHH----HcCCCEEEEEECcccc
Confidence            8889999999999999998754332 2 2333333    2578999999999985

Tet(M), Tet(O), Tet(W), and OtrA are tetracycline resistance genes found in Gram-positive and Gram-negative bacteria. Tetracyclines inhibit protein synthesis by preventing aminoacyl-tRNA from binding to the ribosomal acceptor site. This subfamily contains tetracycline resistance proteins that function through ribosomal protection and are typically found on mobile genetic elements, such as transposons or plasmids, and are often conjugative. Ribosomal protection proteins are homologous to the elongation factors EF-Tu and EF-G. EF-G and Tet(M) compete for binding on the ribosomes. Tet(M) has a higher affinity than EF-G, suggesting these two proteins may have overlapping binding sites and that Tet(M) must be released before EF-G can bind. Tet(M) and Tet(O) have been shown to have ribosome-dependent GTPase activity. These proteins are part of the GTP translation factor family, which includes EF-G, EF-Tu, EF2, LepA, and SelB.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.82  E-value=5.9e-19  Score=147.97  Aligned_cols=154  Identities=20%  Similarity=0.166  Sum_probs=101.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCC-----CCceeeEEEEEEEE------------ECCeEEEEEEEeCCCCcccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDP-----SPTIGVDFKIKLLT------------VGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~-----~~~~~~~~~~~~~~------------~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      .--|+++|++++|||||+++|.+..+...     +++.+..+......            +......+.||||||++.|.
T Consensus         4 ~piV~IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~   83 (590)
T TIGR00491         4 SPIVSVLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFT   83 (590)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHH
Confidence            34589999999999999999988766432     22223222211100            00011248899999999999


Q ss_pred             cchhhhhccccEEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc------------CHH
Q 028315           76 TLTSSYYRGAHGIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV------------TRE  140 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~------------~~~  140 (210)
                      .++..+++.+|++++|+|+++   +++++.+.     .+.    ..+.|+++++||+|+.+....            ..+
T Consensus        84 ~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~-----~l~----~~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~  154 (590)
T TIGR00491        84 NLRKRGGALADLAILIVDINEGFKPQTQEALN-----ILR----MYKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEI  154 (590)
T ss_pred             HHHHHHHhhCCEEEEEEECCcCCCHhHHHHHH-----HHH----HcCCCEEEEEECCCccchhhhccCchHHHHHHhhhH
Confidence            999999999999999999997   44443332     121    247899999999998632100            000


Q ss_pred             H------------HHHHHH------------Hc--CCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          141 E------------GMILAQ------------EH--KCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       141 ~------------~~~~~~------------~~--~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      .            ...+..            .+  .++++.+||++|.|+++++.++....
T Consensus       155 ~v~~~~~~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~  215 (590)
T TIGR00491       155 QVQQNLDTKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLA  215 (590)
T ss_pred             HHHHHHHHHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHH
Confidence            0            001111            11  35799999999999999999886543

This model describes archaeal and eukaryotic orthologs of bacterial IF-2. Like IF-2, it helps convey the initiator tRNA to the ribosome, although the initiator is N-formyl-Met in bacteria and Met here. This protein is not closely related to the subunits of eIF-2 of eukaryotes, which is also involved in the initiation of translation. The aIF-2 of Methanococcus jannaschii contains a large intein interrupting a region of very strongly conserved sequence very near the amino end; this model does not correctly align the sequences from Methanococcus jannaschii and Pyrococcus horikoshii in this region.

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.82  E-value=2.1e-19  Score=145.99  Aligned_cols=162  Identities=15%  Similarity=0.111  Sum_probs=103.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCC--CCceeeEEEEE--------------------EEEECC------eEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGVDFKIK--------------------LLTVGG------KRLK   62 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~--~~~~~~~~~~~--------------------~~~~~~------~~~~   62 (210)
                      ...++|+++|+.++|||||+++|.+......  ....+.+....                    ....+.      ....
T Consensus         2 ~~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   81 (406)
T TIGR03680         2 QPEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRR   81 (406)
T ss_pred             CceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccE
Confidence            4579999999999999999999965322111  00111111110                    000011      1467


Q ss_pred             EEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HH
Q 028315           63 LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--RE  140 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~  140 (210)
                      +.+|||||++.|...+...+..+|++++|+|++++.........+ ..+..   ....|+++++||+|+.+.....  .+
T Consensus        82 i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l-~~l~~---~gi~~iIVvvNK~Dl~~~~~~~~~~~  157 (406)
T TIGR03680        82 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHL-MALEI---IGIKNIVIVQNKIDLVSKEKALENYE  157 (406)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHH-HHHHH---cCCCeEEEEEEccccCCHHHHHHHHH
Confidence            999999999999887777788899999999999753111111122 22221   1235789999999986532211  12


Q ss_pred             HHHHHHHHc---CCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          141 EGMILAQEH---KCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       141 ~~~~~~~~~---~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      +...+....   +++++++||++|.|+++++++|...+.
T Consensus       158 ~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l~  196 (406)
T TIGR03680       158 EIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFIP  196 (406)
T ss_pred             HHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhCC
Confidence            233333322   568999999999999999999987654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.81  E-value=1.8e-18  Score=121.44  Aligned_cols=155  Identities=23%  Similarity=0.270  Sum_probs=115.4

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC---------CC----CceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD---------PS----PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~---------~~----~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      .-+..||+++|+.++||||+++.+.......         ..    .|...++..  ..+ ..+..+.|+|||||++|..
T Consensus         7 k~~~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~--~~~-~~~~~v~LfgtPGq~RF~f   83 (187)
T COG2229           7 KMIETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGS--IEL-DEDTGVHLFGTPGQERFKF   83 (187)
T ss_pred             cccceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccc--eEE-cCcceEEEecCCCcHHHHH
Confidence            3567999999999999999999998766311         11    112222221  112 2235788899999999999


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc--CCeEE
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH--KCLFL  154 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~  154 (210)
                      .|....+++.++++++|.+.+..+. .. ....++..   ...+|++|++||.|+.+.  ..+++.+++....  ..+++
T Consensus        84 m~~~l~~ga~gaivlVDss~~~~~~-a~-~ii~f~~~---~~~ip~vVa~NK~DL~~a--~ppe~i~e~l~~~~~~~~vi  156 (187)
T COG2229          84 MWEILSRGAVGAIVLVDSSRPITFH-AE-EIIDFLTS---RNPIPVVVAINKQDLFDA--LPPEKIREALKLELLSVPVI  156 (187)
T ss_pred             HHHHHhCCcceEEEEEecCCCcchH-HH-HHHHHHhh---ccCCCEEEEeeccccCCC--CCHHHHHHHHHhccCCCcee
Confidence            9999999999999999999998883 22 34444443   233999999999999654  4555555555443  78899


Q ss_pred             EecccCCcCHHHHHHHHHHH
Q 028315          155 ECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~  174 (210)
                      +++|.++.+..+.++.+...
T Consensus       157 ~~~a~e~~~~~~~L~~ll~~  176 (187)
T COG2229         157 EIDATEGEGARDQLDVLLLK  176 (187)
T ss_pred             eeecccchhHHHHHHHHHhh
Confidence            99999999999998888766

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.81  E-value=7.4e-22  Score=138.04  Aligned_cols=185  Identities=31%  Similarity=0.509  Sum_probs=146.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .+.-++++|+|.-|+|||+++.++....|+. +..+++.++......-+ ...++++|||..|+++|..+..-+++.+++
T Consensus        22 r~hL~k~lVig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~  101 (229)
T KOG4423|consen   22 REHLFKVLVIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHG  101 (229)
T ss_pred             hhhhhhhheeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcc
Confidence            4667899999999999999999999888877 77777777766554443 445799999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCCccC-HHHHHHHHHHcCCe-EEEecccCCc
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSERAVT-REEGMILAQEHKCL-FLECSAKNTE  162 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~-~~~~sa~~~~  162 (210)
                      .++|||+++..+|+... .|...+.....   ....|+++..||+|........ ......+.++.|+. .+++|++.+.
T Consensus       102 ~~iVfdvt~s~tfe~~s-kwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenk  180 (229)
T KOG4423|consen  102 AFIVFDVTRSLTFEPVS-KWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENK  180 (229)
T ss_pred             eEEEEEccccccccHHH-HHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeecccccc
Confidence            99999999999999999 78887755432   2457888999999986543332 34566777777775 9999999999


Q ss_pred             CHHHHHHHHHHHHHccc-hhhhcccccccccccc
Q 028315          163 DVKQCFKDLLYKILEVP-SLLEQGSAVVKNQILK  195 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~-~~~~~~~~~~~~~~~~  195 (210)
                      +++|.-..+++.+.-+. +..+........+.+.
T Consensus       181 ni~Ea~r~lVe~~lvnd~q~~~s~~~~~~~~~l~  214 (229)
T KOG4423|consen  181 NIPEAQRELVEKILVNDEQPIKSSAVDGDKINLR  214 (229)
T ss_pred             ChhHHHHHHHHHHHhhccCCcccccccccccCcc
Confidence            99999999999887766 4444444444333333

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.80  E-value=6.2e-19  Score=143.19  Aligned_cols=163  Identities=14%  Similarity=0.124  Sum_probs=102.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEE----E----------------EEC------CeE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKL----L----------------TVG------GKR   60 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~----~----------------~~~------~~~   60 (210)
                      .+.+.++|+++|+.++|||||+.+|.+.....  .....+.+.....    .                ..+      ...
T Consensus         5 ~~~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (411)
T PRK04000          5 KVQPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELL   84 (411)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccc
Confidence            34567999999999999999999995532111  1111122221110    0                000      013


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-  138 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-  138 (210)
                      ..+.||||||++.|..........+|++++|+|++++. ..+... .+. .+..   ....|+++|+||+|+.+..... 
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~-~l~-~l~~---~~i~~iiVVlNK~Dl~~~~~~~~  159 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKE-HLM-ALDI---IGIKNIVIVQNKIDLVSKERALE  159 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHH-HHH-HHHH---cCCCcEEEEEEeeccccchhHHH
Confidence            68999999999888665555566789999999999653 112111 221 2221   1234789999999996543221 


Q ss_pred             -HHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          139 -REEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       139 -~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                       .++...+...   .+.+++++||++|.|+++++++|.+.+.
T Consensus       160 ~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l~  201 (411)
T PRK04000        160 NYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEIP  201 (411)
T ss_pred             HHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhCC
Confidence             1223333322   2468999999999999999999988764

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.80  E-value=9.7e-19  Score=120.10  Aligned_cols=135  Identities=23%  Similarity=0.247  Sum_probs=95.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC----cccccchhhhhccccEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ----ERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~----~~~~~~~~~~~~~~d~~i~   90 (210)
                      ||+++|+.|+|||||+++|.+... .+..|....+.            =.++||||-    ..+.........++|.+++
T Consensus         3 rimliG~~g~GKTTL~q~L~~~~~-~~~KTq~i~~~------------~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~l   69 (143)
T PF10662_consen    3 RIMLIGPSGSGKTTLAQALNGEEI-RYKKTQAIEYY------------DNTIDTPGEYIENPRFYHALIVTAQDADVVLL   69 (143)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCCC-CcCccceeEec------------ccEEECChhheeCHHHHHHHHHHHhhCCEEEE
Confidence            789999999999999999966444 34344333222            134699993    3333333344568999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe-EEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~l~~  169 (210)
                      |.|++++.+      .+-+.+..   .-..|+|-|+||+|+... ....+.+..+.+..|+. +|++|+.+|+|+++|.+
T Consensus        70 l~dat~~~~------~~pP~fa~---~f~~pvIGVITK~Dl~~~-~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~  139 (143)
T PF10662_consen   70 LQDATEPRS------VFPPGFAS---MFNKPVIGVITKIDLPSD-DANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKD  139 (143)
T ss_pred             EecCCCCCc------cCCchhhc---ccCCCEEEEEECccCccc-hhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHH
Confidence            999998754      22233322   235799999999999732 34556677777777875 89999999999999988


Q ss_pred             HHH
Q 028315          170 DLL  172 (210)
Q Consensus       170 ~i~  172 (210)
                      +|-
T Consensus       140 ~L~  142 (143)
T PF10662_consen  140 YLE  142 (143)
T ss_pred             HHh
Confidence            763

Both pathways require coenzyme B12 (adenosylcobalamin, AdoCbl). Bacteria that harbour these pathways can use ethanolamine as a source of carbon and nitrogen, or propanediol as a sole carbon and energy source, respectively. The exact roles of the EutP and PduV proteins in these respective pathways are not yet determined. Members of this family contain P-loop consensus motifs in the N-terminal part, and are distantly related to various GTPases and ATPases, including ATPase components of transport systems. Propanediol degradation is thought to be important for the natural Salmonella populations, since propanediol is produced by the fermentation of the common plant sugars rhamnose and fucose [, ]. More than 1% of the Salmonella enterica genome is devoted to the utilisation of propanediol and cobalamin biosynthesis. In vivo expression technology has indicated that propanediol utilisation (pdu) genes may be important for growth in host tissues, and competitive index studies with mice have shown that pdu mutations confer a virulence defect [, ]. The pdu operon is contiguous and co-regulated with the cobalamin (B12) biosynthesis cob operon, indicating that propanediol catabolism may be the primary reason for de novo B12 synthesis in Salmonella [, , ]. Please see IPR003207 from INTERPRO, IPR003208 from INTERPRO, IPR009204 from INTERPRO, IPR009191 from INTERPRO, IPR009192 from INTERPRO for more details on the propanediol utilisation pathway and the pdu operon.; GO: 0005524 ATP binding, 0006576 cellular biogenic amine metabolic process

>PRK12736 elongation factor Tu; Reviewed

Probab=99.79  E-value=2.5e-18  Score=139.19  Aligned_cols=159  Identities=14%  Similarity=0.063  Sum_probs=106.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCC---------------CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVH---------------DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      ..+||+++|+.++|||||+++|++....               +.....+.+.......+......+.||||||++.|..
T Consensus        11 ~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~   90 (394)
T PRK12736         11 PHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVK   90 (394)
T ss_pred             CeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHHH
Confidence            4799999999999999999999763110               0112445555555555655567889999999998876


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC---HHHHHHHHHHcC--
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT---REEGMILAQEHK--  150 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~--  150 (210)
                      .....+..+|++++|+|+.++..-+... .+ ..+.    ..++| ++|++||+|+.+..+..   .++...+....+  
T Consensus        91 ~~~~~~~~~d~~llVvd~~~g~~~~t~~-~~-~~~~----~~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~  164 (394)
T PRK12736         91 NMITGAAQMDGAILVVAATDGPMPQTRE-HI-LLAR----QVGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFP  164 (394)
T ss_pred             HHHHHHhhCCEEEEEEECCCCCchhHHH-HH-HHHH----HcCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCC
Confidence            6666678899999999998753322222 22 2222    24667 67889999986433221   123334433343  


Q ss_pred             ---CeEEEecccCCc--------CHHHHHHHHHHHHH
Q 028315          151 ---CLFLECSAKNTE--------DVKQCFKDLLYKIL  176 (210)
Q Consensus       151 ---~~~~~~sa~~~~--------~i~~l~~~i~~~~~  176 (210)
                         ++++.+||.+|.        ++.++++.+.+.+.
T Consensus       165 ~~~~~ii~vSa~~g~~~~~~~~~~i~~Ll~~l~~~lp  201 (394)
T PRK12736        165 GDDIPVIRGSALKALEGDPKWEDAIMELMDAVDEYIP  201 (394)
T ss_pred             cCCccEEEeeccccccCCCcchhhHHHHHHHHHHhCC
Confidence               579999999983        56777777776654

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.79  E-value=3.3e-18  Score=144.66  Aligned_cols=157  Identities=15%  Similarity=0.106  Sum_probs=102.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      -|+++|+.++|||||+++|.+.....  .....+.+......... ..+..+.||||||++.|...+...+..+|++++|
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLV   81 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLV   81 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEE
Confidence            48999999999999999998643222  11112333332222221 1234589999999999977777778999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC--HHHHHHHHHHcC---CeEEEecccCCcCHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT--REEGMILAQEHK---CLFLECSAKNTEDVK  165 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~--~~~~~~~~~~~~---~~~~~~sa~~~~~i~  165 (210)
                      +|+.++..-+...  ....+.    ..+.| ++||+||+|+.+...+.  .++...+....+   .+++.+||++|.|++
T Consensus        82 Vda~eg~~~qT~e--hl~il~----~lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~  155 (614)
T PRK10512         82 VACDDGVMAQTRE--HLAILQ----LTGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGID  155 (614)
T ss_pred             EECCCCCcHHHHH--HHHHHH----HcCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCH
Confidence            9998742211111  122222    13345 57999999996532221  123333433333   679999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++++.|.+....
T Consensus       156 ~L~~~L~~~~~~  167 (614)
T PRK10512        156 ALREHLLQLPER  167 (614)
T ss_pred             HHHHHHHHhhcc
Confidence            999999875543

>cd04167 Snu114p Snu114p subfamily

Probab=99.79  E-value=1.9e-18  Score=129.04  Aligned_cols=112  Identities=26%  Similarity=0.304  Sum_probs=79.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCC------------------CCceeeEEEEEEEEE-----CCeEEEEEEEeCCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDP------------------SPTIGVDFKIKLLTV-----GGKRLKLTIWDTAGQ   71 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~------------------~~~~~~~~~~~~~~~-----~~~~~~~~l~Dt~G~   71 (210)
                      ||+++|+.++|||||+++|+.......                  ....+.+.......+     ++..+.+.+|||||+
T Consensus         2 nv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~   81 (213)
T cd04167           2 NVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGH   81 (213)
T ss_pred             cEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCC
Confidence            689999999999999999987543321                  011222222222222     345689999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ..|......++..+|++++|+|+.+..++...  .+.....    ..+.|+++|+||+|+.
T Consensus        82 ~~f~~~~~~~~~~aD~~llVvD~~~~~~~~~~--~~~~~~~----~~~~p~iiviNK~D~~  136 (213)
T cd04167          82 VNFMDEVAAALRLSDGVVLVVDVVEGVTSNTE--RLIRHAI----LEGLPIVLVINKIDRL  136 (213)
T ss_pred             cchHHHHHHHHHhCCEEEEEEECCCCCCHHHH--HHHHHHH----HcCCCEEEEEECcccC
Confidence            99988888889999999999999887655432  2222222    2458999999999975

Snu114p is one of several proteins that make up the U5 small nuclear ribonucleoprotein (snRNP) particle. U5 is a component of the spliceosome, which catalyzes the splicing of pre-mRNA to remove introns. Snu114p is homologous to EF-2, but typically contains an additional N-terminal domain not found in Ef-2. This protein is part of the GTP translation factor family and the Ras superfamily, characterized by five G-box motifs.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.79  E-value=3.4e-18  Score=122.54  Aligned_cols=150  Identities=21%  Similarity=0.213  Sum_probs=97.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----------cccchhhhhc-
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----------FGTLTSSYYR-   83 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----------~~~~~~~~~~-   83 (210)
                      |+++|.+|+|||||++.+.+..+.. ..++.+.+........+.   .+.+|||||...          +......++. 
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~   78 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLEN   78 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHh
Confidence            7999999999999999998544433 566666555544444443   789999999533          2233333443 


Q ss_pred             --cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHHHHHH--HcCCeEEEec
Q 028315           84 --GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGMILAQ--EHKCLFLECS  157 (210)
Q Consensus        84 --~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~--~~~~~~~~~s  157 (210)
                        ..+++++++|..+..+....  .....+.    ..+.|+++++||+|+.......  .........  ....+++++|
T Consensus        79 ~~~~~~~~~v~d~~~~~~~~~~--~~~~~l~----~~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~S  152 (170)
T cd01876          79 RENLKGVVLLIDSRHGPTEIDL--EMLDWLE----ELGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFS  152 (170)
T ss_pred             ChhhhEEEEEEEcCcCCCHhHH--HHHHHHH----HcCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEe
Confidence              35788999998865322111  1222222    2357999999999985332211  111111121  2345799999


Q ss_pred             ccCCcCHHHHHHHHHHH
Q 028315          158 AKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~  174 (210)
                      |+++.++++++++|.+.
T Consensus       153 a~~~~~~~~l~~~l~~~  169 (170)
T cd01876         153 SLKGQGIDELRALIEKW  169 (170)
T ss_pred             cCCCCCHHHHHHHHHHh
Confidence            99999999999998765

This subfamily of GTPases is typified by the E. coli YihA, an essential protein involved in cell division control. YihA and its orthologs are small proteins that typically contain less than 200 amino acid residues and consists of the GTPase domain only (some of the eukaryotic homologs contain an N-terminal extension of about 120 residues that might be involved in organellar targeting). Homologs of yihA are found in most Gram-positive and Gram-negative pathogenic bacteria, with the exception of Mycobacterium tuberculosis. The broad-spectrum nature of YihA and its essentiality for cell viability in bacteria make it an attractive antibacterial target.

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.78  E-value=7.6e-18  Score=141.76  Aligned_cols=155  Identities=20%  Similarity=0.208  Sum_probs=100.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCC-----ceeeEEEEEEEE--ECCeE-----E-----EEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSP-----TIGVDFKIKLLT--VGGKR-----L-----KLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~-----~~~~~~~~~~~~--~~~~~-----~-----~~~l~Dt~G~~~   73 (210)
                      .++..|+++|++++|||||+++|.+.......+     +.+.++......  ..+..     .     .+.||||||++.
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~   83 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEA   83 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHH
Confidence            455679999999999999999997665433222     223222211100  00111     1     278999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc----C--------
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV----T--------  138 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~----~--------  138 (210)
                      |..++...++.+|++++|+|+++   +++++.+.     .+.    ..+.|+++++||+|+.+....    .        
T Consensus        84 f~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~-----~~~----~~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~  154 (586)
T PRK04004         84 FTNLRKRGGALADIAILVVDINEGFQPQTIEAIN-----ILK----RRKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQ  154 (586)
T ss_pred             HHHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHH-----HHH----HcCCCEEEEEECcCCchhhhhhcCchHHHHHhhh
Confidence            99888888899999999999997   45544332     121    247899999999998521000    0        


Q ss_pred             HHH-----------H-HHHHH------------H--cCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          139 REE-----------G-MILAQ------------E--HKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       139 ~~~-----------~-~~~~~------------~--~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ...           . ..+..            .  ..++++++||.+|.|+++++..+...
T Consensus       155 ~~~v~~~f~~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~  216 (586)
T PRK04004        155 SQRVQQELEEKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGL  216 (586)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHH
Confidence            000           0 01110            0  12569999999999999999887643

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.78  E-value=9.9e-19  Score=131.07  Aligned_cols=148  Identities=18%  Similarity=0.165  Sum_probs=95.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCC------------------------------CCCCceeeEEEEEEEEECCeEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVH------------------------------DPSPTIGVDFKIKLLTVGGKRLKLT   64 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~~~~   64 (210)
                      ||+++|+.++|||||+.+|+...-.                              ......+.+.......+...+..+.
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~   80 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFT   80 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEE
Confidence            5899999999999999998642110                              0112334455555555655678999


Q ss_pred             EEeCCCCcccccchhhhhccccEEEEEEeCCCHhh---H---HHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC--c
Q 028315           65 IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET---F---TNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER--A  136 (210)
Q Consensus        65 l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~---~---~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~--~  136 (210)
                      +|||||+..|...+...++.+|++++|+|++++..   |   ......+. ....   ....|+++++||+|+....  .
T Consensus        81 liDtpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~-~~~~---~~~~~iiivvNK~Dl~~~~~~~  156 (219)
T cd01883          81 ILDAPGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHAL-LART---LGVKQLIVAVNKMDDVTVNWSE  156 (219)
T ss_pred             EEECCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHH-HHHH---cCCCeEEEEEEccccccccccH
Confidence            99999998877666667788999999999998421   1   11111222 1211   2336899999999986321  1


Q ss_pred             cC----HHHHHHHHHHc-----CCeEEEecccCCcCHHH
Q 028315          137 VT----REEGMILAQEH-----KCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       137 ~~----~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~  166 (210)
                      ..    .++...+....     .++++.+||++|.|+++
T Consensus       157 ~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~~  195 (219)
T cd01883         157 ERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLIE  195 (219)
T ss_pred             HHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCCc
Confidence            10    11122223333     25699999999999873

EF1 is responsible for the GTP-dependent binding of aminoacyl-tRNAs to the ribosomes. EF1 is composed of four subunits: the alpha chain which binds GTP and aminoacyl-tRNAs, the gamma chain that probably plays a role in anchoring the complex to other cellular components and the beta and delta (or beta') chains. This subfamily is the alpha subunit, and represents the counterpart of bacterial EF-Tu for the archaea (aEF1-alpha) and eukaryotes (eEF1-alpha). eEF1-alpha interacts with the actin of the eukaryotic cytoskeleton and may thereby play a role in cellular transformation and apoptosis. EF-Tu can have no such role in bacteria. In humans, the isoform eEF1A2 is overexpressed in 2/3 of breast cancers and has been identified as a putative oncogene. This subfamily also includes Hbs1, a G protein known to be important for efficient growth and protein synthesis under conditions of limiting translation initiation in

>CHL00071 tufA elongation factor Tu

Probab=99.78  E-value=7.9e-18  Score=136.94  Aligned_cols=156  Identities=13%  Similarity=0.052  Sum_probs=103.0

Q ss_pred             CCCCCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCC---------------CCCCceeeEEEEEEEEECCeEEEEEE
Q 028315            1 MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVH---------------DPSPTIGVDFKIKLLTVGGKRLKLTI   65 (210)
Q Consensus         1 ~~~~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~l   65 (210)
                      |+..+.... -..++|+++|++++|||||+++|++....               ......+.+.......+.....++.|
T Consensus         1 ~~~~~~~~~-~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~   79 (409)
T CHL00071          1 MAREKFERK-KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAH   79 (409)
T ss_pred             CchhhccCC-CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEE
Confidence            444444443 45699999999999999999999864211               01122455555544455555667889


Q ss_pred             EeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC---HHH
Q 028315           66 WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT---REE  141 (210)
Q Consensus        66 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~  141 (210)
                      +||||+..|.......+..+|++++|+|+.....-+... .+ ..+.    ..++| +++++||+|+.+..+..   .++
T Consensus        80 iDtPGh~~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~-~~-~~~~----~~g~~~iIvvvNK~D~~~~~~~~~~~~~~  153 (409)
T CHL00071         80 VDCPGHADYVKNMITGAAQMDGAILVVSAADGPMPQTKE-HI-LLAK----QVGVPNIVVFLNKEDQVDDEELLELVELE  153 (409)
T ss_pred             EECCChHHHHHHHHHHHHhCCEEEEEEECCCCCcHHHHH-HH-HHHH----HcCCCEEEEEEEccCCCCHHHHHHHHHHH
Confidence            999999888777777788999999999998754322222 22 2222    24567 77899999996533221   123


Q ss_pred             HHHHHHHcC-----CeEEEecccCCcC
Q 028315          142 GMILAQEHK-----CLFLECSAKNTED  163 (210)
Q Consensus       142 ~~~~~~~~~-----~~~~~~sa~~~~~  163 (210)
                      ...+....+     ++++.+||.+|.+
T Consensus       154 l~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (409)
T CHL00071        154 VRELLSKYDFPGDDIPIVSGSALLALE  180 (409)
T ss_pred             HHHHHHHhCCCCCcceEEEcchhhccc
Confidence            333433333     6799999999874

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.78  E-value=5.6e-18  Score=140.34  Aligned_cols=157  Identities=18%  Similarity=0.167  Sum_probs=116.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc------ccchhhhh--cc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF------GTLTSSYY--RG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~------~~~~~~~~--~~   84 (210)
                      ..+|+++|+||+|||||+|++++... ...+-+|.|...++......+.++.++|+||.-..      +...+.++  ..
T Consensus         3 ~~~valvGNPNvGKTtlFN~LTG~~q-~VgNwpGvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~   81 (653)
T COG0370           3 KLTVALVGNPNVGKTTLFNALTGANQ-KVGNWPGVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGK   81 (653)
T ss_pred             cceEEEecCCCccHHHHHHHHhccCc-eecCCCCeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCC
Confidence            35699999999999999999966554 45566666677777666656666888899994222      22333443  35


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|+++-|+|+++-++--  . .-+++++     -+.|+++++|++|....+.+.. +...+.+.+|+|++.++|++|.|+
T Consensus        82 ~D~ivnVvDAtnLeRnL--y-ltlQLlE-----~g~p~ilaLNm~D~A~~~Gi~I-D~~~L~~~LGvPVv~tvA~~g~G~  152 (653)
T COG0370          82 PDLIVNVVDATNLERNL--Y-LTLQLLE-----LGIPMILALNMIDEAKKRGIRI-DIEKLSKLLGVPVVPTVAKRGEGL  152 (653)
T ss_pred             CCEEEEEcccchHHHHH--H-HHHHHHH-----cCCCeEEEeccHhhHHhcCCcc-cHHHHHHHhCCCEEEEEeecCCCH
Confidence            79999999999875422  1 2223332     6789999999999876655543 567788999999999999999999


Q ss_pred             HHHHHHHHHHHHccc
Q 028315          165 KQCFKDLLYKILEVP  179 (210)
Q Consensus       165 ~~l~~~i~~~~~~~~  179 (210)
                      ++++..+.+....+.
T Consensus       153 ~~l~~~i~~~~~~~~  167 (653)
T COG0370         153 EELKRAIIELAESKT  167 (653)
T ss_pred             HHHHHHHHHhccccc
Confidence            999999887655444

>PRK12735 elongation factor Tu; Reviewed

Probab=99.77  E-value=9.2e-18  Score=136.01  Aligned_cols=159  Identities=13%  Similarity=0.059  Sum_probs=105.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC-------CC---C-----CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN-------SV---H-----DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~-------~~---~-----~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      -+.++|+++|++++|||||+++|++.       .+   .     ......+.+.......+.....++.|+||||++.|.
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~   89 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYV   89 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHH
Confidence            35799999999999999999999862       10   0     011234555555555555556688999999998887


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEE-EEEeCCCCCCCCccC---HHHHHHHHHHcC-
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDRDSERAVT---REEGMILAQEHK-  150 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~~-  150 (210)
                      ......+..+|++++|+|+.+....+... .+ ..+.    ..++|.+ +++||+|+.+..+..   .++...+...++ 
T Consensus        90 ~~~~~~~~~aD~~llVvda~~g~~~qt~e-~l-~~~~----~~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~  163 (396)
T PRK12735         90 KNMITGAAQMDGAILVVSAADGPMPQTRE-HI-LLAR----QVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDF  163 (396)
T ss_pred             HHHHhhhccCCEEEEEEECCCCCchhHHH-HH-HHHH----HcCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCC
Confidence            66667778899999999998753322221 22 2222    2457755 679999996432211   123334444432 


Q ss_pred             ----CeEEEecccCCc----------CHHHHHHHHHHHH
Q 028315          151 ----CLFLECSAKNTE----------DVKQCFKDLLYKI  175 (210)
Q Consensus       151 ----~~~~~~sa~~~~----------~i~~l~~~i~~~~  175 (210)
                          ++++.+||.+|.          ++..+++.|.+.+
T Consensus       164 ~~~~~~ii~~Sa~~g~n~~~~~~w~~~~~~Ll~~l~~~~  202 (396)
T PRK12735        164 PGDDTPIIRGSALKALEGDDDEEWEAKILELMDAVDSYI  202 (396)
T ss_pred             CcCceeEEecchhccccCCCCCcccccHHHHHHHHHhcC
Confidence                679999999984          5667777766654

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.77  E-value=7.3e-18  Score=136.63  Aligned_cols=146  Identities=15%  Similarity=0.076  Sum_probs=97.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC-------C------C--CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS-------V------H--DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~-------~------~--~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      -+.++|+++|+.++|||||+++|++..       +      .  ......+.+.......+......+.||||||++.|.
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~   89 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYV   89 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHHH
Confidence            457999999999999999999997420       0      0  011224555555555666666789999999999887


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEE-EEEeCCCCCCCCccC---HHHHHHHHHHcC-
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDRDSERAVT---REEGMILAQEHK-  150 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~~-  150 (210)
                      ......+..+|++++|+|+.++...+... .+. .+.    ..++|.+ +++||+|+.+..+..   .++...+....+ 
T Consensus        90 ~~~~~~~~~~D~~ilVvda~~g~~~qt~e-~l~-~~~----~~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~  163 (394)
T TIGR00485        90 KNMITGAAQMDGAILVVSATDGPMPQTRE-HIL-LAR----QVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDF  163 (394)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCcHHHHH-HHH-HHH----HcCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCC
Confidence            66656667889999999998753322222 222 222    2356654 689999986533221   123444454443 


Q ss_pred             ----CeEEEecccCCc
Q 028315          151 ----CLFLECSAKNTE  162 (210)
Q Consensus       151 ----~~~~~~sa~~~~  162 (210)
                          ++++.+||.+|.
T Consensus       164 ~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       164 PGDDTPIIRGSALKAL  179 (394)
T ss_pred             CccCccEEECcccccc
Confidence                689999999874

This alignment models orthologs of translation elongation factor EF-Tu in bacteria, mitochondria, and chloroplasts, one of several GTP-binding translation factors found by the more general pfam model GTP_EFTU. The eukaryotic conterpart, eukaryotic translation elongation factor 1 (eEF-1 alpha), is excluded from this model. EF-Tu is one of the most abundant proteins in bacteria, as well as one of the most highly conserved, and in a number of species the gene is duplicated with identical function. When bound to GTP, EF-Tu can form a complex with any (correctly) aminoacylated tRNA except those for initiation and for selenocysteine, in which case EF-Tu is replaced by other factors. Transfer RNA is carried to the ribosome in these complexes for protein translation.

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=1.8e-17  Score=118.93  Aligned_cols=158  Identities=20%  Similarity=0.221  Sum_probs=112.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC-CCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC----------Ccccccchh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG----------QERFGTLTS   79 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G----------~~~~~~~~~   79 (210)
                      +...-|+++|.++||||||||+|++.. ....+.|+|.|.......+++.   +.++|.||          .+.+..+..
T Consensus        22 ~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~   98 (200)
T COG0218          22 DDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIE   98 (200)
T ss_pred             CCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHH
Confidence            345678999999999999999999976 4668899998888877777765   67789999          233444555


Q ss_pred             hhhc---cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH---HHHHHHHcCCe-
Q 028315           80 SYYR---GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE---GMILAQEHKCL-  152 (210)
Q Consensus        80 ~~~~---~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~---~~~~~~~~~~~-  152 (210)
                      .|++   +-.++++++|+..+..-.+.  .+...+.    ..+.|++|++||+|.....+.....   ...+....... 
T Consensus        99 ~YL~~R~~L~~vvlliD~r~~~~~~D~--em~~~l~----~~~i~~~vv~tK~DKi~~~~~~k~l~~v~~~l~~~~~~~~  172 (200)
T COG0218          99 EYLEKRANLKGVVLLIDARHPPKDLDR--EMIEFLL----ELGIPVIVVLTKADKLKKSERNKQLNKVAEELKKPPPDDQ  172 (200)
T ss_pred             HHHhhchhheEEEEEEECCCCCcHHHH--HHHHHHH----HcCCCeEEEEEccccCChhHHHHHHHHHHHHhcCCCCccc
Confidence            5554   35789999999987543322  3444444    4789999999999987654443211   11222222222 


Q ss_pred             -EEEecccCCcCHHHHHHHHHHHHHc
Q 028315          153 -FLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       153 -~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                       ++..|+.++.|++++...|.+.+..
T Consensus       173 ~~~~~ss~~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         173 WVVLFSSLKKKGIDELKAKILEWLKE  198 (200)
T ss_pred             eEEEEecccccCHHHHHHHHHHHhhc
Confidence             8889999999999999998887654

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.76  E-value=2.9e-18  Score=138.91  Aligned_cols=165  Identities=25%  Similarity=0.312  Sum_probs=125.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ...+||+++|+.|+||||||-.+....|.+..|.....+. ....+....+...+.||+..+..+.....-++.+|++.+
T Consensus         7 ~kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~-IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~l   85 (625)
T KOG1707|consen    7 LKDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRIL-IPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICL   85 (625)
T ss_pred             ccceEEEEECCCCccHHHHHHHHHhhhccccccccCCccc-cCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEEE
Confidence            4579999999999999999999999998873333322222 112344455668889998766655555677899999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHH-HHHHHHHcC-C-eEEEecccCCcCHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREE-GMILAQEHK-C-LFLECSAKNTEDVKQ  166 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~-~~~~~~~~~-~-~~~~~sa~~~~~i~~  166 (210)
                      +|+.+++.+.+.+..+|+++++.... ..++|+|+|+||.|.......+.+. ...++..+. + ..++|||++..++.+
T Consensus        86 vyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e  165 (625)
T KOG1707|consen   86 VYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSE  165 (625)
T ss_pred             EEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHh
Confidence            99999999999999999999987753 3679999999999987654443333 555555553 2 389999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          167 CFKDLLYKIL  176 (210)
Q Consensus       167 l~~~i~~~~~  176 (210)
                      +|-...+.+.
T Consensus       166 ~fYyaqKaVi  175 (625)
T KOG1707|consen  166 LFYYAQKAVI  175 (625)
T ss_pred             hhhhhhheee
Confidence            9877666543

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.76  E-value=1.6e-17  Score=133.75  Aligned_cols=166  Identities=18%  Similarity=0.202  Sum_probs=123.2

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--------------CCCceeeEEEEEEEEE---CCeEEEEEEEeCCCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD--------------PSPTIGVDFKIKLLTV---GGKRLKLTIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--------------~~~~~~~~~~~~~~~~---~~~~~~~~l~Dt~G~   71 (210)
                      +.++.-|+.|+-+..-|||||..||+...-..              .....|++....+..+   ++..+.++++|||||
T Consensus        56 P~~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGH  135 (650)
T KOG0462|consen   56 PVENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGH  135 (650)
T ss_pred             chhhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCc
Confidence            44777899999999999999999997543211              1123344444333222   356699999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHHHHHcC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMILAQEHK  150 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~  150 (210)
                      -+|.......+..||++++|+|++.+...+.+...|+. ++     .+..+|+|+||+|++..+.-. ..+...+.....
T Consensus       136 vDFs~EVsRslaac~G~lLvVDA~qGvqAQT~anf~lA-fe-----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~  209 (650)
T KOG0462|consen  136 VDFSGEVSRSLAACDGALLVVDASQGVQAQTVANFYLA-FE-----AGLAIIPVLNKIDLPSADPERVENQLFELFDIPP  209 (650)
T ss_pred             ccccceehehhhhcCceEEEEEcCcCchHHHHHHHHHH-HH-----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCc
Confidence            99999999999999999999999999888888744444 33     577899999999997543211 122233333345


Q ss_pred             CeEEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          151 CLFLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      .+++.+||++|.|+++++++|++.+..-..
T Consensus       210 ~~~i~vSAK~G~~v~~lL~AII~rVPpP~~  239 (650)
T KOG0462|consen  210 AEVIYVSAKTGLNVEELLEAIIRRVPPPKG  239 (650)
T ss_pred             cceEEEEeccCccHHHHHHHHHhhCCCCCC
Confidence            579999999999999999999999875443

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.75  E-value=5.7e-17  Score=121.54  Aligned_cols=152  Identities=16%  Similarity=0.115  Sum_probs=94.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCC------------------------ceeeEEEEE-------------EEEEC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSP------------------------TIGVDFKIK-------------LLTVG   57 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~------------------------~~~~~~~~~-------------~~~~~   57 (210)
                      ||+++|+.++|||||+.+|..+.+.....                        ..+.+....             ...+.
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~   80 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICE   80 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeee
Confidence            58999999999999999998765533110                        000000000             00111


Q ss_pred             CeEEEEEEEeCCCCcccccchhhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           58 GKRLKLTIWDTAGQERFGTLTSSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      ..+..+.++||||++.|.......+.  .+|++++|+|+..+..-...  .+...+.    ..++|+++|+||+|+.+..
T Consensus        81 ~~~~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~--~~l~~l~----~~~ip~ivvvNK~D~~~~~  154 (224)
T cd04165          81 KSSKLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGIIGMTK--EHLGLAL----ALNIPVFVVVTKIDLAPAN  154 (224)
T ss_pred             eCCcEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCcHHHH--HHHHHHH----HcCCCEEEEEECccccCHH
Confidence            22457889999999988655544443  68999999999876432222  2333333    3568999999999985432


Q ss_pred             ccCH--HHHHHHHH--------------------------HcCCeEEEecccCCcCHHHHHHHHH
Q 028315          136 AVTR--EEGMILAQ--------------------------EHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus       136 ~~~~--~~~~~~~~--------------------------~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      .+..  ++...+..                          ...+++|.+||.+|.|+++++..|.
T Consensus       155 ~~~~~~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         155 ILQETLKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            2211  11111111                          1124799999999999999776653

Mammalian GTP binding protein 1 (GTPBP1), GTPBP2, and nematode homologs AGP-1 and CGP-1 are GTPases whose specific functions remain unknown. In mouse, GTPBP1 is expressed in macrophages, in smooth muscle cells of various tissues and in some neurons of the cerebral cortex; GTPBP2 tissue distribution appears to overlap that of GTPBP1. In human leukemia and macrophage cell lines, expression of both GTPBP1 and GTPBP2 is enhanced by interferon-gamma (IFN-gamma). The chromosomal location of both genes has been identified in humans, with GTPBP1 located in chromosome 22q12-13.1 and GTPBP2 located in chromosome 6p21-12. Human glioblastoma multiforme (GBM), a highly-malignant astrocytic glioma and the most common cancer in the central nervous system, has been linked to chromosomal deletions and a translocation on chromosome 6. The GBM translocation results in a fusion of GTPBP2 and PTPRZ1, a protein involved in oligodendrocyte differentiation, recovery, and

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.75  E-value=5e-17  Score=123.25  Aligned_cols=154  Identities=21%  Similarity=0.251  Sum_probs=104.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----cccchhh---hhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----FGTLTSS---YYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----~~~~~~~---~~~~~d   86 (210)
                      .|.++|.|++|||||++.+...+... .++.++..-....+.+++.. ++.+-|.||.-.    ...+-..   +++.++
T Consensus       198 dvGLVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf~-q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~  276 (366)
T KOG1489|consen  198 DVGLVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDFS-QITVADIPGIIEGAHMNKGLGYKFLRHIERCK  276 (366)
T ss_pred             ccceecCCCCcHHHHHHHhhccCCcccccceeeeccccceeeccccc-eeEeccCccccccccccCcccHHHHHHHHhhc
Confidence            47899999999999999998887644 33322222222233333332 388889999321    1222233   456799


Q ss_pred             EEEEEEeCCCH---hhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCC
Q 028315           87 GIILVYDVTRR---ETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNT  161 (210)
Q Consensus        87 ~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~  161 (210)
                      ..++|+|++.+   ..++.+. .+..+++.+.. ....|.++|+||+|+++.   .......+...+.- .++++||+.+
T Consensus       277 ~l~fVvD~s~~~~~~p~~~~~-lL~~ELe~yek~L~~rp~liVaNKiD~~ea---e~~~l~~L~~~lq~~~V~pvsA~~~  352 (366)
T KOG1489|consen  277 GLLFVVDLSGKQLRNPWQQLQ-LLIEELELYEKGLADRPALIVANKIDLPEA---EKNLLSSLAKRLQNPHVVPVSAKSG  352 (366)
T ss_pred             eEEEEEECCCcccCCHHHHHH-HHHHHHHHHhhhhccCceEEEEeccCchhH---HHHHHHHHHHHcCCCcEEEeeeccc
Confidence            99999999998   6777777 44444544432 467899999999998522   11223556666644 4999999999


Q ss_pred             cCHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLY  173 (210)
Q Consensus       162 ~~i~~l~~~i~~  173 (210)
                      +++.++++.|.+
T Consensus       353 egl~~ll~~lr~  364 (366)
T KOG1489|consen  353 EGLEELLNGLRE  364 (366)
T ss_pred             cchHHHHHHHhh
Confidence            999999887754

>PF04670 Gtr1_RagA: Gtr1/RagA G protein conserved region; InterPro: IPR006762 GTR1 was first identified in Saccharomyces cerevisiae (Baker's yeast) as a suppressor of a mutation in RCC1

Probab=99.74  E-value=2.2e-17  Score=123.29  Aligned_cols=169  Identities=20%  Similarity=0.230  Sum_probs=109.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccc-----cchhhhhccccEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFG-----TLTSSYYRGAHGI   88 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~-----~~~~~~~~~~d~~   88 (210)
                      ||+++|+.++||||+.+.++.+..+......+.|.......+ ......+.+||+||+..+-     ......+++++++
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~dT~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~L   80 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRDTLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVL   80 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGGGGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEE
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchhccccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEE
Confidence            799999999999998888876665554444444444444344 2445689999999987553     3467789999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCc--cC----HHHHHHHHHHcC---CeEEEecc
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERA--VT----REEGMILAQEHK---CLFLECSA  158 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~--~~----~~~~~~~~~~~~---~~~~~~sa  158 (210)
                      |+|+|+.+.+..+++. ++...+..... +++..+.|.+.|+|+..+..  ..    .+.........+   +.++.||.
T Consensus        81 IyV~D~qs~~~~~~l~-~~~~~i~~l~~~sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI  159 (232)
T PF04670_consen   81 IYVFDAQSDDYDEDLA-YLSDCIEALRQYSPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSI  159 (232)
T ss_dssp             EEEEETT-STCHHHHH-HHHHHHHHHHHHSTT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-T
T ss_pred             EEEEEcccccHHHHHH-HHHHHHHHHHHhCCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccC
Confidence            9999999555455555 66665554332 67889999999999854211  11    111222223344   67999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          159 KNTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      .+ ..+-+.|..+++.+..+.+..+..
T Consensus       160 ~D-~Sly~A~S~Ivq~LiP~~~~le~~  185 (232)
T PF04670_consen  160 WD-ESLYEAWSKIVQKLIPNLSTLENL  185 (232)
T ss_dssp             TS-THHHHHHHHHHHTTSTTHCCCCCC
T ss_pred             cC-cHHHHHHHHHHHHHcccHHHHHHH
Confidence            98 588999999999988777666554

RCC1 catalyzes guanine nucleotide exchange on Ran, a well characterised nuclear Ras-like small G protein that plays an essential role in the import and export of proteins and RNAs across the nuclear membrane through the nuclear pore complex. RCC1 is located inside the nucleus, bound to chromatin. The concentration of GTP within the cell is ~30 times higher than the concentration of GDP, thus resulting in the preferential production of the GTP form of Ran by RCC1 within the nucleus. Gtr1p is located within both the cytoplasm and the nucleus and has been reported to play a role in cell growth. Biochemical analysis revealed that Gtr1 is in fact a G protein of the Ras family. The RagA/B proteins are the human homologues of Gtr1 and Rag A and Gtr1p belong to the sixth subfamily of the Ras-like small GTPase superfamily []. ; GO: 0005525 GTP binding, 0005634 nucleus, 0005737 cytoplasm; PDB: 3R7W_B 2Q3F_B 3LLU_A.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.73  E-value=1.2e-16  Score=119.34  Aligned_cols=112  Identities=21%  Similarity=0.302  Sum_probs=79.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCC---------------CceeeEEEEE--EEEEC--------CeEEEEEEEeCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPS---------------PTIGVDFKIK--LLTVG--------GKRLKLTIWDTA   69 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~---------------~~~~~~~~~~--~~~~~--------~~~~~~~l~Dt~   69 (210)
                      ||+++|+.++|||||+.+|+........               ...+.+....  .....        +..+.+.+||||
T Consensus         2 NvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTP   81 (222)
T cd01885           2 NICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSP   81 (222)
T ss_pred             eEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCC
Confidence            7899999999999999999754321100               0111111111  11222        347899999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      |++.|.......++.+|++++|+|+.++...+... .+....     ..++|+++++||+|+.
T Consensus        82 G~~~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~-~l~~~~-----~~~~p~ilviNKiD~~  138 (222)
T cd01885          82 GHVDFSSEVTAALRLCDGALVVVDAVEGVCVQTET-VLRQAL-----KERVKPVLVINKIDRL  138 (222)
T ss_pred             CccccHHHHHHHHHhcCeeEEEEECCCCCCHHHHH-HHHHHH-----HcCCCEEEEEECCCcc
Confidence            99999999999999999999999999876555433 333322     2467999999999975

Translocation requires hydrolysis of a molecule of GTP and is mediated by EF-G in bacteria and by eEF2 in eukaryotes. The eukaryotic elongation factor eEF2 is a GTPase involved in the translocation of the peptidyl-tRNA from the A site to the P site on the ribosome. The 95-kDa protein is highly conserved, with 60% amino acid sequence identity between the human and yeast proteins. Two major mechanisms are known to regulate protein elongation and both involve eEF2. First, eEF2 can be modulated by reversible phosphorylation. Increased levels of phosphorylated eEF2 reduce elongation rates presumably because phosphorylated eEF2 fails to bind the ribosomes. Treatment of mammalian cells with agents that raise the cytoplasmic Ca2+ and cAMP levels reduce elongation rates by activating the kinase responsible for phosphorylating eEF2. In contrast, treatment of cells with insulin increases elongation rates by promoting eEF2 dephosphorylation. Seco

>PLN03126 Elongation factor Tu; Provisional

Probab=99.73  E-value=1.3e-16  Score=131.25  Aligned_cols=147  Identities=14%  Similarity=0.055  Sum_probs=99.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCC---------------CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVH---------------DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      -..+||+++|++++|||||+++|++....               ......+.+.......+...+.++.|+||||++.|.
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~  158 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYV  158 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHH
Confidence            45799999999999999999999852110               112334455555444555556788999999999998


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccCH---HHHHHHHHHc--
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVTR---EEGMILAQEH--  149 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~~---~~~~~~~~~~--  149 (210)
                      ......+..+|++++|+|+.+...-+... .|. .+.    ..++| +++++||+|+.+......   ++...+....  
T Consensus       159 ~~~~~g~~~aD~ailVVda~~G~~~qt~e-~~~-~~~----~~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~  232 (478)
T PLN03126        159 KNMITGAAQMDGAILVVSGADGPMPQTKE-HIL-LAK----QVGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEF  232 (478)
T ss_pred             HHHHHHHhhCCEEEEEEECCCCCcHHHHH-HHH-HHH----HcCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCC
Confidence            77777788999999999999764333322 332 222    24667 778999999865322211   1233333332  


Q ss_pred             ---CCeEEEecccCCcC
Q 028315          150 ---KCLFLECSAKNTED  163 (210)
Q Consensus       150 ---~~~~~~~sa~~~~~  163 (210)
                         .++++.+|+.+|.+
T Consensus       233 ~~~~~~~vp~Sa~~g~n  249 (478)
T PLN03126        233 PGDDIPIISGSALLALE  249 (478)
T ss_pred             CcCcceEEEEEcccccc
Confidence               46799999998854

>cd04169 RF3 RF3 subfamily

Probab=99.73  E-value=1.1e-16  Score=123.06  Aligned_cols=115  Identities=17%  Similarity=0.203  Sum_probs=81.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCC--CC-------------C------CceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVH--DP-------------S------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~--~~-------------~------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      -||+++|++|+|||||+++|+...-.  ..             .      ...+.+.......+...++.+.+|||||+.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~   82 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHE   82 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCch
Confidence            47999999999999999999753211  00             0      011333444445566677899999999999


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      .|.......++.+|++++|+|+++...... . .+.....    ..++|+++++||+|+...
T Consensus        83 df~~~~~~~l~~aD~~IlVvda~~g~~~~~-~-~i~~~~~----~~~~P~iivvNK~D~~~a  138 (267)
T cd04169          83 DFSEDTYRTLTAVDSAVMVIDAAKGVEPQT-R-KLFEVCR----LRGIPIITFINKLDREGR  138 (267)
T ss_pred             HHHHHHHHHHHHCCEEEEEEECCCCccHHH-H-HHHHHHH----hcCCCEEEEEECCccCCC
Confidence            888777778899999999999987643222 2 2222222    357899999999998543

Peptide chain release factor 3 (RF3) is a protein involved in the termination step of translation in bacteria. Termination occurs when class I release factors (RF1 or RF2) recognize the stop codon at the A-site of the ribosome and activate the release of the nascent polypeptide. The class II release factor RF3 then initiates the release of the class I RF from the ribosome. RF3 binds to the RF/ribosome complex in the inactive (GDP-bound) state. GDP/GTP exchange occurs, followed by the release of the class I RF. Subsequent hydrolysis of GTP to GDP triggers the release of RF3 from the ribosome. RF3 also enhances the efficiency of class I RFs at less preferred stop codons and at stop codons in weak contexts.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.73  E-value=1.1e-16  Score=133.27  Aligned_cols=116  Identities=16%  Similarity=0.209  Sum_probs=81.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCC-------------------CCCceeeEEEEEEEEECCeEEEEEEEeCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHD-------------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTA   69 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~   69 (210)
                      .+..+|+++|++++|||||+++|+...  ...                   .....+.++......+...++.+.+||||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTP   87 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTP   87 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECC
Confidence            456699999999999999999996421  100                   01112333444444555567889999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      |+..|.......++.+|++++|+|+.+..... .. .+.....    ..++|+++++||+|+.
T Consensus        88 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t~-~l~~~~~----~~~iPiiv~iNK~D~~  144 (526)
T PRK00741         88 GHEDFSEDTYRTLTAVDSALMVIDAAKGVEPQ-TR-KLMEVCR----LRDTPIFTFINKLDRD  144 (526)
T ss_pred             CchhhHHHHHHHHHHCCEEEEEEecCCCCCHH-HH-HHHHHHH----hcCCCEEEEEECCccc
Confidence            99999877777899999999999998864322 12 2222222    3678999999999974

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=8.9e-17  Score=122.66  Aligned_cols=160  Identities=19%  Similarity=0.146  Sum_probs=105.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc-----ccc-chh--hhhc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER-----FGT-LTS--SYYR   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-----~~~-~~~--~~~~   83 (210)
                      ....|++.|.||||||||++++++... +..+.+++|......++.....++|++||||.-+     .+. ...  ..++
T Consensus       167 ~~pTivVaG~PNVGKSSlv~~lT~Akp-EvA~YPFTTK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~  245 (346)
T COG1084         167 DLPTIVVAGYPNVGKSSLVRKLTTAKP-EVAPYPFTTKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALR  245 (346)
T ss_pred             CCCeEEEecCCCCcHHHHHHHHhcCCC-ccCCCCccccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHH
Confidence            457789999999999999999977665 4445555555555566676677899999999311     111 111  1233


Q ss_pred             -cccEEEEEEeCCCHhhH--HHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           84 -GAHGIILVYDVTRRETF--TNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        84 -~~d~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                       -.+++++++|.+....+  +.-. .+...+..   ..+.|+++|.||+|..+...+...+.. +...-+.....+++..
T Consensus       246 hl~~~IlF~~D~Se~cgy~lE~Q~-~L~~eIk~---~f~~p~v~V~nK~D~~~~e~~~~~~~~-~~~~~~~~~~~~~~~~  320 (346)
T COG1084         246 HLAGVILFLFDPSETCGYSLEEQI-SLLEEIKE---LFKAPIVVVINKIDIADEEKLEEIEAS-VLEEGGEEPLKISATK  320 (346)
T ss_pred             HhcCeEEEEEcCccccCCCHHHHH-HHHHHHHH---hcCCCeEEEEecccccchhHHHHHHHH-HHhhccccccceeeee
Confidence             36899999999976543  3333 23333333   234899999999998765444333222 3333344478899999


Q ss_pred             CcCHHHHHHHHHHHHHc
Q 028315          161 TEDVKQCFKDLLYKILE  177 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~  177 (210)
                      +.+++.+...+.....+
T Consensus       321 ~~~~d~~~~~v~~~a~~  337 (346)
T COG1084         321 GCGLDKLREEVRKTALE  337 (346)
T ss_pred             hhhHHHHHHHHHHHhhc
Confidence            99999877777766443

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.72  E-value=3.7e-17  Score=132.81  Aligned_cols=148  Identities=17%  Similarity=0.162  Sum_probs=95.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCC--------------------------------CCceeeEEEEEEEEECCeEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDP--------------------------------SPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~--------------------------------~~~~~~~~~~~~~~~~~~~~   61 (210)
                      +||+++|+.++|||||+.+|+...-...                                ....+.+.......+...+.
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~   80 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKR   80 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCe
Confidence            5899999999999999999964321110                                01122333433444445566


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC---
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT---  138 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~---  138 (210)
                      ++.||||||++.|.......+..+|++++|+|+..+..-+... .+. .+..   ....+++|++||+|+.+.....   
T Consensus        81 ~~~liDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt~~-~~~-~~~~---~~~~~iivviNK~D~~~~~~~~~~~  155 (406)
T TIGR02034        81 KFIVADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQTRR-HSY-IASL---LGIRHVVLAVNKMDLVDYDEEVFEN  155 (406)
T ss_pred             EEEEEeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCccccHH-HHH-HHHH---cCCCcEEEEEEecccccchHHHHHH
Confidence            8999999999998776667788999999999998764322222 222 1221   1234688999999986422111   


Q ss_pred             -HHHHHHHHHHcC---CeEEEecccCCcCHHH
Q 028315          139 -REEGMILAQEHK---CLFLECSAKNTEDVKQ  166 (210)
Q Consensus       139 -~~~~~~~~~~~~---~~~~~~sa~~~~~i~~  166 (210)
                       .++...+....+   ++++.+||.+|.|+++
T Consensus       156 i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       156 IKKDYLAFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHHHHHHHcCCCCccEEEeecccCCCCcc
Confidence             112222233333   4699999999999886

Homologous to this E.coli activation pathway are nodPQH gene products found among members of the Rhizobiaceae family. These gene products have been shown to exhibit ATP sulfurase and APS kinase activity, yet are involved in Nod factor sulfation, and sulfation of other macromolecules. With members of the Rhizobiaceae family, nodQ often appears as a fusion of cysN (large subunit of ATP sulfurase) and cysC (APS kinase).

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.72  E-value=4.4e-17  Score=134.44  Aligned_cols=152  Identities=17%  Similarity=0.129  Sum_probs=97.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC--------------------------------CceeeEEEEEEEEECC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPS--------------------------------PTIGVDFKIKLLTVGG   58 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~--------------------------------~~~~~~~~~~~~~~~~   58 (210)
                      ...+||+++|++++|||||+.+|+...-....                                ...+.+.......+..
T Consensus        25 ~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~  104 (474)
T PRK05124         25 KSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFST  104 (474)
T ss_pred             cCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEecc
Confidence            45699999999999999999999754321110                                0112333333334455


Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      ...++.||||||++.|.......+..+|++++|+|+..+..-+... .+. .+...   ...|++|++||+|+.+.....
T Consensus       105 ~~~~i~~iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt~~-~~~-l~~~l---g~~~iIvvvNKiD~~~~~~~~  179 (474)
T PRK05124        105 EKRKFIIADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQTRR-HSF-IATLL---GIKHLVVAVNKMDLVDYSEEV  179 (474)
T ss_pred             CCcEEEEEECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccchH-HHH-HHHHh---CCCceEEEEEeeccccchhHH
Confidence            5678999999999988766666679999999999998753222111 111 11111   124789999999986422211


Q ss_pred             HHH----HHHHHHHc----CCeEEEecccCCcCHHHH
Q 028315          139 REE----GMILAQEH----KCLFLECSAKNTEDVKQC  167 (210)
Q Consensus       139 ~~~----~~~~~~~~----~~~~~~~sa~~~~~i~~l  167 (210)
                      .++    ...+....    ..+++.+||++|.|+.++
T Consensus       180 ~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        180 FERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            111    11222222    367999999999999874

>PLN03127 Elongation factor Tu; Provisional

Probab=99.72  E-value=2.2e-16  Score=129.19  Aligned_cols=159  Identities=13%  Similarity=0.037  Sum_probs=102.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC------CCC---------CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN------SVH---------DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~------~~~---------~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      ..+||+++|+.++|||||+++|.+.      ...         +.....+.+.......+...+.++.|+||||+..|..
T Consensus        60 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~f~~  139 (447)
T PLN03127         60 PHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHADYVK  139 (447)
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccchHH
Confidence            5799999999999999999999622      110         0112245556665666666667899999999988866


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccCH---HHHHHHHHHc---
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVTR---EEGMILAQEH---  149 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~~---~~~~~~~~~~---  149 (210)
                      .....+..+|++++|+|+.++..-+..  .....+.    ..++| +++++||+|+.+......   ++...+....   
T Consensus       140 ~~~~g~~~aD~allVVda~~g~~~qt~--e~l~~~~----~~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~  213 (447)
T PLN03127        140 NMITGAAQMDGGILVVSAPDGPMPQTK--EHILLAR----QVGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFP  213 (447)
T ss_pred             HHHHHHhhCCEEEEEEECCCCCchhHH--HHHHHHH----HcCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCC
Confidence            666666789999999999875432221  1222222    34678 578899999864322111   1222222222   


Q ss_pred             --CCeEEEeccc---CCcC-------HHHHHHHHHHHHH
Q 028315          150 --KCLFLECSAK---NTED-------VKQCFKDLLYKIL  176 (210)
Q Consensus       150 --~~~~~~~sa~---~~~~-------i~~l~~~i~~~~~  176 (210)
                        .++++.+||.   +|.|       +.++++.+.+.+.
T Consensus       214 ~~~vpiip~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~lp  252 (447)
T PLN03127        214 GDEIPIIRGSALSALQGTNDEIGKNAILKLMDAVDEYIP  252 (447)
T ss_pred             CCcceEEEeccceeecCCCcccccchHHHHHHHHHHhCC
Confidence              3578888875   4555       6777777766543

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.72  E-value=1.4e-16  Score=117.64  Aligned_cols=159  Identities=23%  Similarity=0.234  Sum_probs=97.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceee---EEEEEEEEECCeEEEEEEEeCCCCcccccchhhh-----hc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGV---DFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY-----YR   83 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~---~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~-----~~   83 (210)
                      ++||+++|.+|+|||||+|.+++..... ...+.+.   +.....+... ....+.+|||||..........+     +.
T Consensus         1 ~~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~   79 (197)
T cd04104           1 PLNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPHP-KFPNVTLWDLPGIGSTAFPPDDYLEEMKFS   79 (197)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeecC-CCCCceEEeCCCCCcccCCHHHHHHHhCcc
Confidence            3799999999999999999998865433 2222221   1111111111 12368999999975433322233     56


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-------CHHH----HH-HH---HHH
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-------TREE----GM-IL---AQE  148 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-------~~~~----~~-~~---~~~  148 (210)
                      .+|+++++.+.    ++......|...+..    .+.|+++|+||+|+......       ..++    .+ ..   ...
T Consensus        80 ~~d~~l~v~~~----~~~~~d~~~~~~l~~----~~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~  151 (197)
T cd04104          80 EYDFFIIISST----RFSSNDVKLAKAIQC----MGKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQE  151 (197)
T ss_pred             CcCEEEEEeCC----CCCHHHHHHHHHHHH----hCCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHH
Confidence            78998888542    244444456666654    35799999999998432110       1111    11 11   112


Q ss_pred             cC---CeEEEeccc--CCcCHHHHHHHHHHHHHccch
Q 028315          149 HK---CLFLECSAK--NTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       149 ~~---~~~~~~sa~--~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      .+   .++|.+|+.  .+.++..+.+.+...+.+.+.
T Consensus       152 ~~~~~p~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~  188 (197)
T cd04104         152 AGVSEPPVFLVSNFDPSDYDFPKLRETLLKDLPAHKR  188 (197)
T ss_pred             cCCCCCCEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence            12   259999999  579999999999999886543

The p47 GTPase family consists of several highly homologous proteins, including IGTP, TGTP/Mg21, IRG-47, GTPI, LRG-47, and IIGP1. They are found in higher eukaryotes where they play a role in immune resistance against intracellular pathogens. p47 proteins exist at low resting levels in mouse cells, but are strongly induced by Type II interferon (IFN-gamma). ITGP is critical for resistance to Toxoplasma gondii infection and in involved in inhibition of Coxsackievirus-B3-induced apoptosis. TGTP was shown to limit vesicular stomatitis virus (VSV) infection of fibroblasts in vitro. IRG-47 is involved in resistance to T. gondii infection. LRG-47 has been implicated in resistance to T. gondii, Listeria monocytogenes, Leishmania, and mycobacterial infections. IIGP1 has been shown to localize to the ER and to the Golgi membranes in IFN-induced cells and inflamed tissues. In macrophages, IIGP1 interacts with hook3, a microtubule binding protei

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.72  E-value=6.1e-17  Score=124.52  Aligned_cols=113  Identities=20%  Similarity=0.257  Sum_probs=80.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-----------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-----------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL   77 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   77 (210)
                      ||+++|++++|||||+++|+...-..                 .....+.+.......+...+.++.+|||||+..|...
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~   80 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIE   80 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHH
Confidence            68999999999999999997421100                 1122344444444444445678999999999888888


Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      +...++.+|++++|+|+.+...-+... .|. .+.    ..++|+++++||+|+.+
T Consensus        81 ~~~~l~~aD~ailVVDa~~g~~~~t~~-~~~-~~~----~~~~p~ivviNK~D~~~  130 (270)
T cd01886          81 VERSLRVLDGAVAVFDAVAGVEPQTET-VWR-QAD----RYNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHHHHcCEEEEEEECCCCCCHHHHH-HHH-HHH----HcCCCEEEEEECCCCCC
Confidence            888999999999999998764333222 222 222    35689999999999864

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group conta

>PRK00049 elongation factor Tu; Reviewed

Probab=99.72  E-value=2e-16  Score=128.17  Aligned_cols=158  Identities=12%  Similarity=0.059  Sum_probs=103.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCC---------------CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVH---------------DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      -..+||+++|+.++|||||+++|++....               ......+.+.......+.....++.|+||||+..|.
T Consensus        10 ~~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~   89 (396)
T PRK00049         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYV   89 (396)
T ss_pred             CCEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHH
Confidence            35799999999999999999999863110               011234555555555555556688899999998887


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEE-EEEeCCCCCCCCccC---HHHHHHHHHHc--
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDRDSERAVT---REEGMILAQEH--  149 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-vv~nK~Dl~~~~~~~---~~~~~~~~~~~--  149 (210)
                      ......+..+|++++|+|+..+..-+...  +...+.    ..+.|.+ |++||+|+.......   ..+...+....  
T Consensus        90 ~~~~~~~~~aD~~llVVDa~~g~~~qt~~--~~~~~~----~~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~  163 (396)
T PRK00049         90 KNMITGAAQMDGAILVVSAADGPMPQTRE--HILLAR----QVGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDF  163 (396)
T ss_pred             HHHHhhhccCCEEEEEEECCCCCchHHHH--HHHHHH----HcCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCC
Confidence            66667788999999999998753322222  222222    2467865 689999986422211   11233333332  


Q ss_pred             ---CCeEEEecccCCc----------CHHHHHHHHHHH
Q 028315          150 ---KCLFLECSAKNTE----------DVKQCFKDLLYK  174 (210)
Q Consensus       150 ---~~~~~~~sa~~~~----------~i~~l~~~i~~~  174 (210)
                         .++++.+||.+|.          ++..+++.|.+.
T Consensus       164 ~~~~~~iv~iSa~~g~~~~~~~~w~~~~~~ll~~l~~~  201 (396)
T PRK00049        164 PGDDTPIIRGSALKALEGDDDEEWEKKILELMDAVDSY  201 (396)
T ss_pred             CccCCcEEEeecccccCCCCcccccccHHHHHHHHHhc
Confidence               3679999999875          345555555543

>COG2262 HflX GTPases [General function prediction only]

Probab=99.71  E-value=4e-16  Score=122.52  Aligned_cols=160  Identities=19%  Similarity=0.156  Sum_probs=107.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCc---------ccccchhhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE---------RFGTLTSSY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~---------~~~~~~~~~   81 (210)
                      ....|+++|.+|+|||||+|++.+..... ..-...-+.+...+.+.+ +..+.+-||-|.-         .|.+.... 
T Consensus       191 ~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFksTLEE-  268 (411)
T COG2262         191 GIPLVALVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKSTLEE-  268 (411)
T ss_pred             CCCeEEEEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHHHHHH-
Confidence            45689999999999999999998655432 222222233333344443 4466777999932         22222222 


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ...+|.++.|+|++++...+.+. .....+.... -...|+++|.||+|+......    ...+..... ..+.+||++|
T Consensus       269 ~~~aDlllhVVDaSdp~~~~~~~-~v~~vL~el~-~~~~p~i~v~NKiD~~~~~~~----~~~~~~~~~-~~v~iSA~~~  341 (411)
T COG2262         269 VKEADLLLHVVDASDPEILEKLE-AVEDVLAEIG-ADEIPIILVLNKIDLLEDEEI----LAELERGSP-NPVFISAKTG  341 (411)
T ss_pred             hhcCCEEEEEeecCChhHHHHHH-HHHHHHHHcC-CCCCCEEEEEecccccCchhh----hhhhhhcCC-CeEEEEeccC
Confidence            35799999999999997666665 4455555443 356899999999997644331    111111122 5899999999


Q ss_pred             cCHHHHHHHHHHHHHccch
Q 028315          162 EDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~  180 (210)
                      .|++.|+..|.+.+.....
T Consensus       342 ~gl~~L~~~i~~~l~~~~~  360 (411)
T COG2262         342 EGLDLLRERIIELLSGLRT  360 (411)
T ss_pred             cCHHHHHHHHHHHhhhccc
Confidence            9999999999998875543

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.71  E-value=3e-16  Score=128.52  Aligned_cols=148  Identities=18%  Similarity=0.155  Sum_probs=102.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCC------------------------------CCCCceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVH------------------------------DPSPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~   61 (210)
                      +.++|+++|+.++|||||+.+|+...-.                              ......+.+.......+...+.
T Consensus         6 ~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~~   85 (447)
T PLN00043          6 VHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTKY   85 (447)
T ss_pred             ceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCCE
Confidence            5699999999999999999998642110                              0112234455555555666778


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHH-------HHHHHHHHHHhhhccCCCC-cEEEEEeCCCCCC
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFT-------NLSSVWAKEVELYSTNQDC-VKILVGNKVDRDS  133 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~-------~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl~~  133 (210)
                      .+.++|||||+.|.......+..+|++|+|+|+.+.. |+       .....|.. ..    ..++ +++|++||+|+.+
T Consensus        86 ~i~liDtPGh~df~~~~~~g~~~aD~aIlVVda~~G~-~e~g~~~~~qT~eh~~~-~~----~~gi~~iIV~vNKmD~~~  159 (447)
T PLN00043         86 YCTVIDAPGHRDFIKNMITGTSQADCAVLIIDSTTGG-FEAGISKDGQTREHALL-AF----TLGVKQMICCCNKMDATT  159 (447)
T ss_pred             EEEEEECCCHHHHHHHHHhhhhhccEEEEEEEcccCc-eecccCCCchHHHHHHH-HH----HcCCCcEEEEEEcccCCc
Confidence            9999999999999988888899999999999999741 21       22212221 11    2455 4788999999752


Q ss_pred             CCccC-------HHHHHHHHHHcC-----CeEEEecccCCcCHHH
Q 028315          134 ERAVT-------REEGMILAQEHK-----CLFLECSAKNTEDVKQ  166 (210)
Q Consensus       134 ~~~~~-------~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  166 (210)
                      . ..+       .++...+....+     ++++++||.+|.|+.+
T Consensus       160 ~-~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        160 P-KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             h-hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            1 111       234555555555     5699999999999854

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.70  E-value=5.4e-17  Score=125.33  Aligned_cols=149  Identities=20%  Similarity=0.242  Sum_probs=94.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-----CCC-c-----------eeeEEEEEEEEECCeEEEEEEEeCCCCcccccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-----PSP-T-----------IGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL   77 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-----~~~-~-----------~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   77 (210)
                      ||+++|++|+|||||+++++......     ... +           .+.+.......+...++.+++|||||+..|...
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~   80 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGE   80 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHH
Confidence            58999999999999999997533211     000 0           011122222233334578899999999888777


Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeE--EE
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLF--LE  155 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~--~~  155 (210)
                      +...++.+|++++|+|+++........ .|.. +.    ..+.|.++++||+|+....  ..+....+...++.++  +.
T Consensus        81 ~~~~l~~aD~~i~Vvd~~~g~~~~~~~-~~~~-~~----~~~~p~iivvNK~D~~~~~--~~~~~~~l~~~~~~~~~~~~  152 (268)
T cd04170          81 TRAALRAADAALVVVSAQSGVEVGTEK-LWEF-AD----EAGIPRIIFINKMDRERAD--FDKTLAALQEAFGRPVVPLQ  152 (268)
T ss_pred             HHHHHHHCCEEEEEEeCCCCCCHHHHH-HHHH-HH----HcCCCEEEEEECCccCCCC--HHHHHHHHHHHhCCCeEEEE
Confidence            888899999999999999875544333 3332 22    3568999999999986542  1223334444455543  44


Q ss_pred             ecccCCcCHHHHHHHH
Q 028315          156 CSAKNTEDVKQCFKDL  171 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i  171 (210)
                      +...++.++..+.+.+
T Consensus       153 ip~~~~~~~~~~vd~~  168 (268)
T cd04170         153 LPIGEGDDFKGVVDLL  168 (268)
T ss_pred             ecccCCCceeEEEEcc
Confidence            4456655554444443

Translocation is mediated by EF-G (also called translocase). The structure of EF-G closely resembles that of the complex between EF-Tu and tRNA. This is an example of molecular mimicry; a protein domain evolved so that it mimics the shape of a tRNA molecule. EF-G in the GTP form binds to the ribosome, primarily through the interaction of its EF-Tu-like domain with the 50S subunit. The binding of EF-G to the ribosome in this manner stimulates the GTPase activity of EF-G. On GTP hydrolysis, EF-G undergoes a conformational change that forces its arm deeper into the A site on the 30S subunit. To accommodate this domain, the peptidyl-tRNA in the A site moves to the P site, carrying the mRNA and the deacylated tRNA with it. The ribosome may be prepared for these rearrangements by the initial binding of EF-G as well. The dissociation of EF-G leaves the ribosome ready to accept the next aminoacyl-tRNA into the A site. This group

>PRK13351 elongation factor G; Reviewed

Probab=99.70  E-value=1.5e-16  Score=137.42  Aligned_cols=117  Identities=15%  Similarity=0.221  Sum_probs=84.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----------CC------CceeeEEEEEEEEECCeEEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-----------PS------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----------~~------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   73 (210)
                      +...||+++|+.++|||||+++|+......           ..      ...+.+.......+....+.+++|||||+..
T Consensus         6 ~~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~d   85 (687)
T PRK13351          6 MQIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHID   85 (687)
T ss_pred             ccccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHH
Confidence            467899999999999999999997532100           00      0112222222223344567899999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      |...+..+++.+|++++|+|+++....+... .|.. +.    ..++|+++++||+|+..
T Consensus        86 f~~~~~~~l~~aD~~ilVvd~~~~~~~~~~~-~~~~-~~----~~~~p~iiviNK~D~~~  139 (687)
T PRK13351         86 FTGEVERSLRVLDGAVVVFDAVTGVQPQTET-VWRQ-AD----RYGIPRLIFINKMDRVG  139 (687)
T ss_pred             HHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHH-HH----hcCCCEEEEEECCCCCC
Confidence            9888889999999999999999876665443 4433 22    35789999999999853

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.70  E-value=4.2e-16  Score=119.58  Aligned_cols=162  Identities=19%  Similarity=0.158  Sum_probs=110.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc----ccchh---hhhccccE
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF----GTLTS---SYYRGAHG   87 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~----~~~~~---~~~~~~d~   87 (210)
                      |.++|.|++|||||++.++..+... .+|.++..-....+.+ ...-.+++-|.||.-+-    ..+-.   .+++.+.+
T Consensus       162 VGLVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~v  240 (369)
T COG0536         162 VGLVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRV  240 (369)
T ss_pred             cccccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEe-cCCCcEEEecCcccccccccCCCccHHHHHHHHhhhe
Confidence            5799999999999999998887655 4444333333333344 33446888899993211    12222   34567899


Q ss_pred             EEEEEeCCCHh---hHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEE-ecccCCc
Q 028315           88 IILVYDVTRRE---TFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLE-CSAKNTE  162 (210)
Q Consensus        88 ~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~-~sa~~~~  162 (210)
                      ++.|+|++..+   ..++.. .+..++..+.. ..++|.+||+||+|+....+........+....+...+. +||.++.
T Consensus       241 L~hviD~s~~~~~dp~~~~~-~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~  319 (369)
T COG0536         241 LLHVIDLSPIDGRDPIEDYQ-TIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTRE  319 (369)
T ss_pred             eEEEEecCcccCCCHHHHHH-HHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhccc
Confidence            99999999654   355555 55666666643 367899999999997554444344444555555544222 9999999


Q ss_pred             CHHHHHHHHHHHHHccc
Q 028315          163 DVKQCFKDLLYKILEVP  179 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~  179 (210)
                      |++++...+.+.+.+.+
T Consensus       320 g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         320 GLDELLRALAELLEETK  336 (369)
T ss_pred             CHHHHHHHHHHHHHHhh
Confidence            99999999988887765

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.70  E-value=7.4e-17  Score=111.11  Aligned_cols=155  Identities=18%  Similarity=0.201  Sum_probs=118.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .-|++++|..|+|||||++.|.......+.||.-.+-..    +.-.+..++-+|++||..-+..|..++..+|++++.+
T Consensus        20 ~gKllFlGLDNAGKTTLLHMLKdDrl~qhvPTlHPTSE~----l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lv   95 (193)
T KOG0077|consen   20 FGKLLFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEE----LSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLV   95 (193)
T ss_pred             CceEEEEeecCCchhhHHHHHccccccccCCCcCCChHH----heecCceEEEEccccHHHHHHHHHHHHhhhceeEeee
Confidence            458999999999999999999888777766665544442    2224567888999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH---HHHcC--------------CeEEE
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL---AQEHK--------------CLFLE  155 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~---~~~~~--------------~~~~~  155 (210)
                      |+.|.+.|.+.+..+...+.... ....|+++.+||+|.+.+.  ++++.+..   ....+              ..+|.
T Consensus        96 da~d~er~~es~~eld~ll~~e~-la~vp~lilgnKId~p~a~--se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfm  172 (193)
T KOG0077|consen   96 DAYDQERFAESKKELDALLSDES-LATVPFLILGNKIDIPYAA--SEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFM  172 (193)
T ss_pred             ehhhHHHhHHHHHHHHHHHhHHH-HhcCcceeecccccCCCcc--cHHHHHHHHHHHHHhcccccccccCCCCCeEEEEE
Confidence            99999999999866666555443 5789999999999987653  33332211   11111              13788


Q ss_pred             ecccCCcCHHHHHHHHHHH
Q 028315          156 CSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~  174 (210)
                      ||...+.+-.+.|.|+.+.
T Consensus       173 csi~~~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  173 CSIVRKMGYGEGFKWLSQY  191 (193)
T ss_pred             EEEEccCccceeeeehhhh
Confidence            9999888877888877654

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.70  E-value=4.3e-16  Score=127.68  Aligned_cols=151  Identities=19%  Similarity=0.165  Sum_probs=99.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCC--C----------------------------CCCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSV--H----------------------------DPSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~--~----------------------------~~~~~~~~~~~~~~~~~~~~~   60 (210)
                      -..+||+++|+.++|||||+.+|+...-  .                            ......+.+.......+....
T Consensus         5 k~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~   84 (446)
T PTZ00141          5 KTHINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (446)
T ss_pred             CceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCC
Confidence            3569999999999999999999875211  0                            011223445555555566667


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhh---H---HHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET---F---TNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDS  133 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~---~---~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~  133 (210)
                      ..+.|+|||||+.|.......+..+|++++|+|+..+.-   |   ....+.|.. +.    ..++| ++|++||+|...
T Consensus        85 ~~i~lIDtPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~-~~----~~gi~~iiv~vNKmD~~~  159 (446)
T PTZ00141         85 YYFTIIDAPGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALL-AF----TLGVKQMIVCINKMDDKT  159 (446)
T ss_pred             eEEEEEECCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHH-HH----HcCCCeEEEEEEcccccc
Confidence            889999999999998888888899999999999987531   0   111212322 21    24555 678999999532


Q ss_pred             C----CccC--HHHHHHHHHHc-----CCeEEEecccCCcCHHH
Q 028315          134 E----RAVT--REEGMILAQEH-----KCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       134 ~----~~~~--~~~~~~~~~~~-----~~~~~~~sa~~~~~i~~  166 (210)
                      .    ..+.  .++...+....     .++++.+|+.+|.|+.+
T Consensus       160 ~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        160 VNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             chhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            1    1111  12223333322     35799999999999864

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.69  E-value=1.1e-15  Score=123.56  Aligned_cols=156  Identities=19%  Similarity=0.171  Sum_probs=107.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECC---eEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGG---KRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .++.=|.++|+...|||||+.++........ ..-++|.+...+.+..   ....+.|+|||||+.|..++..-..-+|+
T Consensus         3 ~R~PvVtimGHVDHGKTtLLD~IR~t~Va~~-EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDI   81 (509)
T COG0532           3 LRPPVVTIMGHVDHGKTTLLDKIRKTNVAAG-EAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDI   81 (509)
T ss_pred             CCCCEEEEeCcccCCccchhhhHhcCccccc-cCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccE
Confidence            3445689999999999999999977665441 1222223333333321   34578999999999999988888888999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC---------CeEEEecc
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK---------CLFLECSA  158 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~---------~~~~~~sa  158 (210)
                      ++||+++++.---+... .. ...+    ..+.|++|++||+|..+.   .++....-...+|         ..++.+||
T Consensus        82 aILVVa~dDGv~pQTiE-AI-~hak----~a~vP~iVAiNKiDk~~~---np~~v~~el~~~gl~~E~~gg~v~~VpvSA  152 (509)
T COG0532          82 AILVVAADDGVMPQTIE-AI-NHAK----AAGVPIVVAINKIDKPEA---NPDKVKQELQEYGLVPEEWGGDVIFVPVSA  152 (509)
T ss_pred             EEEEEEccCCcchhHHH-HH-HHHH----HCCCCEEEEEecccCCCC---CHHHHHHHHHHcCCCHhhcCCceEEEEeec
Confidence            99999999863333222 11 1111    478999999999998743   2323222222222         35899999


Q ss_pred             cCCcCHHHHHHHHHHHHH
Q 028315          159 KNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~  176 (210)
                      ++|.|+++|+..++-...
T Consensus       153 ~tg~Gi~eLL~~ill~ae  170 (509)
T COG0532         153 KTGEGIDELLELILLLAE  170 (509)
T ss_pred             cCCCCHHHHHHHHHHHHH
Confidence            999999999988765443

>cd01850 CDC_Septin CDC/Septin

Probab=99.69  E-value=1.3e-15  Score=117.72  Aligned_cols=143  Identities=21%  Similarity=0.279  Sum_probs=91.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC-----------CCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc---c
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP-----------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT---L   77 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~---~   77 (210)
                      -.++|+++|.+|+|||||+++|++..+...           .++...+.....+..++..+.+.+|||||......   .
T Consensus         3 ~~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~   82 (276)
T cd01850           3 FQFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDC   82 (276)
T ss_pred             cEEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhh
Confidence            468999999999999999999988876442           23334444444555567778999999999433211   0


Q ss_pred             -----------------------hhhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           78 -----------------------TSSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        78 -----------------------~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                                             +...+.  .+|+++++++.+... +......++..+   .  ..+|+++|+||+|+.
T Consensus        83 ~~~i~~yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~-l~~~D~~~lk~l---~--~~v~vi~VinK~D~l  156 (276)
T cd01850          83 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHG-LKPLDIEFMKRL---S--KRVNIIPVIAKADTL  156 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCC-CCHHHHHHHHHH---h--ccCCEEEEEECCCcC
Confidence                                   101222  478889988877521 111111222223   2  268999999999985


Q ss_pred             CCCc--cCHHHHHHHHHHcCCeEEEecccC
Q 028315          133 SERA--VTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus       133 ~~~~--~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      ...+  ...+........+++.+|......
T Consensus       157 ~~~e~~~~k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         157 TPEELKEFKQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCceECCCCCc
Confidence            5322  233445566677888888876643

Septins are a conserved family of GTP-binding proteins associated with diverse processes in dividing and non-dividing cells. They were first discovered in the budding yeast S. cerevisiae as a set of genes (CDC3, CDC10, CDC11 and CDC12) required for normal bud morphology. Septins are also present in metazoan cells, where they are required for cytokinesis in some systems, and implicated in a variety of other processes involving organization of the cell cortex and exocytosis. In humans, 12 septin genes generate dozens of polypeptides, many of which comprise heterooligomeric complexes. Since septin mutants are commonly defective in cytokinesis and formation of the neck formation of the neck filaments/septin rings, septins have been considered to be the primary constituents of the neck filaments. Septins belong to the GTPase superfamily for their conserved GTPase motifs and enzymatic activities.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.69  E-value=1.2e-15  Score=121.42  Aligned_cols=161  Identities=19%  Similarity=0.184  Sum_probs=119.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--------------CCCceeeEEEEEE----EEE-CCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD--------------PSPTIGVDFKIKL----LTV-GGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--------------~~~~~~~~~~~~~----~~~-~~~~~~~~l~Dt~G~   71 (210)
                      .+.-|..++-+-..|||||..|++.....-              .....|++.....    +.. ++..+.++++|||||
T Consensus         7 ~~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGH   86 (603)
T COG0481           7 KNIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGH   86 (603)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCc
Confidence            345578999999999999999996532111              1122233333332    222 567899999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  151 (210)
                      -.|.-.....+..|.++++|+|++.+...+.+...|+. +.     .+.-++.|+||+||+....  +.-.++...-.|+
T Consensus        87 VDFsYEVSRSLAACEGalLvVDAsQGveAQTlAN~YlA-le-----~~LeIiPViNKIDLP~Adp--ervk~eIe~~iGi  158 (603)
T COG0481          87 VDFSYEVSRSLAACEGALLVVDASQGVEAQTLANVYLA-LE-----NNLEIIPVLNKIDLPAADP--ERVKQEIEDIIGI  158 (603)
T ss_pred             cceEEEehhhHhhCCCcEEEEECccchHHHHHHHHHHH-HH-----cCcEEEEeeecccCCCCCH--HHHHHHHHHHhCC
Confidence            99998888999999999999999999888888844444 43     5778899999999965421  2223344555566


Q ss_pred             e---EEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          152 L---FLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       152 ~---~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +   .+.+||++|.||+++++.|++.+..-.
T Consensus       159 d~~dav~~SAKtG~gI~~iLe~Iv~~iP~P~  189 (603)
T COG0481         159 DASDAVLVSAKTGIGIEDVLEAIVEKIPPPK  189 (603)
T ss_pred             CcchheeEecccCCCHHHHHHHHHhhCCCCC
Confidence            4   899999999999999999999887544

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.68  E-value=1.6e-15  Score=118.92  Aligned_cols=165  Identities=19%  Similarity=0.213  Sum_probs=100.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-C------CCceeeEEEEEE---------------EEECC-eEEEEEEEeCCCC-
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-P------SPTIGVDFKIKL---------------LTVGG-KRLKLTIWDTAGQ-   71 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~------~~~~~~~~~~~~---------------~~~~~-~~~~~~l~Dt~G~-   71 (210)
                      |+++|.|+||||||++++++..... .      .|..+..+....               ...++ ..+.+++|||||. 
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv   80 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLV   80 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCC
Confidence            5799999999999999998876432 1      222222221110               00122 3478999999996 


Q ss_pred             ---cccccchhh---hhccccEEEEEEeCCC---------------Hh-hHHHHHH---HH-------------------
Q 028315           72 ---ERFGTLTSS---YYRGAHGIILVYDVTR---------------RE-TFTNLSS---VW-------------------  107 (210)
Q Consensus        72 ---~~~~~~~~~---~~~~~d~~i~v~d~~~---------------~~-~~~~~~~---~~-------------------  107 (210)
                         +.+..+...   .++++|++++|+|+..               |. .++.+..   .|                   
T Consensus        81 ~ga~~~~glg~~fL~~ir~aD~ii~Vvd~~~~~d~~~~~~~~~~~dp~~d~~~i~~El~~~d~~~~~~~~~~~~~~~~~~  160 (318)
T cd01899          81 PGAHEGKGLGNKFLDDLRDADALIHVVDASGGTDAEGNGVETGGHDPLEDIEFLENEIDMWIYGILEKNWEKIVRKADAE  160 (318)
T ss_pred             CCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccccccccCCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence               334444444   4899999999999973               11 1111111   11                   


Q ss_pred             ----------------------HHHHhhhc--------------------cCCCCcEEEEEeCCCCCCCCccCHHHHHHH
Q 028315          108 ----------------------AKEVELYS--------------------TNQDCVKILVGNKVDRDSERAVTREEGMIL  145 (210)
Q Consensus       108 ----------------------~~~~~~~~--------------------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~  145 (210)
                                            ...+....                    ....+|+++++||.|+......    ...+
T Consensus       161 ~~~~~~~~~~~~~~~~~~~~~v~~~L~~~~~~~~~~~~~~~~~~~~~~~~llt~KPvI~VlNK~Dl~~~~~~----~~~l  236 (318)
T cd01899         161 KTDIVEALSEQLSGFGVNEKDVIEALEELELPEDLSKWTDEDLLRLARALRKRSKPMVIAANKADIPDAENN----ISKL  236 (318)
T ss_pred             CccHHHHHHHHHhhccccHHHHHHHHHhCCCCCcccCCCHHHHHHHHHHHHhcCCcEEEEEEHHHccChHHH----HHHH
Confidence                                  00000000                    0224699999999997533221    1122


Q ss_pred             HHHc-CCeEEEecccCCcCHHHHHH-HHHHHHHccchhhhc
Q 028315          146 AQEH-KCLFLECSAKNTEDVKQCFK-DLLYKILEVPSLLEQ  184 (210)
Q Consensus       146 ~~~~-~~~~~~~sa~~~~~i~~l~~-~i~~~~~~~~~~~~~  184 (210)
                      .... ...++.+||+.+.+++++.+ .+.+.+.+.+.....
T Consensus       237 ~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~lPe~~~f~~~  277 (318)
T cd01899         237 RLKYPDEIVVPTSAEAELALRRAAKQGLIKYDPGDSDFEIT  277 (318)
T ss_pred             HhhCCCCeEEEEeCcccccHHHHHHhhHHHhCCCCCCceec
Confidence            2223 45799999999999999998 699998776654433

Ygr210 is a member of Obg-like family and present in archaea and fungi. They are characterized by a distinct glycine-rich motif immediately following the Walker B motif. The Ygr210 and YyaF/YchF subfamilies appear to form one major branch of the Obg-like family. Among eukaryotes, the Ygr210 subfamily is represented only in fungi. These fungal proteins form a tight cluster with their archaeal orthologs, which suggests the possibility of horizontal transfer from archaea to fungi.

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.68  E-value=3.8e-16  Score=133.55  Aligned_cols=152  Identities=16%  Similarity=0.098  Sum_probs=96.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC--------------------------------CceeeEEEEEEEEEC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPS--------------------------------PTIGVDFKIKLLTVG   57 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~--------------------------------~~~~~~~~~~~~~~~   57 (210)
                      ....+||+++|++++|||||+++|+........                                ...+.+.......+.
T Consensus        21 ~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~  100 (632)
T PRK05506         21 RKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFA  100 (632)
T ss_pred             CCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEc
Confidence            345689999999999999999999864322110                                011222333333444


Q ss_pred             CeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc
Q 028315           58 GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV  137 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~  137 (210)
                      ..+.++.|+||||++.|.......+..+|++++|+|+..+..-+... .+ ..+..   ....+++|++||+|+......
T Consensus       101 ~~~~~~~liDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~t~e-~~-~~~~~---~~~~~iivvvNK~D~~~~~~~  175 (632)
T PRK05506        101 TPKRKFIVADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQTRR-HS-FIASL---LGIRHVVLAVNKMDLVDYDQE  175 (632)
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHHhCCEEEEEEECCCCccccCHH-HH-HHHHH---hCCCeEEEEEEecccccchhH
Confidence            45567889999999888666666788999999999998754322211 11 11221   123578899999998642111


Q ss_pred             CH----HHHHHHHHHcC---CeEEEecccCCcCHHH
Q 028315          138 TR----EEGMILAQEHK---CLFLECSAKNTEDVKQ  166 (210)
Q Consensus       138 ~~----~~~~~~~~~~~---~~~~~~sa~~~~~i~~  166 (210)
                      ..    .+...+....+   ++++.+||++|.|+.+
T Consensus       176 ~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        176 VFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            11    12222333444   3599999999999874

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.68  E-value=1.1e-15  Score=112.75  Aligned_cols=161  Identities=16%  Similarity=0.139  Sum_probs=97.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCC-CceeeEE--EEEEEEECCeEEEEEEEeCCCCccccc-------c----hh
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDF--KIKLLTVGGKRLKLTIWDTAGQERFGT-------L----TS   79 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~--~~~~~~~~~~~~~~~l~Dt~G~~~~~~-------~----~~   79 (210)
                      ++|+++|.+|+|||||+|.+++....... ...+.+.  ......+.  +..+.++||||......       .    +.
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~--~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~   78 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWD--GRRVNVIDTPGLFDTSVSPEQLSKEIVRCLS   78 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEEC--CeEEEEEECcCCCCccCChHHHHHHHHHHHH
Confidence            47999999999999999999987654422 1112222  22222333  45788899999544321       1    11


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccC------HHHHHHHHHHcCCe
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVT------REEGMILAQEHKCL  152 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~~~~~  152 (210)
                      ......|++++|+++.+ .+-.. . ..+..+..... ..-.++++++|+.|......+.      ....+.+....+-.
T Consensus        79 ~~~~g~~~illVi~~~~-~t~~d-~-~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r  155 (196)
T cd01852          79 LSAPGPHAFLLVVPLGR-FTEEE-E-QAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGR  155 (196)
T ss_pred             hcCCCCEEEEEEEECCC-cCHHH-H-HHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCe
Confidence            12357899999999886 22221 1 23333333221 1235789999999965432211      13344555555666


Q ss_pred             EEEec-----ccCCcCHHHHHHHHHHHHHccc
Q 028315          153 FLECS-----AKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       153 ~~~~s-----a~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      |+..+     +..+.++.+|++.|-+.+.++.
T Consensus       156 ~~~f~~~~~~~~~~~q~~~Ll~~i~~~~~~~~  187 (196)
T cd01852         156 YVAFNNKAKGEEQEQQVKELLAKVESMVKENG  187 (196)
T ss_pred             EEEEeCCCCcchhHHHHHHHHHHHHHHHHhcC
Confidence            65555     4567899999999988888743

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.68  E-value=2e-16  Score=126.26  Aligned_cols=170  Identities=22%  Similarity=0.185  Sum_probs=118.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-c--------cchhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-G--------TLTSSY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-~--------~~~~~~   81 (210)
                      +..++|+++|+||+|||||+|.|.+.....++|.+|+|.......++-.++.+.+.||+|..+. .        ......
T Consensus       266 q~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv~GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~  345 (531)
T KOG1191|consen  266 QSGLQIAIVGRPNVGKSSLLNALSREDRSIVSPVPGTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKR  345 (531)
T ss_pred             hcCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCCCCcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHH
Confidence            4568999999999999999999999999999999999999999999888899999999996552 1        122334


Q ss_pred             hccccEEEEEEeCCCHhhHHHHH-HHHHHHHhhhc-----cCCCCcEEEEEeCCCCCCC-CccCHHHHHHHHHH-c-CCe
Q 028315           82 YRGAHGIILVYDVTRRETFTNLS-SVWAKEVELYS-----TNQDCVKILVGNKVDRDSE-RAVTREEGMILAQE-H-KCL  152 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~-----~~~~~p~ivv~nK~Dl~~~-~~~~~~~~~~~~~~-~-~~~  152 (210)
                      +..+|++++|+|+...+..+.+. ...+.......     .....|++++.||.|+... .+............ . ..+
T Consensus       346 ~~~advi~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~~~~~~~~~~~~  425 (531)
T KOG1191|consen  346 IERADVILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVVYPSAEGRSVFP  425 (531)
T ss_pred             HhhcCEEEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCceeccccccCcccc
Confidence            67899999999995433222222 12222221111     0134689999999998654 22322111111111 1 123


Q ss_pred             -EEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          153 -FLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       153 -~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                       +.++|+++++|+++|.+.+.+.+...-.
T Consensus       426 i~~~vs~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  426 IVVEVSCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             eEEEeeechhhhHHHHHHHHHHHHHHhhc
Confidence             5669999999999999999988765444

>PF01926 MMR_HSR1: 50S ribosome-binding GTPase; InterPro: IPR002917 Human HSR1, has been localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse

Probab=99.67  E-value=4.7e-16  Score=105.13  Aligned_cols=105  Identities=23%  Similarity=0.229  Sum_probs=66.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCCCcccc---------cchhhhhc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQERFG---------TLTSSYYR   83 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~~---------~~~~~~~~   83 (210)
                      +|+++|.+|+|||||+|+|++..........+.+..  ...+.+.+..  +.++||||...-.         ......+.
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~~~--~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~   78 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNNKK--FILVDTPGINDGESQDNDGKEIRKFLEQIS   78 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETTEE--EEEEESSSCSSSSHHHHHHHHHHHHHHHHC
T ss_pred             CEEEECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeeceee--EEEEeCCCCcccchhhHHHHHHHHHHHHHH
Confidence            689999999999999999998654332222222222  2333455554  4688999953321         11223347


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      .+|++++|+|+.++.. +... .+...++     .+.|+++|+||
T Consensus        79 ~~d~ii~vv~~~~~~~-~~~~-~~~~~l~-----~~~~~i~v~NK  116 (116)
T PF01926_consen   79 KSDLIIYVVDASNPIT-EDDK-NILRELK-----NKKPIILVLNK  116 (116)
T ss_dssp             TESEEEEEEETTSHSH-HHHH-HHHHHHH-----TTSEEEEEEES
T ss_pred             HCCEEEEEEECCCCCC-HHHH-HHHHHHh-----cCCCEEEEEcC
Confidence            8999999999887422 1122 3333332     67899999998

These proteins represent a new subfamily of GTP-binding proteins that has both prokaryote and eukaryote members [].; GO: 0005525 GTP binding, 0005622 intracellular; PDB: 2DWQ_B 2DBY_A 3CNN_A 3CNO_A 3CNL_A 3IBY_A 1PUI_B 1WXQ_A 1LNZ_A 3GEE_A ....

>TIGR00503 prfC peptide chain release factor 3

Probab=99.67  E-value=1.9e-15  Score=125.91  Aligned_cols=116  Identities=17%  Similarity=0.227  Sum_probs=82.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCC-------------------CCCceeeEEEEEEEEECCeEEEEEEEeCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHD-------------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTA   69 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~-------------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~   69 (210)
                      .+..+|+++|++++|||||+++|+...  ...                   .....+.++......++..++.+.+||||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTP   88 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTP   88 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECC
Confidence            456799999999999999999986321  110                   11122444555555666677899999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      |+..|.......++.+|++|+|+|+.+...-+ .. .+.....    ..+.|+++++||+|+.
T Consensus        89 G~~df~~~~~~~l~~aD~aIlVvDa~~gv~~~-t~-~l~~~~~----~~~~PiivviNKiD~~  145 (527)
T TIGR00503        89 GHEDFSEDTYRTLTAVDNCLMVIDAAKGVETR-TR-KLMEVTR----LRDTPIFTFMNKLDRD  145 (527)
T ss_pred             ChhhHHHHHHHHHHhCCEEEEEEECCCCCCHH-HH-HHHHHHH----hcCCCEEEEEECcccc
Confidence            99988777777889999999999998753211 12 2223222    3578999999999974

This translation releasing factor, RF-3 (prfC) was originally described as stop codon-independent, in contrast to peptide chain release factor 1 (RF-1, prfA) and RF-2 (prfB). RF-1 and RF-2 are closely related to each other, while RF-3 is similar to elongation factors EF-Tu and EF-G; RF-1 is active at UAA and UAG and RF-2 is active at UAA and UGA. More recently, RF-3 was shown to be active primarily at UGA stop codons in E. coli. All bacteria and organelles have RF-1. The Mycoplasmas and organelles, which translate UGA as Trp rather than as a stop codon, lack RF-2. RF-3, in contrast, seems to be rare among bacteria and is found so far only in Escherichia coli and some other gamma subdivision Proteobacteria, in Synechocystis PCC6803, and in Staphylococcus aureus.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.67  E-value=9e-16  Score=125.57  Aligned_cols=163  Identities=15%  Similarity=0.126  Sum_probs=103.2

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEE-----------------EEC------------
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLL-----------------TVG------------   57 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~-----------------~~~------------   57 (210)
                      .+...++|+++|+...|||||+..|.+.....  .....+.+......                 ...            
T Consensus        30 ~~~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  109 (460)
T PTZ00327         30 SRQATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGC  109 (460)
T ss_pred             cCCCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccc
Confidence            34678999999999999999999997643211  11111111000000                 000            


Q ss_pred             ----CeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           58 ----GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        58 ----~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                          .....+.|+|+|||+.|...+...+..+|++++|+|+.++ ...+... .+ ..+..   ..-.+++|++||+|+.
T Consensus       110 ~~~~~~~~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~e-hl-~i~~~---lgi~~iIVvlNKiDlv  184 (460)
T PTZ00327        110 GHKMTLKRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSE-HL-AAVEI---MKLKHIIILQNKIDLV  184 (460)
T ss_pred             cccccccceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHH-HH-HHHHH---cCCCcEEEEEeccccc
Confidence                0024788999999999987777778899999999999974 2222222 22 22221   1234689999999986


Q ss_pred             CCCccC--HHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          133 SERAVT--REEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       133 ~~~~~~--~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      +.....  .++...+...   .+.+++.+||++|.|++.|++.|.+.+.
T Consensus       185 ~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~lp  233 (460)
T PTZ00327        185 KEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQIP  233 (460)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhCC
Confidence            432221  1122222222   3568999999999999999998887554

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.67  E-value=3.6e-15  Score=113.65  Aligned_cols=164  Identities=20%  Similarity=0.108  Sum_probs=107.6

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-------ccchhhhhccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-------GTLTSSYYRGA   85 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-------~~~~~~~~~~~   85 (210)
                      -.+|+++|+|++|||||+++|++... +.....++|...........+..+|+.|+||.-.-       ....-..+++|
T Consensus        63 da~v~lVGfPsvGKStLL~~LTnt~s-eva~y~FTTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~A  141 (365)
T COG1163          63 DATVALVGFPSVGKSTLLNKLTNTKS-EVADYPFTTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNA  141 (365)
T ss_pred             CeEEEEEcCCCccHHHHHHHHhCCCc-cccccCceecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccC
Confidence            47899999999999999999966654 33333344444444445556778999999983211       23344567999


Q ss_pred             cEEEEEEeCCCHhh-HHHHHH----------------------------------------HHHHHHhhhc---------
Q 028315           86 HGIILVYDVTRRET-FTNLSS----------------------------------------VWAKEVELYS---------  115 (210)
Q Consensus        86 d~~i~v~d~~~~~~-~~~~~~----------------------------------------~~~~~~~~~~---------  115 (210)
                      |.+++|+|+..... .+.+..                                        ..+..+..+.         
T Consensus       142 DlIiiVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir  221 (365)
T COG1163         142 DLIIIVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIR  221 (365)
T ss_pred             CEEEEEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEe
Confidence            99999999996544 222221                                        1111111110         


Q ss_pred             --------------cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHccchh
Q 028315          116 --------------TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       116 --------------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~  181 (210)
                                    ...-+|.++|+||.|+..     .++...+.+..  .++.+||+.+.|++++.+.|.+.+--.+-.
T Consensus       222 ~dvTlDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L~liRVY  294 (365)
T COG1163         222 EDVTLDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVLGLIRVY  294 (365)
T ss_pred             cCCcHHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhhCeEEEE
Confidence                          001248899999999854     23344444433  799999999999999999999987665554


Q ss_pred             hhc
Q 028315          182 LEQ  184 (210)
Q Consensus       182 ~~~  184 (210)
                      .+.
T Consensus       295 tK~  297 (365)
T COG1163         295 TKP  297 (365)
T ss_pred             ecC
Confidence            443

>PRK12739 elongation factor G; Reviewed

Probab=99.66  E-value=2.8e-15  Score=129.32  Aligned_cols=118  Identities=19%  Similarity=0.237  Sum_probs=82.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CC------------CceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-----PS------------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      .++..||+++|++++|||||+++|+...-..     ..            ...+.+.......+...+.++.++||||+.
T Consensus         5 ~~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~   84 (691)
T PRK12739          5 LEKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHV   84 (691)
T ss_pred             ccCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHH
Confidence            3567899999999999999999997531100     00            122333333333343356789999999998


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .|...+...++.+|++++|+|+.++...+... .|.. +.    ..++|.++++||+|+..
T Consensus        85 ~f~~e~~~al~~~D~~ilVvDa~~g~~~qt~~-i~~~-~~----~~~~p~iv~iNK~D~~~  139 (691)
T PRK12739         85 DFTIEVERSLRVLDGAVAVFDAVSGVEPQSET-VWRQ-AD----KYGVPRIVFVNKMDRIG  139 (691)
T ss_pred             HHHHHHHHHHHHhCeEEEEEeCCCCCCHHHHH-HHHH-HH----HcCCCEEEEEECCCCCC
Confidence            88778888899999999999998875433322 2322 22    35689999999999863

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.65  E-value=7.1e-16  Score=115.23  Aligned_cols=163  Identities=21%  Similarity=0.285  Sum_probs=107.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCce-eeEEEEEE-EEECCeEEEEEEEeCCCCcc-------cccchhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTI-GVDFKIKL-LTVGGKRLKLTIWDTAGQER-------FGTLTSSY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~-~~~~~~~~-~~~~~~~~~~~l~Dt~G~~~-------~~~~~~~~   81 (210)
                      ..+++|+++|.+|+|||||+|+++.+...+..... +.+..... ..+++  -.+.|||+||.++       ++.....+
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~~~~~--~~l~lwDtPG~gdg~~~D~~~r~~~~d~  114 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRLSYDG--ENLVLWDTPGLGDGKDKDAEHRQLYRDY  114 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHhhccc--cceEEecCCCcccchhhhHHHHHHHHHH
Confidence            35799999999999999999999977666533221 22122111 12233  4689999999544       45566777


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC--------ccCHH-------HHHHHH
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER--------AVTRE-------EGMILA  146 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~--------~~~~~-------~~~~~~  146 (210)
                      +...|.+++++++.++.---... .|+..+.. .  .+.++++++|..|...+-        .-++.       .+..+.
T Consensus       115 l~~~DLvL~l~~~~draL~~d~~-f~~dVi~~-~--~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~  190 (296)
T COG3596         115 LPKLDLVLWLIKADDRALGTDED-FLRDVIIL-G--LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALG  190 (296)
T ss_pred             hhhccEEEEeccCCCccccCCHH-HHHHHHHh-c--cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHH
Confidence            88999999999999985333332 44444432 2  358999999999975431        11111       111111


Q ss_pred             HHc--CCeEEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          147 QEH--KCLFLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       147 ~~~--~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +..  --|++..+...+.|++.+...+++.+....
T Consensus       191 ~~~q~V~pV~~~~~r~~wgl~~l~~ali~~lp~e~  225 (296)
T COG3596         191 RLFQEVKPVVAVSGRLPWGLKELVRALITALPVEA  225 (296)
T ss_pred             HHHhhcCCeEEeccccCccHHHHHHHHHHhCcccc
Confidence            111  136888889999999999999998877443

>PF09439 SRPRB: Signal recognition particle receptor beta subunit; InterPro: IPR019009 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=99.64  E-value=6.4e-16  Score=110.83  Aligned_cols=118  Identities=21%  Similarity=0.320  Sum_probs=75.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccccchhh---hhccccEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFGTLTSS---YYRGAHGII   89 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~---~~~~~d~~i   89 (210)
                      -.|+++|+.|+|||+|+.+|..+..............   ..+ ......+.++|+|||++.+.....   +...+.++|
T Consensus         4 ~~vlL~Gps~SGKTaLf~~L~~~~~~~T~tS~e~n~~---~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~II   80 (181)
T PF09439_consen    4 PTVLLVGPSGSGKTALFSQLVNGKTVPTVTSMENNIA---YNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGII   80 (181)
T ss_dssp             -EEEEE-STTSSHHHHHHHHHHSS---B---SSEEEE---CCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEE
T ss_pred             ceEEEEcCCCCCHHHHHHHHhcCCcCCeeccccCCce---EEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEE
Confidence            4689999999999999999999866552222222221   112 223446788899999988764444   478899999


Q ss_pred             EEEeCCC-HhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCC
Q 028315           90 LVYDVTR-RETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        90 ~v~d~~~-~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~  134 (210)
                      +|+|.+. +..+.++.+++...+.... .....|++|+.||.|+...
T Consensus        81 fvvDSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~A  127 (181)
T PF09439_consen   81 FVVDSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFTA  127 (181)
T ss_dssp             EEEETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT-
T ss_pred             EEEeCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccccc
Confidence            9999984 4556777766666664443 2567899999999998654

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. The SR receptor is a monomer consisting of the loosely membrane-associated SR-alpha homologue FtsY, while the eukaryotic SR receptor is a heterodimer of SR-alpha (70 kDa) and SR-beta (25 kDa), both of which contain a GTP-binding domain []. SR-alpha regulates the targeting of SRP-ribosome-nascent polypeptide complexes to the translocon []. SR-alpha binds to the SRP54 subunit of the SRP complex. The SR-beta subunit is a transmembrane GTPase that anchors the SR-alpha subunit (a peripheral membrane GTPase) to the ER membrane []. SR-beta interacts with the N-terminal SRX-domain of SR-alpha, which is not present in the bacterial FtsY homologue. SR-beta also functions in recruiting the SRP-nascent polypeptide to the protein-conducting channel. The beta subunit of the signal recognition particle receptor (SRP) is a transmembrane GTPase, which anchors the alpha subunit to the endoplasmic reticulum membrane []. ; PDB: 2GED_B 1NRJ_B 2GO5_2 2FH5_B.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.64  E-value=6.1e-15  Score=127.29  Aligned_cols=119  Identities=18%  Similarity=0.187  Sum_probs=85.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CC------------CceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-----PS------------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~------------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      .++--||+++|++++|||||+++|+...-..     ..            ...+++.......+...+.++.+|||||+.
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~   86 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHV   86 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCc
Confidence            3456699999999999999999997422111     11            123444444444444456789999999999


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      .+...+...++.+|++++|+|+.+....+... .|.. +.    ..++|+++++||+|+...
T Consensus        87 ~~~~~~~~~l~~~D~~ilVvda~~g~~~~~~~-~~~~-~~----~~~~p~ivviNK~D~~~~  142 (689)
T TIGR00484        87 DFTVEVERSLRVLDGAVAVLDAVGGVQPQSET-VWRQ-AN----RYEVPRIAFVNKMDKTGA  142 (689)
T ss_pred             chhHHHHHHHHHhCEEEEEEeCCCCCChhHHH-HHHH-HH----HcCCCEEEEEECCCCCCC
Confidence            88888888899999999999999875554333 3332 22    356899999999998753

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PRK00007 elongation factor G; Reviewed

Probab=99.63  E-value=1.4e-14  Score=124.92  Aligned_cols=117  Identities=19%  Similarity=0.206  Sum_probs=82.8

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCC--C---CC------------CceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVH--D---PS------------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~--~---~~------------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      .++..||+++|++++|||||+++|+...-.  .   ..            ...+.+.......+...+..+.++||||+.
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~   86 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHV   86 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcH
Confidence            456779999999999999999999742110  0   10            123344444334444446789999999998


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      .|.......++.+|++++|+|+......+... .|....     ..+.|.++++||+|+.
T Consensus        87 ~f~~ev~~al~~~D~~vlVvda~~g~~~qt~~-~~~~~~-----~~~~p~iv~vNK~D~~  140 (693)
T PRK00007         87 DFTIEVERSLRVLDGAVAVFDAVGGVEPQSET-VWRQAD-----KYKVPRIAFVNKMDRT  140 (693)
T ss_pred             HHHHHHHHHHHHcCEEEEEEECCCCcchhhHH-HHHHHH-----HcCCCEEEEEECCCCC
Confidence            88777777889999999999998775544433 333322     3567899999999985

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.62  E-value=1.2e-15  Score=122.03  Aligned_cols=190  Identities=16%  Similarity=0.118  Sum_probs=131.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc----cchh-----hh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG----TLTS-----SY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~----~~~~-----~~   81 (210)
                      ++.-.++++|.|++|||||++.+..... +..|..+++......+++..-.+++++||||.-..-    ....     ..
T Consensus       166 p~trTlllcG~PNVGKSSf~~~vtradv-evqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITAL  244 (620)
T KOG1490|consen  166 PNTRTLLVCGYPNVGKSSFNNKVTRADD-EVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITAL  244 (620)
T ss_pred             CCcCeEEEecCCCCCcHhhccccccccc-ccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHH
Confidence            4556779999999999999998866554 444555555555555667777789999999943221    1111     11


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH---HHHcCCeEEEecc
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL---AQEHKCLFLECSA  158 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~---~~~~~~~~~~~sa  158 (210)
                      .+--.+|+|+.|++....+.-.. +..-.........+.|+|+|+||+|+.+.+.++.+....+   ...-+++++++|+
T Consensus       245 AHLraaVLYfmDLSe~CGySva~-QvkLfhsIKpLFaNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~  323 (620)
T KOG1490|consen  245 AHLRSAVLYFMDLSEMCGYSVAA-QVKLYHSIKPLFANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSC  323 (620)
T ss_pred             HHhhhhheeeeechhhhCCCHHH-HHHHHHHhHHHhcCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecc
Confidence            22236899999999865432222 2211111222236889999999999988877776554333   3334588999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccchhhhcccccccccccchhhhhhh
Q 028315          159 KNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQES  202 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  202 (210)
                      .+..|+.++....++.++..+-..........+..++......+
T Consensus       324 ~~eegVm~Vrt~ACe~LLa~RVE~Klks~~~~n~vlnr~hvA~p  367 (620)
T KOG1490|consen  324 VQEEGVMDVRTTACEALLAARVEQKLKSESRVNNVLNRIHLAEP  367 (620)
T ss_pred             cchhceeeHHHHHHHHHHHHHHHHHhhhhhhhhhhhhhhhhcCC
Confidence            99999999999999999999998888877777766665554443

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=2.6e-14  Score=115.55  Aligned_cols=152  Identities=17%  Similarity=0.175  Sum_probs=105.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEE--EEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKI--KLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++--|.++|+..-|||||+..|......-. ..-|++...  ..+..+ .+-+++|.|||||..|..++..-..-+|+++
T Consensus       152 RpPVVTiMGHVDHGKTTLLD~lRks~VAA~-E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvV  229 (683)
T KOG1145|consen  152 RPPVVTIMGHVDHGKTTLLDALRKSSVAAG-EAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVV  229 (683)
T ss_pred             CCCeEEEeecccCChhhHHHHHhhCceehh-hcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEE
Confidence            556688999999999999999976654331 111222222  223334 3468899999999999999988888999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-------HcC--CeEEEecccC
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-------EHK--CLFLECSAKN  160 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-------~~~--~~~~~~sa~~  160 (210)
                      +|+.+.|.---+.+. .    +. +....++|++|.+||+|.+..   +++....-..       .+|  +.++++||++
T Consensus       230 LVVAadDGVmpQT~E-a----Ik-hAk~A~VpiVvAinKiDkp~a---~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~  300 (683)
T KOG1145|consen  230 LVVAADDGVMPQTLE-A----IK-HAKSANVPIVVAINKIDKPGA---NPEKVKRELLSQGIVVEDLGGDVQVIPISALT  300 (683)
T ss_pred             EEEEccCCccHhHHH-H----HH-HHHhcCCCEEEEEeccCCCCC---CHHHHHHHHHHcCccHHHcCCceeEEEeeccc
Confidence            999999864333222 1    11 112578999999999997533   3333332222       232  3589999999


Q ss_pred             CcCHHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLYK  174 (210)
Q Consensus       161 ~~~i~~l~~~i~~~  174 (210)
                      |.|++.|-+.++-.
T Consensus       301 g~nl~~L~eaill~  314 (683)
T KOG1145|consen  301 GENLDLLEEAILLL  314 (683)
T ss_pred             CCChHHHHHHHHHH
Confidence            99999988776654

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.61  E-value=3.5e-14  Score=114.49  Aligned_cols=168  Identities=18%  Similarity=0.180  Sum_probs=103.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEE---------------------EC-CeEEEEEEEeCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLT---------------------VG-GKRLKLTIWDTAG   70 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~---------------------~~-~~~~~~~l~Dt~G   70 (210)
                      ++|+++|.|+||||||+++|++..... .++..+.+.......                     .+ ...+.+++||+||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aG   81 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAG   81 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCC
Confidence            689999999999999999998876543 222221111111111                     11 2236789999999


Q ss_pred             Cc----ccccchhhh---hccccEEEEEEeCCC---------------Hh-hHHHHHH------------H---------
Q 028315           71 QE----RFGTLTSSY---YRGAHGIILVYDVTR---------------RE-TFTNLSS------------V---------  106 (210)
Q Consensus        71 ~~----~~~~~~~~~---~~~~d~~i~v~d~~~---------------~~-~~~~~~~------------~---------  106 (210)
                      ..    ....+...+   ++++|++++|+|+..               +. .++.+..            .         
T Consensus        82 l~~ga~~g~glg~~fL~~ir~ad~ll~Vvd~~~~~~~~~~~~~~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~~~~~  161 (396)
T PRK09602         82 LVPGAHEGRGLGNQFLDDLRQADALIHVVDASGSTDEEGNPVEPGSHDPVEDIKFLEEELDMWIYGILEKNWEKFSRKAQ  161 (396)
T ss_pred             cCCCccchhhHHHHHHHHHHHCCEEEEEEeCCCCcccCCcccCCCCCCHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHh
Confidence            42    223344444   789999999999971               10 0110000            0         


Q ss_pred             -----------------------HHHHHhhhc--------------------cCCCCcEEEEEeCCCCCCCCccCHHHHH
Q 028315          107 -----------------------WAKEVELYS--------------------TNQDCVKILVGNKVDRDSERAVTREEGM  143 (210)
Q Consensus       107 -----------------------~~~~~~~~~--------------------~~~~~p~ivv~nK~Dl~~~~~~~~~~~~  143 (210)
                                             +...+....                    -...+|+++|+||.|+.....    ...
T Consensus       162 ~~~~~~~~~~~~~l~~~~~~e~~v~~~L~~~g~~~~~~~~~~~~~~~I~~~~l~t~KPvI~VlNK~D~~~~~~----~l~  237 (396)
T PRK09602        162 AEKFDIEEALAEQLSGLGINEEHVKEALRELGLPEDPSKWTDEDLLELARELRKISKPMVIAANKADLPPAEE----NIE  237 (396)
T ss_pred             cCCcchHHHHHHHHhhhccCHHHHHHHHHHcCCcCcccCCCHHHHHHHHHhhhhcCCCEEEEEEchhcccchH----HHH
Confidence                                   111111000                    013479999999999743221    122


Q ss_pred             HHHHHcCCeEEEecccCCcCHHH-HHHHHHHHHHccchhhhcc
Q 028315          144 ILAQEHKCLFLECSAKNTEDVKQ-CFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       144 ~~~~~~~~~~~~~sa~~~~~i~~-l~~~i~~~~~~~~~~~~~~  185 (210)
                      .+....+..++.+||+.+.++++ +++.+.+.+...+..++.+
T Consensus       238 ~i~~~~~~~vvpISA~~e~~l~~~l~~~i~~~lp~~p~~~~~d  280 (396)
T PRK09602        238 RLKEEKYYIVVPTSAEAELALRRAAKAGLIDYIPGDSDFEILG  280 (396)
T ss_pred             HHHhcCCCcEEEEcchhhhhHHHHHHHhHHhhCCCCCccCccc
Confidence            22222345699999999999999 8899999988888777665

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.58  E-value=1e-14  Score=114.61  Aligned_cols=152  Identities=18%  Similarity=0.145  Sum_probs=103.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~   60 (210)
                      -..++++|+|+..+|||||+-+|+...-..                              .....|.+.......+....
T Consensus         5 Kph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k   84 (428)
T COG5256           5 KPHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDK   84 (428)
T ss_pred             CCceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCC
Confidence            457999999999999999999986432111                              11234667777777777778


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV  137 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~  137 (210)
                      +.+.++|+|||..|...+..-+..||++|+|+|+.+.+   .|.-..+.....+-... ..-..++|++||+|+.+   .
T Consensus        85 ~~~tIiDaPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~t-lGi~~lIVavNKMD~v~---w  160 (428)
T COG5256          85 YNFTIIDAPGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLART-LGIKQLIVAVNKMDLVS---W  160 (428)
T ss_pred             ceEEEeeCCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHh-cCCceEEEEEEcccccc---c
Confidence            89999999999999888888889999999999999873   11000000111111111 12346789999999864   2


Q ss_pred             CHHH-------HHHHHHHcC-----CeEEEecccCCcCHHH
Q 028315          138 TREE-------GMILAQEHK-----CLFLECSAKNTEDVKQ  166 (210)
Q Consensus       138 ~~~~-------~~~~~~~~~-----~~~~~~sa~~~~~i~~  166 (210)
                      +.+.       ...+.+..|     ++++.+|+..|.|+.+
T Consensus       161 de~rf~ei~~~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~  201 (428)
T COG5256         161 DEERFEEIVSEVSKLLKMVGYNPKDVPFIPISGFKGDNLTK  201 (428)
T ss_pred             CHHHHHHHHHHHHHHHHHcCCCccCCeEEecccccCCcccc
Confidence            2222       222333333     4699999999999876

>PRK12740 elongation factor G; Reviewed

Probab=99.58  E-value=2e-14  Score=123.97  Aligned_cols=108  Identities=22%  Similarity=0.286  Sum_probs=75.6

Q ss_pred             EcCCCCcHHHHHHHHhhCCCCC-----C------------CCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhh
Q 028315           19 IGDSGVGKSSILLSLISNSVHD-----P------------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY   81 (210)
Q Consensus        19 ~G~~~~GKSsli~~l~~~~~~~-----~------------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   81 (210)
                      +|++++|||||+++|+...-..     .            ....+.+.......+...++.+.+|||||+..+...+...
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~   80 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERA   80 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            5999999999999995432110     0            0012233333333344456789999999998887778888


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ++.+|++++|+|++......... .|... .    ..+.|+++|+||+|+.
T Consensus        81 l~~aD~vllvvd~~~~~~~~~~~-~~~~~-~----~~~~p~iiv~NK~D~~  125 (668)
T PRK12740         81 LRVLDGAVVVVCAVGGVEPQTET-VWRQA-E----KYGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHhCeEEEEEeCCCCcCHHHHH-HHHHH-H----HcCCCEEEEEECCCCC
Confidence            99999999999999876555433 33322 2    2578999999999975

>PRK09866 hypothetical protein; Provisional

Probab=99.57  E-value=1.6e-13  Score=114.03  Aligned_cols=109  Identities=15%  Similarity=0.121  Sum_probs=72.4

Q ss_pred             EEEEEEeCCCCccc-----ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           61 LKLTIWDTAGQERF-----GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~-----~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      .++.|+||||....     ...+...+..+|++++|+|+....+..+.  .+...+...  ....|+++|+||+|+.+..
T Consensus       230 ~QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~De--eIlk~Lkk~--~K~~PVILVVNKIDl~dre  305 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISDE--EVREAILAV--GQSVPLYVLVNKFDQQDRN  305 (741)
T ss_pred             CCEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhHH--HHHHHHHhc--CCCCCEEEEEEcccCCCcc
Confidence            47889999996432     22344568999999999999875433322  233434321  1235999999999986433


Q ss_pred             ccCHHHHHHHHH----Hc---CCeEEEecccCCcCHHHHHHHHHH
Q 028315          136 AVTREEGMILAQ----EH---KCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       136 ~~~~~~~~~~~~----~~---~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      ....+....+..    ..   ...+|.+||+.|.|++++++.|.+
T Consensus       306 eddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        306 SDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             cchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            323444444322    11   235999999999999999988876

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.57  E-value=1.2e-14  Score=95.70  Aligned_cols=136  Identities=23%  Similarity=0.183  Sum_probs=94.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc----ccccchhhhhccccEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE----RFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~----~~~~~~~~~~~~~d~~i~   90 (210)
                      |++++|..|+|||||.+.+.+.. .-+..|...++.       ..    -.+||||.-    .+..-......++|++++
T Consensus         3 ri~~vG~~gcGKTtL~q~L~G~~-~lykKTQAve~~-------d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~   70 (148)
T COG4917           3 RIAFVGQVGCGKTTLFQSLYGND-TLYKKTQAVEFN-------DK----GDIDTPGEYFEHPRWYHALITTLQDADVIIY   70 (148)
T ss_pred             eeEEecccccCchhHHHHhhcch-hhhcccceeecc-------Cc----cccCCchhhhhhhHHHHHHHHHhhccceeee
Confidence            78999999999999999995543 233344333332       11    135999942    222223344578999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~~l~~  169 (210)
                      |-.++++.+      .+-+.+..   ....|+|-|++|.|+....  +.+....+....|+ ++|++|+.++.|++++++
T Consensus        71 v~~and~~s------~f~p~f~~---~~~k~vIgvVTK~DLaed~--dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~  139 (148)
T COG4917          71 VHAANDPES------RFPPGFLD---IGVKKVIGVVTKADLAEDA--DISLVKRWLREAGAEPIFETSAVDNQGVEELVD  139 (148)
T ss_pred             eecccCccc------cCCccccc---ccccceEEEEecccccchH--hHHHHHHHHHHcCCcceEEEeccCcccHHHHHH
Confidence            999999865      33333322   2345689999999997533  34456667777777 499999999999999998


Q ss_pred             HHHH
Q 028315          170 DLLY  173 (210)
Q Consensus       170 ~i~~  173 (210)
                      .|..
T Consensus       140 ~L~~  143 (148)
T COG4917         140 YLAS  143 (148)
T ss_pred             HHHh
Confidence            7654

>PF04548 AIG1: AIG1 family; InterPro: IPR006703 This entry represents a domain found in Arabidopsis protein AIG1 which appears to be involved in plant resistance to bacteria

Probab=99.54  E-value=4.9e-14  Score=105.08  Aligned_cols=166  Identities=19%  Similarity=0.190  Sum_probs=95.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCC---CceeeEEEEEEEEECCeEEEEEEEeCCCCccccc----chh-------
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT----LTS-------   79 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~----~~~-------   79 (210)
                      +||+++|.+|+||||++|.+++.......   .............+++  ..+.++||||......    ...       
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~   78 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLS   78 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHH
Confidence            58999999999999999999988764421   1222233333335555  4577889999422211    111       


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhh-hccCCCCcEEEEEeCCCCCCCCccC-------HHHHHHHHHHcCC
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL-YSTNQDCVKILVGNKVDRDSERAVT-------REEGMILAQEHKC  151 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~p~ivv~nK~Dl~~~~~~~-------~~~~~~~~~~~~~  151 (210)
                      ......|++++|+.+. +-+-...  .....+.. +....-..++||.|..|......+.       ......+....+-
T Consensus        79 ~~~~g~ha~llVi~~~-r~t~~~~--~~l~~l~~~FG~~~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~  155 (212)
T PF04548_consen   79 LCSPGPHAFLLVIPLG-RFTEEDR--EVLELLQEIFGEEIWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGG  155 (212)
T ss_dssp             HTTT-ESEEEEEEETT-B-SHHHH--HHHHHHHHHHCGGGGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTT
T ss_pred             hccCCCeEEEEEEecC-cchHHHH--HHHHHHHHHccHHHHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCC
Confidence            1235689999999988 3222221  22222222 2212234678888988865544321       1123455666777


Q ss_pred             eEEEeccc------CCcCHHHHHHHHHHHHHccchhhhc
Q 028315          152 LFLECSAK------NTEDVKQCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       152 ~~~~~sa~------~~~~i~~l~~~i~~~~~~~~~~~~~  184 (210)
                      .|+..+.+      ....+.+|++.|-+.+.++...+-.
T Consensus       156 R~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~g~~~~  194 (212)
T PF04548_consen  156 RYHVFNNKTKDKEKDESQVSELLEKIEEMVQENGGQYYS  194 (212)
T ss_dssp             CEEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTTTT--B
T ss_pred             EEEEEeccccchhhhHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            78887776      4467889999988888877754433

The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 (avrRpt2-induced gene) exhibits RPS2- and avrRpt2-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2 []. The domain is also apparently found in a number of mammalian proteins, for example the rat immune-associated nucleotide 4 protein. ; GO: 0005525 GTP binding; PDB: 3LXX_A 3BB4_A 3DEF_A 3BB3_A 2J3E_A 3V70_B 3BB1_A 1H65_B 2XTP_A 3P1J_C ....

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.54  E-value=4.2e-14  Score=122.47  Aligned_cols=117  Identities=20%  Similarity=0.238  Sum_probs=82.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCC---------------CCC----CCCceeeEEEEEEEEECCeEEEEEEEeCCC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNS---------------VHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAG   70 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~---------------~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G   70 (210)
                      .++..||+++|+.++|||||+++|+...               +..    ...|.........+.+++.++.+.+|||||
T Consensus        16 ~~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG   95 (720)
T TIGR00490        16 PKFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPG   95 (720)
T ss_pred             cccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCC
Confidence            3566899999999999999999997531               111    111222222222334566788999999999


Q ss_pred             CcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +..|.......++.+|++++|+|+.+....+... .|....     ..+.|.++++||+|..
T Consensus        96 ~~~f~~~~~~al~~aD~~llVvda~~g~~~~t~~-~~~~~~-----~~~~p~ivviNKiD~~  151 (720)
T TIGR00490        96 HVDFGGDVTRAMRAVDGAIVVVCAVEGVMPQTET-VLRQAL-----KENVKPVLFINKVDRL  151 (720)
T ss_pred             ccccHHHHHHHHHhcCEEEEEEecCCCCCccHHH-HHHHHH-----HcCCCEEEEEEChhcc
Confidence            9999888888899999999999998754333222 333222     2456888999999985

This model represents archaeal elongation factor 2, a protein more similar to eukaryotic EF-2 than to bacterial EF-G, both in sequence similarity and in sharing with eukaryotes the property of having a diphthamide (modified His) residue at a conserved position. The diphthamide can be ADP-ribosylated by diphtheria toxin in the presence of NAD.

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.53  E-value=2.3e-13  Score=105.09  Aligned_cols=127  Identities=17%  Similarity=0.195  Sum_probs=73.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc-------hhhhh-
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL-------TSSYY-   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~-------~~~~~-   82 (210)
                      .+.++|+++|.+|+||||++|++++............+...........+..+.+|||||.......       ...++ 
T Consensus        36 ~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~  115 (313)
T TIGR00991        36 VSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTRAGFTLNIIDTPGLIEGGYINDQAVNIIKRFLL  115 (313)
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEECCeEEEEEECCCCCchHHHHHHHHHHHHHHhh
Confidence            4689999999999999999999998775443222222222111122223567899999996544211       11111 


Q ss_pred             -ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCCccC
Q 028315           83 -RGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        83 -~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                       ...|++++|..++... +..........+.... ..--.+.+|++|+.|..++...+
T Consensus       116 ~~g~DvVLyV~rLD~~R-~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991       116 GKTIDVLLYVDRLDAYR-VDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             cCCCCEEEEEeccCccc-CCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence             2589999996654321 2211112223332221 12234789999999976544343

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.52  E-value=1.5e-13  Score=102.70  Aligned_cols=181  Identities=19%  Similarity=0.189  Sum_probs=106.2

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeE-------------EEEEE--------------------
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVD-------------FKIKL--------------------   53 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-------------~~~~~--------------------   53 (210)
                      +..+.++..|+++|..|+|||||++||.........|.--.+             .....                    
T Consensus        13 ~~~~~~p~~ilVvGMAGSGKTTF~QrL~~hl~~~~~ppYviNLDPAv~~vpy~aniDIRDtVkYkEvMkqY~LGPNGgI~   92 (366)
T KOG1532|consen   13 SGAIQRPVIILVVGMAGSGKTTFMQRLNSHLHAKKTPPYVINLDPAVRNVPYPANIDIRDTVKYKEVMKQYQLGPNGGIV   92 (366)
T ss_pred             cccccCCcEEEEEecCCCCchhHHHHHHHHHhhccCCCeEEeCCHHHhcCCCccCCchhhhhhHHHHHHHhCCCCCcchh
Confidence            345567889999999999999999998543222211100000             00000                    


Q ss_pred             ----------------EEECCeEEEEEEEeCCCC-ccc-----ccchhhhhc--cccEEEEEEeCCC---HhhHHHHHHH
Q 028315           54 ----------------LTVGGKRLKLTIWDTAGQ-ERF-----GTLTSSYYR--GAHGIILVYDVTR---RETFTNLSSV  106 (210)
Q Consensus        54 ----------------~~~~~~~~~~~l~Dt~G~-~~~-----~~~~~~~~~--~~d~~i~v~d~~~---~~~~~~~~~~  106 (210)
                                      +.-......+.++||||+ +.|     .......+.  ..-+++||+|...   +.+|=.-.-|
T Consensus        93 TsLNLF~tk~dqv~~~iek~~~~~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlY  172 (366)
T KOG1532|consen   93 TSLNLFATKFDQVIELIEKRAEEFDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLY  172 (366)
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHH
Confidence                            000122356889999995 333     223323333  3457778888654   3333221112


Q ss_pred             HHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH--------------------------HHH-HcCCeEEEeccc
Q 028315          107 WAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI--------------------------LAQ-EHKCLFLECSAK  159 (210)
Q Consensus       107 ~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~--------------------------~~~-~~~~~~~~~sa~  159 (210)
                      -..++.    +.+.|.+++.||.|+.+.. +..+....                          +.. ..++..+-+|+.
T Consensus       173 AcSily----ktklp~ivvfNK~Dv~d~~-fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~  247 (366)
T KOG1532|consen  173 ACSILY----KTKLPFIVVFNKTDVSDSE-FALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSV  247 (366)
T ss_pred             HHHHHH----hccCCeEEEEecccccccH-HHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecc
Confidence            222332    5789999999999987642 11111110                          011 113568999999


Q ss_pred             CCcCHHHHHHHHHHHHHccchhhhccccccccc
Q 028315          160 NTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQ  192 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~~~~~~~~~~~~~~~  192 (210)
                      +|.|.+++|..+-+.+-+....+....+..+..
T Consensus       248 tG~G~ddf~~av~~~vdEy~~~ykp~~Ek~k~~  280 (366)
T KOG1532|consen  248 TGEGFDDFFTAVDESVDEYEEEYKPEYEKKKAE  280 (366)
T ss_pred             cCCcHHHHHHHHHHHHHHHHHHhhhHHHHHHHH
Confidence            999999999999998888777776665554443

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.51  E-value=2.8e-13  Score=102.93  Aligned_cols=126  Identities=19%  Similarity=0.205  Sum_probs=73.6

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc---c-------h
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT---L-------T   78 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~---~-------~   78 (210)
                      ....+++|+++|.+|+|||||+|.+++............+.....+.....+..+.+|||||......   .       .
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~~~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I  106 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAFQSETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSI  106 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHH
Confidence            34578999999999999999999999887654322222222222222223346789999999654411   0       1


Q ss_pred             hhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCC
Q 028315           79 SSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        79 ~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      ..++.  ..|++++|..++... +..........+.... ..--.++++|.||+|...+.
T Consensus       107 ~~~l~~~~idvIL~V~rlD~~r-~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~  165 (249)
T cd01853         107 KRYLKKKTPDVVLYVDRLDMYR-RDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPD  165 (249)
T ss_pred             HHHHhccCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCC
Confidence            22332  578888887665431 1111112233332221 11124689999999986443

This family contains several Toc proteins, including Toc34, Toc33, Toc120, Toc159, Toc86, Toc125, and Toc90. The Toc complex at the outer envelope membrane of chloroplasts is a molecular machine of ~500 kDa that contains a single Toc159 protein, four Toc75 molecules, and four or five copies of Toc34. Toc64 and Toc12 are associated with the translocon, but do not appear to be part of the core complex. The Toc translocon initiates the import of nuclear-encoded preproteins from the cytosol into the organelle. Toc34 and Toc159 are both GTPases, while Toc75 is a beta-barrel integral membrane protein. Toc159 is equally distributed between a soluble cytoplasmic form and a membrane-inserted form, suggesting that assembly of the Toc complex is dynamic. Toc34 and Toc75 act sequentially to mediate docking and insertion of Toc159 resulting in assembly of the functional translocon.

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.51  E-value=4.5e-13  Score=106.67  Aligned_cols=160  Identities=23%  Similarity=0.271  Sum_probs=114.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC--CCC-------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS--VHD-------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT   78 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   78 (210)
                      -||+|+-+..-|||||+..|+...  |.+             .....|++.-.+...+...+++++++|||||..|....
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEV   85 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEV   85 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchh
Confidence            489999999999999999997542  222             11334666666666667777899999999999999999


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHHHHHHH-------cC
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGMILAQE-------HK  150 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~-------~~  150 (210)
                      +..+.-+|++++++|+.+..--+ -+......+     ..+.+.|||+||+|.+..+.. -.++...+...       +.
T Consensus        86 ERvl~MVDgvlLlVDA~EGpMPQ-TrFVlkKAl-----~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLd  159 (603)
T COG1217          86 ERVLSMVDGVLLLVDASEGPMPQ-TRFVLKKAL-----ALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLD  159 (603)
T ss_pred             hhhhhhcceEEEEEEcccCCCCc-hhhhHHHHH-----HcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCC
Confidence            99999999999999999853211 111222223     356677899999998765432 12344455433       45


Q ss_pred             CeEEEecccCC----------cCHHHHHHHHHHHHHccc
Q 028315          151 CLFLECSAKNT----------EDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       151 ~~~~~~sa~~~----------~~i~~l~~~i~~~~~~~~  179 (210)
                      +|++..|+..|          .++.-||+.|++.+..-.
T Consensus       160 FPivYAS~~~G~a~~~~~~~~~~m~pLfe~I~~hvp~P~  198 (603)
T COG1217         160 FPIVYASARNGTASLDPEDEADDMAPLFETILDHVPAPK  198 (603)
T ss_pred             CcEEEeeccCceeccCccccccchhHHHHHHHHhCCCCC
Confidence            78999999876          367778888888776544

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.49  E-value=4e-13  Score=103.60  Aligned_cols=150  Identities=16%  Similarity=0.129  Sum_probs=106.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC--------------------------------CCceeeEEEEEEEEECCe
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP--------------------------------SPTIGVDFKIKLLTVGGK   59 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~--------------------------------~~~~~~~~~~~~~~~~~~   59 (210)
                      ..+|++..|...-||||||-||+...-..+                                ....|++..+....+...
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~   84 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTE   84 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccc
Confidence            358999999999999999999965321110                                123466677666666777


Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ...|++-|||||+.|..++-.-...||.+|+++|+...-.-+.-+.-++..+.     .=..+++.+||+||.+=.+...
T Consensus        85 KRkFIiADTPGHeQYTRNMaTGASTadlAIlLVDAR~Gvl~QTrRHs~I~sLL-----GIrhvvvAVNKmDLvdy~e~~F  159 (431)
T COG2895          85 KRKFIIADTPGHEQYTRNMATGASTADLAILLVDARKGVLEQTRRHSFIASLL-----GIRHVVVAVNKMDLVDYSEEVF  159 (431)
T ss_pred             cceEEEecCCcHHHHhhhhhcccccccEEEEEEecchhhHHHhHHHHHHHHHh-----CCcEEEEEEeeecccccCHHHH
Confidence            78999999999999988888888899999999999766433332222222221     2346789999999975433222


Q ss_pred             ----HHHHHHHHHcCC---eEEEecccCCcCHHH
Q 028315          140 ----EEGMILAQEHKC---LFLECSAKNTEDVKQ  166 (210)
Q Consensus       140 ----~~~~~~~~~~~~---~~~~~sa~~~~~i~~  166 (210)
                          ++...|+..+++   .++.+||..|.|+-.
T Consensus       160 ~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         160 EAIVADYLAFAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             HHHHHHHHHHHHHcCCCcceEEechhccCCcccc
Confidence                234456667765   499999999998754

>PRK13768 GTPase; Provisional

Probab=99.49  E-value=3.5e-13  Score=102.97  Aligned_cols=115  Identities=17%  Similarity=0.114  Sum_probs=71.5

Q ss_pred             EEEEEeCCCCccc---ccchhhhhcc-----ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           62 KLTIWDTAGQERF---GTLTSSYYRG-----AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        62 ~~~l~Dt~G~~~~---~~~~~~~~~~-----~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+||+||..+.   ...+..+++.     ++++++|+|+............+...+.... ..+.|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            6899999997553   3344333332     8999999999765433332212211111111 25789999999999865


Q ss_pred             CCccCHHH--HH------------------------HHHHHcC--CeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          134 ERAVTREE--GM------------------------ILAQEHK--CLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       134 ~~~~~~~~--~~------------------------~~~~~~~--~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..+.....  ..                        ......+  .+++.+|++++.|+++++++|.+.+..
T Consensus       177 ~~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l~~  248 (253)
T PRK13768        177 EEELERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVFCG  248 (253)
T ss_pred             chhHHHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHcCC
Confidence            43321100  00                        0111223  478999999999999999999887653

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.47  E-value=4.4e-12  Score=96.97  Aligned_cols=171  Identities=16%  Similarity=0.189  Sum_probs=121.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCe--EEEEEEEeCCCCcccccchhhhhccc----
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK--RLKLTIWDTAGQERFGTLTSSYYRGA----   85 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~----   85 (210)
                      .--+|+++|..++||||||.+|-+..  .+.+..+..+-...++-+.+  -.++.+|-+-|+.....+....+...    
T Consensus        51 sgk~VlvlGdn~sGKtsLi~klqg~e--~~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~ae  128 (473)
T KOG3905|consen   51 SGKNVLVLGDNGSGKTSLISKLQGSE--TVKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAE  128 (473)
T ss_pred             CCCeEEEEccCCCchhHHHHHhhccc--ccCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccc
Confidence            34689999999999999999996655  34455555555544443322  35788898888776666666655443    


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhc--------------------------------------------------
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYS--------------------------------------------------  115 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------------  115 (210)
                      -.+|++.|++++...-+..+.|...+..+.                                                  
T Consensus       129 tlviltasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~  208 (473)
T KOG3905|consen  129 TLVILTASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHV  208 (473)
T ss_pred             eEEEEEEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCcccccc
Confidence            478899999999665444446766554432                                                  


Q ss_pred             ----------cCCCCcEEEEEeCCCCC----CCCccCH-------HHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          116 ----------TNQDCVKILVGNKVDRD----SERAVTR-------EEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       116 ----------~~~~~p~ivv~nK~Dl~----~~~~~~~-------~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                                .+.++|++||.+|+|..    .+.+...       ...+.|+..+|+.+|.+|++...|++-+...|..+
T Consensus       209 llPL~~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr  288 (473)
T KOG3905|consen  209 LLPLGQDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHR  288 (473)
T ss_pred             ccccCCcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHH
Confidence                      22356999999999973    2222222       23567788899999999999999999999999999


Q ss_pred             HHccchhhhc
Q 028315          175 ILEVPSLLEQ  184 (210)
Q Consensus       175 ~~~~~~~~~~  184 (210)
                      +..-+...+.
T Consensus       289 ~yG~~fttpA  298 (473)
T KOG3905|consen  289 SYGFPFTTPA  298 (473)
T ss_pred             hcCcccCCcc
Confidence            8876665443

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.46  E-value=5.1e-13  Score=96.22  Aligned_cols=115  Identities=21%  Similarity=0.267  Sum_probs=78.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc---cccEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR---GAHGIIL   90 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~---~~d~~i~   90 (210)
                      -.|+++|+.++|||+|+-+|..+.+....+.+....-  .+.+...  ...++|.|||.+.+.-...++.   .+-++++
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~~TvtSiepn~a--~~r~gs~--~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVF  114 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHRGTVTSIEPNEA--TYRLGSE--NVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVF  114 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCccCeeeeecccee--eEeecCc--ceEEEeCCCcHHHHHHHHHHccccccceeEEE
Confidence            4689999999999999999988865553333322222  2222222  3678899999988766666666   6899999


Q ss_pred             EEeCCCH-hhHHHHHHHHHHHHhhh-ccCCCCcEEEEEeCCCCC
Q 028315           91 VYDVTRR-ETFTNLSSVWAKEVELY-STNQDCVKILVGNKVDRD  132 (210)
Q Consensus        91 v~d~~~~-~~~~~~~~~~~~~~~~~-~~~~~~p~ivv~nK~Dl~  132 (210)
                      |+|...- ....++.+++...+... ......|++++.||.|+.
T Consensus       115 VVDSa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~  158 (238)
T KOG0090|consen  115 VVDSATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF  158 (238)
T ss_pred             EEeccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence            9998743 23455554555554333 235778999999999984

>cd00066 G-alpha G protein alpha subunit

Probab=99.45  E-value=2.7e-12  Score=101.24  Aligned_cols=120  Identities=19%  Similarity=0.164  Sum_probs=87.0

Q ss_pred             CeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH----------hhHHHHHHHHHHHHhhhccCCCCcEEEEEe
Q 028315           58 GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----------ETFTNLSSVWAKEVELYSTNQDCVKILVGN  127 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~p~ivv~n  127 (210)
                      ...+.+.+||++|+...+..|..++.+++++++|+|+++.          ..+.+....|...+.... ..+.|+++++|
T Consensus       158 ~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~-~~~~pill~~N  236 (317)
T cd00066         158 IKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRW-FANTSIILFLN  236 (317)
T ss_pred             ecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCcc-ccCCCEEEEcc
Confidence            3457889999999999999999999999999999999974          456555545555554322 36789999999


Q ss_pred             CCCCCCC---------------C-ccCHHHHHHHHHH----------cCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          128 KVDRDSE---------------R-AVTREEGMILAQE----------HKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       128 K~Dl~~~---------------~-~~~~~~~~~~~~~----------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |.|+-.+               . .-+.+.+..+...          ..+.++.++|.+..+++.+|+.+.+.+...
T Consensus       237 K~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~  313 (317)
T cd00066         237 KKDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQN  313 (317)
T ss_pred             ChHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHH
Confidence            9996210               0 1233333333221          123467899999999999999998887754

The alpha subunit of G proteins contains the guanine nucleotide binding site. The heterotrimeric GNP-binding proteins are signal transducers that communicate signals from many hormones, neurotransmitters, chemokines, and autocrine and paracrine factors. Extracellular signals are received by receptors, which activate the G proteins, which in turn route the signals to several distinct intracellular signaling pathways. The alpha subunit of G proteins is a weak GTPase. In the resting state, heterotrimeric G proteins are associated at the cytosolic face of the plasma membrane and the alpha subunit binds to GDP. Upon activation by a receptor GDP is replaced with GTP, and the G-alpha/GTP complex dissociates from the beta and gamma subunits. This results in activation of downstream signaling pathways, such as cAMP synthesis by adenylyl cyclase, which is terminated when GTP is hydrolized and the heterotrimers reconstitute.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.45  E-value=2.7e-12  Score=113.37  Aligned_cols=142  Identities=18%  Similarity=0.145  Sum_probs=89.0

Q ss_pred             CcHHHHHHHHhhCCCCC-----CCCceeeEEEEEEE--E----------ECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315           24 VGKSSILLSLISNSVHD-----PSPTIGVDFKIKLL--T----------VGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus        24 ~GKSsli~~l~~~~~~~-----~~~~~~~~~~~~~~--~----------~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ++||||+.++.+.....     .+..+|........  .          .......+.||||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            35999999998776544     12222322221110  0          0000123899999999999888777788899


Q ss_pred             EEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH------------HH-HHH------
Q 028315           87 GIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR------------EE-GMI------  144 (210)
Q Consensus        87 ~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~------------~~-~~~------  144 (210)
                      ++++|+|+++   +++++.+.     .+.    ..++|+++++||+|+.+......            +. ..+      
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~-----~lk----~~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~  622 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAIN-----ILR----QYKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLY  622 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHH-----HHH----HcCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHH
Confidence            9999999997   34433332     222    24679999999999864211100            00 001      


Q ss_pred             -----HHH------------Hc--CCeEEEecccCCcCHHHHHHHHHHH
Q 028315          145 -----LAQ------------EH--KCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       145 -----~~~------------~~--~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                           +..            .+  .++++.+||++|.|+++|+.+|...
T Consensus       623 ~v~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l  671 (1049)
T PRK14845        623 ELIGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGL  671 (1049)
T ss_pred             HHhhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHh
Confidence                 110            11  3479999999999999999877643

>PTZ00416 elongation factor 2; Provisional

Probab=99.44  E-value=4e-13  Score=117.90  Aligned_cols=116  Identities=21%  Similarity=0.256  Sum_probs=80.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCC---------------CCceeeEEEEE--EEEEC--------CeEEEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDP---------------SPTIGVDFKIK--LLTVG--------GKRLKLTI   65 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~---------------~~~~~~~~~~~--~~~~~--------~~~~~~~l   65 (210)
                      ++..||+++|+.++|||||+++|+...-...               ....+.+....  .....        ..+..+.|
T Consensus        17 ~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~l   96 (836)
T PTZ00416         17 DQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINL   96 (836)
T ss_pred             cCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEE
Confidence            4556999999999999999999976322110               01111122211  11111        22577999


Q ss_pred             EeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           66 WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        66 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +||||+..|.......++.+|++|+|+|+.++...+... .|....     ..+.|+++++||+|+.
T Consensus        97 iDtPG~~~f~~~~~~al~~~D~ailVvda~~g~~~~t~~-~~~~~~-----~~~~p~iv~iNK~D~~  157 (836)
T PTZ00416         97 IDSPGHVDFSSEVTAALRVTDGALVVVDCVEGVCVQTET-VLRQAL-----QERIRPVLFINKVDRA  157 (836)
T ss_pred             EcCCCHHhHHHHHHHHHhcCCeEEEEEECCCCcCccHHH-HHHHHH-----HcCCCEEEEEEChhhh
Confidence            999999999888888899999999999999875444333 444333     2467999999999985

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.44  E-value=3.4e-13  Score=118.53  Aligned_cols=117  Identities=20%  Similarity=0.236  Sum_probs=83.1

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC---C------------CCceeeEEEEE--EEEE--------------CC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD---P------------SPTIGVDFKIK--LLTV--------------GG   58 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~---~------------~~~~~~~~~~~--~~~~--------------~~   58 (210)
                      .++..||+++|+.++|||||+.+|+...-..   .            ....+.+....  ....              ..
T Consensus        16 ~~~Irni~iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~   95 (843)
T PLN00116         16 KHNIRNMSVIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDG   95 (843)
T ss_pred             ccCccEEEEEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCC
Confidence            4567799999999999999999997543211   0            00111122211  1111              12


Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      .++.+.++|||||..|.......++.+|++|+|+|+..+...+... .|....     ..++|.++++||+|..
T Consensus        96 ~~~~inliDtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~-~~~~~~-----~~~~p~i~~iNK~D~~  163 (843)
T PLN00116         96 NEYLINLIDSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTET-VLRQAL-----GERIRPVLTVNKMDRC  163 (843)
T ss_pred             CceEEEEECCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHH-HHHHHH-----HCCCCEEEEEECCccc
Confidence            3678899999999999888888899999999999999876544444 454443     3578999999999986

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.44  E-value=2.6e-12  Score=111.66  Aligned_cols=117  Identities=22%  Similarity=0.261  Sum_probs=80.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC---------------CceeeEEEEE----EEEECCeEEEEEEEeCCC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPS---------------PTIGVDFKIK----LLTVGGKRLKLTIWDTAG   70 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~---------------~~~~~~~~~~----~~~~~~~~~~~~l~Dt~G   70 (210)
                      .++.-||+++|+.++|||||+.+|+...-....               ...+.+....    .+...+.++.+.|+||||
T Consensus        17 ~~~iRni~iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG   96 (731)
T PRK07560         17 PEQIRNIGIIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPG   96 (731)
T ss_pred             hhcccEEEEEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCC
Confidence            356678999999999999999999753221100               0011111111    122344578899999999


Q ss_pred             CcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +..|.......++.+|++++|+|+......+... .|.....     .+.|.++++||+|..
T Consensus        97 ~~df~~~~~~~l~~~D~avlVvda~~g~~~~t~~-~~~~~~~-----~~~~~iv~iNK~D~~  152 (731)
T PRK07560         97 HVDFGGDVTRAMRAVDGAIVVVDAVEGVMPQTET-VLRQALR-----ERVKPVLFINKVDRL  152 (731)
T ss_pred             ccChHHHHHHHHHhcCEEEEEEECCCCCCccHHH-HHHHHHH-----cCCCeEEEEECchhh
Confidence            9999888888899999999999998764433333 4443322     345779999999975

>PTZ00258 GTP-binding protein; Provisional

Probab=99.44  E-value=4.2e-12  Score=101.67  Aligned_cols=87  Identities=22%  Similarity=0.151  Sum_probs=56.2

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeE--EEEEEEEECCe---------------EEEEEEEeCCC
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVD--FKIKLLTVGGK---------------RLKLTIWDTAG   70 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~---------------~~~~~l~Dt~G   70 (210)
                      ..+.+.++|+++|.|++|||||+|+|.+... ...+.++++  .....+.+.+.               ..++.++||||
T Consensus        16 ~~~~~~~kvgIVG~PNvGKSTLfnaLt~~~~-~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpG   94 (390)
T PTZ00258         16 GRPGNNLKMGIVGLPNVGKSTTFNALCKQQV-PAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAG   94 (390)
T ss_pred             ccCCCCcEEEEECCCCCChHHHHHHHhcCcc-cccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCC
Confidence            3446778999999999999999999976654 333333333  23333333322               23588999999


Q ss_pred             Ccccc----c---chhhhhccccEEEEEEeCC
Q 028315           71 QERFG----T---LTSSYYRGAHGIILVYDVT   95 (210)
Q Consensus        71 ~~~~~----~---~~~~~~~~~d~~i~v~d~~   95 (210)
                      ...-.    .   ..-..++.+|++++|+|..
T Consensus        95 Lv~ga~~g~gLg~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258         95 LVKGASEGEGLGNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             cCcCCcchhHHHHHHHHHHHHCCEEEEEEeCC
Confidence            43211    1   1223467899999999984

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.43  E-value=8.7e-12  Score=102.19  Aligned_cols=168  Identities=15%  Similarity=0.254  Sum_probs=116.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEEC--CeEEEEEEEeCCCCcccccchhhhhcc----c
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVG--GKRLKLTIWDTAGQERFGTLTSSYYRG----A   85 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~----~   85 (210)
                      ..-+|+|+|..++|||||+.+|.+..  ...++.+.+|....+.-+  ....++.+|-+.|...+..+.+..+..    -
T Consensus        24 ~~k~vlvlG~~~~GKttli~~L~~~e--~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~  101 (472)
T PF05783_consen   24 SEKSVLVLGDKGSGKTTLIARLQGIE--DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPN  101 (472)
T ss_pred             CCceEEEEeCCCCchHHHHHHhhccC--CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccc
Confidence            45688999999999999999986543  344566666665554332  224688999998877776666655542    2


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhc--------------------------------------------------
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYS--------------------------------------------------  115 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~--------------------------------------------------  115 (210)
                      -.+++|+|.+.|..+-.-...|...++...                                                  
T Consensus       102 t~vvIvlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~  181 (472)
T PF05783_consen  102 TLVVIVLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDES  181 (472)
T ss_pred             eEEEEEecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCccccccccccccccc
Confidence            478999999998665322224444332221                                                  


Q ss_pred             -----------cCCCCcEEEEEeCCCCCC----CCccC-------HHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315          116 -----------TNQDCVKILVGNKVDRDS----ERAVT-------REEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       116 -----------~~~~~p~ivv~nK~Dl~~----~~~~~-------~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                                 .+.++|++||++|+|...    .....       .+-.+.++..+|+.+|.||++...+++.++..|..
T Consensus       182 ~~lpl~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h  261 (472)
T PF05783_consen  182 VLLPLGEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILH  261 (472)
T ss_pred             ccCCCCCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHH
Confidence                       011369999999999632    11111       12255677788999999999999999999999999


Q ss_pred             HHHccchh
Q 028315          174 KILEVPSL  181 (210)
Q Consensus       174 ~~~~~~~~  181 (210)
                      ++...+..
T Consensus       262 ~l~~~~f~  269 (472)
T PF05783_consen  262 RLYGFPFK  269 (472)
T ss_pred             HhccCCCC
Confidence            98876654

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.43  E-value=8.7e-13  Score=100.30  Aligned_cols=96  Identities=24%  Similarity=0.263  Sum_probs=77.1

Q ss_pred             cccccchhhhhccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK  150 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~  150 (210)
                      +++..+.+.+++++|++++|+|+.++. ++..+. .|+..+.    ..+.|+++|+||+||.+.+.+..+....+ ...+
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~-r~l~~~~----~~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g   97 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLD-RFLVVAE----AQNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIG   97 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHH-HHHHHHH----HCCCCEEEEEECcccCCCHHHHHHHHHHH-HHCC
Confidence            677788888999999999999999887 788877 6776554    26789999999999976554444444444 3478


Q ss_pred             CeEEEecccCCcCHHHHHHHHHH
Q 028315          151 CLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      .+++++||++|.|++++|+.+.+
T Consensus        98 ~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        98 YQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CeEEEEecCCchhHHHHHhhhcC
Confidence            89999999999999999987754

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>TIGR00101 ureG urease accessory protein UreG

Probab=99.42  E-value=4.6e-12  Score=93.37  Aligned_cols=103  Identities=17%  Similarity=0.112  Sum_probs=64.7

Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHH
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTRE  140 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  140 (210)
                      ....++++.|......... .  -+|.++.|+|+.+......   .+...+       ...-++++||+|+.+......+
T Consensus        92 ~D~iiIEt~G~~l~~~~~~-~--l~~~~i~vvD~~~~~~~~~---~~~~qi-------~~ad~~~~~k~d~~~~~~~~~~  158 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSP-E--LADLTIFVIDVAAGDKIPR---KGGPGI-------TRSDLLVINKIDLAPMVGADLG  158 (199)
T ss_pred             CCEEEEECCCCCcccccch-h--hhCcEEEEEEcchhhhhhh---hhHhHh-------hhccEEEEEhhhccccccccHH
Confidence            4566778888432222221 1  2588999999987665321   111111       1223899999999753222233


Q ss_pred             HHHHHHH--HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          141 EGMILAQ--EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       141 ~~~~~~~--~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ......+  ..+.+++++||++|.|++++|+++.+.+.
T Consensus       159 ~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~~  196 (199)
T TIGR00101       159 VMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYAL  196 (199)
T ss_pred             HHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhcC
Confidence            3333333  34678999999999999999999987654

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>smart00275 G_alpha G protein alpha subunit

Probab=99.41  E-value=8.9e-12  Score=99.07  Aligned_cols=119  Identities=16%  Similarity=0.164  Sum_probs=85.2

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH----------hhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----------ETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      .+..+.+||.+|+...+..|..++.+++++++|+|+++.          ..+.+....|...+.... ..+.|+++++||
T Consensus       182 ~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~-~~~~piil~~NK  260 (342)
T smart00275      182 KKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRW-FANTSIILFLNK  260 (342)
T ss_pred             CCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCcc-ccCCcEEEEEec
Confidence            345788999999999999999999999999999999973          356666645555554332 467899999999


Q ss_pred             CCCCCC---------------CccCHHHHHHHHHH-----------cCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          129 VDRDSE---------------RAVTREEGMILAQE-----------HKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       129 ~Dl~~~---------------~~~~~~~~~~~~~~-----------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      .|+-..               ...+.+.+..+...           ..+..+.++|.+..++..+|+.+...+...
T Consensus       261 ~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~  336 (342)
T smart00275      261 IDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQR  336 (342)
T ss_pred             HHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHH
Confidence            997310               01122333332211           123467888999999999999988877754

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.40  E-value=7.5e-12  Score=96.51  Aligned_cols=161  Identities=20%  Similarity=0.223  Sum_probs=98.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC----CCC--CCCceeeEEEEEEE--EE-------CCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS----VHD--PSPTIGVDFKIKLL--TV-------GGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~----~~~--~~~~~~~~~~~~~~--~~-------~~~~~~~~l~Dt~G~~~~~   75 (210)
                      +..+|++++|+..+|||||.+++..-.    |..  .+.+.+.+.....-  .+       .++..++.++|+|||...-
T Consensus         5 p~n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLI   84 (522)
T KOG0461|consen    5 PSNLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLI   84 (522)
T ss_pred             CceeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHH
Confidence            456999999999999999999996432    222  22233333332211  11       3445788999999997654


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHH-HHHHHHHHc---
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TRE-EGMILAQEH---  149 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~-~~~~~~~~~---  149 (210)
                      ...-.-..-.|..++|+|+.....-+...-..+..+      .-...+||+||+|..++...  ..+ ......+.+   
T Consensus        85 RtiiggaqiiDlm~lviDv~kG~QtQtAEcLiig~~------~c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t  158 (522)
T KOG0461|consen   85 RTIIGGAQIIDLMILVIDVQKGKQTQTAECLIIGEL------LCKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLEST  158 (522)
T ss_pred             HHHHhhhheeeeeeEEEehhcccccccchhhhhhhh------hccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhc
Confidence            444444455699999999998765555442222211      23345888899987654221  111 122222211   


Q ss_pred             ----CCeEEEecccCC----cCHHHHHHHHHHHHHc
Q 028315          150 ----KCLFLECSAKNT----EDVKQCFKDLLYKILE  177 (210)
Q Consensus       150 ----~~~~~~~sa~~~----~~i~~l~~~i~~~~~~  177 (210)
                          +.|++++||.+|    .++.++.+.+-+++.+
T Consensus       159 ~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  159 GFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             CcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence                368999999999    6677766666555543

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.40  E-value=8.5e-12  Score=99.11  Aligned_cols=156  Identities=17%  Similarity=0.231  Sum_probs=97.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC----CCC-----------CCCCcee---eEEEEEE-------EE-ECCeEEEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN----SVH-----------DPSPTIG---VDFKIKL-------LT-VGGKRLKLTIW   66 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~----~~~-----------~~~~~~~---~~~~~~~-------~~-~~~~~~~~~l~   66 (210)
                      .+-|+++|+.++|||||+++|.+.    ...           -.+...|   +|.....       +. .++....+.++
T Consensus        17 ~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlI   96 (492)
T TIGR02836        17 DIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLV   96 (492)
T ss_pred             cEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEE
Confidence            478999999999999999999887    333           1333344   2222221       11 24556788899


Q ss_pred             eCCCCccc--------cc-----------c----------hhhhhc-cccEEEEEE-eCC----CHhhHHHHHHHHHHHH
Q 028315           67 DTAGQERF--------GT-----------L----------TSSYYR-GAHGIILVY-DVT----RRETFTNLSSVWAKEV  111 (210)
Q Consensus        67 Dt~G~~~~--------~~-----------~----------~~~~~~-~~d~~i~v~-d~~----~~~~~~~~~~~~~~~~  111 (210)
                      ||+|-..-        ..           .          ....+. ++|+.++|. |.+    .++.+......+...+
T Consensus        97 DcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eL  176 (492)
T TIGR02836        97 DCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEEL  176 (492)
T ss_pred             ECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHH
Confidence            99992211        11           0          122334 899999998 764    1122444444666666


Q ss_pred             hhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC--CcCHHHHHHHHHHH
Q 028315          112 ELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN--TEDVKQCFKDLLYK  174 (210)
Q Consensus       112 ~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~--~~~i~~l~~~i~~~  174 (210)
                      .    ..++|+++++|+.|...+.  ..+....+...++++++.+|+..  ...|..++..++..
T Consensus       177 k----~~~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~l~~~DI~~il~~vL~E  235 (492)
T TIGR02836       177 K----ELNKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVESMRESDILSVLEEVLYE  235 (492)
T ss_pred             H----hcCCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHHcCHHHHHHHHHHHHhc
Confidence            5    4789999999999943221  34445566777888877777763  45566665555443

A comparative genome analysis of all sequenced genomes of shows a number of proteins conserved strictly among the endospore-forming subset of the Firmicutes. This protein, a member of this panel, is designated stage IV sporulation protein A. It acts in the mother cell compartment and plays a role in spore coat morphogenesis.

>cd01882 BMS1 Bms1

Probab=99.39  E-value=1e-11  Score=93.44  Aligned_cols=138  Identities=16%  Similarity=0.186  Sum_probs=82.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .....|+++|.+|+|||||++.+.+..... .....+. +.   + ....+.++.++||||.-   ......++.+|+++
T Consensus        37 ~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~-i~---i-~~~~~~~i~~vDtPg~~---~~~l~~ak~aDvVl  108 (225)
T cd01882          37 PPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP-IT---V-VTGKKRRLTFIECPNDI---NAMIDIAKVADLVL  108 (225)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc-EE---E-EecCCceEEEEeCCchH---HHHHHHHHhcCEEE
Confidence            456789999999999999999997653222 2222221 11   1 11245678899999853   22223467899999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeCCCCCCCCc-cC--HHHHH-HHHHH--cCCeEEEecccCCc
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDRDSERA-VT--REEGM-ILAQE--HKCLFLECSAKNTE  162 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~~~~~-~~--~~~~~-~~~~~--~~~~~~~~sa~~~~  162 (210)
                      +|+|++.+......  .+...+.    ..+.|. ++|+||+|+.+... ..  .++.+ .+...  .+.+++.+||++..
T Consensus       109 lviDa~~~~~~~~~--~i~~~l~----~~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         109 LLIDASFGFEMETF--EFLNILQ----VHGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             EEEecCcCCCHHHH--HHHHHHH----HcCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            99999865433222  2333332    245674 45999999864321 11  11111 12221  24679999999873

Bms1 is an essential, evolutionarily conserved, nucleolar protein. Its depletion interferes with processing of the 35S pre-rRNA at sites A0, A1, and A2, and the formation of 40S subunits. Bms1, the putative endonuclease Rc11, and the essential U3 small nucleolar RNA form a stable subcomplex that is believed to control an early step in the formation of the 40S subumit. The C-terminal domain of Bms1 contains a GTPase-activating protein (GAP) that functions intramolecularly. It is believed that Rc11 activates Bms1 by acting as a guanine-nucleotide exchange factor (GEF) to promote GDP/GTP exchange, and that activated (GTP-bound) Bms1 delivers Rc11 to the preribosomes.

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.37  E-value=6.3e-12  Score=107.21  Aligned_cols=118  Identities=19%  Similarity=0.214  Sum_probs=93.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----------------CCCceeeEEEEEEEEECCe-EEEEEEEeCCCC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-----------------PSPTIGVDFKIKLLTVGGK-RLKLTIWDTAGQ   71 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----------------~~~~~~~~~~~~~~~~~~~-~~~~~l~Dt~G~   71 (210)
                      .++.-||+++|+.++|||||..+++...-..                 .....|.+........... .++++++|||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGH   86 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGH   86 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCc
Confidence            5678899999999999999999986432111                 1123466666666666556 489999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      -+|.......++-+|++++|+|+...-..+... .|+....     .++|.++++||+|...
T Consensus        87 VDFt~EV~rslrvlDgavvVvdaveGV~~QTEt-v~rqa~~-----~~vp~i~fiNKmDR~~  142 (697)
T COG0480          87 VDFTIEVERSLRVLDGAVVVVDAVEGVEPQTET-VWRQADK-----YGVPRILFVNKMDRLG  142 (697)
T ss_pred             cccHHHHHHHHHhhcceEEEEECCCCeeecHHH-HHHHHhh-----cCCCeEEEEECccccc
Confidence            999999999999999999999999886666555 6766654     7889999999999754

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.37  E-value=5.4e-12  Score=103.02  Aligned_cols=173  Identities=21%  Similarity=0.150  Sum_probs=110.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~   61 (210)
                      ..++++++|+.++|||||+.+++...-..                              .....|.+..+...+++....
T Consensus       176 ~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~  255 (603)
T KOG0458|consen  176 DHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSK  255 (603)
T ss_pred             cceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCce
Confidence            68999999999999999999985321100                              123446777777778888888


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      .++|+|+|||..|...+..-...+|++++|+|++...   .|+... +.++.........-..++|++||+|+..=.+-.
T Consensus       256 ~~tliDaPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~g-QtrEha~llr~Lgi~qlivaiNKmD~V~Wsq~R  334 (603)
T KOG0458|consen  256 IVTLIDAPGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGG-QTREHALLLRSLGISQLIVAINKMDLVSWSQDR  334 (603)
T ss_pred             eEEEecCCCccccchhhhccccccceEEEEEECCcchhhhccCCCC-chHHHHHHHHHcCcceEEEEeecccccCccHHH
Confidence            9999999999999988888888999999999999642   111000 111111111112345678999999986421111


Q ss_pred             HHH----HHHHH-HHcC-----CeEEEecccCCcCHHHHH-HHHHHHHHccchhhhcc
Q 028315          139 REE----GMILA-QEHK-----CLFLECSAKNTEDVKQCF-KDLLYKILEVPSLLEQG  185 (210)
Q Consensus       139 ~~~----~~~~~-~~~~-----~~~~~~sa~~~~~i~~l~-~~i~~~~~~~~~~~~~~  185 (210)
                      .++    ...|. +..|     +.++.||+..|.|+-..= ..-+..+++.+-.+...
T Consensus       335 F~eIk~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~~~~~~l~~WY~Gp~LL~~i  392 (603)
T KOG0458|consen  335 FEEIKNKLSSFLKESCGFKESSVKFIPISGLSGENLIKIEQENELSQWYKGPTLLSQI  392 (603)
T ss_pred             HHHHHHHHHHHHHHhcCcccCCcceEecccccCCcccccccchhhhhhhcCChHHHHH
Confidence            111    12222 3334     359999999999976541 11344455555544443

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.36  E-value=6e-12  Score=85.65  Aligned_cols=113  Identities=31%  Similarity=0.402  Sum_probs=78.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CC-CceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +||+++|..|+|||+|+.++....+.. +. ++.+                           +........+.++.+++|
T Consensus         1 ~kvv~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v   53 (124)
T smart00010        1 FKVVGIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQC   53 (124)
T ss_pred             CEEEEECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEE
Confidence            489999999999999999997776654 22 2222                           222234456778999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      ++..+..+++.+   |...+.... +.+.|.++++||.|+.....+..++.        ..++++|++++.|+.
T Consensus        54 ~~~~~~~s~~~~---~~~~i~~~~-k~dl~~~~~~nk~dl~~~~~~~~~~~--------~~~~~~s~~~~~~~~  115 (124)
T smart00010       54 WRVDDRDSADNK---NVPEVLVGN-KSDLPILVGGNRDVLEEERQVATEEG--------LEFAETSAKTPEEGE  115 (124)
T ss_pred             EEccCHHHHHHH---hHHHHHhcC-CCCCcEEEEeechhhHhhCcCCHHHH--------HHHHHHhCCCcchhh
Confidence            999999988654   555554332 46788999999999854333433222        235678889998874

SMART predicts Ras-like small GTPases of the ARF, RAB, RAN, RAS, and SAR subfamilies. Others that could not be classified in this way are predicted to be members of the small GTPase superfamily without predictions of the subfamily.

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.36  E-value=1.3e-11  Score=97.10  Aligned_cols=104  Identities=16%  Similarity=0.154  Sum_probs=66.8

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ++.+.|+||+|...-...   ....+|.++++.+...++..+....   ..+       ...-++|+||+|+........
T Consensus       148 g~d~viieT~Gv~qs~~~---i~~~aD~vlvv~~p~~gd~iq~~k~---gi~-------E~aDIiVVNKaDl~~~~~a~~  214 (332)
T PRK09435        148 GYDVILVETVGVGQSETA---VAGMVDFFLLLQLPGAGDELQGIKK---GIM-------ELADLIVINKADGDNKTAARR  214 (332)
T ss_pred             CCCEEEEECCCCccchhH---HHHhCCEEEEEecCCchHHHHHHHh---hhh-------hhhheEEeehhcccchhHHHH
Confidence            468899999997532222   4667999999987555555444331   111       122389999999865332111


Q ss_pred             --HHHHHHHH-------HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 --EEGMILAQ-------EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 --~~~~~~~~-------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                        .+......       .+..+++.+||+++.|++++++.|.+.+.
T Consensus       215 ~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~  260 (332)
T PRK09435        215 AAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRA  260 (332)
T ss_pred             HHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence              11111111       13357999999999999999999998754

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.35  E-value=2.8e-12  Score=93.55  Aligned_cols=171  Identities=24%  Similarity=0.378  Sum_probs=108.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECC-eEEEEEEEeCCCCcccc-----cchhhhhcccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGG-KRLKLTIWDTAGQERFG-----TLTSSYYRGAH   86 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~-----~~~~~~~~~~d   86 (210)
                      .-||+++|.+|+|||++-..++...........|.+......++.. ....+.+||++|++.+-     ......+++.+
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~   83 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQ   83 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhhhhheeehhccCCcHHHHHHHHhhcchhhheehe
Confidence            3589999999999999766665444333344444444443333322 23678999999998552     24456789999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCC--CccCHHHHHH----HHHHcCCeEEEeccc
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSE--RAVTREEGMI----LAQEHKCLFLECSAK  159 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~--~~~~~~~~~~----~~~~~~~~~~~~sa~  159 (210)
                      ++++|||++..+-..++. ++...++.... .+...+++..+|+|+...  ++...++...    +....++.++.+|..
T Consensus        84 vli~vFDves~e~~~D~~-~yqk~Le~ll~~SP~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~Tsiw  162 (295)
T KOG3886|consen   84 VLIYVFDVESREMEKDFH-YYQKCLEALLQNSPEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSIW  162 (295)
T ss_pred             eeeeeeeccchhhhhhHH-HHHHHHHHHHhcCCcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccchh
Confidence            999999999887556665 66665555432 466778899999999643  2222222222    222334568888877


Q ss_pred             CCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          160 NTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      +.. +-..+..+...+..+...+++.
T Consensus       163 Det-l~KAWS~iv~~lipn~~~~e~~  187 (295)
T KOG3886|consen  163 DET-LYKAWSSIVYNLIPNVSALESK  187 (295)
T ss_pred             hHH-HHHHHHHHHHhhCCChHHHHHH
Confidence            543 3334666666666666655543

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.34  E-value=8.3e-12  Score=92.82  Aligned_cols=150  Identities=15%  Similarity=0.114  Sum_probs=84.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCC--C----C------CC-----ceeeEEEEEEE----------------EECC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVH--D----P------SP-----TIGVDFKIKLL----------------TVGG   58 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~--~----~------~~-----~~~~~~~~~~~----------------~~~~   58 (210)
                      ...+|+++|+.|+|||||+++++.....  .    .      ..     ..+.......-                ....
T Consensus        21 ~~~~i~~~G~~gsGKTTli~~l~~~~~~~~~v~v~~~~~~~~~D~~~~~~~~~~~~~l~~gcic~~~~~~~~~~l~~~~~  100 (207)
T TIGR00073        21 GLVVLNFMSSPGSGKTTLIEKLIDNLKDEVKIAVIEGDVITKFDAERLRKYGAPAIQINTGKECHLDAHMVAHALEDLPL  100 (207)
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhcCCeEEEEECCCCCcccHHHHHHcCCcEEEEcCCCcccCChHHHHHHHHHhcc
Confidence            3678999999999999999998654110  0    0      00     00000000000                0001


Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      ....+.+++|.|.-...   ..+....+..+.|+|+.+.+...  . ....       ....|.++++||+|+.......
T Consensus       101 ~~~d~IiIEt~G~l~~~---~~~~~~~~~~i~Vvd~~~~d~~~--~-~~~~-------~~~~a~iiv~NK~Dl~~~~~~~  167 (207)
T TIGR00073       101 DDIDLLFIENVGNLVCP---ADFDLGEHMRVVLLSVTEGDDKP--L-KYPG-------MFKEADLIVINKADLAEAVGFD  167 (207)
T ss_pred             CCCCEEEEecCCCcCCC---cccccccCeEEEEEecCcccchh--h-hhHh-------HHhhCCEEEEEHHHccccchhh
Confidence            13466777887721111   11112345566788887654211  1 1111       1245779999999996543222


Q ss_pred             HHHHHHHHHHc--CCeEEEecccCCcCHHHHHHHHHHH
Q 028315          139 REEGMILAQEH--KCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       139 ~~~~~~~~~~~--~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      .++........  ..+++++||++|.|++++++++.+.
T Consensus       168 ~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       168 VEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             HHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            33333333333  4789999999999999999999774

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.34  E-value=7.2e-13  Score=100.10  Aligned_cols=112  Identities=16%  Similarity=0.163  Sum_probs=56.6

Q ss_pred             EEEEEeCCCCcccccchhhhh--------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           62 KLTIWDTAGQERFGTLTSSYY--------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.++||||+.++-..+...-        ...-++++++|+....+.......++..+.... ..+.|.+.|+||+|+..
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~-~~~lP~vnvlsK~Dl~~  170 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIML-RLELPHVNVLSKIDLLS  170 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHH-HHTSEEEEEE--GGGS-
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHh-hCCCCEEEeeeccCccc
Confidence            688999999877654444332        345688999998754332222212222222221 25789999999999975


Q ss_pred             CC---ccC----------------HHHHHHHHH---HcC-C-eEEEecccCCcCHHHHHHHHHHH
Q 028315          134 ER---AVT----------------REEGMILAQ---EHK-C-LFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       134 ~~---~~~----------------~~~~~~~~~---~~~-~-~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ..   ...                ......++.   .++ . .++.+|+.++.++.+++..+-+.
T Consensus       171 ~~~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a  235 (238)
T PF03029_consen  171 KYLEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKA  235 (238)
T ss_dssp             HHHHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHH
T ss_pred             chhHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHH
Confidence            21   000                000111111   122 3 69999999999999988876554

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.32  E-value=1.2e-11  Score=98.13  Aligned_cols=161  Identities=20%  Similarity=0.207  Sum_probs=84.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCC--ceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhh-----h
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSP--TIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY-----Y   82 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~--~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~-----~   82 (210)
                      .+++|+|+|.+|+|||||||.|.+-...+  ..+  ...++.....+... .-..+.+||+||...-......|     +
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p-~~pnv~lWDlPG~gt~~f~~~~Yl~~~~~  112 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHP-KFPNVTLWDLPGIGTPNFPPEEYLKEVKF  112 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-S-S-TTEEEEEE--GGGSS--HHHHHHHTTG
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCC-CCCCCeEEeCCCCCCCCCCHHHHHHHccc
Confidence            47899999999999999999997643322  111  12222333333332 22358999999954333333333     4


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC-------CCCCccCHHHHHHHHH--------
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR-------DSERAVTREEGMILAQ--------  147 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl-------~~~~~~~~~~~~~~~~--------  147 (210)
                      ...|.+|++.+-.    |....-.+...+.    ..++|+++|-||.|.       ..++...+++..+..+        
T Consensus       113 ~~yD~fiii~s~r----f~~ndv~La~~i~----~~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~  184 (376)
T PF05049_consen  113 YRYDFFIIISSER----FTENDVQLAKEIQ----RMGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQ  184 (376)
T ss_dssp             GG-SEEEEEESSS------HHHHHHHHHHH----HTT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHH
T ss_pred             cccCEEEEEeCCC----CchhhHHHHHHHH----HcCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHH
Confidence            5689888877633    4333323333333    357899999999995       1233444433222211        


Q ss_pred             HcCC---eEEEecccCC--cCHHHHHHHHHHHHHccchh
Q 028315          148 EHKC---LFLECSAKNT--EDVKQCFKDLLYKILEVPSL  181 (210)
Q Consensus       148 ~~~~---~~~~~sa~~~--~~i~~l~~~i~~~~~~~~~~  181 (210)
                      ..|+   ++|-+|..+-  .++..|.+.+.+.+...+..
T Consensus       185 k~gv~~P~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr~  223 (376)
T PF05049_consen  185 KAGVSEPQVFLVSSFDLSKYDFPKLEETLEKDLPAHKRH  223 (376)
T ss_dssp             CTT-SS--EEEB-TTTTTSTTHHHHHHHHHHHS-GGGHH
T ss_pred             HcCCCcCceEEEeCCCcccCChHHHHHHHHHHhHHHHHH
Confidence            1233   4899999864  66888888888887766553

IIGP is predominantly associated with the Golgi apparatus and also localizes to the endoplasmic reticulum and exerts a distinct role in IFN-induced intracellular membrane trafficking or processing [].; GO: 0005525 GTP binding, 0016817 hydrolase activity, acting on acid anhydrides, 0016020 membrane; PDB: 1TPZ_A 1TQD_A 1TQ6_A 1TQ2_B 1TQ4_A.

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.30  E-value=1.3e-11  Score=103.24  Aligned_cols=164  Identities=20%  Similarity=0.123  Sum_probs=108.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CCCceeeEEEEEEEE--------EC----CeEEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-----PSPTIGVDFKIKLLT--------VG----GKRLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~~~~~~~~~~~~~~--------~~----~~~~~~~l~Dt~G~~~   73 (210)
                      .+..-++|+|+..+|||-|+..+.+.....     ....+|.++....-.        -+    ..-..+.++|||||+.
T Consensus       473 lRSPIcCilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEs  552 (1064)
T KOG1144|consen  473 LRSPICCILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHES  552 (1064)
T ss_pred             cCCceEEEeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchh
Confidence            345568999999999999999997765443     334445454433200        00    1123577899999999


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------Cc-----------
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------RA-----------  136 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------~~-----------  136 (210)
                      |..++.....-||.+|+|+|+..+..-+.+.  -+.+++    ..+.|+||.+||+|..-.      ..           
T Consensus       553 FtnlRsrgsslC~~aIlvvdImhGlepqtiE--Si~lLR----~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~  626 (1064)
T KOG1144|consen  553 FTNLRSRGSSLCDLAILVVDIMHGLEPQTIE--SINLLR----MRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKD  626 (1064)
T ss_pred             hhhhhhccccccceEEEEeehhccCCcchhH--HHHHHH----hcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHH
Confidence            9999999999999999999999764333332  112232    467899999999996310      00           


Q ss_pred             cCHH-------HHHHHHH-HcC-------------CeEEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          137 VTRE-------EGMILAQ-EHK-------------CLFLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       137 ~~~~-------~~~~~~~-~~~-------------~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +..+       .+.+|+. .++             +.++.+||..|.||.+|+-+|++.....+.
T Consensus       627 v~~EF~~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~  691 (1064)
T KOG1144|consen  627 VQNEFKERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMV  691 (1064)
T ss_pred             HHHHHHHHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHH
Confidence            0000       0111111 111             347999999999999999999987665443

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.30  E-value=2.9e-11  Score=96.13  Aligned_cols=156  Identities=15%  Similarity=0.097  Sum_probs=110.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .|+..|+-.-|||||+..+.+..-..  .....|++.....+.....+..+.|+|.||++++-..+-.-+...|.+++|+
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV   81 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVV   81 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEE
Confidence            46788999999999999997765444  3444555666556566666678999999999999888888888999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH---HcCCeEEEecccCCcCHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ---EHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~---~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +.++.-..+...  .+..+..   ..-...++|+||+|..++..+.. ...++..   ....++|.+|+++|.||++|.+
T Consensus        82 ~~deGl~~qtgE--hL~iLdl---lgi~~giivltk~D~~d~~r~e~-~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~  155 (447)
T COG3276          82 AADEGLMAQTGE--HLLILDL---LGIKNGIIVLTKADRVDEARIEQ-KIKQILADLSLANAKIFKTSAKTGRGIEELKN  155 (447)
T ss_pred             eCccCcchhhHH--HHHHHHh---cCCCceEEEEeccccccHHHHHH-HHHHHHhhcccccccccccccccCCCHHHHHH
Confidence            997653333222  2222322   12345699999999876542221 2222222   2246799999999999999999


Q ss_pred             HHHHHHH
Q 028315          170 DLLYKIL  176 (210)
Q Consensus       170 ~i~~~~~  176 (210)
                      .|.+...
T Consensus       156 ~l~~L~~  162 (447)
T COG3276         156 ELIDLLE  162 (447)
T ss_pred             HHHHhhh
Confidence            9888774

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.29  E-value=1.3e-10  Score=92.22  Aligned_cols=81  Identities=20%  Similarity=0.211  Sum_probs=52.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeE--EEEEEEEECCeE---------------EEEEEEeCCCCcccc-
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVD--FKIKLLTVGGKR---------------LKLTIWDTAGQERFG-   75 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~--~~~~~~~~~~~~---------------~~~~l~Dt~G~~~~~-   75 (210)
                      ++|+++|.|++|||||+|++.+... ...+.++++  .....+.+.+..               ..+.++|+||...-. 
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~-~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~   81 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGA-EAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGAS   81 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCC-eecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCC
Confidence            6899999999999999999988773 322223222  222233333221               258999999943211 


Q ss_pred             ---cch---hhhhccccEEEEEEeCC
Q 028315           76 ---TLT---SSYYRGAHGIILVYDVT   95 (210)
Q Consensus        76 ---~~~---~~~~~~~d~~i~v~d~~   95 (210)
                         .+.   -..++.+|++++|+|+.
T Consensus        82 ~g~glg~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         82 KGEGLGNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             hHHHHHHHHHHHHHhCCEEEEEEeCC
Confidence               111   22367899999999984

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.28  E-value=1.5e-10  Score=94.81  Aligned_cols=161  Identities=19%  Similarity=0.208  Sum_probs=115.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+...++|+.++|||.|++.++++.+.. ...+....+....+...+....+.+-|.+-. ....+...- ..||++++
T Consensus       424 ~Vf~C~V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~  501 (625)
T KOG1707|consen  424 KVFQCFVVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACL  501 (625)
T ss_pred             eeeeEEEEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEE
Confidence            57899999999999999999999988877 4455555555555566677777888887643 222222222 67999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe-EEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~~l~~  169 (210)
                      +||.+++.+|+-...    ...........|.++|++|.|+.+..+...-.-.+++..++++ .+.+|.+.... .++|.
T Consensus       502 ~YDsS~p~sf~~~a~----v~~~~~~~~~~Pc~~va~K~dlDe~~Q~~~iqpde~~~~~~i~~P~~~S~~~~~s-~~lf~  576 (625)
T KOG1707|consen  502 VYDSSNPRSFEYLAE----VYNKYFDLYKIPCLMVATKADLDEVPQRYSIQPDEFCRQLGLPPPIHISSKTLSS-NELFI  576 (625)
T ss_pred             ecccCCchHHHHHHH----HHHHhhhccCCceEEEeeccccchhhhccCCChHHHHHhcCCCCCeeeccCCCCC-chHHH
Confidence            999999999886652    3333333478999999999999765432222226788888885 66777775333 88899


Q ss_pred             HHHHHHHccc
Q 028315          170 DLLYKILEVP  179 (210)
Q Consensus       170 ~i~~~~~~~~  179 (210)
                      .|...+..-+
T Consensus       577 kL~~~A~~Ph  586 (625)
T KOG1707|consen  577 KLATMAQYPH  586 (625)
T ss_pred             HHHHhhhCCC
Confidence            9888776544

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.26  E-value=4.1e-11  Score=95.08  Aligned_cols=116  Identities=16%  Similarity=0.190  Sum_probs=86.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC---------------------CCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN---------------------SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG   70 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G   70 (210)
                      +.-..+|+-+|.+|||||-.+|+.-                     .+.+.....|+...+....++..+..+++.||||
T Consensus        11 rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPG   90 (528)
T COG4108          11 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPG   90 (528)
T ss_pred             hhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCC
Confidence            4456799999999999999997521                     1111223446666777777888888999999999


Q ss_pred             CcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      |+.|..-....+..+|.+++|+|+..+..-+...  +.+..+    ..++|++=++||.|...
T Consensus        91 HeDFSEDTYRtLtAvDsAvMVIDaAKGiE~qT~K--LfeVcr----lR~iPI~TFiNKlDR~~  147 (528)
T COG4108          91 HEDFSEDTYRTLTAVDSAVMVIDAAKGIEPQTLK--LFEVCR----LRDIPIFTFINKLDREG  147 (528)
T ss_pred             ccccchhHHHHHHhhheeeEEEecccCccHHHHH--HHHHHh----hcCCceEEEeecccccc
Confidence            9999887777888999999999999875544443  222222    46899999999999743

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.25  E-value=6.1e-10  Score=86.21  Aligned_cols=140  Identities=20%  Similarity=0.290  Sum_probs=74.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC-----------CceeeEEEEEEEEECCeEEEEEEEeCCCCcccc---cc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPS-----------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG---TL   77 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~---~~   77 (210)
                      -.+||+++|.+|+|||||||.|++.......           .+.........+.-++..+.+.++||||.....   ..
T Consensus         3 ~~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~   82 (281)
T PF00735_consen    3 FNFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDC   82 (281)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhh
Confidence            4699999999999999999999886543321           222333333344446778999999999932111   00


Q ss_pred             hh-----------hhh-------------ccccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           78 TS-----------SYY-------------RGAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        78 ~~-----------~~~-------------~~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      |.           .++             ...|+++|.++.+.. -.-.++.  +...+     ...+++|.|+.|.|..
T Consensus        83 ~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~--~mk~L-----s~~vNvIPvIaKaD~l  155 (281)
T PF00735_consen   83 WEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIE--FMKRL-----SKRVNVIPVIAKADTL  155 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHH--HHHHH-----TTTSEEEEEESTGGGS
T ss_pred             hHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHH--HHHHh-----cccccEEeEEeccccc
Confidence            10           011             247999999998753 1212222  22233     2567899999999974


Q ss_pred             CCCccC--HHHHHHHHHHcCCeEEEecc
Q 028315          133 SERAVT--REEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       133 ~~~~~~--~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ...++.  .+.+.......++.+|....
T Consensus       156 t~~el~~~k~~i~~~l~~~~I~~f~f~~  183 (281)
T PF00735_consen  156 TPEELQAFKQRIREDLEENNIKIFDFPE  183 (281)
T ss_dssp             -HHHHHHHHHHHHHHHHHTT--S-----
T ss_pred             CHHHHHHHHHHHHHHHHHcCceeecccc
Confidence            432221  11222333456676655433

Members of the family were first identified by genetic screening for Saccharomyces cerevisiae (Baker's yeast) mutants defective in cytokinesis []. Temperature-sensitive mutations in four genes, CDC3, CDC10, CDC11 and CDC12, were found to cause cell-cycle arrest and defects in bud growth and cytokinesis. The protein products of these genes localise at the division plane between mother and daughter cells, indicating a role in mother-daughter separation during cytokinesis []. Members of the family were therefore termed septins to reflect their role in septation and cell division. The identification of septin homologues in higher eukaryotes, which localise to the cleavage furrow in dividing cells, supports an orthologous function in cytokinesis. Septins have since been identified in most eukaryotes, except plants []. Septins are approximately 40-50 kDa in molecular mass, and typically comprise a conserved central core domain (more than 35% sequence identity between mammalian and yeast homologues) flanked by more divergent N- and C-termini. Most septins possess a P-loop motif in their N-terminal domain (which is characteristic of GTP-binding proteins), and a predicted C-terminal coiled-coil domain []. A number of septin interaction partners have been identified in yeast, many of which are components of the budding site selection machinery, kinase cascades or of the ubiquitination pathway. It has been proposed that septins may act as a scaffold that provides an interaction matrix for other proteins [, ]. In mammals, septins have been shown to regulate vesicle dynamics []. Mammalian septins have also been implicated in a variety of other cellular processes, including apoptosis, carcinogenesis and neurodegeneration []. This entry represents a variety of septins and homologous sequences involved in the cell division process.; GO: 0005525 GTP binding, 0007049 cell cycle; PDB: 2QAG_B 3FTQ_D 2QA5_A 2QNR_B 3TW4_A 3T5D_C.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.25  E-value=3.6e-11  Score=86.41  Aligned_cols=63  Identities=25%  Similarity=0.343  Sum_probs=43.4

Q ss_pred             EEEEEeCCCCcc----cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           62 KLTIWDTAGQER----FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        62 ~~~l~Dt~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                      .+.|+||||...    ....+..+++.+|++|+|.++.....-.... .+.....    ......++|.||.
T Consensus       102 ~~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~-~l~~~~~----~~~~~~i~V~nk~  168 (168)
T PF00350_consen  102 NLTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDME-FLKQMLD----PDKSRTIFVLNKA  168 (168)
T ss_dssp             SEEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHH-HHHHHHT----TTCSSEEEEEE-G
T ss_pred             ceEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHH-HHHHHhc----CCCCeEEEEEcCC
Confidence            578999999532    2356777889999999999999865544443 4444443    2344488888984

Dynamins are large GTPases that belong to a protein superfamily [] that, in eukaryotic cells, includes classical dynamins, dynamin-like proteins, OPA1, Mx proteins, mitofusins and guanylate-binding proteins/atlastins [, , , ], and are involved in the scission of a wide range of vesicles and organelles. They play a role in many processes including budding of transport vesicles, division of organelles, cytokinesis and pathogen resistance. The minimal distinguishing architectural features that are common to all dynamins and are distinct from other GTPases are the structure of the large GTPase domain (300 amino acids) and the presence of two additional domains; the middle domain and the GTPase effector domain (GED), which are involved in oligomerization and regulation of the GTPase activity. This entry represents the GTPase domain, containing the GTP-binding motifs that are needed for guanine-nucleotide binding and hydrolysis. The conservation of these motifs is absolute except for the the final motif in guanylate-binding proteins. The GTPase catalytic activity can be stimulated by oligomerisation of the protein, which is mediated by interactions between the GTPase domain, the middle domain and the GED.; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 1JWY_B 1JX2_B 3ZVR_A 2AKA_B 3L43_B 2X2F_D 2X2E_D 3SNH_A 3ZYS_D 3ZYC_D ....

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.25  E-value=2.6e-11  Score=92.66  Aligned_cols=164  Identities=15%  Similarity=0.073  Sum_probs=101.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC--------------Cceee--------EEEEEEEEE------CCeEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPS--------------PTIGV--------DFKIKLLTV------GGKRLK   62 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~--------------~~~~~--------~~~~~~~~~------~~~~~~   62 (210)
                      +.++||.++|+..-|||||...+.+---...+              .....        ..+...-..      ..--.+
T Consensus         8 Qp~vNIG~vGHVdHGKtTlv~AlsGvwT~~hseElkRgitIkLGYAd~~i~kC~~c~~~~~y~~~~~C~~cg~~~~l~R~   87 (415)
T COG5257           8 QPEVNIGMVGHVDHGKTTLTKALSGVWTDRHSEELKRGITIKLGYADAKIYKCPECYRPECYTTEPKCPNCGAETELVRR   87 (415)
T ss_pred             CcceEeeeeeecccchhhheehhhceeeechhHHHhcCcEEEeccccCceEeCCCCCCCcccccCCCCCCCCCCccEEEE
Confidence            57899999999999999999998653111100              00000        001000001      012357


Q ss_pred             EEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHH
Q 028315           63 LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TRE  140 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~  140 (210)
                      +.|.|.|||+..-..+-.-..--|++++|+.++.+..-.+-. ..+..++..   .-..++++=||+|+...+..  ..+
T Consensus        88 VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~-EHl~AleIi---gik~iiIvQNKIDlV~~E~AlE~y~  163 (415)
T COG5257          88 VSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTR-EHLMALEII---GIKNIIIVQNKIDLVSRERALENYE  163 (415)
T ss_pred             EEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchH-HHHHHHhhh---ccceEEEEecccceecHHHHHHHHH
Confidence            889999999765333322233359999999999764322222 222233332   23467889999999754332  223


Q ss_pred             HHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          141 EGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       141 ~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ++..|.+.   .+++++.+||..+.||+-+++.|.+.+...
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~IptP  204 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPTP  204 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCCC
Confidence            44444443   367899999999999999999988887643

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.23  E-value=9.6e-11  Score=98.12  Aligned_cols=125  Identities=18%  Similarity=0.214  Sum_probs=73.0

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCC-ceeeEEE-EEEEEECCeEEEEEEEeCCCCcccc-------c
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSP-TIGVDFK-IKLLTVGGKRLKLTIWDTAGQERFG-------T   76 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~-------~   76 (210)
                      ..+..+..++|+++|.+|+||||++|.+++........ ..+++.. ......+  +..+.++||||.....       .
T Consensus       111 g~~~LdfslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~id--G~~L~VIDTPGL~dt~~dq~~nee  188 (763)
T TIGR00993       111 GQDPLDFSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQ--GVKIRVIDTPGLKSSASDQSKNEK  188 (763)
T ss_pred             hccccCcceEEEEECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEEC--CceEEEEECCCCCccccchHHHHH
Confidence            34445677999999999999999999999876444221 1222221 2222233  3568889999965431       1


Q ss_pred             c---hhhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCC
Q 028315           77 L---TSSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDS  133 (210)
Q Consensus        77 ~---~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~  133 (210)
                      .   ...++.  .+|++|+|..+.......... .++..+..... .--.-+|||+|+.|..+
T Consensus       189 ILk~Ik~~Lsk~gpDVVLlV~RLd~~~~D~eD~-~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       189 ILSSVKKFIKKNPPDIVLYVDRLDMQTRDSNDL-PLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             HHHHHHHHHhcCCCCEEEEEEeCCCccccHHHH-HHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            1   122333  479999998876332211111 23333332221 12246789999999865

The long precursor of the 86K protein originally described is proposed to have three domains. The N-terminal A-domain is acidic, repetitive, weakly conserved, readily removed by proteolysis during chloroplast isolation, and not required for protein translocation. The other domains are designated G (GTPase) and M (membrane anchor); this family includes most of the G domain and all of M.

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.23  E-value=7.1e-10  Score=82.30  Aligned_cols=156  Identities=15%  Similarity=0.089  Sum_probs=91.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-------ccchhhhhccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-------GTLTSSYYRGA   85 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-------~~~~~~~~~~~   85 (210)
                      .-||+++|.|++|||||+..+. ...++......++.......+...+..+++.|+||.-.-       ....-...+.+
T Consensus        62 daRValIGfPSVGKStlLs~iT-~T~SeaA~yeFTTLtcIpGvi~y~ga~IQllDLPGIieGAsqgkGRGRQviavArta  140 (364)
T KOG1486|consen   62 DARVALIGFPSVGKSTLLSKIT-STHSEAASYEFTTLTCIPGVIHYNGANIQLLDLPGIIEGASQGKGRGRQVIAVARTA  140 (364)
T ss_pred             CeEEEEecCCCccHHHHHHHhh-cchhhhhceeeeEEEeecceEEecCceEEEecCcccccccccCCCCCceEEEEeecc
Confidence            4799999999999999999884 444443344444455554444444556788899994221       23334456889


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC------CCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD------SERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      |.+++|.|++..+.-..+.+.-++.+....++.+..+.+--.|..-.      +-...++..+......+.+.--++-.+
T Consensus       141 DlilMvLDatk~e~qr~~le~ELe~vGiRLNk~~Pniy~k~kk~gGi~f~~T~~lT~~~ek~i~~ILheykI~Naevl~R  220 (364)
T KOG1486|consen  141 DLILMVLDATKSEDQREILEKELEAVGIRLNKRKPNIYFKKKKTGGISFNTTVPLTHCDEKLIYTILHEYKIHNAEVLFR  220 (364)
T ss_pred             cEEEEEecCCcchhHHHHHHHHHHHhceeccCCCCCeEEEeeccCCeEEeeeeccccccHHHHHHHHHHHeeccceEEEe
Confidence            99999999998876665555556666665533333344433333321      122334444555555554433333334


Q ss_pred             CCcCHHHHHH
Q 028315          160 NTEDVKQCFK  169 (210)
Q Consensus       160 ~~~~i~~l~~  169 (210)
                      ....++++.+
T Consensus       221 eD~t~DdfID  230 (364)
T KOG1486|consen  221 EDCTVDDFID  230 (364)
T ss_pred             cCCChHHHHH
Confidence            4444555433

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.22  E-value=1.3e-10  Score=91.22  Aligned_cols=104  Identities=15%  Similarity=0.099  Sum_probs=64.3

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ++.+.|+||+|.-...   ...+..+|.++++.+.....   ++. .+...+      .++|.++++||+|+........
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~~---el~-~~~~~l------~~~~~ivv~NK~Dl~~~~~~~~  192 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTGD---DLQ-GIKAGL------MEIADIYVVNKADGEGATNVTI  192 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCccH---HHH-HHHHHH------hhhccEEEEEcccccchhHHHH
Confidence            5788999999853211   23466788888886544332   222 222222      3567799999999865432111


Q ss_pred             HH------HHHHHH---HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 EE------GMILAQ---EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 ~~------~~~~~~---~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ..      ...+..   .+..+++.+||+++.|++++++++.+.+.
T Consensus       193 ~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       193 ARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            00      011111   13346999999999999999999988643

Mutations have also been found that do not phosphorylate the periplasmic binding proteins, yet still allow transport. The ATPase activity of this protein seems to be necessary, however.

>cd01900 YchF YchF subfamily

Probab=99.22  E-value=1.9e-10  Score=88.36  Aligned_cols=80  Identities=21%  Similarity=0.247  Sum_probs=51.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCe---------------EEEEEEEeCCCCccc----c
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQERF----G   75 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~~----~   75 (210)
                      |+++|.|+||||||+|++++..... ..|..+.+.....+.+.+.               ...+.++|+||...-    .
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~   80 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGE   80 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhh
Confidence            5799999999999999998877632 2233322233333333332               135899999994321    1


Q ss_pred             cchh---hhhccccEEEEEEeCC
Q 028315           76 TLTS---SYYRGAHGIILVYDVT   95 (210)
Q Consensus        76 ~~~~---~~~~~~d~~i~v~d~~   95 (210)
                      .+..   ..++.+|++++|+|+.
T Consensus        81 glg~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          81 GLGNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHHHhCCEEEEEEeCc
Confidence            1222   2357899999999874

YchF is a member of the Obg family, which includes four other subfamilies of GTPases: Obg, DRG, Ygr210, and NOG1. Obg is an essential gene that is involved in DNA replication in C. crescentus and Streptomyces griseus and is associated with the ribosome. Several members of the family, including YchF, possess the TGS domain related to the RNA-binding proteins. Experimental data and genomic analysis suggest that YchF may be part of a nucleoprotein complex and may function as a GTP-dependent translational factor.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=99.19  E-value=5.9e-11  Score=96.38  Aligned_cols=164  Identities=23%  Similarity=0.392  Sum_probs=122.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .++|++|+|..++|||+|+++++.+.+.....+.+..+ .+.+.+++...-+.+.|.+|...     ..|-.++|++|+|
T Consensus        29 pelk~givg~~~sgktalvhr~ltgty~~~e~~e~~~~-kkE~vv~gqs~lLlirdeg~~~~-----aQft~wvdavIfv  102 (749)
T KOG0705|consen   29 PELKLGIVGTSQSGKTALVHRYLTGTYTQDESPEGGRF-KKEVVVDGQSHLLLIRDEGGHPD-----AQFCQWVDAVVFV  102 (749)
T ss_pred             chhheeeeecccCCceeeeeeeccceeccccCCcCccc-eeeEEeeccceEeeeecccCCch-----hhhhhhccceEEE
Confidence            46999999999999999999999999888554444444 45556777777777888877432     3566789999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC--CCCCccCHHHHHHH-HHHcCCeEEEecccCCcCHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR--DSERAVTREEGMIL-AQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl--~~~~~~~~~~~~~~-~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |.+.+..+|+.+. .+...+..+.....+|.++++++.-.  ..++.+...+...+ +....+.||++.+..|.++...|
T Consensus       103 f~~~d~~s~q~v~-~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf  181 (749)
T KOG0705|consen  103 FSVEDEQSFQAVQ-ALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVF  181 (749)
T ss_pred             EEeccccCHHHHH-HHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHH
Confidence            9999999999988 44444544443567888888877543  23455555555544 44556789999999999999999


Q ss_pred             HHHHHHHHccchhh
Q 028315          169 KDLLYKILEVPSLL  182 (210)
Q Consensus       169 ~~i~~~~~~~~~~~  182 (210)
                      +.+...+...++.+
T Consensus       182 ~~~~~k~i~~~~~q  195 (749)
T KOG0705|consen  182 QEVAQKIVQLRKYQ  195 (749)
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999877664433

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=99.17  E-value=3.3e-10  Score=94.00  Aligned_cols=118  Identities=26%  Similarity=0.341  Sum_probs=86.4

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC-C---------c------eeeEEEEEEEE-----ECCeEEEEEEE
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-P---------T------IGVDFKIKLLT-----VGGKRLKLTIW   66 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~-~---------~------~~~~~~~~~~~-----~~~~~~~~~l~   66 (210)
                      ...++..+|+++|+-+.|||+|+..|.....+... +         +      .+........+     ..+.++-++++
T Consensus       123 ~~p~~irnV~l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nil  202 (971)
T KOG0468|consen  123 DNPERIRNVGLVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNIL  202 (971)
T ss_pred             cCcceEEEEEEeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeee
Confidence            34477899999999999999999998766543311 1         1      11111111111     14567899999


Q ss_pred             eCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           67 DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        67 Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      |||||-.|.......++.+|++++|+|+.+.-.+.... .+...+     ....|+++|+||.|.
T Consensus       203 DTPGHVnF~DE~ta~l~~sDgvVlvvDv~EGVmlntEr-~ikhai-----q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  203 DTPGHVNFSDETTASLRLSDGVVLVVDVAEGVMLNTER-IIKHAI-----QNRLPIVVVINKVDR  261 (971)
T ss_pred             cCCCcccchHHHHHHhhhcceEEEEEEcccCceeeHHH-HHHHHH-----hccCcEEEEEehhHH
Confidence            99999999988889999999999999999887665444 333333     367899999999995

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.13  E-value=5e-10  Score=85.21  Aligned_cols=153  Identities=18%  Similarity=0.178  Sum_probs=92.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCC-----------CCCCCceee----------------EEEEEEEE--------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSV-----------HDPSPTIGV----------------DFKIKLLT--------   55 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~-----------~~~~~~~~~----------------~~~~~~~~--------   55 (210)
                      .+...|+|.|.||+|||||+..|.....           .+.+|.++.                ..+.....        
T Consensus        49 G~a~viGITG~PGaGKSTli~~L~~~l~~~G~rVaVlAVDPSSp~TGGsiLGDRiRM~~~~~~~~vFiRs~~srG~lGGl  128 (323)
T COG1703          49 GNAHVIGITGVPGAGKSTLIEALGRELRERGHRVAVLAVDPSSPFTGGSILGDRIRMQRLAVDPGVFIRSSPSRGTLGGL  128 (323)
T ss_pred             CCCcEEEecCCCCCchHHHHHHHHHHHHHCCcEEEEEEECCCCCCCCccccccHhhHHhhccCCCeEEeecCCCccchhh
Confidence            3567899999999999999999843211           111111111                11111111        


Q ss_pred             ----------ECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEE
Q 028315           56 ----------VGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV  125 (210)
Q Consensus        56 ----------~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv  125 (210)
                                ++-.++.++|++|.|.-..+.   .....+|.+++|.-..-.+..+.++.-..++          -=++|
T Consensus       129 S~at~~~i~~ldAaG~DvIIVETVGvGQsev---~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEi----------aDi~v  195 (323)
T COG1703         129 SRATREAIKLLDAAGYDVIIVETVGVGQSEV---DIANMADTFLVVMIPGAGDDLQGIKAGIMEI----------ADIIV  195 (323)
T ss_pred             hHHHHHHHHHHHhcCCCEEEEEecCCCcchh---HHhhhcceEEEEecCCCCcHHHHHHhhhhhh----------hheee
Confidence                      122345778888887433222   2345689999998888777777766433333          22899


Q ss_pred             EeCCCCCCCCccCHHH--HHHHH------HHcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          126 GNKVDRDSERAVTREE--GMILA------QEHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       126 ~nK~Dl~~~~~~~~~~--~~~~~------~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      +||.|.......-.+.  +..+.      ..|..+++.+||..|.|++++++.+.+...
T Consensus       196 INKaD~~~A~~a~r~l~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~  254 (323)
T COG1703         196 INKADRKGAEKAARELRSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRK  254 (323)
T ss_pred             EeccChhhHHHHHHHHHHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHH
Confidence            9999964432111111  11111      123457999999999999999999887643

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.10  E-value=3.2e-11  Score=90.33  Aligned_cols=150  Identities=19%  Similarity=0.219  Sum_probs=84.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCC-----------CCCCCce----------------eeEEEEEEEEE--------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSV-----------HDPSPTI----------------GVDFKIKLLTV--------   56 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~-----------~~~~~~~----------------~~~~~~~~~~~--------   56 (210)
                      +.+.|+|.|+||+|||||+..|.....           .+.+|..                ....+.....-        
T Consensus        28 ~a~~iGiTG~PGaGKSTli~~l~~~~~~~g~~VaVlAVDPSSp~tGGAlLGDRiRM~~~~~d~~vfIRS~atRG~lGGls  107 (266)
T PF03308_consen   28 RAHVIGITGPPGAGKSTLIDALIRELRERGKRVAVLAVDPSSPFTGGALLGDRIRMQELSRDPGVFIRSMATRGSLGGLS  107 (266)
T ss_dssp             -SEEEEEEE-TTSSHHHHHHHHHHHHHHTT--EEEEEE-GGGGCC---SS--GGGCHHHHTSTTEEEEEE---SSHHHHH
T ss_pred             CceEEEeeCCCCCcHHHHHHHHHHHHhhcCCceEEEEECCCCCCCCCcccccHHHhcCcCCCCCEEEeecCcCCCCCCcc
Confidence            467999999999999999999843110           0011111                11222222211        


Q ss_pred             ----------CCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEE
Q 028315           57 ----------GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG  126 (210)
Q Consensus        57 ----------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~  126 (210)
                                +..++.++|++|.|.-..+   -....-+|.+++|.-..-.+..+.++..+.+.          +=++|+
T Consensus       108 ~~t~~~v~ll~aaG~D~IiiETVGvGQsE---~~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEi----------aDi~vV  174 (266)
T PF03308_consen  108 RATRDAVRLLDAAGFDVIIIETVGVGQSE---VDIADMADTVVLVLVPGLGDEIQAIKAGIMEI----------ADIFVV  174 (266)
T ss_dssp             HHHHHHHHHHHHTT-SEEEEEEESSSTHH---HHHHTTSSEEEEEEESSTCCCCCTB-TTHHHH-----------SEEEE
T ss_pred             HhHHHHHHHHHHcCCCEEEEeCCCCCccH---HHHHHhcCeEEEEecCCCccHHHHHhhhhhhh----------ccEEEE
Confidence                      1113567778887742221   23355689999999988877776665333333          338999


Q ss_pred             eCCCCCCCCccCHH--HHHHHHH----HcCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          127 NKVDRDSERAVTRE--EGMILAQ----EHKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       127 nK~Dl~~~~~~~~~--~~~~~~~----~~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ||.|.......-.+  .+..+..    .|..+++.+||.++.|++++++.|.+.
T Consensus       175 NKaD~~gA~~~~~~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  175 NKADRPGADRTVRDLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             E--SHHHHHHHHHHHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             eCCChHHHHHHHHHHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            99996433222111  1112211    134589999999999999999888774

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.09  E-value=1.5e-09  Score=77.77  Aligned_cols=80  Identities=20%  Similarity=0.096  Sum_probs=55.0

Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc--CCeEEEecccCCcC
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH--KCLFLECSAKNTED  163 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~  163 (210)
                      +.-|+|+|+...+-.   ...--+.+       ...=++|+||.|+.+.-..+.+...+-++..  +.+++++|+++|.|
T Consensus       119 ~~~v~VidvteGe~~---P~K~gP~i-------~~aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G  188 (202)
T COG0378         119 HLRVVVIDVTEGEDI---PRKGGPGI-------FKADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEG  188 (202)
T ss_pred             ceEEEEEECCCCCCC---cccCCCce-------eEeeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcC
Confidence            377888888866421   10000000       1245899999999877666666666555544  56899999999999


Q ss_pred             HHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKI  175 (210)
Q Consensus       164 i~~l~~~i~~~~  175 (210)
                      ++++++|+...+
T Consensus       189 ~~~~~~~i~~~~  200 (202)
T COG0378         189 LDEWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHHHhhc
Confidence            999999987654

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=99.09  E-value=7.6e-09  Score=81.34  Aligned_cols=84  Identities=24%  Similarity=0.262  Sum_probs=56.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC----------------CeEEEEEEEeCCCC----
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG----------------GKRLKLTIWDTAGQ----   71 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~----------------~~~~~~~l~Dt~G~----   71 (210)
                      .++++|+|.|+||||||+|.++...... .+|..+++-....+.+.                -....+.|+|.+|.    
T Consensus         2 ~l~~GIVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GA   81 (372)
T COG0012           2 SLKIGIVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGA   81 (372)
T ss_pred             CceeEEecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCc
Confidence            3789999999999999999998877432 44444433333333321                11357889999982    


Q ss_pred             ---cccccchhhhhccccEEEEEEeCCC
Q 028315           72 ---ERFGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        72 ---~~~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                         +......-..+|++|+++.|+|..+
T Consensus        82 s~GeGLGNkFL~~IRevdaI~hVVr~f~  109 (372)
T COG0012          82 SKGEGLGNKFLDNIREVDAIIHVVRCFG  109 (372)
T ss_pred             ccCCCcchHHHHhhhhcCeEEEEEEecC
Confidence               2223333344789999999999984

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=99.09  E-value=1.2e-09  Score=81.48  Aligned_cols=98  Identities=17%  Similarity=0.154  Sum_probs=69.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-------ccchhhhhcccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-------GTLTSSYYRGAH   86 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-------~~~~~~~~~~~d   86 (210)
                      -++.++|.|++||||++..+ .+.+.+.....+++.......+......+++.|+||.-+-       ....-...+.|+
T Consensus        60 a~vg~vgFPSvGksTl~~~l-~g~~s~vasyefttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavartcn  138 (358)
T KOG1487|consen   60 ARVGFVGFPSVGKSTLLSKL-TGTFSEVAAYEFTTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCN  138 (358)
T ss_pred             eeeeEEecCccchhhhhhhh-cCCCCccccccceeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEEeeccc
Confidence            48999999999999999998 4455555555555555555555556678999999994221       233344568899


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHh
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVE  112 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~  112 (210)
                      .+++|.|+..|.+...+.+.-++-+.
T Consensus       139 li~~vld~~kp~~hk~~ie~eleg~g  164 (358)
T KOG1487|consen  139 LIFIVLDVLKPLSHKKIIEKELEGFG  164 (358)
T ss_pred             EEEEEeeccCcccHHHHHHHhhhcce
Confidence            99999999998777666544444443

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.08  E-value=5.9e-10  Score=84.46  Aligned_cols=143  Identities=15%  Similarity=0.084  Sum_probs=98.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC----------CCCC-----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN----------SVHD-----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~----------~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      ...||..+|+.+-|||||...+..-          .+.+     .....+.+.....+.+......+-..|+|||..|-.
T Consensus        11 phVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet~~rhyahVDcPGHaDYvK   90 (394)
T COG0050          11 PHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYVK   90 (394)
T ss_pred             CeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEecCCceEEeccCCChHHHHH
Confidence            4799999999999999998887431          1111     223456777777777766666777889999999988


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC---HHHHHHHHHHcCC-
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT---REEGMILAQEHKC-  151 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~-  151 (210)
                      ++..-..+.|+.|+|+.+.+..--+... ..  ++.+   .-++| +++++||+|+.+.+++.   +.+.+++...+++ 
T Consensus        91 NMItgAaqmDgAILVVsA~dGpmPqTrE-Hi--Llar---qvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~  164 (394)
T COG0050          91 NMITGAAQMDGAILVVAATDGPMPQTRE-HI--LLAR---QVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFP  164 (394)
T ss_pred             HHhhhHHhcCccEEEEEcCCCCCCcchh-hh--hhhh---hcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCC
Confidence            7777778899999999999864323222 11  1122   23555 56778999998754432   3356667777765 


Q ss_pred             ----eEEEecccC
Q 028315          152 ----LFLECSAKN  160 (210)
Q Consensus       152 ----~~~~~sa~~  160 (210)
                          |++.-||..
T Consensus       165 gd~~Pii~gSal~  177 (394)
T COG0050         165 GDDTPIIRGSALK  177 (394)
T ss_pred             CCCcceeechhhh
Confidence                477777664

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.07  E-value=1.6e-09  Score=85.07  Aligned_cols=123  Identities=18%  Similarity=0.158  Sum_probs=83.0

Q ss_pred             EECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhh----------HHHHHHHHHHHHhhhccCCCCcEEE
Q 028315           55 TVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET----------FTNLSSVWAKEVELYSTNQDCVKIL  124 (210)
Q Consensus        55 ~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~----------~~~~~~~~~~~~~~~~~~~~~p~iv  124 (210)
                      .+.-.+..+.++|.+|+...+.-|..++.+++++|+|+++++.+.          +.+....|...+.... -.+.++++
T Consensus       189 ~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~-F~~tsiiL  267 (354)
T KOG0082|consen  189 EFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKW-FANTSIIL  267 (354)
T ss_pred             EEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcc-cccCcEEE
Confidence            344445678889999999999999999999999999999997432          2222223333332222 45789999


Q ss_pred             EEeCCCCCCC---------------CccCHHHHHHHHH--------H--cCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          125 VGNKVDRDSE---------------RAVTREEGMILAQ--------E--HKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       125 v~nK~Dl~~~---------------~~~~~~~~~~~~~--------~--~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ++||.|+-.+               ..-..+++..+..        .  ..+-++.+.|.+..+|+.+|+.+...+...
T Consensus       268 FLNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~  346 (354)
T KOG0082|consen  268 FLNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQN  346 (354)
T ss_pred             EeecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHH
Confidence            9999997210               1112223332221        1  123477889999999999999999888754

>cd01855 YqeH YqeH

Probab=99.04  E-value=1.4e-09  Score=79.86  Aligned_cols=94  Identities=18%  Similarity=0.046  Sum_probs=65.8

Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HH
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QE  148 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~  148 (210)
                      +...+..+++.+|++++|+|+.++..      .|...+...  ..+.|+++|+||+|+.+... ..+....+.     ..
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~------~~~~~l~~~--~~~~~~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~   94 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG------SLIPRLRLF--GGNNPVILVGNKIDLLPKDK-NLVRIKNWLRAKAAAG   94 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC------ccchhHHHh--cCCCcEEEEEEchhcCCCCC-CHHHHHHHHHHHHHhh
Confidence            46677788899999999999987642      122222211  24689999999999865332 222233332     22


Q ss_pred             cCC---eEEEecccCCcCHHHHHHHHHHHHH
Q 028315          149 HKC---LFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       149 ~~~---~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      .+.   .++.+||++|.|+++++++|.+.+.
T Consensus        95 ~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          95 LGLKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             cCCCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            332   5899999999999999999988775

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>smart00053 DYNc Dynamin, GTPase

Probab=99.02  E-value=4.3e-09  Score=79.43  Aligned_cols=69  Identities=25%  Similarity=0.194  Sum_probs=43.5

Q ss_pred             EEEEEEeCCCCccc-------------ccchhhhhc-cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEE
Q 028315           61 LKLTIWDTAGQERF-------------GTLTSSYYR-GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG  126 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~-------------~~~~~~~~~-~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~  126 (210)
                      ..+.++||||....             ..+...+++ ..+.+++|+|+.....-.... .+...+.    ..+.|+++|+
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l-~ia~~ld----~~~~rti~Vi  199 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDAL-KLAKEVD----PQGERTIGVI  199 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHH-HHHHHHH----HcCCcEEEEE
Confidence            57889999996321             123445566 456899999887543322222 2223332    4678999999


Q ss_pred             eCCCCCCC
Q 028315          127 NKVDRDSE  134 (210)
Q Consensus       127 nK~Dl~~~  134 (210)
                      ||.|....
T Consensus       200 TK~D~~~~  207 (240)
T smart00053      200 TKLDLMDE  207 (240)
T ss_pred             ECCCCCCc
Confidence            99998653

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.01  E-value=1.3e-10  Score=89.27  Aligned_cols=56  Identities=21%  Similarity=0.137  Sum_probs=39.8

Q ss_pred             CCcEEEEEeCCCCCCCCccCHHHHHHHHHH--cCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          119 DCVKILVGNKVDRDSERAVTREEGMILAQE--HKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       119 ~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ..+-++|+||+|+.+......+......+.  .+++++.+||++|.|++++++||.++
T Consensus       230 ~~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        230 AAASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             hcCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            346699999999965322223333333333  36789999999999999999999774

>cd01859 MJ1464 MJ1464

Probab=99.00  E-value=9.5e-10  Score=78.09  Aligned_cols=95  Identities=15%  Similarity=0.031  Sum_probs=64.9

Q ss_pred             ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEE
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFL  154 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  154 (210)
                      +.+++..++++|++++|+|+.++......  .+...+.    ..+.|+++|+||+|+.+....  .....+....+.+++
T Consensus         3 ~~~~~~i~~~aD~vl~V~D~~~~~~~~~~--~l~~~~~----~~~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~   74 (156)
T cd01859           3 KRLVRRIIKESDVVLEVLDARDPELTRSR--KLERYVL----ELGKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVV   74 (156)
T ss_pred             HHHHHHHHhhCCEEEEEeeCCCCcccCCH--HHHHHHH----hCCCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEE
Confidence            44566777889999999999876432221  1222221    246899999999998543211  111123334567899


Q ss_pred             EecccCCcCHHHHHHHHHHHHHc
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .+||+++.|++++++.+.+.+..
T Consensus        75 ~iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          75 YVSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EEEccccccHHHHHHHHHHHHhh
Confidence            99999999999999999887753

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>PRK00098 GTPase RsgA; Reviewed

Probab=99.00  E-value=2.5e-09  Score=83.81  Aligned_cols=87  Identities=22%  Similarity=0.151  Sum_probs=64.2

Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      .+.++|.+++|+|+.++..+....+.|+..+.    ..++|+++|+||+|+.+... ...+........+.+++.+||++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~----~~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~  151 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAE----ANGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKE  151 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHH----HCCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCC
Confidence            35899999999999988766555446766554    35789999999999963221 11223334455688999999999


Q ss_pred             CcCHHHHHHHHH
Q 028315          161 TEDVKQCFKDLL  172 (210)
Q Consensus       161 ~~~i~~l~~~i~  172 (210)
                      +.|++++++.+.
T Consensus       152 g~gi~~L~~~l~  163 (298)
T PRK00098        152 GEGLDELKPLLA  163 (298)
T ss_pred             CccHHHHHhhcc
Confidence            999999988763

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.00  E-value=3.8e-09  Score=82.51  Aligned_cols=119  Identities=21%  Similarity=0.266  Sum_probs=80.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEE---------------------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRL---------------------------   61 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~---------------------------   61 (210)
                      +..-=|+++|.-+.||||||+.|+...++.  ..|.+.+++.....+-+.+++                           
T Consensus        56 d~KPmill~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   56 DAKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             ccCceEEEEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            444568999999999999999999998877  556666666665544322211                           


Q ss_pred             ------------EEEEEeCCCCc-----------ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCC
Q 028315           62 ------------KLTIWDTAGQE-----------RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ  118 (210)
Q Consensus        62 ------------~~~l~Dt~G~~-----------~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~  118 (210)
                                  .+.++||||.-           .|.....=|...+|.++++||+..-+--.    .+.+.+.... ..
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsd----Ef~~vi~aLk-G~  210 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISD----EFKRVIDALK-GH  210 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccH----HHHHHHHHhh-CC
Confidence                        78899999932           12234455678899999999987543222    2223333333 34


Q ss_pred             CCcEEEEEeCCCCCCC
Q 028315          119 DCVKILVGNKVDRDSE  134 (210)
Q Consensus       119 ~~p~ivv~nK~Dl~~~  134 (210)
                      .-.+-||+||.|..+.
T Consensus       211 EdkiRVVLNKADqVdt  226 (532)
T KOG1954|consen  211 EDKIRVVLNKADQVDT  226 (532)
T ss_pred             cceeEEEeccccccCH
Confidence            4567899999998654

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=99.00  E-value=1.2e-09  Score=78.60  Aligned_cols=58  Identities=26%  Similarity=0.356  Sum_probs=47.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...++++++|.||+|||||+|++.+.......+.++.+.....+.++.   .+.++||||.
T Consensus       115 ~~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~pg~T~~~~~~~~~~---~~~l~DtPGi  172 (172)
T cd04178         115 KTSITVGVVGFPNVGKSSLINSLKRSRACNVGATPGVTKSMQEVHLDK---KVKLLDSPGI  172 (172)
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCcccceecCCCCeEcceEEEEeCC---CEEEEECcCC
Confidence            345899999999999999999999888777777788888766665543   5788999983

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd01858 NGP_1 NGP-1

Probab=98.99  E-value=1.6e-09  Score=77.03  Aligned_cols=57  Identities=28%  Similarity=0.343  Sum_probs=44.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ..++|+++|.||+|||||+|++.+.......++++.+.....+....   .+.++||||.
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~g~T~~~~~~~~~~---~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIPGETKVWQYITLMK---RIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCCCeeEeEEEEEcCC---CEEEEECcCC
Confidence            45789999999999999999999887767777777777655544432   3678899983

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.99  E-value=1.1e-09  Score=76.38  Aligned_cols=54  Identities=28%  Similarity=0.361  Sum_probs=44.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      +++++|.+|+|||||+|++.+..........+.+.....+.++.   .+.+|||||.
T Consensus        85 ~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          85 TIGLVGYPNVGKSSLINALVGKKKVSVSATPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCceeeCCCCCcccceEEEEeCC---CEEEEECCCc
Confidence            89999999999999999999887766666666666666666654   4789999995

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.94  E-value=1.2e-09  Score=83.82  Aligned_cols=152  Identities=16%  Similarity=0.131  Sum_probs=89.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEE--EEEEECCeEEEEEEEeCCCC---------cccccchhhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKI--KLLTVGGKRLKLTIWDTAGQ---------ERFGTLTSSY   81 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~Dt~G~---------~~~~~~~~~~   81 (210)
                      .--|.++|.+++|||||++.|....... ....+.+...  ...+... +..+.+.||-|.         ..|..... .
T Consensus       178 ~pviavVGYTNaGKsTLikaLT~Aal~p-~drLFATLDpT~h~a~Lps-g~~vlltDTvGFisdLP~~LvaAF~ATLe-e  254 (410)
T KOG0410|consen  178 SPVIAVVGYTNAGKSTLIKALTKAALYP-NDRLFATLDPTLHSAHLPS-GNFVLLTDTVGFISDLPIQLVAAFQATLE-E  254 (410)
T ss_pred             CceEEEEeecCccHHHHHHHHHhhhcCc-cchhheeccchhhhccCCC-CcEEEEeechhhhhhCcHHHHHHHHHHHH-H
Confidence            3468999999999999999998444322 1222222222  2222222 334566799982         22222222 2


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE----EEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEec
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK----ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~----ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      ...+|.++.|.|+++|.--+... ..+..+.... -+..|.    +=|=||+|.......        .+..+  .+.+|
T Consensus       255 VaeadlllHvvDiShP~ae~q~e-~Vl~vL~~ig-v~~~pkl~~mieVdnkiD~e~~~~e--------~E~n~--~v~is  322 (410)
T KOG0410|consen  255 VAEADLLLHVVDISHPNAEEQRE-TVLHVLNQIG-VPSEPKLQNMIEVDNKIDYEEDEVE--------EEKNL--DVGIS  322 (410)
T ss_pred             HhhcceEEEEeecCCccHHHHHH-HHHHHHHhcC-CCcHHHHhHHHhhccccccccccCc--------cccCC--ccccc
Confidence            45799999999999997544444 3344443322 122232    334577776433211        11122  68899


Q ss_pred             ccCCcCHHHHHHHHHHHHHccc
Q 028315          158 AKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      |++|.|.+++.+.+-..+....
T Consensus       323 altgdgl~el~~a~~~kv~~~t  344 (410)
T KOG0410|consen  323 ALTGDGLEELLKAEETKVASET  344 (410)
T ss_pred             cccCccHHHHHHHHHHHhhhhh
Confidence            9999999999888777665443

>PRK12289 GTPase RsgA; Reviewed

Probab=98.92  E-value=5.9e-09  Score=83.06  Aligned_cols=92  Identities=18%  Similarity=0.081  Sum_probs=65.2

Q ss_pred             ccchhhhhccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeE
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLF  153 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  153 (210)
                      ..+....+.++|.+++|+|+.++. ....+. .|+....    ..+.|+++|+||+|+......  +........++..+
T Consensus        80 ~~L~R~~~aNvD~vLlV~d~~~p~~~~~~Ld-R~L~~a~----~~~ip~ILVlNK~DLv~~~~~--~~~~~~~~~~g~~v  152 (352)
T PRK12289         80 TELDRPPVANADQILLVFALAEPPLDPWQLS-RFLVKAE----STGLEIVLCLNKADLVSPTEQ--QQWQDRLQQWGYQP  152 (352)
T ss_pred             cceechhhhcCCEEEEEEECCCCCCCHHHHH-HHHHHHH----HCCCCEEEEEEchhcCChHHH--HHHHHHHHhcCCeE
Confidence            344455688999999999998775 333334 5554442    367899999999999643221  11222334678899


Q ss_pred             EEecccCCcCHHHHHHHHHH
Q 028315          154 LECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~  173 (210)
                      +.+||+++.|++++++.+..
T Consensus       153 ~~iSA~tg~GI~eL~~~L~~  172 (352)
T PRK12289        153 LFISVETGIGLEALLEQLRN  172 (352)
T ss_pred             EEEEcCCCCCHHHHhhhhcc
Confidence            99999999999999988764

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.91  E-value=8.3e-08  Score=78.12  Aligned_cols=116  Identities=14%  Similarity=0.148  Sum_probs=80.5

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH----------hhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----------ETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      ....+.++|++|+...+.-|..++.+++++|+|+++++.          ..+.+....|...+.... ..+.|++|++||
T Consensus       234 ~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~-~~~~~iil~lnK  312 (389)
T PF00503_consen  234 GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPW-FKNTPIILFLNK  312 (389)
T ss_dssp             TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGG-GTTSEEEEEEE-
T ss_pred             cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcc-cccCceEEeeec
Confidence            445788999999999999999999999999999998853          234444546666655443 458899999999


Q ss_pred             CCCC------CC----------Cc--cCHHHHHHHHHH------------cCCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          129 VDRD------SE----------RA--VTREEGMILAQE------------HKCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       129 ~Dl~------~~----------~~--~~~~~~~~~~~~------------~~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      .|+-      .+          ..  -+.+.+..+...            ..+.++.++|.+..+++.+|+.+.+.+
T Consensus       313 ~D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  313 IDLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            9961      11          11  233444433321            122477899999999999998877643

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=98.91  E-value=5.3e-08  Score=76.25  Aligned_cols=139  Identities=22%  Similarity=0.328  Sum_probs=83.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc---cc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-----------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF---GT   76 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~---~~   76 (210)
                      .-.++|.++|+.|.|||||+|.|++.....           ..++.....+...+.-++...++.++||||.-.+   ..
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~  100 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSK  100 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccc
Confidence            357999999999999999999998763211           2244444444444445677889999999993222   11


Q ss_pred             chh-----------hhh--------------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           77 LTS-----------SYY--------------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        77 ~~~-----------~~~--------------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      .|.           .++              ..+|+++|.+..+.. .+..+.   ...+...  ...+.+|.|+.|+|.
T Consensus       101 ~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh-~l~~~D---Ie~Mk~l--s~~vNlIPVI~KaD~  174 (373)
T COG5019         101 CWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGH-GLKPLD---IEAMKRL--SKRVNLIPVIAKADT  174 (373)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCC-CCCHHH---HHHHHHH--hcccCeeeeeecccc
Confidence            221           111              247999999986643 122222   1122222  256678999999997


Q ss_pred             CCCCccC--HHHHHHHHHHcCCeEEE
Q 028315          132 DSERAVT--REEGMILAQEHKCLFLE  155 (210)
Q Consensus       132 ~~~~~~~--~~~~~~~~~~~~~~~~~  155 (210)
                      -...+..  .+.+.+....+++++|.
T Consensus       175 lT~~El~~~K~~I~~~i~~~nI~vf~  200 (373)
T COG5019         175 LTDDELAEFKERIREDLEQYNIPVFD  200 (373)
T ss_pred             CCHHHHHHHHHHHHHHHHHhCCceeC
Confidence            4332221  22344445566777664

>cd01856 YlqF YlqF

Probab=98.87  E-value=6.5e-09  Score=74.98  Aligned_cols=58  Identities=22%  Similarity=0.353  Sum_probs=46.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...++++++|.+|+|||||++++.+..+....+.+++++....+.++   ..+.+|||||.
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~~~~~T~~~~~~~~~---~~~~~iDtpG~  170 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVGNKPGVTKGIQWIKIS---PGIYLLDTPGI  170 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeecCCCCEEeeeEEEEec---CCEEEEECCCC
Confidence            45589999999999999999999988776666666667666666654   35789999994

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.87  E-value=1.2e-08  Score=79.62  Aligned_cols=88  Identities=16%  Similarity=0.085  Sum_probs=65.4

Q ss_pred             hhhhccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEec
Q 028315           79 SSYYRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      +..+.++|.+++|+|+.++. ++..+. .|+..+.    ..++|+++|+||+|+.+...  ...........+.+++.+|
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ld-r~L~~~~----~~~ip~iIVlNK~DL~~~~~--~~~~~~~~~~~g~~v~~vS  145 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLD-RYLVAAE----AAGIEPVIVLTKADLLDDEE--EELELVEALALGYPVLAVS  145 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHH-HHHHHHH----HcCCCEEEEEEHHHCCChHH--HHHHHHHHHhCCCeEEEEE
Confidence            34478999999999999887 777666 5666554    25689999999999965411  1122233345688999999


Q ss_pred             ccCCcCHHHHHHHHHH
Q 028315          158 AKNTEDVKQCFKDLLY  173 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~  173 (210)
                      |+++.|+++++..+..
T Consensus       146 A~~g~gi~~L~~~L~~  161 (287)
T cd01854         146 AKTGEGLDELREYLKG  161 (287)
T ss_pred             CCCCccHHHHHhhhcc
Confidence            9999999998887653

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.86  E-value=2.4e-08  Score=78.45  Aligned_cols=164  Identities=15%  Similarity=0.120  Sum_probs=98.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCc--------------eeeEEEEEEEEE-----------------
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPT--------------IGVDFKIKLLTV-----------------   56 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~--------------~~~~~~~~~~~~-----------------   56 (210)
                      ..+.++.|+.+|+.+.|||||+-.|..+.... ...+              ...+.....+-+                 
T Consensus       113 ~~~~hv~Vg~aGhVdhGKSTlvG~LvtG~~DDG~G~tR~~ldv~kHEverGlsa~iS~~v~Gf~dgk~~rlknPld~aE~  192 (527)
T COG5258         113 EAPEHVLVGVAGHVDHGKSTLVGVLVTGRLDDGDGATRSYLDVQKHEVERGLSADISLRVYGFDDGKVVRLKNPLDEAEK  192 (527)
T ss_pred             CCCceEEEEEeccccCCcceEEEEEEecCCCCCCcchhhhhhhhhHHHhhccccceeEEEEEecCCceEeecCcccHHHH
Confidence            34678999999999999999999886654333 1100              001111111111                 


Q ss_pred             ----CCeEEEEEEEeCCCCccccc-ch-hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           57 ----GGKRLKLTIWDTAGQERFGT-LT-SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        57 ----~~~~~~~~l~Dt~G~~~~~~-~~-~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                          ...+.-+.|.||.||+.|-. .. ..+-...|..++++.+++..+--  ....+..+.    --+.|++|++||+|
T Consensus       193 ~~vv~~aDklVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~~--tkEHLgi~~----a~~lPviVvvTK~D  266 (527)
T COG5258         193 AAVVKRADKLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTKM--TKEHLGIAL----AMELPVIVVVTKID  266 (527)
T ss_pred             hHhhhhcccEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcchh--hhHhhhhhh----hhcCCEEEEEEecc
Confidence                11224577889999998843 23 33345789999999999875421  111112111    35789999999999


Q ss_pred             CCCCCccCH--HHHHHH----------------------HHHc---CCeEEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          131 RDSERAVTR--EEGMIL----------------------AQEH---KCLFLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       131 l~~~~~~~~--~~~~~~----------------------~~~~---~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +.++..+..  +++..+                      +-..   -+|+|.+|+.+|.|++- ++.++..+..++
T Consensus       267 ~~~ddr~~~v~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gldl-L~e~f~~Lp~rr  341 (527)
T COG5258         267 MVPDDRFQGVVEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDL-LDEFFLLLPKRR  341 (527)
T ss_pred             cCcHHHHHHHHHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHH-HHHHHHhCCccc
Confidence            875422211  111111                      1111   24799999999999776 566666666554

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.84  E-value=1.3e-07  Score=74.52  Aligned_cols=144  Identities=19%  Similarity=0.284  Sum_probs=83.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC----------CCceeeEEEEEEEEECCeEEEEEEEeCCCCccc---ccch
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP----------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF---GTLT   78 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~---~~~~   78 (210)
                      -.+++.++|..|.|||||||.|+.......          ..+.........+.-++...+++++||||.-..   ...|
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w   99 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCW   99 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccc
Confidence            469999999999999999999987643321          112222333223333566789999999992211   1111


Q ss_pred             -----------hhhh-------------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           79 -----------SSYY-------------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        79 -----------~~~~-------------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                                 ..++             ..+|+++|.+..+.. .+..+.   ...+...  ...+.+|.|+-|.|....
T Consensus       100 ~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~gh-gL~p~D---i~~Mk~l--~~~vNiIPVI~KaD~lT~  173 (366)
T KOG2655|consen  100 RPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGH-GLKPLD---IEFMKKL--SKKVNLIPVIAKADTLTK  173 (366)
T ss_pred             hhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCC-CCcHhh---HHHHHHH--hccccccceeeccccCCH
Confidence                       1111             257999999987643 111111   1122222  256788999999997543


Q ss_pred             CccC--HHHHHHHHHHcCCeEEEecccCC
Q 028315          135 RAVT--REEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus       135 ~~~~--~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      .++.  ...+..-....++++|.......
T Consensus       174 ~El~~~K~~I~~~i~~~nI~vf~fp~~~~  202 (366)
T KOG2655|consen  174 DELNQFKKRIRQDIEEHNIKVFDFPTDES  202 (366)
T ss_pred             HHHHHHHHHHHHHHHHcCcceecCCCCcc
Confidence            3221  22334444566777766655544

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.84  E-value=1e-08  Score=79.59  Aligned_cols=58  Identities=22%  Similarity=0.373  Sum_probs=47.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...++++++|.||+|||||+|++.+.......+.++.|.....+.++.   .+.++||||.
T Consensus       116 ~~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       116 NRPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNRPGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeecceEEEEeCC---CEEEEECCCc
Confidence            456899999999999999999999887766677777777766666543   4689999996

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.83  E-value=1.5e-08  Score=79.04  Aligned_cols=59  Identities=24%  Similarity=0.384  Sum_probs=48.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      ...++++++|.||||||||+|++.+.......+.++.|.....+.++.   .+.++||||..
T Consensus       119 ~~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~~~---~~~l~DtPGi~  177 (287)
T PRK09563        119 PRAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNRPGVTKAQQWIKLGK---GLELLDTPGIL  177 (287)
T ss_pred             cCceEEEEECCCCCCHHHHHHHHhcCCccccCCCCCeEEEEEEEEeCC---cEEEEECCCcC
Confidence            456899999999999999999999887767777888877776655543   47799999963

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.82  E-value=8.2e-09  Score=81.58  Aligned_cols=57  Identities=23%  Similarity=0.383  Sum_probs=50.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ..++++++|.|+||||||||+|.+.......+.+|.|.....+.++..   +.++||||.
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~PG~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRPGTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCCceecceEEEEcCCC---eEEecCCCc
Confidence            458899999999999999999999998888888899999888877765   788999994

>cd01859 MJ1464 MJ1464

Probab=98.82  E-value=1.4e-08  Score=72.07  Aligned_cols=56  Identities=30%  Similarity=0.389  Sum_probs=42.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG   70 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G   70 (210)
                      ...+++++|.+++|||||++++.+.....+.++.+.+........+.   .+.+|||||
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~DtpG  155 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTSPSPGYTKGEQLVKITS---KIYLLDTPG  155 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccCCCCCeeeeeEEEEcCC---CEEEEECcC
Confidence            45788999999999999999998766656677777665543333332   588999998

This family represents archaeal GTPase typified by the protein MJ1464 from Methanococcus jannaschii. The members of this family show a circular permutation of the GTPase signature motifs so that C-terminal strands 5, 6, and 7 (strands 6 contain the NKxD motif) are relocated to the N terminus.

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.81  E-value=4.9e-09  Score=83.12  Aligned_cols=136  Identities=16%  Similarity=0.187  Sum_probs=102.5

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCC--------CCC---------CCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNS--------VHD---------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~--------~~~---------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...+--||+++.+..+||||.-.|++.-.        ...         .....|++.....+.++..++++.++||||+
T Consensus        33 ~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpgh  112 (753)
T KOG0464|consen   33 AIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGH  112 (753)
T ss_pred             chhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCc
Confidence            33456689999999999999999875321        111         1234578888888999999999999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  151 (210)
                      -.|.-.....++-.|+++.|||++-+-..+.+. .|++.     .+.++|....+||+|....+-  .........++++
T Consensus       113 vdf~leverclrvldgavav~dasagve~qtlt-vwrqa-----dk~~ip~~~finkmdk~~anf--e~avdsi~ekl~a  184 (753)
T KOG0464|consen  113 VDFRLEVERCLRVLDGAVAVFDASAGVEAQTLT-VWRQA-----DKFKIPAHCFINKMDKLAANF--ENAVDSIEEKLGA  184 (753)
T ss_pred             ceEEEEHHHHHHHhcCeEEEEeccCCcccceee-eehhc-----cccCCchhhhhhhhhhhhhhh--hhHHHHHHHHhCC
Confidence            999999999999999999999999876666666 56544     357889999999999754321  1223344555665


Q ss_pred             e
Q 028315          152 L  152 (210)
Q Consensus       152 ~  152 (210)
                      .
T Consensus       185 k  185 (753)
T KOG0464|consen  185 K  185 (753)
T ss_pred             c
Confidence            4

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.79  E-value=2.2e-08  Score=80.46  Aligned_cols=95  Identities=21%  Similarity=0.177  Sum_probs=69.0

Q ss_pred             CcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH----HH
Q 028315           71 QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI----LA  146 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~~  146 (210)
                      .+.|..+...+++.++++++|+|+.+...      .|...+....  .+.|+++|+||+|+.+. ....+....    +.
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~------s~~~~l~~~~--~~~piilV~NK~DLl~k-~~~~~~~~~~l~~~~  120 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEG------SLIPELKRFV--GGNPVLLVGNKIDLLPK-SVNLSKIKEWMKKRA  120 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCC------CccHHHHHHh--CCCCEEEEEEchhhCCC-CCCHHHHHHHHHHHH
Confidence            45677777788889999999999977542      3444444443  36799999999998653 333333332    34


Q ss_pred             HHcCC---eEEEecccCCcCHHHHHHHHHHH
Q 028315          147 QEHKC---LFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       147 ~~~~~---~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ...++   .++.+||++|.|++++++.+.+.
T Consensus       121 k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       121 KELGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             HHcCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            55665   48999999999999999998664

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.77  E-value=5.5e-08  Score=77.54  Aligned_cols=87  Identities=15%  Similarity=0.101  Sum_probs=64.4

Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc-CHHHHHHHHHHcCCeEEEecccC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV-TREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      ..++|.+++|++.....++..+. .|+....    ..++|.++|+||+|+.+.... ...+........+.+++.+||++
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ld-r~L~~a~----~~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~t  192 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIID-RYLVACE----TLGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHT  192 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHH-HHHHHHH----hcCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCC
Confidence            46799999999998777888777 6665443    356899999999999653211 11122233345678999999999


Q ss_pred             CcCHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLY  173 (210)
Q Consensus       161 ~~~i~~l~~~i~~  173 (210)
                      +.|++++++.|..
T Consensus       193 g~GideL~~~L~~  205 (347)
T PRK12288        193 GEGLEELEAALTG  205 (347)
T ss_pred             CcCHHHHHHHHhh
Confidence            9999999988865

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=98.77  E-value=1.3e-08  Score=79.85  Aligned_cols=166  Identities=15%  Similarity=0.189  Sum_probs=97.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-------------------CCCce-----ee---------------EEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-------------------PSPTI-----GV---------------DFKIK   52 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-------------------~~~~~-----~~---------------~~~~~   52 (210)
                      -++||+++|+..+|||||+.-|..+....                   .....     +.               .....
T Consensus       132 ~E~RVAVVGNVDAGKSTLLGVLTHgeLDnGRG~ARqkLFRHKHEiESGRTSSVGNDILGFD~~GNvVNKPD~Hg~~LdWv  211 (641)
T KOG0463|consen  132 IEARVAVVGNVDAGKSTLLGVLTHGELDNGRGAARQKLFRHKHEIESGRTSSVGNDILGFDVHGNVVNKPDPHGHNLDWV  211 (641)
T ss_pred             eeEEEEEEecccCCcceeEeeeeecccccCccHHHHHHhhhhhhcccCccccccccceeeccccccccCCCCCCCcccce
Confidence            37999999999999999987663321110                   11111     11               11111


Q ss_pred             EEEECCeEEEEEEEeCCCCcccccch--hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           53 LLTVGGKRLKLTIWDTAGQERFGTLT--SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        53 ~~~~~~~~~~~~l~Dt~G~~~~~~~~--~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                      .+ ..+...-+.|+|++|++.|....  ...-+-.|-.++++.++-..-  ...   .+.+.. .....+|++||++|+|
T Consensus       212 kI-ce~saKviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGIi--GmT---KEHLgL-ALaL~VPVfvVVTKID  284 (641)
T KOG0463|consen  212 KI-CEDSAKVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGII--GMT---KEHLGL-ALALHVPVFVVVTKID  284 (641)
T ss_pred             ee-ccccceeEEEEeccchhhhhheeeeccccCCCCceEEEecccccce--ecc---HHhhhh-hhhhcCcEEEEEEeec
Confidence            11 12223467899999999985432  222344688888887765421  111   111111 1135789999999999


Q ss_pred             CCCCCccCHHH--HHHHHHH--------------------------cCCeEEEecccCCcCHHHHHHHHHHHHHccchhh
Q 028315          131 RDSERAVTREE--GMILAQE--------------------------HKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL  182 (210)
Q Consensus       131 l~~~~~~~~~~--~~~~~~~--------------------------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~~  182 (210)
                      ..+.+.+.+..  ...+.+.                          .-+++|++|-.+|.|++. +..++..+..+++..
T Consensus       285 MCPANiLqEtmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~L-LkmFLNlls~R~~~~  363 (641)
T KOG0463|consen  285 MCPANILQETMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLPL-LKMFLNLLSLRRQLN  363 (641)
T ss_pred             cCcHHHHHHHHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChHH-HHHHHhhcCcccccc
Confidence            98765443221  1111111                          125789999999999875 667777777777766


Q ss_pred             hcc
Q 028315          183 EQG  185 (210)
Q Consensus       183 ~~~  185 (210)
                      +++
T Consensus       364 E~~  366 (641)
T KOG0463|consen  364 END  366 (641)
T ss_pred             cCC
Confidence            654

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.76  E-value=2.6e-08  Score=75.14  Aligned_cols=155  Identities=17%  Similarity=0.108  Sum_probs=93.8

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCC----------Ccccccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAG----------QERFGTL   77 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G----------~~~~~~~   77 (210)
                      .....+++++|.+++|||+|++.+...+...  ..+..+.+.......+.   -.+.+.|.||          ...+...
T Consensus       133 k~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f~v~---~~~~~vDlPG~~~a~y~~~~~~d~~~~  209 (320)
T KOG2486|consen  133 KDKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHFHVG---KSWYEVDLPGYGRAGYGFELPADWDKF  209 (320)
T ss_pred             CCCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeeeecc---ceEEEEecCCcccccCCccCcchHhHh
Confidence            3567899999999999999999998776444  33355554444333333   4567779999          1222333


Q ss_pred             hhhhhc---cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC-------ccCHHH-HHHHH
Q 028315           78 TSSYYR---GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER-------AVTREE-GMILA  146 (210)
Q Consensus        78 ~~~~~~---~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~-------~~~~~~-~~~~~  146 (210)
                      ...++.   +--.+++++|++-+..  .......++++    ..++|..+|+||+|....-       ...... ...+.
T Consensus       210 t~~Y~leR~nLv~~FLLvd~sv~i~--~~D~~~i~~~g----e~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~  283 (320)
T KOG2486|consen  210 TKSYLLERENLVRVFLLVDASVPIQ--PTDNPEIAWLG----ENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLI  283 (320)
T ss_pred             HHHHHHhhhhhheeeeeeeccCCCC--CCChHHHHHHh----hcCCCeEEeeehhhhhhhccccccCccccceeehhhcc
Confidence            444443   2346677788876532  22212333343    4789999999999964210       011000 11111


Q ss_pred             H---HcCCeEEEecccCCcCHHHHHHHHHH
Q 028315          147 Q---EHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       147 ~---~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      .   .-..+++.+|+.++.|+++++-.+.+
T Consensus       284 ~~~f~~~~Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  284 RGVFLVDLPWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             ccceeccCCceeeecccccCceeeeeehhh
Confidence            1   11246788999999999998765554

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.75  E-value=2.6e-07  Score=77.44  Aligned_cols=142  Identities=17%  Similarity=0.266  Sum_probs=84.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEE--------------------------------------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKI--------------------------------------   51 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~--------------------------------------   51 (210)
                      ...||+|.|..++||||++|.++....-+  ..+++..-..+                                      
T Consensus       108 ~~mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~~  187 (749)
T KOG0448|consen  108 RHMKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHTTNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDLG  187 (749)
T ss_pred             cccEEEEeCCCCCcHHHHHHHHHHHhhCcccccccceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCcccccC
Confidence            56899999999999999999997654322  22221110000                                      


Q ss_pred             -----EEEEECCe----EEEEEEEeCCCCc---ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCC
Q 028315           52 -----KLLTVGGK----RLKLTIWDTAGQE---RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD  119 (210)
Q Consensus        52 -----~~~~~~~~----~~~~~l~Dt~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~  119 (210)
                           ..++-+++    .-.+.++|.||.+   ....-...+-.++|++|+|.++.+..+..+-  .+.....    ..+
T Consensus       188 ~~sLlrV~~p~~~csLLrnDivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~sek--~Ff~~vs----~~K  261 (749)
T KOG0448|consen  188 AGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSEK--QFFHKVS----EEK  261 (749)
T ss_pred             cceEEEEEecCccchhhhccceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHHH--HHHHHhh----ccC
Confidence                 00111110    1256788999843   3344455667889999999999887543332  3333332    224


Q ss_pred             CcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC--------eEEEeccc
Q 028315          120 CVKILVGNKVDRDSERAVTREEGMILAQEHKC--------LFLECSAK  159 (210)
Q Consensus       120 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~--------~~~~~sa~  159 (210)
                      ..++|+.||+|.........+++......+++        .+|++||+
T Consensus       262 pniFIlnnkwDasase~ec~e~V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  262 PNIFILNNKWDASASEPECKEDVLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             CcEEEEechhhhhcccHHHHHHHHHHHHhcCcccHhhhcCeeEEEecc
Confidence            45678889999876544444444444333322        38999966

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=98.75  E-value=3.1e-07  Score=68.00  Aligned_cols=156  Identities=21%  Similarity=0.284  Sum_probs=84.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-------CCCce-eeEEEEEEEEE--CCeEEEEEEEeCCCCccc---ccch
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-------PSPTI-GVDFKIKLLTV--GGKRLKLTIWDTAGQERF---GTLT   78 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-------~~~~~-~~~~~~~~~~~--~~~~~~~~l~Dt~G~~~~---~~~~   78 (210)
                      -.+||.++|.+|.|||||+|.++......       ..|.+ .++.......+  .+-..++.++||||.-.+   ...|
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncW  124 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCW  124 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchh
Confidence            46999999999999999999986543222       11111 12222222223  455678889999993221   1222


Q ss_pred             h-----------hhh--------------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           79 S-----------SYY--------------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        79 ~-----------~~~--------------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .           .|+              ..+++++|.+..+.. ++..+.-.++..+.     .-+.++.|+-|.|-..
T Consensus       125 ePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGh-sLrplDieflkrLt-----~vvNvvPVIakaDtlT  198 (336)
T KOG1547|consen  125 EPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGH-SLRPLDIEFLKRLT-----EVVNVVPVIAKADTLT  198 (336)
T ss_pred             HHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCC-ccCcccHHHHHHHh-----hhheeeeeEeeccccc
Confidence            2           122              246889998887753 22222212222222     2346788888999532


Q ss_pred             --CCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315          134 --ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       134 --~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                        ++..-.+.++.-...+++.++.-.+.+...-+..++.-++
T Consensus       199 leEr~~FkqrI~~el~~~~i~vYPq~~fded~ed~~lN~kvR  240 (336)
T KOG1547|consen  199 LEERSAFKQRIRKELEKHGIDVYPQDSFDEDLEDKTLNDKVR  240 (336)
T ss_pred             HHHHHHHHHHHHHHHHhcCcccccccccccchhHHHHHHHHH
Confidence              1111122333334556777666655554444444444333

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.74  E-value=1.2e-07  Score=78.07  Aligned_cols=140  Identities=15%  Similarity=0.139  Sum_probs=86.2

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..-++++-|+++|+||+||||||+.|...........+....+    .+.+...+++|+++|.+  .. .+.....-+|.
T Consensus        64 ~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiT----vvsgK~RRiTflEcp~D--l~-~miDvaKIaDL  136 (1077)
T COG5192          64 KDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPIT----VVSGKTRRITFLECPSD--LH-QMIDVAKIADL  136 (1077)
T ss_pred             ccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceE----EeecceeEEEEEeChHH--HH-HHHhHHHhhhe
Confidence            3346678899999999999999998865543332222211122    34567789999999932  22 22234567999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccCHHHHHHH-----H-HHcCCeEEEecccC
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVTREEGMIL-----A-QEHKCLFLECSAKN  160 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~~~~~~~~-----~-~~~~~~~~~~sa~~  160 (210)
                      +++++|.+-+-..+.+  .|+.++..    .+.| ++-|+|..|+-....-....-..+     . -..|+.+|.+|...
T Consensus       137 VlLlIdgnfGfEMETm--EFLnil~~----HGmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         137 VLLLIDGNFGFEMETM--EFLNILIS----HGMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             eEEEeccccCceehHH--HHHHHHhh----cCCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            9999999876433433  45565553    4445 567889999854322111111111     1 12378899988764

>cd01855 YqeH YqeH

Probab=98.72  E-value=3.1e-08  Score=72.65  Aligned_cols=56  Identities=23%  Similarity=0.469  Sum_probs=42.6

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCC--------CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSV--------HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ..+++++|.+|+|||||+|.+.+...        ....+.++++.....+.+..   .+.++||||.
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~---~~~~~DtPG~  190 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPLGN---GKKLYDTPGI  190 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEecCC---CCEEEeCcCC
Confidence            35899999999999999999987542        12456667777776666653   4688999993

YqeH is an essential GTP-binding protein. Depletion of YqeH induces an excess initiation of DNA replication, suggesting that it negatively controls initiation of chromosome replication. The YqeH subfamily is common in eukaryotes and sporadically present in bacteria with probable acquisition by plants from chloroplasts. Proteins of the YqeH family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.71  E-value=6.8e-08  Score=81.64  Aligned_cols=115  Identities=23%  Similarity=0.271  Sum_probs=86.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCC---------------CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSV---------------HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF   74 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   74 (210)
                      .+..-|++++.+..-|||||+..|....-               .+...+.|++.....+..-...+.++++|+|||-+|
T Consensus         6 ~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf   85 (887)
T KOG0467|consen    6 SEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDF   85 (887)
T ss_pred             CCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccch
Confidence            35667899999999999999999864321               223456677777666666667889999999999999


Q ss_pred             ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                      .+......+-+|++++++|+..+.--+... ..++..     ..+...++|+||+|
T Consensus        86 ~sevssas~l~d~alvlvdvvegv~~qt~~-vlrq~~-----~~~~~~~lvinkid  135 (887)
T KOG0467|consen   86 SSEVSSASRLSDGALVLVDVVEGVCSQTYA-VLRQAW-----IEGLKPILVINKID  135 (887)
T ss_pred             hhhhhhhhhhcCCcEEEEeeccccchhHHH-HHHHHH-----HccCceEEEEehhh
Confidence            999999999999999999999865433332 111111     23455688999999

>cd01858 NGP_1 NGP-1

Probab=98.70  E-value=7.2e-08  Score=68.53  Aligned_cols=91  Identities=15%  Similarity=-0.013  Sum_probs=58.7

Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      .+.++|++++|+|+.++..... . .+...+.. . ..+.|+++|+||+|+.+...+ ......+...+...++.+||+.
T Consensus         5 ~l~~aD~il~VvD~~~p~~~~~-~-~i~~~l~~-~-~~~~p~ilVlNKiDl~~~~~~-~~~~~~~~~~~~~~~~~iSa~~   79 (157)
T cd01858           5 VIDSSDVVIQVLDARDPMGTRC-K-HVEEYLKK-E-KPHKHLIFVLNKCDLVPTWVT-ARWVKILSKEYPTIAFHASINN   79 (157)
T ss_pred             hhhhCCEEEEEEECCCCccccC-H-HHHHHHHh-c-cCCCCEEEEEEchhcCCHHHH-HHHHHHHhcCCcEEEEEeeccc
Confidence            4678999999999998743211 1 23333332 1 345899999999999643221 1122222222333368899999


Q ss_pred             CcCHHHHHHHHHHHHH
Q 028315          161 TEDVKQCFKDLLYKIL  176 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~  176 (210)
                      +.|++++++.+.+.+.
T Consensus        80 ~~~~~~L~~~l~~~~~   95 (157)
T cd01858          80 PFGKGSLIQLLRQFSK   95 (157)
T ss_pred             cccHHHHHHHHHHHHh
Confidence            9999999999876543

Autoantigen NGP-1 (Nucleolar G-protein gene 1) has been shown to localize in the nucleolus and nucleolar organizers in all cell types analyzed, which is indicative of a function in ribosomal assembly. NGP-1 and its homologs show a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with NKXD motif) are relocated to the N terminus.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.70  E-value=4.2e-08  Score=69.60  Aligned_cols=58  Identities=24%  Similarity=0.308  Sum_probs=42.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ....+++++|.+|+|||||+|.+.+.......+..+++........+   ..+.++||||.
T Consensus        98 ~~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~~~~t~~~~~~~~~---~~~~liDtPG~  155 (155)
T cd01849          98 KKSITVGVIGYPNVGKSSVINALLNKLKLKVGNVPGTTTSQQEVKLD---NKIKLLDTPGI  155 (155)
T ss_pred             ccCcEEEEEccCCCCHHHHHHHHHccccccccCCCCcccceEEEEec---CCEEEEECCCC
Confidence            34688999999999999999999887654444445555555444443   34788899983

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.68  E-value=3.7e-08  Score=81.41  Aligned_cols=119  Identities=18%  Similarity=0.200  Sum_probs=89.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCC-----CC------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSV-----HD------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~-----~~------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   73 (210)
                      .+.-+|.+.-+-.+||||+-++++...-     .+            .....+++..........++++++++|||||-.
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvD  116 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVD  116 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCcee
Confidence            4566889999999999999999753211     11            112335555555555566689999999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      |.-.....++-.|++++|+|+..+-.-+... .|+++-     ..++|-+..+||+|.....
T Consensus       117 FT~EVeRALrVlDGaVlvl~aV~GVqsQt~t-V~rQ~~-----ry~vP~i~FiNKmDRmGa~  172 (721)
T KOG0465|consen  117 FTFEVERALRVLDGAVLVLDAVAGVESQTET-VWRQMK-----RYNVPRICFINKMDRMGAS  172 (721)
T ss_pred             EEEEehhhhhhccCeEEEEEcccceehhhHH-HHHHHH-----hcCCCeEEEEehhhhcCCC
Confidence            9988899999999999999999876555555 676654     3688999999999975543

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.65  E-value=4.6e-07  Score=67.22  Aligned_cols=168  Identities=21%  Similarity=0.251  Sum_probs=97.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-cc--chhhhhccccEEEEE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-GT--LTSSYYRGAHGIILV   91 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-~~--~~~~~~~~~d~~i~v   91 (210)
                      +|+++|...+|||++-.-.+....+...-....+-....-++.+.-+.+++||.||+-.+ ..  -....++.+.+.++|
T Consensus        29 ~ilLMG~rRsGKsSI~KVVFhkMsPneTlflESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifv  108 (347)
T KOG3887|consen   29 RILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFV  108 (347)
T ss_pred             eEEEEeecccCcchhhheeeeccCCCceeEeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEEEE
Confidence            499999999999996654433332222111111111111234445678999999997544 22  335568999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhh-hccCCCCcEEEEEeCCCCCCC-CccCHH-HHHHH----HHHcC---C--eEEEeccc
Q 028315           92 YDVTRRETFTNLSSVWAKEVEL-YSTNQDCVKILVGNKVDRDSE-RAVTRE-EGMIL----AQEHK---C--LFLECSAK  159 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~-~~~~~~~p~ivv~nK~Dl~~~-~~~~~~-~~~~~----~~~~~---~--~~~~~sa~  159 (210)
                      +|+.+. ..+.+. .+...+.+ +.-++++.+=|.+.|.|...+ -.+..+ ++.+.    ....|   +  .++-+|. 
T Consensus       109 IDaQdd-y~eala-~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTSI-  185 (347)
T KOG3887|consen  109 IDAQDD-YMEALA-RLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTSI-  185 (347)
T ss_pred             EechHH-HHHHHH-HHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEeee-
Confidence            998764 233333 33333322 233567888899999996432 111111 11111    11112   2  3444444 


Q ss_pred             CCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          160 NTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      -...|-|.|..+++.+...-+.++..
T Consensus       186 yDHSIfEAFSkvVQkLipqLptLEnl  211 (347)
T KOG3887|consen  186 YDHSIFEAFSKVVQKLIPQLPTLENL  211 (347)
T ss_pred             cchHHHHHHHHHHHHHhhhchhHHHH
Confidence            45678888999999888776655543

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.64  E-value=1e-07  Score=73.79  Aligned_cols=86  Identities=26%  Similarity=0.264  Sum_probs=59.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECC---------------eEEEEEEEeCCCC---
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGG---------------KRLKLTIWDTAGQ---   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~---------------~~~~~~l~Dt~G~---   71 (210)
                      .+.++++|+|.|++|||||+|.+....... ..|...++-....+.+..               ....++++|++|.   
T Consensus        18 ~~~lkiGIVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkG   97 (391)
T KOG1491|consen   18 GNNLKIGIVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKG   97 (391)
T ss_pred             CCcceeeEeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccC
Confidence            467899999999999999999998877654 445444444444444321               1357889999882   


Q ss_pred             ----cccccchhhhhccccEEEEEEeCCC
Q 028315           72 ----ERFGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        72 ----~~~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                          +....-.-..++++|+++-|+++..
T Consensus        98 As~G~GLGN~FLs~iR~vDaifhVVr~f~  126 (391)
T KOG1491|consen   98 ASAGEGLGNKFLSHIRHVDAIFHVVRAFE  126 (391)
T ss_pred             cccCcCchHHHHHhhhhccceeEEEEecC
Confidence                1222223344688999999998874

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.63  E-value=1.4e-06  Score=65.48  Aligned_cols=87  Identities=17%  Similarity=0.035  Sum_probs=54.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--CCCCCC----CceeeEEEEEEEEECCeEEEEEEEeCCCCccccc------ch
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--SVHDPS----PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT------LT   78 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~~~----~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~------~~   78 (210)
                      .+..-|+++|++++|||+|+|++++.  .+....    .|.|.-....... .+....+.++||+|......      ..
T Consensus         5 ~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~-~~~~~~v~~lDteG~~~~~~~~~~~~~~   83 (224)
T cd01851           5 FPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFK-LGKEHAVLLLDTEGTDGRERGEFEDDAR   83 (224)
T ss_pred             CCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEecccc-CCCcceEEEEecCCcCccccCchhhhhH
Confidence            34567899999999999999999988  554422    2222222211111 12356899999999543322      11


Q ss_pred             hhhhcc--ccEEEEEEeCCCHh
Q 028315           79 SSYYRG--AHGIILVYDVTRRE   98 (210)
Q Consensus        79 ~~~~~~--~d~~i~v~d~~~~~   98 (210)
                      ...+..  ++++|+..+.....
T Consensus        84 ~~~l~~llss~~i~n~~~~~~~  105 (224)
T cd01851          84 LFALATLLSSVLIYNSWETILG  105 (224)
T ss_pred             HHHHHHHHhCEEEEeccCcccH
Confidence            222333  78888888876543

Guanylate-binding proteins (GBPs) define a group of proteins that are synthesized after activation of the cell by interferons. The biochemical properties of GBPs are clearly different from those of Ras-like and heterotrimeric GTP-binding proteins. They bind guanine nucleotides with low affinity (micromolar range), are stable in their absence and have a high turnover GTPase. In addition to binding GDP/GTP, they have the unique ability to bind GMP with equal affinity and hydrolyze GTP not only to GDP, but also to GMP. Furthermore, two unique regions around the base and the phosphate-binding areas, the guanine and the phosphate caps, respectively, give the nucleotide-binding site a unique appearance not found in the canonical GTP-binding proteins. The phosphate cap, which constitutes the region analogous to switch I, completely shields the phosphate-binding site from solvent such that a potential GTPase-activating protein

>TIGR00092 GTP-binding protein YchF

Probab=98.63  E-value=1.6e-07  Score=74.82  Aligned_cols=82  Identities=16%  Similarity=0.111  Sum_probs=55.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC-CC-CCCceeeEEEEEEEEECCe---------------EEEEEEEeCCCCcc---
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV-HD-PSPTIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQER---   73 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~-~~-~~~~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~---   73 (210)
                      ++++++|.|++|||||++.+++... .. .+|.....-....+.+.+.               ...+.+.|.||.-.   
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs   82 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGAS   82 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchh
Confidence            7899999999999999999988776 33 3333322333333333332               23678889999432   


Q ss_pred             ----cccchhhhhccccEEEEEEeCC
Q 028315           74 ----FGTLTSSYYRGAHGIILVYDVT   95 (210)
Q Consensus        74 ----~~~~~~~~~~~~d~~i~v~d~~   95 (210)
                          .....-..++.+|++++|++..
T Consensus        83 ~g~Glgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        83 KGEGLGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cccCcchHHHHHHHhCCEEEEEEeCC
Confidence                2223344578999999999985

This predicted GTP-binding protein is found in a single copy in every complete bacterial genome, and is found in Eukaryotes. A more distantly related protein, separated from this model, is found in the archaea. It is known to bind GTP and double-stranded nucleic acid. It is suggested to belong to a nucleoprotein complex and act as a translation factor.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.62  E-value=1.7e-07  Score=66.50  Aligned_cols=85  Identities=16%  Similarity=0.051  Sum_probs=55.8

Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|+|+.++.+....   +...  ......++|+++|+||+|+.+...+ .+....+....+..++.+||++|.|++
T Consensus         1 Dvvl~VvD~~~p~~~~~~---~i~~--~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~   74 (155)
T cd01849           1 DVILEVLDARDPLGTRSP---DIER--VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIE   74 (155)
T ss_pred             CEEEEEEeccCCccccCH---HHHH--HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChh
Confidence            789999999987654322   1111  1111357899999999998543211 111112333345678999999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          166 QCFKDLLYKIL  176 (210)
Q Consensus       166 ~l~~~i~~~~~  176 (210)
                      ++++.+.+...
T Consensus        75 ~L~~~i~~~~~   85 (155)
T cd01849          75 KKESAFTKQTN   85 (155)
T ss_pred             hHHHHHHHHhH
Confidence            99999877643

These proteins are found in bacteria, eukaryotes, and archaea. They all exhibit a circular permutation of the GTPase signature motifs so that the order of the conserved G box motifs is G4-G5-G1-G2-G3, with G4 and G5 being permuted from the C-terminal region of proteins in the Ras superfamily to the N-terminus of YlqF-related GTPases.

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.60  E-value=1.5e-07  Score=72.95  Aligned_cols=143  Identities=15%  Similarity=0.063  Sum_probs=95.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC----------CCCC-----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN----------SVHD-----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~----------~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      +..||.-+|+..-|||||-..+..-          .+.+     .....|++.....+.+......+-=.|+|||..|-.
T Consensus        53 PHvNVGTIGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYIK  132 (449)
T KOG0460|consen   53 PHVNVGTIGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYIK  132 (449)
T ss_pred             CcccccccccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHHH
Confidence            5789999999999999998876321          1111     123456777777777766666666679999999987


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc---CHHHHHHHHHHcCC--
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV---TREEGMILAQEHKC--  151 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~~--  151 (210)
                      ++..-...-|++|+|+.++|..--+.-. .++  +.+..  .-..++|.+||.|+.++.+.   -+-+++++...+|+  
T Consensus       133 NMItGaaqMDGaILVVaatDG~MPQTrE-HlL--LArQV--GV~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~G  207 (449)
T KOG0460|consen  133 NMITGAAQMDGAILVVAATDGPMPQTRE-HLL--LARQV--GVKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDG  207 (449)
T ss_pred             HhhcCccccCceEEEEEcCCCCCcchHH-HHH--HHHHc--CCceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCC
Confidence            7766677889999999999975333222 221  12221  22457888999999854332   22345566666654  


Q ss_pred             ---eEEEeccc
Q 028315          152 ---LFLECSAK  159 (210)
Q Consensus       152 ---~~~~~sa~  159 (210)
                         |++.=||.
T Consensus       208 d~~PvI~GSAL  218 (449)
T KOG0460|consen  208 DNTPVIRGSAL  218 (449)
T ss_pred             CCCCeeecchh
Confidence               68876665

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.57  E-value=3.8e-07  Score=71.67  Aligned_cols=157  Identities=19%  Similarity=0.254  Sum_probs=94.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-C-----------------------CCceeeEEEEEEEEE----------C
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-P-----------------------SPTIGVDFKIKLLTV----------G   57 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~-----------------------~~~~~~~~~~~~~~~----------~   57 (210)
                      -++|++++|...+|||||+.-|..+.... .                       ....+.+-.-..+.+          +
T Consensus       166 ievRvAVlGg~D~GKSTLlGVLTQgeLDnG~GrARln~FRh~HEiqsGrTSsis~evlGFd~~g~vVNY~~~~taEEi~e  245 (591)
T KOG1143|consen  166 IEVRVAVLGGCDVGKSTLLGVLTQGELDNGNGRARLNIFRHPHEIQSGRTSSISNEVLGFDNRGKVVNYAQNMTAEEIVE  245 (591)
T ss_pred             eEEEEEEecCcccCcceeeeeeecccccCCCCeeeeehhcchhhhccCcccccchhcccccccccccchhhcccHHHHHh
Confidence            57999999999999999998875543221 0                       011121111111111          2


Q ss_pred             CeEEEEEEEeCCCCcccccchhhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           58 GKRLKLTIWDTAGQERFGTLTSSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      ....-+.|+|++|+..|......-+.  ..|.+++|+.+........-  ..+.++.    -.+.|++|+++|+|+....
T Consensus       246 ~SSKlvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~tTr--EHLgl~~----AL~iPfFvlvtK~Dl~~~~  319 (591)
T KOG1143|consen  246 KSSKLVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWTTR--EHLGLIA----ALNIPFFVLVTKMDLVDRQ  319 (591)
T ss_pred             hhcceEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccccH--HHHHHHH----HhCCCeEEEEEeeccccch
Confidence            22346789999999998654433333  36899999999877543221  1222222    3588999999999996532


Q ss_pred             cc------------------------CHHHHHHHHHH----cCCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          136 AV------------------------TREEGMILAQE----HKCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       136 ~~------------------------~~~~~~~~~~~----~~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      .+                        ..+++...+.+    .-.|+|.+|...|+|++- +..++.-+
T Consensus       320 ~~~~tv~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~l-l~~fLn~L  386 (591)
T KOG1143|consen  320 GLKKTVKDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLRL-LRTFLNCL  386 (591)
T ss_pred             hHHHHHHHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchhH-HHHHHhhc
Confidence            11                        11222222222    224799999999999876 44444433

>cd01856 YlqF YlqF

Probab=98.52  E-value=4.8e-07  Score=65.24  Aligned_cols=90  Identities=18%  Similarity=0.078  Sum_probs=60.1

Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEe
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      .....+.++|.+++|+|+.++......  .+...+      .+.|+++|+||+|+.+....  ....+.....+..++.+
T Consensus        12 ~~~~~i~~aD~il~v~D~~~~~~~~~~--~i~~~~------~~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~i   81 (171)
T cd01856          12 QIKEKLKLVDLVIEVRDARIPLSSRNP--LLEKIL------GNKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFV   81 (171)
T ss_pred             HHHHHHhhCCEEEEEeeccCccCcCCh--hhHhHh------cCCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEE
Confidence            345567899999999999876542211  122211      35689999999998543211  11112222334568999


Q ss_pred             cccCCcCHHHHHHHHHHHHH
Q 028315          157 SAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ||+++.|++++.+.+.+.+.
T Consensus        82 Sa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          82 NAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             ECCCcccHHHHHHHHHHHHH
Confidence            99999999999999888764

Proteins of the YlqF family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. The YlqF subfamily is represented in a phylogenetically diverse array of bacteria (including gram-positive bacteria, proteobacteria, Synechocystis, Borrelia, and Thermotoga) and in all eukaryotes.

>PRK12288 GTPase RsgA; Reviewed

Probab=98.52  E-value=2.1e-07  Score=74.17  Aligned_cols=57  Identities=25%  Similarity=0.387  Sum_probs=37.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCCCcee-------eEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPSPTIG-------VDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ++|+|.+|||||||||+|++..........+       +|.....+.+.+..   .++||||...+.
T Consensus       208 ~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~~---~liDTPGir~~~  271 (347)
T PRK12288        208 SIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHGG---DLIDSPGVREFG  271 (347)
T ss_pred             EEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCCC---EEEECCCCCccc
Confidence            6899999999999999998765433222111       23333334444332   478999987764

>PRK12289 GTPase RsgA; Reviewed

Probab=98.52  E-value=1.9e-07  Score=74.51  Aligned_cols=56  Identities=27%  Similarity=0.354  Sum_probs=38.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCCCcee-------eEEEEEEEEECCeEEEEEEEeCCCCccc
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPSPTIG-------VDFKIKLLTVGGKRLKLTIWDTAGQERF   74 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   74 (210)
                      ++|+|.+|||||||||+|++..........+       +|.....+.+....   .++||||...+
T Consensus       175 ~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~~  237 (352)
T PRK12289        175 TVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQP  237 (352)
T ss_pred             EEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCcccc
Confidence            7999999999999999998765544333333       44454444554333   57899997544

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.50  E-value=4.9e-06  Score=68.61  Aligned_cols=99  Identities=13%  Similarity=0.154  Sum_probs=63.7

Q ss_pred             EEEEEEeCCCC-------------cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEe
Q 028315           61 LKLTIWDTAGQ-------------ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN  127 (210)
Q Consensus        61 ~~~~l~Dt~G~-------------~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~n  127 (210)
                      .++.+.|+||.             +....+.+.++.+.+++|+|+--..-+....   ....++. .....+...|+|++
T Consensus       412 qRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGSVDAERS---nVTDLVs-q~DP~GrRTIfVLT  487 (980)
T KOG0447|consen  412 QRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGSVDAERS---IVTDLVS-QMDPHGRRTIFVLT  487 (980)
T ss_pred             ceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCCcchhhh---hHHHHHH-hcCCCCCeeEEEEe
Confidence            37889999992             1112345677889999999985443322211   1222222 22256778899999


Q ss_pred             CCCCCCCCccCHHHHHHHHHHcCC-----eEEEecccCCcC
Q 028315          128 KVDRDSERAVTREEGMILAQEHKC-----LFLECSAKNTED  163 (210)
Q Consensus       128 K~Dl~~~~~~~~~~~~~~~~~~~~-----~~~~~sa~~~~~  163 (210)
                      |.|+...+..++..++.+....-+     .||.+-.-.|..
T Consensus       488 KVDlAEknlA~PdRI~kIleGKLFPMKALGYfaVVTGrGns  528 (980)
T KOG0447|consen  488 KVDLAEKNVASPSRIQQIIEGKLFPMKALGYFAVVTGKGNS  528 (980)
T ss_pred             ecchhhhccCCHHHHHHHHhcCccchhhcceeEEEecCCCc
Confidence            999988877888888877665433     377766655543

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=98.50  E-value=8.8e-08  Score=70.54  Aligned_cols=123  Identities=15%  Similarity=0.172  Sum_probs=80.1

Q ss_pred             EECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCC----------HhhHHHHHHHHHHHHhhhccCCCCcEEE
Q 028315           55 TVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTR----------RETFTNLSSVWAKEVELYSTNQDCVKIL  124 (210)
Q Consensus        55 ~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~p~iv  124 (210)
                      .++...+.+.+.|.+|+...+.-|...+++.-.+++++.++.          ....++....+...+. +....+.++|+
T Consensus       193 pfdl~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~-yPWF~nssVIl  271 (359)
T KOG0085|consen  193 PFDLQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIIT-YPWFQNSSVIL  271 (359)
T ss_pred             CcchhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhc-cccccCCceEE
Confidence            344555677788999998888888888887777776666553          2334444433444333 33357889999


Q ss_pred             EEeCCCCCCC----------------CccCHHHHHHHHHHc----C------CeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          125 VGNKVDRDSE----------------RAVTREEGMILAQEH----K------CLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       125 v~nK~Dl~~~----------------~~~~~~~~~~~~~~~----~------~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      .+||.|+..+                ..-+.+.+.+|....    +      +.-..+.|.+..||.-+|..+...+++.
T Consensus       272 FLNKkDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~  351 (359)
T KOG0085|consen  272 FLNKKDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  351 (359)
T ss_pred             EechhhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHh
Confidence            9999998532                122333444444321    2      1246788999999999999988877653

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.50  E-value=8.9e-06  Score=56.88  Aligned_cols=147  Identities=19%  Similarity=0.250  Sum_probs=81.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCC-CC--------------ccc--
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA-GQ--------------ERF--   74 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~-G~--------------~~~--   74 (210)
                      ..+||++.|+||+||||++.++...-.......-|  +.+..+.-.+...-|.+.|+. |.              ..|  
T Consensus         4 ~~mki~ITG~PGvGKtTl~~ki~e~L~~~g~kvgG--f~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V   81 (179)
T COG1618           4 MAMKIFITGRPGVGKTTLVLKIAEKLREKGYKVGG--FITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGV   81 (179)
T ss_pred             cceEEEEeCCCCccHHHHHHHHHHHHHhcCceeee--EEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEe
Confidence            46899999999999999999886433222222222  333344455666666666766 21              111  


Q ss_pred             -----c----cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH
Q 028315           75 -----G----TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL  145 (210)
Q Consensus        75 -----~----~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~  145 (210)
                           .    ...+..++.+|++  ++|=-.+..+.  ...+...++... +.+.|++.++.+.+..+       ..+. 
T Consensus        82 ~v~~le~i~~~al~rA~~~aDvI--IIDEIGpMElk--s~~f~~~ve~vl-~~~kpliatlHrrsr~P-------~v~~-  148 (179)
T COG1618          82 NVEGLEEIAIPALRRALEEADVI--IIDEIGPMELK--SKKFREAVEEVL-KSGKPLIATLHRRSRHP-------LVQR-  148 (179)
T ss_pred             eHHHHHHHhHHHHHHHhhcCCEE--EEecccchhhc--cHHHHHHHHHHh-cCCCcEEEEEecccCCh-------HHHH-
Confidence                 1    1112233456655  45666554332  224556665555 57788888887775311       1222 


Q ss_pred             HHHcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          146 AQEHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       146 ~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ....+..++.   .+..|=+.++..+...+-
T Consensus       149 ik~~~~v~v~---lt~~NR~~i~~~Il~~L~  176 (179)
T COG1618         149 IKKLGGVYVF---LTPENRNRILNEILSVLK  176 (179)
T ss_pred             hhhcCCEEEE---EccchhhHHHHHHHHHhc
Confidence            2333333333   455566678887777654

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.48  E-value=2.9e-06  Score=66.98  Aligned_cols=141  Identities=22%  Similarity=0.220  Sum_probs=78.6

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-------CCCc---------------eeeEEEEEEEEE-------------C
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-------PSPT---------------IGVDFKIKLLTV-------------G   57 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-------~~~~---------------~~~~~~~~~~~~-------------~   57 (210)
                      .-.++++|++|+||||++..+.......       ..++               .+..+.......             .
T Consensus       114 ~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~~~  193 (318)
T PRK10416        114 PFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQAAK  193 (318)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHHHH
Confidence            4678999999999999999875321110       0010               011111100000             1


Q ss_pred             CeEEEEEEEeCCCCcccccc----hhhhh--------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEE
Q 028315           58 GKRLKLTIWDTAGQERFGTL----TSSYY--------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV  125 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~----~~~~~--------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv  125 (210)
                      ...+.+.++||||.......    ...+.        ...+..++|+|++...  ..+. .......     .-.+.-+|
T Consensus       194 ~~~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~--~~~~-~a~~f~~-----~~~~~giI  265 (318)
T PRK10416        194 ARGIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQ--NALS-QAKAFHE-----AVGLTGII  265 (318)
T ss_pred             hCCCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCCh--HHHH-HHHHHHh-----hCCCCEEE
Confidence            23467899999996443221    11111        2467889999999653  2222 1112111     11244688


Q ss_pred             EeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315          126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus       126 ~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +||.|......    .+.......+.|+..++  +|.+++++
T Consensus       266 lTKlD~t~~~G----~~l~~~~~~~~Pi~~v~--~Gq~~~Dl  301 (318)
T PRK10416        266 LTKLDGTAKGG----VVFAIADELGIPIKFIG--VGEGIDDL  301 (318)
T ss_pred             EECCCCCCCcc----HHHHHHHHHCCCEEEEe--CCCChhhC
Confidence            99999643221    34455566789988888  67777765

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.45  E-value=1.4e-06  Score=67.30  Aligned_cols=96  Identities=17%  Similarity=0.110  Sum_probs=56.7

Q ss_pred             eEEEEEEEeCCCCcccccch----hhh---h-----ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEE
Q 028315           59 KRLKLTIWDTAGQERFGTLT----SSY---Y-----RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG  126 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~----~~~---~-----~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~  126 (210)
                      .++.+.++||||....+...    ..+   .     ..+|.+++|+|++...  +.+. ........    . .+.-+|+
T Consensus       153 ~~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~-~~~~f~~~----~-~~~g~Il  224 (272)
T TIGR00064       153 RNIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALE-QAKVFNEA----V-GLTGIIL  224 (272)
T ss_pred             CCCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHH-HHHHHHhh----C-CCCEEEE
Confidence            34688999999965433221    111   1     1389999999998543  2222 22222211    1 1457889


Q ss_pred             eCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315          127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       127 nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ||.|......    .+..+....+.|+.+++  +|.+++++-
T Consensus       225 TKlDe~~~~G----~~l~~~~~~~~Pi~~~~--~Gq~~~dl~  260 (272)
T TIGR00064       225 TKLDGTAKGG----IILSIAYELKLPIKFIG--VGEKIDDLA  260 (272)
T ss_pred             EccCCCCCcc----HHHHHHHHHCcCEEEEe--CCCChHhCc
Confidence            9999754322    23444556688988887  667677653

There is a weak division between FtsY and SRP54; both are GTPases. In E.coli, ftsY is an essential gene located in an operon with cell division genes ftsE and ftsX, but its apparent function is as the signal recognition particle docking protein.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.45  E-value=8.3e-06  Score=65.54  Aligned_cols=155  Identities=19%  Similarity=0.286  Sum_probs=89.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC---------------CCCceeeEEEEE----------EEEE-CCeEEEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD---------------PSPTIGVDFKIK----------LLTV-GGKRLKLTIW   66 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~---------------~~~~~~~~~~~~----------~~~~-~~~~~~~~l~   66 (210)
                      .+=|+++|+..+||||||.||.....-+               .....|.+..+.          .+.+ ++-.+++.++
T Consensus        17 dIYiGVVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLi   96 (492)
T PF09547_consen   17 DIYIGVVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLI   96 (492)
T ss_pred             ceEEEeecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEE
Confidence            3668999999999999999996432111               111112222111          2233 4667889999


Q ss_pred             eCCC--------Cc-----------ccccchh---hh-------h--ccccEEEEEEeCC----CHhhHHHHHHHHHHHH
Q 028315           67 DTAG--------QE-----------RFGTLTS---SY-------Y--RGAHGIILVYDVT----RRETFTNLSSVWAKEV  111 (210)
Q Consensus        67 Dt~G--------~~-----------~~~~~~~---~~-------~--~~~d~~i~v~d~~----~~~~~~~~~~~~~~~~  111 (210)
                      |+-|        +.           .|.....   +.       +  +..=++++--|.+    .++.+..+.+.....|
T Consensus        97 DCVGy~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~EL  176 (492)
T PF09547_consen   97 DCVGYMVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEEL  176 (492)
T ss_pred             eecceeecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHH
Confidence            9988        11           1110000   00       0  1122444444444    2445555555555555


Q ss_pred             hhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC--CcCHHHHHHHHHH
Q 028315          112 ELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN--TEDVKQCFKDLLY  173 (210)
Q Consensus       112 ~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~--~~~i~~l~~~i~~  173 (210)
                      .    .-++|++|++|-.+..  .....+.+..+..+++++++.+++..  ...|..++..++-
T Consensus       177 k----~igKPFvillNs~~P~--s~et~~L~~eL~ekY~vpVlpvnc~~l~~~DI~~Il~~vLy  234 (492)
T PF09547_consen  177 K----EIGKPFVILLNSTKPY--SEETQELAEELEEKYDVPVLPVNCEQLREEDITRILEEVLY  234 (492)
T ss_pred             H----HhCCCEEEEEeCCCCC--CHHHHHHHHHHHHHhCCcEEEeehHHcCHHHHHHHHHHHHh
Confidence            5    4678999999998743  33455677788889999988887763  3455555544443

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.45  E-value=9.3e-08  Score=73.12  Aligned_cols=161  Identities=17%  Similarity=0.126  Sum_probs=94.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC------CCCceee------------------EEEEEE---------EE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD------PSPTIGV------------------DFKIKL---------LT   55 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~------~~~~~~~------------------~~~~~~---------~~   55 (210)
                      +++-++||.-+|+..-||||++..+.+-.-..      ..-|+..                  ..+...         ..
T Consensus        34 sRQATiNIGTIGHVAHGKSTvVkAiSGv~TvrFK~ELERNITIKLGYANAKIYkc~~~kCprP~cy~s~gS~k~d~~~c~  113 (466)
T KOG0466|consen   34 SRQATINIGTIGHVAHGKSTVVKAISGVHTVRFKNELERNITIKLGYANAKIYKCDDPKCPRPGCYRSFGSSKEDRPPCD  113 (466)
T ss_pred             hheeeeeecceeccccCcceeeeeeccceEEEehhhhhcceeEEeccccceEEecCCCCCCCcchhhccCCCCCCCCCcc
Confidence            34568999999999999999999875421100      0000000                  000000         00


Q ss_pred             ECCe------EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH----hhHHHHHHHHHHHHhhhccCCCCcEEEE
Q 028315           56 VGGK------RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----ETFTNLSSVWAKEVELYSTNQDCVKILV  125 (210)
Q Consensus        56 ~~~~------~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~~~~~~p~ivv  125 (210)
                      ..+.      -..+.|.|+|||+..-..+-.-..-.|++++++..+..    ++-+.+.     .++..   .=+.++++
T Consensus       114 ~~g~~~~~klvRHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLa-----aveiM---~Lkhiiil  185 (466)
T KOG0466|consen  114 RPGCEGKMKLVRHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLA-----AVEIM---KLKHIIIL  185 (466)
T ss_pred             cCCCCCceEEEEEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHH-----HHHHh---hhceEEEE
Confidence            0000      13567889999976533332222334788888877753    2323222     22221   12357888


Q ss_pred             EeCCCCCCCCccC--HHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          126 GNKVDRDSERAVT--REEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       126 ~nK~Dl~~~~~~~--~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      -||+|+..++...  .++++.|...   .++|++.+||.-..|++-+.+.|++.+.-
T Consensus       186 QNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv  242 (466)
T KOG0466|consen  186 QNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV  242 (466)
T ss_pred             echhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence            8999997654332  2334445443   36789999999999999999998887754

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.44  E-value=8.9e-07  Score=61.75  Aligned_cols=79  Identities=15%  Similarity=0.053  Sum_probs=51.6

Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ...+..+|++++|+|+.++.+....  .+...+...  ..++|+++|+||+|+.+...  ..+........+..++.+||
T Consensus         6 ~~~i~~aD~vl~ViD~~~p~~~~~~--~l~~~l~~~--~~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa   79 (141)
T cd01857           6 WRVVERSDIVVQIVDARNPLLFRPP--DLERYVKEV--DPRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSA   79 (141)
T ss_pred             HHHHhhCCEEEEEEEccCCcccCCH--HHHHHHHhc--cCCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEe
Confidence            3457889999999999987654321  223333221  14689999999999854322  12223334455678999999


Q ss_pred             cCCcC
Q 028315          159 KNTED  163 (210)
Q Consensus       159 ~~~~~  163 (210)
                      .++.+
T Consensus        80 ~~~~~   84 (141)
T cd01857          80 LKENA   84 (141)
T ss_pred             cCCCc
Confidence            98753

Human HSR1, is localized to the human MHC class I region and is highly homologous to a putative GTP-binding protein, MMR1 from mouse. These proteins represent a new subfamily of GTP-binding proteins that has only eukaryote members. This subfamily shows a circular permutation of the GTPase signature motifs so that the C-terminal strands 5, 6, and 7 (strand 6 contains the G4 box with sequence NKXD) are relocated to the N terminus.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.42  E-value=1.2e-06  Score=68.04  Aligned_cols=92  Identities=17%  Similarity=0.068  Sum_probs=62.2

Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEe
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      .....+..+|++++|+|+..+.+....  .+...+      .+.|+++|+||+|+.+....  ..........+.+++.+
T Consensus        14 ~~~~~l~~aDvVl~V~Dar~p~~~~~~--~i~~~l------~~kp~IiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~i   83 (276)
T TIGR03596        14 EIKEKLKLVDVVIEVLDARIPLSSRNP--MIDEIR------GNKPRLIVLNKADLADPAVT--KQWLKYFEEKGIKALAI   83 (276)
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCCCCh--hHHHHH------CCCCEEEEEEccccCCHHHH--HHHHHHHHHcCCeEEEE
Confidence            345567899999999999877543321  122222      25799999999998543211  11111222346679999


Q ss_pred             cccCCcCHHHHHHHHHHHHHcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ||+++.|++++.+.+.+.+.+.
T Consensus        84 Sa~~~~gi~~L~~~i~~~~~~~  105 (276)
T TIGR03596        84 NAKKGKGVKKIIKAAKKLLKEK  105 (276)
T ss_pred             ECCCcccHHHHHHHHHHHHHHh
Confidence            9999999999999988877543

Members of this protein family are GTP-binding proteins involved in ribosome biogenesis, including the essential YlqF protein of Bacillus subtilis, which is an essential protein. They are related to Era, EngA, and other GTPases of ribosome biogenesis, but are circularly permuted. This family is not universal, and is not present in Escherichia coli, and so is not as well studied as some other GTPases. This model is built for bacterial members.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.42  E-value=2.5e-06  Score=78.24  Aligned_cols=112  Identities=15%  Similarity=0.122  Sum_probs=65.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCC-------CceeeEEEEEEEEECCeEEEEEEEeCCCC----c----ccccchhh
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPS-------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ----E----RFGTLTSS   80 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~----~----~~~~~~~~   80 (210)
                      .+|+|++|+||||++.+- +..++-..       ...+.+..+ .+.+.+   .-+++||+|.    +    .....|..
T Consensus       114 YlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c-~wwf~~---~avliDtaG~y~~~~~~~~~~~~~W~~  188 (1169)
T TIGR03348       114 YLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNC-DWWFTD---EAVLIDTAGRYTTQDSDPEEDAAAWLG  188 (1169)
T ss_pred             EEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCccc-ceEecC---CEEEEcCCCccccCCCcccccHHHHHH
Confidence            489999999999999987 43332211       111222221 222333   3458899992    1    22345666


Q ss_pred             hhc---------cccEEEEEEeCCCHh-----hHHHHHHHHHHH---HhhhccCCCCcEEEEEeCCCCCC
Q 028315           81 YYR---------GAHGIILVYDVTRRE-----TFTNLSSVWAKE---VELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        81 ~~~---------~~d~~i~v~d~~~~~-----~~~~~~~~~~~~---~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ++.         -.++||+++|+.+-.     ........++..   +.... ....||+|++||+|+..
T Consensus       189 fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~l-g~~~PVYvv~Tk~Dll~  257 (1169)
T TIGR03348       189 FLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQL-GARFPVYLVLTKADLLA  257 (1169)
T ss_pred             HHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHh-CCCCCEEEEEecchhhc
Confidence            542         379999999988532     111111123222   33222 46899999999999864

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.42  E-value=5.7e-07  Score=68.56  Aligned_cols=57  Identities=30%  Similarity=0.391  Sum_probs=36.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCc-------eeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPT-------IGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      .++++|.+|||||||+|++.+.........       ..+|.....+.+.+    -.++||||...+.
T Consensus       122 ~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~----~~liDtPG~~~~~  185 (245)
T TIGR00157       122 ISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG----GLIADTPGFNEFG  185 (245)
T ss_pred             EEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC----cEEEeCCCccccC
Confidence            678999999999999999987643331111       11333333344432    2678999976543

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>PRK14974 cell division protein FtsY; Provisional

Probab=98.40  E-value=4.2e-07  Score=72.00  Aligned_cols=94  Identities=15%  Similarity=0.123  Sum_probs=55.6

Q ss_pred             EEEEEEeCCCCccccc-c---hhhhh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGT-L---TSSYY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~-~---~~~~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      +.+.++||+|...... +   ...+.  ...|.+++|+|+............|...        -.+--+|+||.|....
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~f~~~--------~~~~giIlTKlD~~~~  294 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQAREFNEA--------VGIDGVILTKVDADAK  294 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHHHHhc--------CCCCEEEEeeecCCCC
Confidence            5689999999654321 1   12222  2578999999998654322111122111        1134678999997543


Q ss_pred             CccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315          135 RAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      -.    -+..+....+.|+.+++  +|.+++++.
T Consensus       295 ~G----~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~  322 (336)
T PRK14974        295 GG----AALSIAYVIGKPILFLG--VGQGYDDLI  322 (336)
T ss_pred             cc----HHHHHHHHHCcCEEEEe--CCCChhhcc
Confidence            22    23344555688888887  688887754

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.40  E-value=3.4e-07  Score=74.54  Aligned_cols=56  Identities=21%  Similarity=0.288  Sum_probs=49.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      .+.|+++|.|||||||+||.|.+.+...++.|+|-|.+..++.++.   .+-|.|+||.
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS~TPGkTKHFQTi~ls~---~v~LCDCPGL  369 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVSSTPGKTKHFQTIFLSP---SVCLCDCPGL  369 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeeecCCCCcceeEEEEcCC---CceecCCCCc
Confidence            6999999999999999999999999999999999998888877764   4677899994

>PRK13796 GTPase YqeH; Provisional

Probab=98.40  E-value=1.8e-06  Score=69.56  Aligned_cols=92  Identities=17%  Similarity=0.180  Sum_probs=61.3

Q ss_pred             ccccchhhhhcccc-EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH----HHH
Q 028315           73 RFGTLTSSYYRGAH-GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI----LAQ  147 (210)
Q Consensus        73 ~~~~~~~~~~~~~d-~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~~~  147 (210)
                      .|...... +...+ .+++|+|+.+...      .|...+....  .+.|+++|+||+|+.+. ....++...    +..
T Consensus        58 ~~~~~l~~-i~~~~~lIv~VVD~~D~~~------s~~~~L~~~~--~~kpviLViNK~DLl~~-~~~~~~i~~~l~~~~k  127 (365)
T PRK13796         58 DFLKLLNG-IGDSDALVVNVVDIFDFNG------SWIPGLHRFV--GNNPVLLVGNKADLLPK-SVKKNKVKNWLRQEAK  127 (365)
T ss_pred             HHHHHHHh-hcccCcEEEEEEECccCCC------chhHHHHHHh--CCCCEEEEEEchhhCCC-ccCHHHHHHHHHHHHH
Confidence            34443333 34445 9999999987542      3445554443  36789999999999653 333333332    344


Q ss_pred             HcCC---eEEEecccCCcCHHHHHHHHHHH
Q 028315          148 EHKC---LFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       148 ~~~~---~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ..++   .++.+||+++.|++++++.+.+.
T Consensus       128 ~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        128 ELGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             hcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            4565   58999999999999999998765

>PRK13796 GTPase YqeH; Provisional

Probab=98.39  E-value=5.5e-07  Score=72.58  Aligned_cols=56  Identities=20%  Similarity=0.292  Sum_probs=42.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC----C-CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV----H-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~----~-~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      .++.++|.+|||||||+|+|+....    . ..++.+|+|.....+.+++.   ..++||||..
T Consensus       161 ~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        161 RDVYVVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             CeEEEEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            4789999999999999999986431    1 15667777777777666543   3688999963

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.38  E-value=9e-07  Score=71.24  Aligned_cols=56  Identities=23%  Similarity=0.401  Sum_probs=41.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC-----CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV-----HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      .++.++|.+|||||||+|+++....     ...++.+++|.....+.++..   +.++||||..
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~~---~~l~DtPG~~  215 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDDG---HSLYDTPGII  215 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCCC---CEEEECCCCC
Confidence            4799999999999999999987542     235566777777666655332   4688999954

This family describes YqeH, a member of a larger family of GTPases involved in ribosome biogenesis. Like YqlF, it shows a cyclical permutation relative to GTPases EngA (in which the GTPase domain is duplicated), Era, and others. Members of this protein family are found in a relatively small number of bacterial species, including Bacillus subtilis but not Escherichia coli.

>PF03193 DUF258: Protein of unknown function, DUF258; InterPro: IPR004881 This entry contains Escherichia coli (strain K12) RsgA, which may play a role in 30S ribosomal subunit biogenesis

Probab=98.37  E-value=4.5e-07  Score=64.08  Aligned_cols=57  Identities=30%  Similarity=0.401  Sum_probs=32.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC---CC----CceeeEEEEEEEEECCeEEEEEEEeCCCCccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD---PS----PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF   74 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~---~~----~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   74 (210)
                      .++++|++|||||||+|.|.......   .+    .-.-++.....+.++...   .++||||...+
T Consensus        37 ~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g~---~iIDTPGf~~~  100 (161)
T PF03193_consen   37 TSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDGG---YIIDTPGFRSF  100 (161)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTSE---EEECSHHHHT-
T ss_pred             EEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCCc---EEEECCCCCcc
Confidence            57899999999999999998764222   11    111222233334444333   56799996554

RsgA is an unusual circulary permuted GTPase that catalyzes rapid hydrolysis of GTP with a slow catalytic turnover. It is dispensible for viability, but important for overall fitness. The intrinsic GTPase activity is stimulated by the presence of 30S (160-fold increase in kcat) or 70S (96 fold increase in kcat) ribosomes []. The GTPase is inhibited by aminoglycoside antibiotics such as neomycin and paromycin [] streptomycin and spectinomycin []. This inhibition is not due to competition for binding sites on the 30S or 70S ribosome []. ; GO: 0003924 GTPase activity, 0005525 GTP binding; PDB: 2YKR_W 2YV5_A 1T9H_A 2RCN_A 4A2I_V 1U0L_B.

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.36  E-value=2.3e-06  Score=60.81  Aligned_cols=21  Identities=29%  Similarity=0.567  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++|..|+|||||++++...
T Consensus         3 ~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           3 TVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            578999999999999998765

The amino acid sequence of YjiA protein in E. coli contains several conserved motifs that characterizes it as a P-loop GTPase. YijA gene is among the genes significantly induced in response to DNA-damage caused by mitomycin. YijA gene is a homologue of the CobW gene which encodes the cobalamin synthesis protein/P47K.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.30  E-value=3.2e-06  Score=67.95  Aligned_cols=83  Identities=12%  Similarity=0.056  Sum_probs=56.8

Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-HcCCeEEEecccC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-EHKCLFLECSAKN  160 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~  160 (210)
                      ..++|.+++|+++..+-....+. .++....    ..+++.+||+||+||.+...   +....+.. ..+.+++.+|+++
T Consensus       110 aANvD~vliV~s~~p~~~~~~ld-r~L~~a~----~~~i~piIVLNK~DL~~~~~---~~~~~~~~~~~g~~Vi~vSa~~  181 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIE-RYLALAW----ESGAEPVIVLTKADLCEDAE---EKIAEVEALAPGVPVLAVSALD  181 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHH-HHHHHHH----HcCCCEEEEEEChhcCCCHH---HHHHHHHHhCCCCcEEEEECCC
Confidence            57899999999997443333333 5555544    35677799999999965311   11122222 4577899999999


Q ss_pred             CcCHHHHHHHHH
Q 028315          161 TEDVKQCFKDLL  172 (210)
Q Consensus       161 ~~~i~~l~~~i~  172 (210)
                      +.|++++..++.
T Consensus       182 g~gl~~L~~~L~  193 (356)
T PRK01889        182 GEGLDVLAAWLS  193 (356)
T ss_pred             CccHHHHHHHhh
Confidence            999999888764

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.28  E-value=3.6e-06  Score=65.74  Aligned_cols=92  Identities=18%  Similarity=0.102  Sum_probs=62.0

Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEe
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      .....+..+|++++|+|+.++.+.+..  .+...+      .+.|+++|+||+|+.+....  +.........+.+++.+
T Consensus        17 ~l~~~l~~aDvIL~VvDar~p~~~~~~--~l~~~~------~~kp~iiVlNK~DL~~~~~~--~~~~~~~~~~~~~vi~v   86 (287)
T PRK09563         17 EIKENLKLVDVVIEVLDARIPLSSENP--MIDKII------GNKPRLLILNKSDLADPEVT--KKWIEYFEEQGIKALAI   86 (287)
T ss_pred             HHHHHhhhCCEEEEEEECCCCCCCCCh--hHHHHh------CCCCEEEEEEchhcCCHHHH--HHHHHHHHHcCCeEEEE
Confidence            344567899999999999877543321  122222      26799999999998543111  11112223346778999


Q ss_pred             cccCCcCHHHHHHHHHHHHHcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ||+++.|++++.+.+.+.+.+.
T Consensus        87 Sa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         87 NAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             ECCCcccHHHHHHHHHHHHHHH
Confidence            9999999999999888876543

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=98.28  E-value=5.7e-06  Score=59.35  Aligned_cols=135  Identities=21%  Similarity=0.307  Sum_probs=67.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeC-CCC----------------------
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT-AGQ----------------------   71 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt-~G~----------------------   71 (210)
                      ||++.|++|+|||||+.++.........+..|  +.+..+.-.+..+-+.+.|. .|.                      
T Consensus         1 ~i~iTG~pG~GKTTll~k~i~~l~~~~~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~   78 (168)
T PF03266_consen    1 HIFITGPPGVGKTTLLKKVIEELKKKGLPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDL   78 (168)
T ss_dssp             EEEEES-TTSSHHHHHHHHHHHHHHTCGGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-H
T ss_pred             CEEEECcCCCCHHHHHHHHHHHhhccCCccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcH
Confidence            68999999999999999986544222222222  22233333444555555555 220                      


Q ss_pred             ccccc----chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC-CCCCCCccCHHHHHHHH
Q 028315           72 ERFGT----LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV-DRDSERAVTREEGMILA  146 (210)
Q Consensus        72 ~~~~~----~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~-Dl~~~~~~~~~~~~~~~  146 (210)
                      +.|..    .....+..+|  ++|+|=-.+..+.  ...|.+.+.... ..++|++.++.+. +.        .....+.
T Consensus        79 e~fe~~~~~~L~~~~~~~~--liviDEIG~mEl~--~~~F~~~v~~~l-~s~~~vi~vv~~~~~~--------~~l~~i~  145 (168)
T PF03266_consen   79 ESFEEIGLPALRNALSSSD--LIVIDEIGKMELK--SPGFREAVEKLL-DSNKPVIGVVHKRSDN--------PFLEEIK  145 (168)
T ss_dssp             HHHHCCCCCCCHHHHHCCH--EEEE---STTCCC---CHHHHHHHHHH-CTTSEEEEE--SS--S--------CCHHHHH
T ss_pred             HHHHHHHHHHHHhhcCCCC--EEEEeccchhhhc--CHHHHHHHHHHH-cCCCcEEEEEecCCCc--------HHHHHHH
Confidence            11111    1122223455  7778865543221  113445554444 3678888888766 32        1234566


Q ss_pred             HHcCCeEEEecccCCcCH
Q 028315          147 QEHKCLFLECSAKNTEDV  164 (210)
Q Consensus       147 ~~~~~~~~~~sa~~~~~i  164 (210)
                      ...++.+++++..+...+
T Consensus       146 ~~~~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  146 RRPDVKIFEVTEENRDAL  163 (168)
T ss_dssp             TTTTSEEEE--TTTCCCH
T ss_pred             hCCCcEEEEeChhHHhhH
Confidence            667788998877765443

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.26  E-value=1e-05  Score=66.04  Aligned_cols=133  Identities=15%  Similarity=0.158  Sum_probs=69.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC----CCCC---CCC---------------ceeeEEEEEEEEEC-------------
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN----SVHD---PSP---------------TIGVDFKIKLLTVG-------------   57 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~----~~~~---~~~---------------~~~~~~~~~~~~~~-------------   57 (210)
                      +--|+++|.+|+||||++.+|...    ....   ...               ..+..+.......+             
T Consensus       100 ~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~~  179 (429)
T TIGR01425       100 QNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKFK  179 (429)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHHH
Confidence            467899999999999999988421    1110   010               01111111000001             


Q ss_pred             CeEEEEEEEeCCCCccccc-chh---hh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           58 GKRLKLTIWDTAGQERFGT-LTS---SY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~-~~~---~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      ...+.+.|+||||...... +..   .+  ....|-+++|+|+..++...+....|..        .-.+.-+|+||.|.
T Consensus       180 ~~~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~~a~~F~~--------~~~~~g~IlTKlD~  251 (429)
T TIGR01425       180 KENFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEAQAKAFKD--------SVDVGSVIITKLDG  251 (429)
T ss_pred             hCCCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHHHHHHHHh--------ccCCcEEEEECccC
Confidence            1246889999999543321 111   11  2356889999999865433222212221        12255788999997


Q ss_pred             CCCCccCHHHHHHHHHHcCCeEEEec
Q 028315          132 DSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      .....    .+.......+.|+.+++
T Consensus       252 ~argG----~aLs~~~~t~~PI~fig  273 (429)
T TIGR01425       252 HAKGG----GALSAVAATKSPIIFIG  273 (429)
T ss_pred             CCCcc----HHhhhHHHHCCCeEEEc
Confidence            43211    12333444555654444

This model represents examples from the eukaryotic cytosol of the signal recognition particle protein component, SRP54. This GTP-binding protein is a component of the eukaryotic signal recognition particle, along with several other protein subunits and a 7S RNA. Some species, including Arabidopsis, have several closely related forms. The extreme C-terminal region is glycine-rich and lower in complexity, poorly conserved between species, and excluded from this model.

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=98.23  E-value=5.8e-06  Score=62.20  Aligned_cols=118  Identities=17%  Similarity=0.198  Sum_probs=76.1

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH----------hhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----------ETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      ..+.++++|.+|+...+.-|...+....++|+|+..+..          ..+++....+.. +........+.+|+.+||
T Consensus       200 dkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFks-iWnNRwL~tisvIlFLNK  278 (379)
T KOG0099|consen  200 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKS-IWNNRWLRTISVILFLNK  278 (379)
T ss_pred             cccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHH-HHhhhHHhhhheeEEecH
Confidence            356799999999999999999999999999999988752          223333322222 222222356789999999


Q ss_pred             CCCCC----------------------------CCccCHH--HHHHHHHH-------------cCCeEEEecccCCcCHH
Q 028315          129 VDRDS----------------------------ERAVTRE--EGMILAQE-------------HKCLFLECSAKNTEDVK  165 (210)
Q Consensus       129 ~Dl~~----------------------------~~~~~~~--~~~~~~~~-------------~~~~~~~~sa~~~~~i~  165 (210)
                      .|+..                            +...++.  .+..+...             +-+.+.++.|.+.++|.
T Consensus       279 qDllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenIr  358 (379)
T KOG0099|consen  279 QDLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIR  358 (379)
T ss_pred             HHHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHHH
Confidence            99731                            0111111  11111110             11336788899999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      .+|......+..
T Consensus       359 rVFnDcrdiIqr  370 (379)
T KOG0099|consen  359 RVFNDCRDIIQR  370 (379)
T ss_pred             HHHHHHHHHHHH
Confidence            999987666553

>PRK00098 GTPase RsgA; Reviewed

Probab=98.22  E-value=3.2e-06  Score=66.38  Aligned_cols=57  Identities=28%  Similarity=0.377  Sum_probs=36.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCcee-------eEEEEEEEEECCeEEEEEEEeCCCCccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIG-------VDFKIKLLTVGGKRLKLTIWDTAGQERF   74 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~-------~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   74 (210)
                      .++++|.+|+|||||+|.+++...........       ++.....+.+...   ..++||||...+
T Consensus       166 ~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~~  229 (298)
T PRK00098        166 VTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSSF  229 (298)
T ss_pred             eEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCcc
Confidence            57999999999999999998765433221111       2233333334332   267899997643

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.21  E-value=3.6e-06  Score=65.70  Aligned_cols=59  Identities=27%  Similarity=0.404  Sum_probs=38.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCC-------CceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPS-------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      -.++++|++|+|||||+|.+++.......       ....++.....+......   .++||||...+.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~~---~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGGG---LLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCCC---EEEECCCCCccC
Confidence            46899999999999999999876543311       111233333334443222   578999987653

YjeQ (YloQ in Bacillus subtilis) represents a protein family whose members are broadly conserved in bacteria and have been shown to be essential to the growth of E. coli and B. subtilis. Proteins of the YjeQ family contain all sequence motifs typical of the vast class of P-loop-containing GTPases, but show a circular permutation, with a G4-G1-G3 pattern of motifs as opposed to the regular G1-G3-G4 pattern seen in most GTPases. All YjeQ family proteins display a unique domain architecture, which includes an N-terminal OB-fold RNA-binding domain, the central permuted GTPase domain, and a zinc knuckle-like C-terminal cysteine domain. This domain architecture suggests a role for YjeQ as a regulator of translation.

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=98.18  E-value=1e-06  Score=69.81  Aligned_cols=157  Identities=17%  Similarity=0.122  Sum_probs=95.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCC------------------C------C------CCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVH------------------D------P------SPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~------------------~------~------~~~~~~~~~~~~~~~~~~~   60 (210)
                      -..+|++|+|+..+||||+-..++...-.                  +      +      ...-+.+.......+....
T Consensus        77 k~hvn~vfighVdagkstigg~il~ltg~Vd~Rt~ekyereake~~rEswylsW~ldtn~EeR~kgKtvEvGrA~FEte~  156 (501)
T KOG0459|consen   77 KEHVNAVFIGHVDAGKSTIGGNILFLTGMVDKRTLEKYEREAKEKNRESWYLSWALDTNGEERDKGKTVEVGRAYFETEN  156 (501)
T ss_pred             CCCceEEEEEEEeccccccCCeeEEEEeeecHHHHHHHHHHHHhhccccceEEEEEcCchhhhhccceeeeeeEEEEecc
Confidence            35799999999999999987765321100                  0      0      1112334444444555556


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV  137 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~  137 (210)
                      .++.+.|+|||..|...+-.-..++|..++|+++...+   .|+.--+.--..+.... ..-...|+++||+|-+.. ..
T Consensus       157 ~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt-~gv~~lVv~vNKMddPtv-nW  234 (501)
T KOG0459|consen  157 KRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGVKHLIVLINKMDDPTV-NW  234 (501)
T ss_pred             eeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHh-hccceEEEEEEeccCCcc-Cc
Confidence            78999999999999887777788899999999986432   12211100011111111 133467889999996432 12


Q ss_pred             CHH-------HHHHHHHHcC------CeEEEecccCCcCHHHHHH
Q 028315          138 TRE-------EGMILAQEHK------CLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus       138 ~~~-------~~~~~~~~~~------~~~~~~sa~~~~~i~~l~~  169 (210)
                      +.+       ....+....|      ..++.+|..+|.++.+..+
T Consensus       235 s~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~~  279 (501)
T KOG0459|consen  235 SNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRTD  279 (501)
T ss_pred             chhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhccc
Confidence            211       1222233222      3489999999999988664

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=98.14  E-value=5.6e-05  Score=59.73  Aligned_cols=98  Identities=13%  Similarity=0.153  Sum_probs=54.5

Q ss_pred             EEEEEEeCCCCcccccchhhhhc--------cccEEEEEEeCCCHhhHHH-HHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYR--------GAHGIILVYDVTRRETFTN-LSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~~~~~-~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      ....+++|.|...-......+..        ..|+++-|+|+..-..... ..+.+...+.    .   .=+|++||.|+
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia----~---AD~ivlNK~Dl  157 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLA----F---ADVIVLNKTDL  157 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHH----h---CcEEEEecccC
Confidence            56778888885444333333322        3588999999876543222 2222222222    1   23889999999


Q ss_pred             CCCCccCHHHHHHHHHH--cCCeEEEecccCCcCHHHHH
Q 028315          132 DSERAVTREEGMILAQE--HKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~--~~~~~~~~sa~~~~~i~~l~  168 (210)
                      .++..+  +..+.....  ..++++.++.. +....+++
T Consensus       158 v~~~~l--~~l~~~l~~lnp~A~i~~~~~~-~~~~~~ll  193 (323)
T COG0523         158 VDAEEL--EALEARLRKLNPRARIIETSYG-DVDLAELL  193 (323)
T ss_pred             CCHHHH--HHHHHHHHHhCCCCeEEEcccc-CCCHHHhh
Confidence            876542  222333333  35678888873 33433333

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.12  E-value=4.7e-05  Score=61.21  Aligned_cols=144  Identities=15%  Similarity=0.100  Sum_probs=73.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEE------------------EEEE-----------CCeE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIK------------------LLTV-----------GGKR   60 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~------------------~~~~-----------~~~~   60 (210)
                      ..-.++|+|++|+||||++.+|.......  .....-.+....                  ...+           ...+
T Consensus       136 ~g~ii~lvGptGvGKTTtiakLA~~~~~~~G~~~V~lit~D~~R~ga~EqL~~~a~~~gv~~~~~~~~~~l~~~l~~l~~  215 (374)
T PRK14722        136 RGGVFALMGPTGVGKTTTTAKLAARCVMRFGASKVALLTTDSYRIGGHEQLRIFGKILGVPVHAVKDGGDLQLALAELRN  215 (374)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecccccccHHHHHHHHHHHcCCceEecCCcccHHHHHHHhcC
Confidence            34578899999999999999986532111  000000000000                  0001           1124


Q ss_pred             EEEEEEeCCCCcccccchhh---hhc---cccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSS---YYR---GAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~---~~~---~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ..+.++||+|....+.....   .+.   ...-.++|++++.. .....+...|............-+-=+|+||.|...
T Consensus       216 ~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlDEt~  295 (374)
T PRK14722        216 KHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHGDTLNEVVQAYRSAAGQPKAALPDLAGCILTKLDEAS  295 (374)
T ss_pred             CCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccChHHHHHHHHHHHHhhcccccccCCCCEEEEeccccCC
Confidence            57899999996544332211   122   23456889998864 333433323333221100000012357789999743


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .    .=.+..+....+.|+.+++.-
T Consensus       296 ~----~G~~l~~~~~~~lPi~yvt~G  317 (374)
T PRK14722        296 N----LGGVLDTVIRYKLPVHYVSTG  317 (374)
T ss_pred             C----ccHHHHHHHHHCcCeEEEecC
Confidence            2    223455566667776665543

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.11  E-value=6.7e-06  Score=63.51  Aligned_cols=58  Identities=29%  Similarity=0.430  Sum_probs=36.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC---CC----CceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD---PS----PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~---~~----~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ..+++|.+|||||||+|+|.......   .+    .-.-+|....-+.+++.+   .++||||...+.
T Consensus       166 ~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~  230 (301)
T COG1162         166 ITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLG  230 (301)
T ss_pred             eEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccC
Confidence            46889999999999999997643222   11    122233444445555443   456999987664

>KOG2484 consensus GTPase [General function prediction only]

Probab=98.11  E-value=3.5e-06  Score=66.81  Aligned_cols=60  Identities=25%  Similarity=0.366  Sum_probs=51.1

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...+.++++|+|.|++||||+||+|.........+++|.+.....+..+.   .+.|+|.||.
T Consensus       248 ~lk~sIrvGViG~PNVGKSSvINsL~~~k~C~vg~~pGvT~smqeV~Ldk---~i~llDsPgi  307 (435)
T KOG2484|consen  248 ELKTSIRVGIIGYPNVGKSSVINSLKRRKACNVGNVPGVTRSMQEVKLDK---KIRLLDSPGI  307 (435)
T ss_pred             ccCcceEeeeecCCCCChhHHHHHHHHhccccCCCCccchhhhhheeccC---CceeccCCce
Confidence            34578999999999999999999999999888888888888877777764   4677899993

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.07  E-value=3.4e-05  Score=59.72  Aligned_cols=94  Identities=19%  Similarity=0.106  Sum_probs=67.5

Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEE
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLE  155 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                      .+.+.-+.+.|-+++|+.+.+|+--....+.++-..+    ..++..+|++||+|+.+......++........|.+++.
T Consensus        71 ~L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae----~~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~  146 (301)
T COG1162          71 VLIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAE----AGGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLF  146 (301)
T ss_pred             ceeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHH----HcCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEE
Confidence            3444445668888999999988643444435555554    366777888999999876544434556667778999999


Q ss_pred             ecccCCcCHHHHHHHHHH
Q 028315          156 CSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~  173 (210)
                      +|++++.+++++...+..
T Consensus       147 ~s~~~~~~~~~l~~~l~~  164 (301)
T COG1162         147 VSAKNGDGLEELAELLAG  164 (301)
T ss_pred             ecCcCcccHHHHHHHhcC
Confidence            999999999997776544

>cd03114 ArgK-like The function of this protein family is unkown

Probab=98.00  E-value=3.2e-05  Score=54.32  Aligned_cols=58  Identities=19%  Similarity=0.209  Sum_probs=36.9

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                      .+.+.|+||+|....   ...++..+|-++++....-.+.+.-+.   ...+       ...-++++||.|
T Consensus        91 ~~D~iiIDtaG~~~~---~~~~~~~Ad~~ivv~tpe~~D~y~~~k---~~~~-------~~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQS---EVDIASMADTTVVVMAPGAGDDIQAIK---AGIM-------EIADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChh---hhhHHHhCCEEEEEECCCchhHHHHhh---hhHh-------hhcCEEEEeCCC
Confidence            468899999885422   234788899999999877333222111   1222       223488899987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=97.99  E-value=3.7e-05  Score=55.40  Aligned_cols=84  Identities=15%  Similarity=0.126  Sum_probs=45.2

Q ss_pred             EEEEEEEeCCCCccccc----chhhhh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT----LTSSYY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ...+.++|+||...+..    ....+.  ...+.+++|+|........  . . ...+....   + ..-+|.||.|...
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~~~--~-~-~~~~~~~~---~-~~~viltk~D~~~  153 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQDAV--N-Q-AKAFNEAL---G-ITGVILTKLDGDA  153 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChHHH--H-H-HHHHHhhC---C-CCEEEEECCcCCC
Confidence            45678899999743321    112222  3489999999987654322  1 2 22222111   2 3467789999754


Q ss_pred             CCccCHHHHHHHHHHcCCeEEE
Q 028315          134 ERAVTREEGMILAQEHKCLFLE  155 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                      ...    .........+.|+..
T Consensus       154 ~~g----~~~~~~~~~~~p~~~  171 (173)
T cd03115         154 RGG----AALSIRAVTGKPIKF  171 (173)
T ss_pred             Ccc----hhhhhHHHHCcCeEe
Confidence            321    223355556666443

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.97  E-value=9.6e-05  Score=61.72  Aligned_cols=136  Identities=18%  Similarity=0.235  Sum_probs=69.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCC------C---CCCc---------------eeeEEEEEEEE------E-CCeE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVH------D---PSPT---------------IGVDFKIKLLT------V-GGKR   60 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~------~---~~~~---------------~~~~~~~~~~~------~-~~~~   60 (210)
                      ..-.|+|+|++|+||||++..|......      .   ...+               .+..+....-.      + ....
T Consensus       349 ~G~vIaLVGPtGvGKTTtaakLAa~la~~~~gkkVaLIdtDtyRigA~EQLk~ya~iLgv~v~~a~d~~~L~~aL~~l~~  428 (559)
T PRK12727        349 RGGVIALVGPTGAGKTTTIAKLAQRFAAQHAPRDVALVTTDTQRVGGREQLHSYGRQLGIAVHEADSAESLLDLLERLRD  428 (559)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHHHHhcCCCceEEEecccccccHHHHHHHhhcccCceeEecCcHHHHHHHHHHhcc
Confidence            3457899999999999999887542110      0   1110               01111100000      0 1124


Q ss_pred             EEEEEEeCCCCcccccchhh---hhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSS---YYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~---~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      +.++|+||+|..........   .+.  .....++|++.+..  ...+.    ..+..+.  ...+.-+|+||.|.... 
T Consensus       429 ~DLVLIDTaG~s~~D~~l~eeL~~L~aa~~~a~lLVLpAtss--~~Dl~----eii~~f~--~~~~~gvILTKlDEt~~-  499 (559)
T PRK12727        429 YKLVLIDTAGMGQRDRALAAQLNWLRAARQVTSLLVLPANAH--FSDLD----EVVRRFA--HAKPQGVVLTKLDETGR-  499 (559)
T ss_pred             CCEEEecCCCcchhhHHHHHHHHHHHHhhcCCcEEEEECCCC--hhHHH----HHHHHHH--hhCCeEEEEecCcCccc-
Confidence            68899999996433221110   111  12345677776643  23222    2222222  12356789999997332 


Q ss_pred             ccCHHHHHHHHHHcCCeEEEeccc
Q 028315          136 AVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                         .-.........+.++.+++.-
T Consensus       500 ---lG~aLsv~~~~~LPI~yvt~G  520 (559)
T PRK12727        500 ---FGSALSVVVDHQMPITWVTDG  520 (559)
T ss_pred             ---hhHHHHHHHHhCCCEEEEeCC
Confidence               234555566677777666543

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=97.96  E-value=2.1e-05  Score=59.77  Aligned_cols=115  Identities=26%  Similarity=0.394  Sum_probs=69.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC-----CCceeeEEEEEEEEECCeEEEEEEEeCCCC-------cccccc--
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP-----SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ-------ERFGTL--   77 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~-------~~~~~~--   77 (210)
                      -.+||+-+|.+|.|||||+..|++..+...     .|.......++...-.+-.+.+.+.||.|.       +.|..+  
T Consensus        41 F~FNilCvGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~iVd  120 (406)
T KOG3859|consen   41 FCFNILCVGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPIVD  120 (406)
T ss_pred             ceEEEEEeccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchHHH
Confidence            479999999999999999999998887552     233333333333333566788999999991       122111  


Q ss_pred             -----hhhhh---------------ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           78 -----TSSYY---------------RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        78 -----~~~~~---------------~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                           ...|+               ...++++|.+..+.. ++..+.-.....+     ...+.+|.|+-|.|..
T Consensus       121 yidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH-~LKslDLvtmk~L-----dskVNIIPvIAKaDti  189 (406)
T KOG3859|consen  121 YIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGH-SLKSLDLVTMKKL-----DSKVNIIPVIAKADTI  189 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCc-chhHHHHHHHHHH-----hhhhhhHHHHHHhhhh
Confidence                 11111               246888888887753 3333331111222     2455667777788753

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=97.94  E-value=2.6e-06  Score=67.54  Aligned_cols=81  Identities=25%  Similarity=0.278  Sum_probs=56.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc--ccchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF--GTLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~~~~~~~~~d~~i   89 (210)
                      ..|-|+|+|.|++||||+||.|.........|.+|.+.....+...   .++-++|+||.---  .+.....+   -+++
T Consensus       306 kqISVGfiGYPNvGKSSiINTLR~KkVCkvAPIpGETKVWQYItLm---krIfLIDcPGvVyps~dset~ivL---kGvV  379 (572)
T KOG2423|consen  306 KQISVGFIGYPNVGKSSIINTLRKKKVCKVAPIPGETKVWQYITLM---KRIFLIDCPGVVYPSSDSETDIVL---KGVV  379 (572)
T ss_pred             cceeeeeecCCCCchHHHHHHHhhcccccccCCCCcchHHHHHHHH---hceeEecCCCccCCCCCchHHHHh---hcee
Confidence            4689999999999999999999998888888888876553332222   36788999994211  22222222   3566


Q ss_pred             EEEeCCCHh
Q 028315           90 LVYDVTRRE   98 (210)
Q Consensus        90 ~v~d~~~~~   98 (210)
                      -|=.+.+++
T Consensus       380 RVenv~~pe  388 (572)
T KOG2423|consen  380 RVENVKNPE  388 (572)
T ss_pred             eeeecCCHH
Confidence            666666654

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.94  E-value=9.1e-05  Score=59.75  Aligned_cols=134  Identities=17%  Similarity=0.155  Sum_probs=70.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-------CC---------------CceeeEEEEEEE--E----E---C-CeE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-------PS---------------PTIGVDFKIKLL--T----V---G-GKR   60 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-------~~---------------~~~~~~~~~~~~--~----~---~-~~~   60 (210)
                      .-+|+++|++|+||||++..|.......       ..               ...+..+....-  .    +   . ..+
T Consensus       241 ~~vI~LVGptGvGKTTTiaKLA~~L~~~GkkVglI~aDt~RiaAvEQLk~yae~lgipv~v~~d~~~L~~aL~~lk~~~~  320 (436)
T PRK11889        241 VQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEAR  320 (436)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHHcCCcEEEEecCCcchHHHHHHHHHhhhcCCcEEecCCHHHHHHHHHHHHhccC
Confidence            3578999999999999999985321100       00               001111110000  0    0   0 113


Q ss_pred             EEEEEEeCCCCccccc----chhhhh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGT----LTSSYY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      +.+.|+||+|......    .+..++  ...+.+++|+|++...  +.+. .+...+..     -..-=+|+||.|....
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~-~i~~~F~~-----~~idglI~TKLDET~k  392 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMI-EIITNFKD-----IHIDGIVFTKFDETAS  392 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHH-HHHHHhcC-----CCCCEEEEEcccCCCC
Confidence            5789999999644321    122222  2357789999986432  1222 12222221     1123578999997543


Q ss_pred             CccCHHHHHHHHHHcCCeEEEecc
Q 028315          135 RAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ..    .+..+....+.|+..++.
T Consensus       393 ~G----~iLni~~~~~lPIsyit~  412 (436)
T PRK11889        393 SG----ELLKIPAVSSAPIVLMTD  412 (436)
T ss_pred             cc----HHHHHHHHHCcCEEEEeC
Confidence            22    344556667777666543

>PRK13695 putative NTPase; Provisional

Probab=97.93  E-value=0.00061  Score=49.16  Aligned_cols=79  Identities=13%  Similarity=0.040  Sum_probs=44.1

Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      +..+++  +++|=-.+  .+.....+...+.... ..+.|++++.+|....       .....+....+..++++   +.
T Consensus        94 l~~~~~--lllDE~~~--~e~~~~~~~~~l~~~~-~~~~~~i~v~h~~~~~-------~~~~~i~~~~~~~i~~~---~~  158 (174)
T PRK13695         94 LEEADV--IIIDEIGK--MELKSPKFVKAVEEVL-DSEKPVIATLHRRSVH-------PFVQEIKSRPGGRVYEL---TP  158 (174)
T ss_pred             cCCCCE--EEEECCCc--chhhhHHHHHHHHHHH-hCCCeEEEEECchhhH-------HHHHHHhccCCcEEEEE---cc
Confidence            345565  67883211  1111223444444444 4578999999885321       12334455556667777   45


Q ss_pred             cCHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKI  175 (210)
Q Consensus       162 ~~i~~l~~~i~~~~  175 (210)
                      +|=+++.+.+.+++
T Consensus       159 ~~r~~~~~~~~~~~  172 (174)
T PRK13695        159 ENRDSLPFEILNRL  172 (174)
T ss_pred             hhhhhHHHHHHHHH
Confidence            56678888877765

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.92  E-value=2.6e-05  Score=70.52  Aligned_cols=111  Identities=23%  Similarity=0.187  Sum_probs=63.2

Q ss_pred             EEEcCCCCcHHHHHHHHhhCCCCCC-------CCceeeEEEEEEEEECCeEEEEEEEeCCC----C----cccccchhhh
Q 028315           17 LLIGDSGVGKSSILLSLISNSVHDP-------SPTIGVDFKIKLLTVGGKRLKLTIWDTAG----Q----ERFGTLTSSY   81 (210)
Q Consensus        17 ~i~G~~~~GKSsli~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G----~----~~~~~~~~~~   81 (210)
                      +|+|++|+||||++..- +..|+-.       ...++ |.++. ..+.+   .-+++||.|    +    +.....|..+
T Consensus       129 ~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~g-T~~cd-wwf~d---eaVlIDtaGry~~q~s~~~~~~~~W~~f  202 (1188)
T COG3523         129 MVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPG-TRNCD-WWFTD---EAVLIDTAGRYITQDSADEVDRAEWLGF  202 (1188)
T ss_pred             EEecCCCCCcchHHhcc-cccCcchhhhccccccCCC-CcccC-ccccc---ceEEEcCCcceecccCcchhhHHHHHHH
Confidence            68899999999988754 3333221       11112 22222 22333   346779998    2    1334556555


Q ss_pred             h---------ccccEEEEEEeCCCHh-----hHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCC
Q 028315           82 Y---------RGAHGIILVYDVTRRE-----TFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDS  133 (210)
Q Consensus        82 ~---------~~~d~~i~v~d~~~~~-----~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~  133 (210)
                      +         +-.++||+.+|+.+--     .-.+....++..+.....  ....||+|++||.|+.+
T Consensus       203 L~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         203 LGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             HHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence            3         3579999999988521     111111122232222211  46789999999999865

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.91  E-value=1.2e-05  Score=61.92  Aligned_cols=60  Identities=22%  Similarity=0.378  Sum_probs=42.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC-----CCCCCCceeeEEEEEE-EEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS-----VHDPSPTIGVDFKIKL-LTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~-----~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~Dt~G~   71 (210)
                      ..++++.|+|.||+|||+|+|.+....     .......+|.+..+.. +.+.. .-.+.++||||.
T Consensus       141 ~~~~~vmVvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~-rp~vy~iDTPGi  206 (335)
T KOG2485|consen  141 NSEYNVMVVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISH-RPPVYLIDTPGI  206 (335)
T ss_pred             CCceeEEEEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEecc-CCceEEecCCCc
Confidence            457999999999999999999875432     2225566676666655 33433 335778899994

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.91  E-value=0.00012  Score=60.20  Aligned_cols=134  Identities=19%  Similarity=0.172  Sum_probs=70.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCC----CCC-------CCC-----------ceeeEEEEEEEEE-----------CC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNS----VHD-------PSP-----------TIGVDFKIKLLTV-----------GG   58 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~----~~~-------~~~-----------~~~~~~~~~~~~~-----------~~   58 (210)
                      .+..|+++|.+|+||||++..+....    ...       +.+           ..+..++......           ..
T Consensus        94 ~p~vI~lvG~~GsGKTTtaakLA~~L~~~g~kV~lV~~D~~R~aa~eQL~~la~~~gvp~~~~~~~~d~~~i~~~al~~~  173 (437)
T PRK00771         94 KPQTIMLVGLQGSGKTTTAAKLARYFKKKGLKVGLVAADTYRPAAYDQLKQLAEKIGVPFYGDPDNKDAVEIAKEGLEKF  173 (437)
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEecCCCCCHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHHh
Confidence            45788999999999999988874311    100       000           0011111100000           00


Q ss_pred             eEEEEEEEeCCCCcccccc----hhhh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCC-cEEEEEeCCCC
Q 028315           59 KRLKLTIWDTAGQERFGTL----TSSY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC-VKILVGNKVDR  131 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl  131 (210)
                      ....+.++||||.......    ...+  +..+|.+++|+|++....   ..... ..+.     ... ..-+|+||.|.
T Consensus       174 ~~~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq~---av~~a-~~F~-----~~l~i~gvIlTKlD~  244 (437)
T PRK00771        174 KKADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQQ---AKNQA-KAFH-----EAVGIGGIIITKLDG  244 (437)
T ss_pred             hcCCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccHH---HHHHH-HHHH-----hcCCCCEEEEecccC
Confidence            1237899999996543211    1111  346899999999987532   11111 1121     112 23577899996


Q ss_pred             CCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315          132 DSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ....    =.+..+....+.|+.+++.
T Consensus       245 ~a~~----G~~ls~~~~~~~Pi~fig~  267 (437)
T PRK00771        245 TAKG----GGALSAVAETGAPIKFIGT  267 (437)
T ss_pred             CCcc----cHHHHHHHHHCcCEEEEec
Confidence            4322    1344555666777666554

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=97.88  E-value=3.7e-05  Score=63.00  Aligned_cols=115  Identities=21%  Similarity=0.320  Sum_probs=78.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC------------CCC---CCCceeeEEEEEEEEE----------------CCe
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS------------VHD---PSPTIGVDFKIKLLTV----------------GGK   59 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~------------~~~---~~~~~~~~~~~~~~~~----------------~~~   59 (210)
                      .+.-|+.++.+..-|||||-..|....            |..   .....+.+.....+..                ++.
T Consensus        17 ~NiRNmSVIAHVDHGKSTLTDsLV~kAgIis~akaGe~Rf~DtRkDEQeR~iTIKStAISl~~e~~~~dl~~~k~~~d~~   96 (842)
T KOG0469|consen   17 KNIRNMSVIAHVDHGKSTLTDSLVQKAGIISAAKAGETRFTDTRKDEQERGITIKSTAISLFFEMSDDDLKFIKQEGDGN   96 (842)
T ss_pred             cccccceEEEEecCCcchhhHHHHHhhceeeecccCCccccccccchhhcceEeeeeeeeehhhhhHhHHHHhcCCCCCc
Confidence            345578899999999999999885321            111   1122233333332221                455


Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      ++-+.++|.|||-.|.+.....++-.|++++|+|..+..-.+... .+++.+..     .+.-++++||.|.
T Consensus        97 ~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTET-VLrQA~~E-----RIkPvlv~NK~DR  162 (842)
T KOG0469|consen   97 GFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTET-VLRQAIAE-----RIKPVLVMNKMDR  162 (842)
T ss_pred             ceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHH-HHHHHHHh-----hccceEEeehhhH
Confidence            789999999999999999999999999999999998864333333 34444432     2223678999995

>PRK10867 signal recognition particle protein; Provisional

Probab=97.88  E-value=7.9e-05  Score=61.20  Aligned_cols=87  Identities=17%  Similarity=0.152  Sum_probs=47.8

Q ss_pred             EEEEEEEeCCCCccccc-chh---hh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTS---SY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~---~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+.++||||...... ...   .+  .-..+.+++|+|+...+...+..    ..+...   .+ ..-+|+||.|...
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq~av~~a----~~F~~~---~~-i~giIlTKlD~~~  254 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQDAVNTA----KAFNEA---LG-LTGVILTKLDGDA  254 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHHHHHHHH----HHHHhh---CC-CCEEEEeCccCcc
Confidence            35789999999543321 111   11  12568889999987653322221    222211   11 2356779999633


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEecc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ...    .+.......+.|+.++..
T Consensus       255 rgG----~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        255 RGG----AALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             ccc----HHHHHHHHHCcCEEEEeC
Confidence            222    255566667788666554

>PF00448 SRP54: SRP54-type protein, GTPase domain; InterPro: IPR000897 The signal recognition particle (SRP) is a multimeric protein, which along with its conjugate receptor (SR), is involved in targeting secretory proteins to the rough endoplasmic reticulum (RER) membrane in eukaryotes, or to the plasma membrane in prokaryotes [, ]

Probab=97.87  E-value=0.00011  Score=54.07  Aligned_cols=87  Identities=18%  Similarity=0.073  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCCccccc----chhhhh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGT----LTSSYY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      +.+.++||||......    .+..++  ...+-+++|++++....-  +. .+......    .+ +-=+|+||.|....
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~--~~-~~~~~~~~----~~-~~~lIlTKlDet~~  155 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQED--LE-QALAFYEA----FG-IDGLILTKLDETAR  155 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHH--HH-HHHHHHHH----SS-TCEEEEESTTSSST
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHH--HH-HHHHHhhc----cc-CceEEEEeecCCCC
Confidence            4689999999554432    222222  257889999999876432  22 22222221    11 23567999997432


Q ss_pred             CccCHHHHHHHHHHcCCeEEEeccc
Q 028315          135 RAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                          .-....+....+.|+-.++.-
T Consensus       156 ----~G~~l~~~~~~~~Pi~~it~G  176 (196)
T PF00448_consen  156 ----LGALLSLAYESGLPISYITTG  176 (196)
T ss_dssp             ----THHHHHHHHHHTSEEEEEESS
T ss_pred             ----cccceeHHHHhCCCeEEEECC
Confidence                224556677778887666543

SRP recognises the signal sequence of the nascent polypeptide on the ribosome, retards its elongation, and docks the SRP-ribosome-polypeptide complex to the RER membrane via the SR receptor. Eukaryotic SRP consists of six polypeptides (SRP9, SRP14, SRP19, SRP54, SRP68 and SRP72) and a single 300 nucleotide 7S RNA molecule. The RNA component catalyses the interaction of SRP with its SR receptor []. In higher eukaryotes, the SRP complex consists of the Alu domain and the S domain linked by the SRP RNA. The Alu domain consists of a heterodimer of SRP9 and SRP14 bound to the 5' and 3' terminal sequences of SRP RNA. This domain is necessary for retarding the elongation of the nascent polypeptide chain, which gives SRP time to dock the ribosome-polypeptide complex to the RER membrane. In archaea, the SRP complex contains 7S RNA like its eukaryotic counterpart, yet only includes two of the six protein subunits found in the eukarytic complex: SRP19 and SRP54 []. This entry represents the GTPase domain of the 54 kDa SRP54 component, a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 of the signal recognition particle has a three-domain structure: an N-terminal helical bundle domain, a GTPase domain, and the M-domain that binds the 7s RNA and also binds the signal sequence. The extreme C-terminal region is glycine-rich and lower in complexity and poorly conserved between species. The GTPase domain is evolutionary related to P-loop NTPase domains found in a variety of other proteins []. These proteins include Escherichia coli and Bacillus subtilis ffh protein (P48), which seems to be the prokaryotic counterpart of SRP54; signal recognition particle receptor alpha subunit (docking protein), an integral membrane GTP-binding protein which ensures, in conjunction with SRP, the correct targeting of nascent secretory proteins to the endoplasmic reticulum membrane; bacterial FtsY protein, which is believed to play a similar role to that of the docking protein in eukaryotes; the pilA protein from Neisseria gonorrhoeae, the homologue of ftsY; and bacterial flagellar biosynthesis protein flhF.; GO: 0005525 GTP binding, 0006614 SRP-dependent cotranslational protein targeting to membrane; PDB: 2OG2_A 3B9Q_A 3DM9_B 3DMD_B 3E70_C 3DM5_B 2XXA_C 2J28_9 1ZU5_B 1ZU4_A ....

>TIGR00959 ffh signal recognition particle protein

Probab=97.85  E-value=9.7e-05  Score=60.63  Aligned_cols=87  Identities=18%  Similarity=0.137  Sum_probs=48.8

Q ss_pred             EEEEEEEeCCCCccccc-chh---hh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTS---SY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~---~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+.++||||...... ...   .+  .-..|.+++|+|+...+.   .. .+...+....   + ..=+|.||.|...
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq~---~~-~~a~~f~~~v---~-i~giIlTKlD~~~  253 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQD---AV-NTAKTFNERL---G-LTGVVLTKLDGDA  253 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchHH---HH-HHHHHHHhhC---C-CCEEEEeCccCcc
Confidence            45789999999543321 111   11  235788999999886532   22 1222222111   2 2356799999533


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEecc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ...    .+.......+.|+.++..
T Consensus       254 ~~G----~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       254 RGG----AALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             ccc----HHHHHHHHHCcCEEEEeC
Confidence            222    255666667788666554

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.84  E-value=0.0001  Score=51.19  Aligned_cols=106  Identities=18%  Similarity=0.171  Sum_probs=59.8

Q ss_pred             EEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCC
Q 028315           17 LLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        17 ~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                      +.-|..|+|||++--.+...-......+.-.+.....   ..-.+.+.++|+|+..  .......+..+|.++++.+.+.
T Consensus         4 ~~~~kgg~gkt~~~~~~a~~~~~~~~~~~~vd~D~~~---~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~~   78 (139)
T cd02038           4 VTSGKGGVGKTNISANLALALAKLGKRVLLLDADLGL---ANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPEP   78 (139)
T ss_pred             EEcCCCCCcHHHHHHHHHHHHHHCCCcEEEEECCCCC---CCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCCh
Confidence            3457889999998776532211111111111111000   0011678999999753  3344567889999999999763


Q ss_pred             HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           97 RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        97 ~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                       .++.... ..+..+....  ...++.+|+|+.+.
T Consensus        79 -~s~~~~~-~~l~~l~~~~--~~~~~~lVvN~~~~  109 (139)
T cd02038          79 -TSITDAY-ALIKKLAKQL--RVLNFRVVVNRAES  109 (139)
T ss_pred             -hHHHHHH-HHHHHHHHhc--CCCCEEEEEeCCCC
Confidence             3444444 2333333222  34567899999974

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.84  E-value=0.00028  Score=56.84  Aligned_cols=132  Identities=18%  Similarity=0.212  Sum_probs=71.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCC--CCCCCceeeEEEEEEEE-------------------E----------CCeEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSV--HDPSPTIGVDFKIKLLT-------------------V----------GGKRL   61 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~--~~~~~~~~~~~~~~~~~-------------------~----------~~~~~   61 (210)
                      .=.|+++|++||||||-+-+|.....  ......--.+.+++.+-                   .          .....
T Consensus       203 ~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~  282 (407)
T COG1419         203 KRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDC  282 (407)
T ss_pred             CcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcC
Confidence            44689999999999998888755444  11222222222322110                   0          12345


Q ss_pred             EEEEEeCCCCccccc----chhhhhcc--ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeCCCCCCC
Q 028315           62 KLTIWDTAGQERFGT----LTSSYYRG--AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDRDSE  134 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~----~~~~~~~~--~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~~~  134 (210)
                      .++|+||.|...++.    ....++..  ..-+.+|++++..  .+.+.    ..+..+.   ..|+ =+|+||.|....
T Consensus       283 d~ILVDTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlk----ei~~~f~---~~~i~~~I~TKlDET~s  353 (407)
T COG1419         283 DVILVDTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLK----EIIKQFS---LFPIDGLIFTKLDETTS  353 (407)
T ss_pred             CEEEEeCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHH----HHHHHhc---cCCcceeEEEcccccCc
Confidence            889999999765543    33344433  3455667777754  23333    3333332   2222 367899996432


Q ss_pred             CccCHHHHHHHHHHcCCeEEEec
Q 028315          135 RAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                        +  -....+....+.|+..++
T Consensus       354 --~--G~~~s~~~e~~~PV~YvT  372 (407)
T COG1419         354 --L--GNLFSLMYETRLPVSYVT  372 (407)
T ss_pred             --h--hHHHHHHHHhCCCeEEEe
Confidence              1  223444555556654444

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.83  E-value=0.00023  Score=58.22  Aligned_cols=135  Identities=16%  Similarity=0.144  Sum_probs=70.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC---------CCCc---------------eeeEEEEEEEE-------ECCeE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD---------PSPT---------------IGVDFKIKLLT-------VGGKR   60 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~---------~~~~---------------~~~~~~~~~~~-------~~~~~   60 (210)
                      ..-.++++|+.|+||||++..|.+.....         ..++               .+.......-.       ....+
T Consensus       190 ~g~vi~lvGpnG~GKTTtlakLA~~~~~~~~~~~v~~i~~d~~rigalEQL~~~a~ilGvp~~~v~~~~dl~~al~~l~~  269 (420)
T PRK14721        190 QGGVYALIGPTGVGKTTTTAKLAARAVIRHGADKVALLTTDSYRIGGHEQLRIYGKLLGVSVRSIKDIADLQLMLHELRG  269 (420)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEecCCcchhHHHHHHHHHHHcCCceecCCCHHHHHHHHHHhcC
Confidence            34589999999999999999876531100         0000               00000000000       01123


Q ss_pred             EEEEEEeCCCCccccc----chhhhh--ccccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           61 LKLTIWDTAGQERFGT----LTSSYY--RGAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ..+.++||+|......    ....+.  ...+-.++|+|++.. ..+.++.    ..+.     .--+-=+|+||.|...
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~~~~~~~~----~~f~-----~~~~~~~I~TKlDEt~  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSGDTLDEVI----SAYQ-----GHGIHGCIITKVDEAA  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCHHHHHHHH----HHhc-----CCCCCEEEEEeeeCCC
Confidence            4678899999544321    122221  224567889998853 3333222    2221     1113357899999744


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .-    -.+..+....+.++..++.-
T Consensus       341 ~~----G~~l~~~~~~~lPi~yvt~G  362 (420)
T PRK14721        341 SL----GIALDAVIRRKLVLHYVTNG  362 (420)
T ss_pred             Cc----cHHHHHHHHhCCCEEEEECC
Confidence            22    23455666677776666543

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.83  E-value=5.7e-05  Score=54.81  Aligned_cols=69  Identities=23%  Similarity=0.285  Sum_probs=38.8

Q ss_pred             EEEEEEEeCCCCcccccc--hhhh---hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGTL--TSSY---YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~--~~~~---~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      .....++++.|......+  ....   .-..+.++.|+|+.+-.........+...+..       .=+|++||+|+.+.
T Consensus        84 ~~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~-------ADvIvlnK~D~~~~  156 (178)
T PF02492_consen   84 RPDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAF-------ADVIVLNKIDLVSD  156 (178)
T ss_dssp             C-SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT--------SEEEEE-GGGHHH
T ss_pred             CcCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchh-------cCEEEEeccccCCh
Confidence            356677888885443333  1111   22468999999997653333333334444432       22889999998654


Q ss_pred             C
Q 028315          135 R  135 (210)
Q Consensus       135 ~  135 (210)
                      .
T Consensus       157 ~  157 (178)
T PF02492_consen  157 E  157 (178)
T ss_dssp             H
T ss_pred             h
Confidence            4

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=97.79  E-value=0.00054  Score=51.51  Aligned_cols=159  Identities=23%  Similarity=0.326  Sum_probs=90.7

Q ss_pred             EEEEEEcCCCC--cHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeE----EEEEEEeCCCCcccccchhhhhcccc
Q 028315           14 FKILLIGDSGV--GKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKR----LKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus        14 ~~i~i~G~~~~--GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~----~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      -.++++|..|+  ||-+|+.+|....+.. ......+.++  -++++..-    +.+-+.-.- .+.+.... ....-..
T Consensus         5 p~~lv~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~h--gwtid~kyysadi~lcishic-de~~lpn~-~~a~pl~   80 (418)
T KOG4273|consen    5 PCALVTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFH--GWTIDNKYYSADINLCISHIC-DEKFLPNA-EIAEPLQ   80 (418)
T ss_pred             ceEEEecccccccchHHHHHHhcchhheeeccccCceeee--ceEecceeeecceeEEeeccc-chhccCCc-cccccee
Confidence            35789999999  9999999997766644 2222222222  22333221    111111100 11111111 1123346


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC--------------------------------
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE--------------------------------  134 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~--------------------------------  134 (210)
                      ++++|||++....+..+. .|+.......  . --.+.++||.|..+.                                
T Consensus        81 a~vmvfdlse~s~l~alq-dwl~htdins--f-dillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgise  156 (418)
T KOG4273|consen   81 AFVMVFDLSEKSGLDALQ-DWLPHTDINS--F-DILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISE  156 (418)
T ss_pred             eEEEEEeccchhhhHHHH-hhcccccccc--c-hhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccc
Confidence            889999999988888777 6766443221  1 124567899886431                                


Q ss_pred             ------------CccCHHHHHHHHHHcCCeEEEeccc------------CCcCHHHHHHHHHHHHHccch
Q 028315          135 ------------RAVTREEGMILAQEHKCLFLECSAK------------NTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       135 ------------~~~~~~~~~~~~~~~~~~~~~~sa~------------~~~~i~~l~~~i~~~~~~~~~  180 (210)
                                  .-......++++..+++.+++.+|.            +..|++.+|..+.-.+....-
T Consensus       157 tegssllgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmwpgmi  226 (418)
T KOG4273|consen  157 TEGSSLLGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMWPGMI  226 (418)
T ss_pred             cccccccccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccCccce
Confidence                        0011223567778889999998884            235888888888776654443

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.78  E-value=0.00072  Score=53.58  Aligned_cols=96  Identities=14%  Similarity=0.163  Sum_probs=50.1

Q ss_pred             EEEEEEeCCCCcccccchhhhhc--------cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYR--------GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ....+++|.|......+...++.        ..++++.|+|+.+......-.......+.    .   .=+|++||+|+.
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~----~---AD~IvlnK~Dl~  163 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVG----Y---ADRILLTKTDVA  163 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHH----h---CCEEEEeccccC
Confidence            45678899996554444443321        24889999999764322111101111121    1   237899999987


Q ss_pred             CCCccCHHHHHHHHHHc--CCeEEEecccCCcCHHHHH
Q 028315          133 SERAVTREEGMILAQEH--KCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~~~i~~l~  168 (210)
                      ...    +......+..  .++++.++- .......+|
T Consensus       164 ~~~----~~~~~~l~~lnp~a~i~~~~~-~~v~~~~l~  196 (318)
T PRK11537        164 GEA----EKLRERLARINARAPVYTVVH-GDIDLSLLF  196 (318)
T ss_pred             CHH----HHHHHHHHHhCCCCEEEEecc-CCCCHHHHh
Confidence            532    2333333333  456666542 223444444

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.77  E-value=0.00051  Score=56.60  Aligned_cols=87  Identities=17%  Similarity=0.148  Sum_probs=49.2

Q ss_pred             EEEEEEEeCCCCcccc----cchhhhhc---cccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           60 RLKLTIWDTAGQERFG----TLTSSYYR---GAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~----~~~~~~~~---~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      .+.+.++||||.....    .....++.   ...-+++|++++.. ..+..+.    ..+.    ..+ +--+|+||.|.
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~~~~l~~~~----~~f~----~~~-~~~vI~TKlDe  369 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTKYEDLKDIY----KHFS----RLP-LDGLIFTKLDE  369 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCCHHHHHHHH----HHhC----CCC-CCEEEEecccc
Confidence            3578999999965443    22333333   23466788888654 2222222    2221    111 23588999997


Q ss_pred             CCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          132 DSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      ....    -.+..+....+.++..++.-
T Consensus       370 t~~~----G~i~~~~~~~~lPv~yit~G  393 (424)
T PRK05703        370 TSSL----GSILSLLIESGLPISYLTNG  393 (424)
T ss_pred             cccc----cHHHHHHHHHCCCEEEEeCC
Confidence            4322    24556667778887776544

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.73  E-value=0.00031  Score=56.52  Aligned_cols=88  Identities=11%  Similarity=0.095  Sum_probs=47.2

Q ss_pred             EEEEEEEeCCCCccccc----chhhhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT----LTSSYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~----~~~~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+.|+||||......    ....+..  ..+.+++|.++...  ..++.    ..+..+.  .-.+--+|+||.|...
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~--~~d~~----~i~~~f~--~l~i~glI~TKLDET~  356 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMK--SADVM----TILPKLA--EIPIDGFIITKMDETT  356 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCccc--HHHHH----HHHHhcC--cCCCCEEEEEcccCCC
Confidence            36889999999754332    1222222  34666777776432  22222    1222211  1123457799999743


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .-    =.+..+....+.|+..++.-
T Consensus       357 ~~----G~~Lsv~~~tglPIsylt~G  378 (407)
T PRK12726        357 RI----GDLYTVMQETNLPVLYMTDG  378 (407)
T ss_pred             Cc----cHHHHHHHHHCCCEEEEecC
Confidence            22    23455666778887666654

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.69  E-value=0.00094  Score=58.38  Aligned_cols=136  Identities=15%  Similarity=0.165  Sum_probs=70.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCC--CCc--eeeEEEEE---------------EE-EE-----------CCeEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDP--SPT--IGVDFKIK---------------LL-TV-----------GGKRLK   62 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~--~~~--~~~~~~~~---------------~~-~~-----------~~~~~~   62 (210)
                      --|+|+|+.|+||||.+.++........  ...  ...+.+..               .+ ..           ......
T Consensus       186 ~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~D  265 (767)
T PRK14723        186 GVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDKH  265 (767)
T ss_pred             eEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCCC
Confidence            3579999999999999999865331110  000  00000000               00 00           112347


Q ss_pred             EEEEeCCCCccccc-ch---hhh--hccccEEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           63 LTIWDTAGQERFGT-LT---SSY--YRGAHGIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      ++|+||+|....+. +.   ...  ....+-+++|+|++.. +.+.++...|....      .--+-=+|+||.|.....
T Consensus       266 ~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~~~~l~~i~~~f~~~~------~~~i~glIlTKLDEt~~~  339 (767)
T PRK14723        266 LVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASHGDTLNEVVHAYRHGA------GEDVDGCIITKLDEATHL  339 (767)
T ss_pred             EEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCcHHHHHHHHHHHhhcc------cCCCCEEEEeccCCCCCc
Confidence            89999999433221 11   111  1235678899998853 33443332222110      001335779999975432


Q ss_pred             ccCHHHHHHHHHHcCCeEEEeccc
Q 028315          136 AVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .    .+..+....+.|+.+++.-
T Consensus       340 G----~iL~i~~~~~lPI~yit~G  359 (767)
T PRK14723        340 G----PALDTVIRHRLPVHYVSTG  359 (767)
T ss_pred             c----HHHHHHHHHCCCeEEEecC
Confidence            2    3455566677787666543

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.65  E-value=0.00043  Score=45.35  Aligned_cols=78  Identities=18%  Similarity=0.241  Sum_probs=47.7

Q ss_pred             EEEEc-CCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           16 ILLIG-DSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        16 i~i~G-~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      |++.| ..|+||||+...+.........+..-.+.       +. .+.+.++|+|+....  .....+..+|.++++++.
T Consensus         2 i~~~~~kgG~Gkst~~~~la~~~~~~~~~vl~~d~-------d~-~~d~viiD~p~~~~~--~~~~~l~~ad~viv~~~~   71 (104)
T cd02042           2 IAVANQKGGVGKTTTAVNLAAALARRGKRVLLIDL-------DP-QYDYIIIDTPPSLGL--LTRNALAAADLVLIPVQP   71 (104)
T ss_pred             EEEEeCCCCcCHHHHHHHHHHHHHhCCCcEEEEeC-------CC-CCCEEEEeCcCCCCH--HHHHHHHHCCEEEEeccC
Confidence            56666 56899999888764332211112221111       11 167899999986432  233667889999999987


Q ss_pred             CCHhhHHHHH
Q 028315           95 TRRETFTNLS  104 (210)
Q Consensus        95 ~~~~~~~~~~  104 (210)
                      + ..++....
T Consensus        72 ~-~~s~~~~~   80 (104)
T cd02042          72 S-PLDLDGLE   80 (104)
T ss_pred             C-HHHHHHHH
Confidence            5 44555555

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.65  E-value=0.00067  Score=43.38  Aligned_cols=69  Identities=19%  Similarity=0.214  Sum_probs=44.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc-hhhhhccccEEEEEEeC
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL-TSSYYRGAHGIILVYDV   94 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~-~~~~~~~~d~~i~v~d~   94 (210)
                      +++.|..|+|||++...+............         .++    .+.++|+++....... .......+|.++++++.
T Consensus         2 ~~~~g~~G~Gktt~~~~l~~~l~~~g~~v~---------~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~   68 (99)
T cd01983           2 IVVTGKGGVGKTTLAANLAAALAKRGKRVL---------LID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTP   68 (99)
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHCCCeEE---------EEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCC
Confidence            578899999999999887544322111111         112    6788899986443221 14556778999999987


Q ss_pred             CCH
Q 028315           95 TRR   97 (210)
Q Consensus        95 ~~~   97 (210)
                      ...
T Consensus        69 ~~~   71 (99)
T cd01983          69 EAL   71 (99)
T ss_pred             chh
Confidence            754

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.59  E-value=0.0012  Score=55.05  Aligned_cols=134  Identities=17%  Similarity=0.170  Sum_probs=67.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC--C-------CCce---------------eeEEEEEEEE-------ECCeEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD--P-------SPTI---------------GVDFKIKLLT-------VGGKRLK   62 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~--~-------~~~~---------------~~~~~~~~~~-------~~~~~~~   62 (210)
                      --++|+|++|+||||++..|.......  .       ..+.               +.......-.       ....+..
T Consensus       257 ~Vi~LvGpnGvGKTTTiaKLA~~~~~~~G~~kV~LI~~Dt~RigA~EQLr~~AeilGVpv~~~~~~~Dl~~aL~~L~d~d  336 (484)
T PRK06995        257 GVFALMGPTGVGKTTTTAKLAARCVMRHGASKVALLTTDSYRIGGHEQLRIYGKILGVPVHAVKDAADLRLALSELRNKH  336 (484)
T ss_pred             cEEEEECCCCccHHHHHHHHHHHHHHhcCCCeEEEEeCCccchhHHHHHHHHHHHhCCCeeccCCchhHHHHHHhccCCC
Confidence            468999999999999999986432111  0       0000               0000000000       0112346


Q ss_pred             EEEEeCCCCccccc---chhhhhcc---ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc
Q 028315           63 LTIWDTAGQERFGT---LTSSYYRG---AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA  136 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~---~~~~~~~~---~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~  136 (210)
                      +.++||+|......   .....+..   ..-.++|+|++...  ..+.    .....+.  ....--+|+||.|....  
T Consensus       337 ~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~----~i~~~f~--~~~~~g~IlTKlDet~~--  406 (484)
T PRK06995        337 IVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLN----EVVQAYR--GPGLAGCILTKLDEAAS--  406 (484)
T ss_pred             eEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHH----HHHHHhc--cCCCCEEEEeCCCCccc--
Confidence            78899999433221   11112222   23368888987542  2222    2222222  12234567899996432  


Q ss_pred             cCHHHHHHHHHHcCCeEEEeccc
Q 028315          137 VTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       137 ~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                        .-.+..+....+.++.+++.-
T Consensus       407 --~G~~l~i~~~~~lPI~yvt~G  427 (484)
T PRK06995        407 --LGGALDVVIRYKLPLHYVSNG  427 (484)
T ss_pred             --chHHHHHHHHHCCCeEEEecC
Confidence              224456666778887666543

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.49  E-value=0.0009  Score=53.59  Aligned_cols=21  Identities=29%  Similarity=0.586  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++.|.-|+|||||+++++..
T Consensus         7 ~iltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         7 TIVTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEEEECCCCCHHHHHHHHHhc
Confidence            578899999999999999754

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.48  E-value=0.00032  Score=40.30  Aligned_cols=44  Identities=23%  Similarity=0.240  Sum_probs=24.7

Q ss_pred             cccEEEEEEeCCCHhhH--HHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           84 GAHGIILVYDVTRRETF--TNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                      -.+++++++|++....+  ++-. .++..++..  -.++|+++|+||+|
T Consensus        13 L~~~ilfi~D~Se~CGysie~Q~-~L~~~ik~~--F~~~P~i~V~nK~D   58 (58)
T PF06858_consen   13 LADAILFIIDPSEQCGYSIEEQL-SLFKEIKPL--FPNKPVIVVLNKID   58 (58)
T ss_dssp             T-SEEEEEE-TT-TTSS-HHHHH-HHHHHHHHH--TTTS-EEEEE--TT
T ss_pred             hcceEEEEEcCCCCCCCCHHHHH-HHHHHHHHH--cCCCCEEEEEeccC
Confidence            36899999999986654  2222 233333332  25899999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.47  E-value=0.0016  Score=53.15  Aligned_cols=134  Identities=21%  Similarity=0.216  Sum_probs=70.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC-CC----C---CC---------------CceeeEEEEEE------EEECCeEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS-VH----D---PS---------------PTIGVDFKIKL------LTVGGKRLKL   63 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~-~~----~---~~---------------~~~~~~~~~~~------~~~~~~~~~~   63 (210)
                      ..-++++|++|+||||++.+|.... ..    .   ..               ...+.......      ..+...++.+
T Consensus       223 ~~vi~lvGptGvGKTTtaaKLA~~~~~~~G~~V~Lit~Dt~R~aA~eQLk~yAe~lgvp~~~~~~~~~l~~~l~~~~~D~  302 (432)
T PRK12724        223 RKVVFFVGPTGSGKTTSIAKLAAKYFLHMGKSVSLYTTDNYRIAAIEQLKRYADTMGMPFYPVKDIKKFKETLARDGSEL  302 (432)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEecccchhhhHHHHHHHHHHhcCCCeeehHHHHHHHHHHHhCCCCE
Confidence            3468899999999999999886421 00    0   00               01111111100      0001134578


Q ss_pred             EEEeCCCCcccc-c---chhhhhc-----cccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           64 TIWDTAGQERFG-T---LTSSYYR-----GAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        64 ~l~Dt~G~~~~~-~---~~~~~~~-----~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .++||+|..... .   .+..+++     ...-.++|+|++... ....+.    ..+.    .. -+-=+|+||.|...
T Consensus       303 VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~~~~~----~~f~----~~-~~~glIlTKLDEt~  373 (432)
T PRK12724        303 ILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHTLTVL----KAYE----SL-NYRRILLTKLDEAD  373 (432)
T ss_pred             EEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHHHHHH----HHhc----CC-CCCEEEEEcccCCC
Confidence            999999964322 1   2222222     234678899988764 222222    2221    11 13357899999743


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          134 ERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      ...    .+..+....+.|+..++.-
T Consensus       374 ~~G----~il~i~~~~~lPI~ylt~G  395 (432)
T PRK12724        374 FLG----SFLELADTYSKSFTYLSVG  395 (432)
T ss_pred             Ccc----HHHHHHHHHCCCEEEEecC
Confidence            221    2455566677886666543

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.42  E-value=0.00098  Score=45.85  Aligned_cols=25  Identities=24%  Similarity=0.476  Sum_probs=21.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      -.+++.|++|+|||+|++.+.....
T Consensus        20 ~~v~i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          20 KNLLLYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHhh
Confidence            4689999999999999999976654

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.42  E-value=0.0011  Score=51.24  Aligned_cols=132  Identities=17%  Similarity=0.177  Sum_probs=70.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-------CC---------------CceeeEEEEEEEE---------E-CCeEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-------PS---------------PTIGVDFKIKLLT---------V-GGKRL   61 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-------~~---------------~~~~~~~~~~~~~---------~-~~~~~   61 (210)
                      -+++++|++|+||||++..+.......       ..               ...+..+....-.         . ...++
T Consensus        76 ~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~~~  155 (270)
T PRK06731         76 QTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEARV  155 (270)
T ss_pred             CEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcCCC
Confidence            589999999999999998774431100       00               0011111110000         0 11246


Q ss_pred             EEEEEeCCCCccccc-c---hhhhh--ccccEEEEEEeCCC-HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           62 KLTIWDTAGQERFGT-L---TSSYY--RGAHGIILVYDVTR-RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~-~---~~~~~--~~~d~~i~v~d~~~-~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      .+.++||||...... .   +..++  ...+-+++|+|++. .....+..    ..+.     .-.+-=+|+||.|....
T Consensus       156 D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~~d~~~~~----~~f~-----~~~~~~~I~TKlDet~~  226 (270)
T PRK06731        156 DYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKSKDMIEII----TNFK-----DIHIDGIVFTKFDETAS  226 (270)
T ss_pred             CEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCHHHHHHHH----HHhC-----CCCCCEEEEEeecCCCC
Confidence            889999999653321 1   22222  24567899999874 33322222    2222     11234578999997543


Q ss_pred             CccCHHHHHHHHHHcCCeEEEecc
Q 028315          135 RAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ..    -+..+....+.|+..++.
T Consensus       227 ~G----~~l~~~~~~~~Pi~~it~  246 (270)
T PRK06731        227 SG----ELLKIPAVSSAPIVLMTD  246 (270)
T ss_pred             cc----HHHHHHHHHCcCEEEEeC
Confidence            21    344556667777666653

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.40  E-value=0.0017  Score=52.84  Aligned_cols=134  Identities=16%  Similarity=0.162  Sum_probs=70.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCC--------CC---CCCc---------------eeeEEEEEEEE-------ECCe
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSV--------HD---PSPT---------------IGVDFKIKLLT-------VGGK   59 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~--------~~---~~~~---------------~~~~~~~~~~~-------~~~~   59 (210)
                      +-.|+++|++|+||||.+.++.....        ..   ...+               .+..+......       -...
T Consensus       174 ~~vi~lvGptGvGKTTT~aKLA~~~~~~~~~~g~~V~lit~Dt~R~aa~eQL~~~a~~lgvpv~~~~~~~~l~~~L~~~~  253 (388)
T PRK12723        174 KRVFILVGPTGVGKTTTIAKLAAIYGINSDDKSLNIKIITIDNYRIGAKKQIQTYGDIMGIPVKAIESFKDLKEEITQSK  253 (388)
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHhhhccCCCeEEEEeccCccHHHHHHHHHHhhcCCcceEeeCcHHHHHHHHHHhC
Confidence            45789999999999999988753211        00   0000               11111110000       0113


Q ss_pred             EEEEEEEeCCCCccccc----chhhhhccc--c-EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT----LTSSYYRGA--H-GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~----~~~~~~~~~--d-~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ++.+.++||+|......    ....++...  + -.++|+|++...  ..+.    ..+..+.  .--+-=+|+||.|..
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~~--~~~~----~~~~~~~--~~~~~~~I~TKlDet  325 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTKT--SDVK----EIFHQFS--PFSYKTVIFTKLDET  325 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCCH--HHHH----HHHHHhc--CCCCCEEEEEeccCC
Confidence            46889999999543321    222233322  3 588999998763  2222    2233222  111345789999974


Q ss_pred             CCCccCHHHHHHHHHHcCCeEEEecc
Q 028315          133 SERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ....    -+..+....+.|+..++.
T Consensus       326 ~~~G----~~l~~~~~~~~Pi~yit~  347 (388)
T PRK12723        326 TCVG----NLISLIYEMRKEVSYVTD  347 (388)
T ss_pred             Ccch----HHHHHHHHHCCCEEEEeC
Confidence            3322    344555666777666543

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.40  E-value=0.00027  Score=56.30  Aligned_cols=101  Identities=18%  Similarity=0.197  Sum_probs=57.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-C---------------------CCceeeEEEEEEEEE------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-P---------------------SPTIGVDFKIKLLTV------------   56 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~---------------------~~~~~~~~~~~~~~~------------   56 (210)
                      .++--|.++|..|+||||.+.+|....... +                     ....+..++......            
T Consensus        99 ~kpsVimfVGLqG~GKTTtc~KlA~y~kkkG~K~~LvcaDTFRagAfDQLkqnA~k~~iP~ygsyte~dpv~ia~egv~~  178 (483)
T KOG0780|consen   99 GKPSVIMFVGLQGSGKTTTCTKLAYYYKKKGYKVALVCADTFRAGAFDQLKQNATKARVPFYGSYTEADPVKIASEGVDR  178 (483)
T ss_pred             CCCcEEEEEeccCCCcceeHHHHHHHHHhcCCceeEEeecccccchHHHHHHHhHhhCCeeEecccccchHHHHHHHHHH
Confidence            445668999999999999887763211110 0                     011111222110011            


Q ss_pred             -CCeEEEEEEEeCCCCc-ccccchhhh-----hccccEEEEEEeCCCHhhHHHHHHHHHHHH
Q 028315           57 -GGKRLKLTIWDTAGQE-RFGTLTSSY-----YRGAHGIILVYDVTRRETFTNLSSVWAKEV  111 (210)
Q Consensus        57 -~~~~~~~~l~Dt~G~~-~~~~~~~~~-----~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~  111 (210)
                       ..+++.++|.||+|.. ...++....     .-..|-+|+|.|++-.+..+.....|...+
T Consensus       179 fKke~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~aFk~~v  240 (483)
T KOG0780|consen  179 FKKENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQARAFKETV  240 (483)
T ss_pred             HHhcCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHHHHHHhh
Confidence             2345789999999943 222233222     235799999999998776655554555554

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.39  E-value=0.00017  Score=48.59  Aligned_cols=22  Identities=32%  Similarity=0.530  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|+|.|++||||||+.+.|...
T Consensus         1 vI~I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    1 VIIISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999999664

...

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.36  E-value=0.00021  Score=52.29  Aligned_cols=22  Identities=32%  Similarity=0.567  Sum_probs=18.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +-++++|+.|+||||+.+.+..
T Consensus         4 ya~lV~GpAgSGKSTyC~~~~~   25 (273)
T KOG1534|consen    4 YAQLVMGPAGSGKSTYCSSMYE   25 (273)
T ss_pred             eeEEEEccCCCCcchHHHHHHH
Confidence            4578999999999999998743

>PRK14738 gmk guanylate kinase; Provisional

Probab=97.35  E-value=0.00024  Score=52.83  Aligned_cols=28  Identities=25%  Similarity=0.440  Sum_probs=22.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+.+..-|+|+|++|+|||||++.|...
T Consensus         9 ~~~~~~~ivi~GpsG~GK~tl~~~L~~~   36 (206)
T PRK14738          9 KPAKPLLVVISGPSGVGKDAVLARMRER   36 (206)
T ss_pred             CCCCCeEEEEECcCCCCHHHHHHHHHhc
Confidence            3345667889999999999999999654

>PRK14737 gmk guanylate kinase; Provisional

Probab=97.34  E-value=0.00015  Score=52.91  Aligned_cols=24  Identities=25%  Similarity=0.401  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .=|+++|++|+|||||+++|+...
T Consensus         5 ~~ivl~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          5 KLFIISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhcC
Confidence            447999999999999999997654

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=97.34  E-value=0.0002  Score=51.92  Aligned_cols=22  Identities=36%  Similarity=0.705  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ||+|+|+|||||||+..++...
T Consensus         2 riiilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           2 RILILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999766

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.33  E-value=0.0019  Score=42.58  Aligned_cols=100  Identities=14%  Similarity=0.112  Sum_probs=55.3

Q ss_pred             EcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCH
Q 028315           19 IGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR   97 (210)
Q Consensus        19 ~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   97 (210)
                      -+..|+||||+...+...-... ...+.-.+....     . +..+.++|+|+...  ......+..+|.++++.+.+. 
T Consensus         6 ~~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~d~~-----~-~~D~IIiDtpp~~~--~~~~~~l~~aD~vlvvv~~~~-   76 (106)
T cd03111           6 GAKGGVGATTLAANLAVALAKEAGRRVLLVDLDLQ-----F-GDDYVVVDLGRSLD--EVSLAALDQADRVFLVTQQDL-   76 (106)
T ss_pred             CCCCCCcHHHHHHHHHHHHHhcCCCcEEEEECCCC-----C-CCCEEEEeCCCCcC--HHHHHHHHHcCeEEEEecCCh-
Confidence            3567799999777663322211 112211111111     0 11688999998643  233456788999999998664 


Q ss_pred             hhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           98 ETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        98 ~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      .+..... .+...+..........+.+|+|+
T Consensus        77 ~s~~~~~-~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          77 PSIRNAK-RLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHH-HHHHHHHHcCCCCcCceEEEecC
Confidence            4455555 45555544331113456677774

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PRK08118 topology modulation protein; Reviewed

Probab=97.33  E-value=0.00021  Score=51.30  Aligned_cols=23  Identities=43%  Similarity=0.618  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ||+|+|++|+|||||...+....
T Consensus         3 rI~I~G~~GsGKSTlak~L~~~l   25 (167)
T PRK08118          3 KIILIGSGGSGKSTLARQLGEKL   25 (167)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            79999999999999999986543

>KOG1970 consensus Checkpoint RAD17-RFC complex, RAD17/RAD24 component [Cell cycle control, cell division, chromosome partitioning; Replication, recombination and repair]

Probab=97.31  E-value=0.0017  Score=54.05  Aligned_cols=90  Identities=13%  Similarity=0.109  Sum_probs=53.5

Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      ..+|+|=|+-+...+.... .+...+..+......|+|++++-+-......-.......+....++..+........-+.
T Consensus       195 ~~liLveDLPn~~~~d~~~-~f~evL~~y~s~g~~PlIf~iTd~~~~g~nnq~rlf~~d~q~~~ri~~IsFNPIa~T~MK  273 (634)
T KOG1970|consen  195 KKLILVEDLPNQFYRDDSE-TFREVLRLYVSIGRCPLIFIITDSLSNGNNNQDRLFPKDIQEEPRISNISFNPIAPTIMK  273 (634)
T ss_pred             ceEEEeeccchhhhhhhHH-HHHHHHHHHHhcCCCcEEEEEeccccCCCcchhhhchhhhhhccCcceEeecCCcHHHHH
Confidence            3457777776654444333 566666666656788999999887653221111111222234556667777777666777


Q ss_pred             HHHHHHHHHHH
Q 028315          166 QCFKDLLYKIL  176 (210)
Q Consensus       166 ~l~~~i~~~~~  176 (210)
                      ..+..|+....
T Consensus       274 K~L~ric~~e~  284 (634)
T KOG1970|consen  274 KFLKRICRIEA  284 (634)
T ss_pred             HHHHHHHHHhc
Confidence            77777666544

>PRK07261 topology modulation protein; Provisional

Probab=97.30  E-value=0.00023  Score=51.27  Aligned_cols=22  Identities=45%  Similarity=0.622  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ||+|+|++|+|||||.+.+...
T Consensus         2 ri~i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          2 KIAIIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            7999999999999999998644

>PF13521 AAA_28: AAA domain; PDB: 1LW7_A

Probab=97.24  E-value=0.00021  Score=51.00  Aligned_cols=22  Identities=23%  Similarity=0.599  Sum_probs=17.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ||+|+|.+++|||||++.|...
T Consensus         1 rI~i~G~~stGKTTL~~~L~~~   22 (163)
T PF13521_consen    1 RIVITGGPSTGKTTLIEALAAR   22 (163)
T ss_dssp             -EEEE--TTSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHc
Confidence            7999999999999999999755

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=97.23  E-value=0.00028  Score=48.95  Aligned_cols=21  Identities=38%  Similarity=0.604  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+++|+||+|||||++.+...
T Consensus         2 ii~~G~pgsGKSt~a~~l~~~   22 (143)
T PF13671_consen    2 IILCGPPGSGKSTLAKRLAKR   22 (143)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999998643

...

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.23  E-value=0.0016  Score=50.63  Aligned_cols=108  Identities=12%  Similarity=0.130  Sum_probs=66.4

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc------------
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF------------   74 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~------------   74 (210)
                      .+...+.-+++++|++|-|||+++++|........ ....            ....+....+|.....            
T Consensus        55 ~P~~~Rmp~lLivG~snnGKT~Ii~rF~~~hp~~~-d~~~------------~~~PVv~vq~P~~p~~~~~Y~~IL~~lg  121 (302)
T PF05621_consen   55 YPKRHRMPNLLIVGDSNNGKTMIIERFRRLHPPQS-DEDA------------ERIPVVYVQMPPEPDERRFYSAILEALG  121 (302)
T ss_pred             CCcccCCCceEEecCCCCcHHHHHHHHHHHCCCCC-CCCC------------ccccEEEEecCCCCChHHHHHHHHHHhC
Confidence            34456667899999999999999999977554322 1111            1224445555542111            


Q ss_pred             ------------ccchhhhhccccEEEEEEeCCCH---hhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           75 ------------GTLTSSYYRGAHGIILVYDVTRR---ETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        75 ------------~~~~~~~~~~~d~~i~v~d~~~~---~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                                  .......++...+=++++|=-.-   -+..+-. .++..+....+...+|+|.||++
T Consensus       122 aP~~~~~~~~~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr-~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  122 APYRPRDRVAKLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQR-EFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             cccCCCCCHHHHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHH-HHHHHHHHHhhccCCCeEEeccH
Confidence                        11122345677888888885532   1223333 56677777776778999999865

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=97.21  E-value=0.0013  Score=47.49  Aligned_cols=45  Identities=20%  Similarity=0.075  Sum_probs=29.2

Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      |++++|+|+.++.+...-  .+...+.  ....+.|+++|+||+|+.+.
T Consensus         1 DvVl~VvDar~p~~~~~~--~i~~~~~--l~~~~kp~IlVlNK~DL~~~   45 (172)
T cd04178           1 DVILEVLDARDPLGCRCP--QVEEAVL--QAGGNKKLVLVLNKIDLVPK   45 (172)
T ss_pred             CEEEEEEECCCCCCCCCH--HHHHHHH--hccCCCCEEEEEehhhcCCH
Confidence            789999999887432211  2223221  11346899999999999643

Nucleostemin (NS) is a nucleolar protein that functions as a regulator of cell growth and proliferation in stem cells and in several types of cancer cells, but is not expressed in the differentiated cells of most mammalian adult tissues. NS shuttles between the nucleolus and nucleoplasm bidirectionally at a rate that is fast and independent of cell type. Lowering GTP levels decreases the nucleolar retention of NS, and expression of NS is abruptly down-regulated during differentiation prior to terminal cell division. Found only in eukaryotes, NS consists of an N-terminal basic domain, a coiled-coil domain, a GTP-binding domain, an intermediate domain, and a C-terminal acidic domain. Experimental evidence indicates that NS uses its GTP-binding property as a molecular switch to control the transition between the nucleolus and nucleoplasm, and this process involves interaction between the basic, GTP-binding, and intermediate domains of the

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.18  E-value=0.0046  Score=44.69  Aligned_cols=86  Identities=22%  Similarity=0.098  Sum_probs=56.9

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      ..+.+.++|||+...  ......+..+|.+++++..+.. +...+. .+...+..    .+.|+.+|+|+.|....   .
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~~-~~~~~~-~~~~~l~~----~~~~~~vV~N~~~~~~~---~  159 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPTPS-GLHDLE-RAVELVRH----FGIPVGVVINKYDLNDE---I  159 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCcc-cHHHHH-HHHHHHHH----cCCCEEEEEeCCCCCcc---h
Confidence            457899999997642  2334567889999999988743 445554 44444442    35678899999986432   2


Q ss_pred             HHHHHHHHHHcCCeEEE
Q 028315          139 REEGMILAQEHKCLFLE  155 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~~  155 (210)
                      .++..++.+..+++++.
T Consensus       160 ~~~~~~~~~~~~~~vl~  176 (179)
T cd03110         160 AEEIEDYCEEEGIPILG  176 (179)
T ss_pred             HHHHHHHHHHcCCCeEE
Confidence            34556667777877553

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=97.17  E-value=0.0002  Score=51.49  Aligned_cols=24  Identities=42%  Similarity=0.733  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .=+++.|++|+|||||++.|+...
T Consensus         5 ~l~vlsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           5 LLIVLSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhc
Confidence            347899999999999999998776

>PF03215 Rad17: Rad17 cell cycle checkpoint protein

Probab=97.13  E-value=0.0044  Score=52.37  Aligned_cols=87  Identities=17%  Similarity=0.172  Sum_probs=45.9

Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCC-cEEEEEeCCCCCCC----Cc--cCHH--HHHHHHHHcCCeEEEec
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC-VKILVGNKVDRDSE----RA--VTRE--EGMILAQEHKCLFLECS  157 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl~~~----~~--~~~~--~~~~~~~~~~~~~~~~s  157 (210)
                      -+|+|=|+-+.-.-+.  ..+...+..+...... |+|+|++-+|....    +.  +..+  ...++....++..+...
T Consensus       134 kvILVEDlPN~~~~~~--~~f~~~L~~~l~~~~~~PlV~iiSe~~~~~~~~~~~~~~~t~~~L~~~~il~~~~i~~I~FN  211 (519)
T PF03215_consen  134 KVILVEDLPNVFHRDT--SRFREALRQYLRSSRCLPLVFIISETESLSGDNSYRSNSFTAERLFPKEILNHPGITRIKFN  211 (519)
T ss_pred             eEEEeeccccccchhH--HHHHHHHHHHHHcCCCCCEEEEEecccccCCCCcccccchhhhhccCHHHHhCCCceEEEec
Confidence            4555545543211111  2455555555434555 99999996543211    00  1111  11233445577777777


Q ss_pred             ccCCcCHHHHHHHHHHHH
Q 028315          158 AKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~  175 (210)
                      +.....+...+..|+..-
T Consensus       212 pIa~T~mkKaL~rI~~~E  229 (519)
T PF03215_consen  212 PIAPTFMKKALKRILKKE  229 (519)
T ss_pred             CCCHHHHHHHHHHHHHHH
Confidence            777777777777766643

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.12  E-value=0.0088  Score=43.01  Aligned_cols=84  Identities=12%  Similarity=-0.065  Sum_probs=49.6

Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHH
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREE  141 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~  141 (210)
                      .+.++|+|+....  .....+..+|.++++++.+.. ++.... .+...+..   .......+++|+.+....  ...+.
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~~-s~~~~~-~~~~~~~~---~~~~~~~iv~N~~~~~~~--~~~~~  134 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEIS-SLRDAD-RVKGLLEA---LGIKVVGVIVNRVRPDMV--EGGDM  134 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCcc-hHHHHH-HHHHHHHH---cCCceEEEEEeCCccccc--chhhH
Confidence            6889999985432  334557889999999987743 344444 34444433   122356789999986432  22222


Q ss_pred             HHHHHHHcCCeEE
Q 028315          142 GMILAQEHKCLFL  154 (210)
Q Consensus       142 ~~~~~~~~~~~~~  154 (210)
                      ...+.+.++.+++
T Consensus       135 ~~~~~~~~~~~v~  147 (179)
T cd02036         135 VEDIEEILGVPLL  147 (179)
T ss_pred             HHHHHHHhCCCEE
Confidence            3445555666654

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.12  E-value=0.00023  Score=57.52  Aligned_cols=113  Identities=19%  Similarity=0.229  Sum_probs=63.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh----CCCCC-------CC-----------CceeeEEEEEE-----EEE-------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS----NSVHD-------PS-----------PTIGVDFKIKL-----LTV-------   56 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~----~~~~~-------~~-----------~~~~~~~~~~~-----~~~-------   56 (210)
                      .++..|+++|..|+||||..-+|..    .....       +-           ...+..++...     +.+       
T Consensus        98 ~~P~vImmvGLQGsGKTTt~~KLA~~lkk~~~kvllVaaD~~RpAA~eQL~~La~q~~v~~f~~~~~~~Pv~Iak~al~~  177 (451)
T COG0541          98 KPPTVILMVGLQGSGKTTTAGKLAKYLKKKGKKVLLVAADTYRPAAIEQLKQLAEQVGVPFFGSGTEKDPVEIAKAALEK  177 (451)
T ss_pred             CCCeEEEEEeccCCChHhHHHHHHHHHHHcCCceEEEecccCChHHHHHHHHHHHHcCCceecCCCCCCHHHHHHHHHHH
Confidence            3467899999999999998776632    11100       00           01122222110     000       


Q ss_pred             -CCeEEEEEEEeCCCCcccc-cchhhh-----hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           57 -GGKRLKLTIWDTAGQERFG-TLTSSY-----YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        57 -~~~~~~~~l~Dt~G~~~~~-~~~~~~-----~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                       ....+.+.++||+|....+ .+....     .-+.|=+++|+|+.-.+...+....|.+.+..        .=||+||.
T Consensus       178 ak~~~~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e~l~i--------tGvIlTKl  249 (451)
T COG0541         178 AKEEGYDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEALGI--------TGVILTKL  249 (451)
T ss_pred             HHHcCCCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhhhcCC--------ceEEEEcc
Confidence             1223578899999954333 222221     34689999999999887665555444443321        12556777


Q ss_pred             CC
Q 028315          130 DR  131 (210)
Q Consensus       130 Dl  131 (210)
                      |-
T Consensus       250 DG  251 (451)
T COG0541         250 DG  251 (451)
T ss_pred             cC
Confidence            74

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=97.11  E-value=0.00056  Score=41.35  Aligned_cols=22  Identities=36%  Similarity=0.530  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |++.|.+|+||||+.+.+...-
T Consensus         2 i~i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           2 IAITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6889999999999999986553

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=97.10  E-value=0.00042  Score=51.12  Aligned_cols=25  Identities=20%  Similarity=-0.036  Sum_probs=20.3

Q ss_pred             EecccCCcCHHHHHHHHHHHHHccc
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      .|||.+.+-+.|+++.+.+...+..
T Consensus       163 PTSALDPElv~EVL~vm~~LA~eGm  187 (240)
T COG1126         163 PTSALDPELVGEVLDVMKDLAEEGM  187 (240)
T ss_pred             CcccCCHHHHHHHHHHHHHHHHcCC
Confidence            3899999999999988887766553

>COG4088 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=97.06  E-value=0.0027  Score=46.64  Aligned_cols=119  Identities=13%  Similarity=0.213  Sum_probs=59.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC---Ccccc-----cchhhhhccccE
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG---QERFG-----TLTSSYYRGAHG   87 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G---~~~~~-----~~~~~~~~~~d~   87 (210)
                      |++.|.||+|||||.+.|...-....-..+         +....-....+||-.-   .+.|.     +.........+-
T Consensus         4 iIlTGyPgsGKTtfakeLak~L~~~i~~vi---------~l~kdy~~~i~~DEslpi~ke~yres~~ks~~rlldSalkn   74 (261)
T COG4088           4 IILTGYPGSGKTTFAKELAKELRQEIWRVI---------HLEKDYLRGILWDESLPILKEVYRESFLKSVERLLDSALKN   74 (261)
T ss_pred             EEEecCCCCCchHHHHHHHHHHHHhhhhcc---------ccchhhhhheecccccchHHHHHHHHHHHHHHHHHHHHhcc
Confidence            689999999999999987543332211111         0111112345566432   11111     111122233455


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC--------CCCCccCHHHHHHHHHHc
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR--------DSERAVTREEGMILAQEH  149 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl--------~~~~~~~~~~~~~~~~~~  149 (210)
                      .++.+|..+.  +..+.    ..+.....+...+..||-.++.+        .+...+.++-..++...+
T Consensus        75 ~~VIvDdtNY--yksmR----rqL~ceak~~~tt~ciIyl~~plDtc~rrN~ergepip~Evl~qly~Rf  138 (261)
T COG4088          75 YLVIVDDTNY--YKSMR----RQLACEAKERKTTWCIIYLRTPLDTCLRRNRERGEPIPEEVLRQLYDRF  138 (261)
T ss_pred             eEEEEecccH--HHHHH----HHHHHHHHhcCCceEEEEEccCHHHHHHhhccCCCCCCHHHHHHHHHhh
Confidence            5666777765  22222    22222232456677777777654        234455666666666554

>PRK01889 GTPase RsgA; Reviewed

Probab=97.05  E-value=0.00082  Score=54.16  Aligned_cols=25  Identities=40%  Similarity=0.703  Sum_probs=21.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      -+++++|.+|+|||||++.+.+...
T Consensus       196 ~~~~lvG~sgvGKStLin~L~g~~~  220 (356)
T PRK01889        196 KTVALLGSSGVGKSTLVNALLGEEV  220 (356)
T ss_pred             CEEEEECCCCccHHHHHHHHHHhcc
Confidence            3789999999999999999987544

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.04  E-value=0.00074  Score=39.72  Aligned_cols=21  Identities=33%  Similarity=0.574  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..+|.|+.|+|||||+..+..
T Consensus        25 ~tli~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   25 VTLITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            378999999999999998754

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.99  E-value=0.0008  Score=46.62  Aligned_cols=21  Identities=52%  Similarity=0.825  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+++|++|+|||||++.+...
T Consensus         2 i~i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           2 IVLSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EEEECCCCCCHHHHHHHHHhc
Confidence            689999999999999999765

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.99  E-value=0.00074  Score=46.53  Aligned_cols=24  Identities=29%  Similarity=0.475  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++|+|+.|+|||||++.+.+...
T Consensus        13 ~~~i~G~nGsGKStLl~~l~g~~~   36 (137)
T PF00005_consen   13 IVAIVGPNGSGKSTLLKALAGLLP   36 (137)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTSSH
T ss_pred             EEEEEccCCCccccceeeeccccc
Confidence            578999999999999998866543

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=96.98  E-value=0.00074  Score=45.95  Aligned_cols=22  Identities=36%  Similarity=0.545  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |++.|++|+|||++++.+....
T Consensus         1 ill~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    1 ILLHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EEEESSTTSSHHHHHHHHHHHT
T ss_pred             CEEECcCCCCeeHHHHHHHhhc
Confidence            6899999999999999996654

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>PRK06217 hypothetical protein; Validated

Probab=96.97  E-value=0.00071  Score=49.26  Aligned_cols=23  Identities=26%  Similarity=0.499  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+|+|+|.+|+|||||.++|...
T Consensus         2 ~~I~i~G~~GsGKSTla~~L~~~   24 (183)
T PRK06217          2 MRIHITGASGSGTTTLGAALAER   24 (183)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999654

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.93  E-value=0.00074  Score=50.85  Aligned_cols=22  Identities=32%  Similarity=0.573  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+++|++|+|||||++-+.+-.
T Consensus        32 vsilGpSGcGKSTLLriiAGL~   53 (248)
T COG1116          32 VAILGPSGCGKSTLLRLIAGLE   53 (248)
T ss_pred             EEEECCCCCCHHHHHHHHhCCC
Confidence            7899999999999999886543

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.93  E-value=0.00093  Score=45.56  Aligned_cols=28  Identities=25%  Similarity=0.342  Sum_probs=22.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDP   41 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~   41 (210)
                      -.++++|++|+|||+++..+........
T Consensus         3 ~~~~l~G~~G~GKTtl~~~l~~~~~~~~   30 (148)
T smart00382        3 EVILIVGPPGSGKTTLARALARELGPPG   30 (148)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhccCCCC
Confidence            3689999999999999999976655443

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=96.92  E-value=0.0037  Score=42.93  Aligned_cols=23  Identities=35%  Similarity=0.648  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .|++.|+.|+|||||++.+....
T Consensus        24 ~i~l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        24 VVLLKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHc
Confidence            58899999999999999997764

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.91  E-value=0.00084  Score=45.49  Aligned_cols=21  Identities=33%  Similarity=0.427  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|.|.+||||||+.+.|...
T Consensus         1 I~i~G~~GsGKtTia~~L~~~   21 (129)
T PF13238_consen    1 IGISGIPGSGKTTIAKELAER   21 (129)
T ss_dssp             EEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEECCCCCCHHHHHHHHHHH
Confidence            689999999999999998655

...

>PRK03839 putative kinase; Provisional

Probab=96.90  E-value=0.00094  Score=48.43  Aligned_cols=22  Identities=32%  Similarity=0.511  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+++|.||+||||+.+++...
T Consensus         2 ~I~l~G~pGsGKsT~~~~La~~   23 (180)
T PRK03839          2 IIAITGTPGVGKTTVSKLLAEK   23 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998654

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.90  E-value=0.0015  Score=51.97  Aligned_cols=94  Identities=20%  Similarity=0.119  Sum_probs=63.9

Q ss_pred             eCCCCc-ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH
Q 028315           67 DTAGQE-RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL  145 (210)
Q Consensus        67 Dt~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~  145 (210)
                      +.||+. .+.......+..+|+++.|+|+.++.+...      ..+....  .+.|.++|+||.|+.+... ..+....+
T Consensus        16 ~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~------~~l~~~v--~~k~~i~vlNK~DL~~~~~-~~~W~~~~   86 (322)
T COG1161          16 WFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRN------PELERIV--KEKPKLLVLNKADLAPKEV-TKKWKKYF   86 (322)
T ss_pred             CCCCchHHHHHHHHHhcccCCEEEEEEeccccccccC------ccHHHHH--ccCCcEEEEehhhcCCHHH-HHHHHHHH
Confidence            346653 444566667888999999999999976433      3333333  3445599999999976543 44445555


Q ss_pred             HHHcCCeEEEecccCCcCHHHHHH
Q 028315          146 AQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus       146 ~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      ....+...+.++++.+.+...+..
T Consensus        87 ~~~~~~~~~~v~~~~~~~~~~i~~  110 (322)
T COG1161          87 KKEEGIKPIFVSAKSRQGGKKIRK  110 (322)
T ss_pred             HhcCCCccEEEEeecccCccchHH
Confidence            555567788888888877766664

>TIGR03263 guanyl_kin guanylate kinase

Probab=96.89  E-value=0.0012  Score=47.73  Aligned_cols=23  Identities=39%  Similarity=0.700  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .|+++|++|+|||||++.|....
T Consensus         3 ii~l~G~~GsGKsTl~~~L~~~~   25 (180)
T TIGR03263         3 LIVISGPSGVGKSTLVKALLEED   25 (180)
T ss_pred             EEEEECCCCCCHHHHHHHHHccC
Confidence            47899999999999999997643

Members of this family are the enzyme guanylate kinase, also called GMP kinase. This enzyme transfers a phosphate from ATP to GMP, yielding ADP and GDP.

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.88  E-value=0.00088  Score=50.09  Aligned_cols=22  Identities=36%  Similarity=0.460  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|+|+|++|||||||++-+.+-
T Consensus        33 ~vaI~GpSGSGKSTLLniig~l   54 (226)
T COG1136          33 FVAIVGPSGSGKSTLLNLLGGL   54 (226)
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            3789999999999999988443

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.87  E-value=0.001  Score=48.55  Aligned_cols=23  Identities=43%  Similarity=0.622  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|+|||||++.+....
T Consensus         4 ~i~l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          4 LIWLMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            58999999999999999996543

>TIGR00235 udk uridine kinase

Probab=96.86  E-value=0.0014  Score=48.71  Aligned_cols=26  Identities=23%  Similarity=0.316  Sum_probs=22.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +...-|+|+|++|+|||||++.+.+.
T Consensus         4 ~~g~vi~I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235         4 PKGIIIGIGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHH
Confidence            44567999999999999999999654

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>PRK14530 adenylate kinase; Provisional

Probab=96.86  E-value=0.0011  Score=49.67  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+|+|+|||||||+.+.|...
T Consensus         5 ~I~i~G~pGsGKsT~~~~La~~   26 (215)
T PRK14530          5 RILLLGAPGAGKGTQSSNLAEE   26 (215)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999988543

>PF04665 Pox_A32: Poxvirus A32 protein; InterPro: IPR006758 This entry contains uncharacterised proteins belonging to the B354L family which include the pox virus A32 protein

Probab=96.85  E-value=0.00097  Score=50.43  Aligned_cols=29  Identities=31%  Similarity=0.595  Sum_probs=24.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .+..+|++|+|.+|+|||+|+-.++....
T Consensus        10 ~~~~fr~viIG~sGSGKT~li~~lL~~~~   38 (241)
T PF04665_consen   10 LKDPFRMVIIGKSGSGKTTLIKSLLYYLR   38 (241)
T ss_pred             cCCCceEEEECCCCCCHHHHHHHHHHhhc
Confidence            35679999999999999999998876543

This is thought to be an ATPase involved in viral DNA packaging [].

>PRK04195 replication factor C large subunit; Provisional

Probab=96.85  E-value=0.012  Score=49.61  Aligned_cols=24  Identities=38%  Similarity=0.576  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.+++.|++|+|||++++.+....
T Consensus        40 ~~lLL~GppG~GKTtla~ala~el   63 (482)
T PRK04195         40 KALLLYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHc
Confidence            457999999999999999997654

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.83  E-value=0.0013  Score=45.71  Aligned_cols=23  Identities=22%  Similarity=0.495  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .|+|+|+.++|||||++.+.+.-
T Consensus         2 vv~VvG~~~sGKTTl~~~Li~~l   24 (140)
T PF03205_consen    2 VVQVVGPKNSGKTTLIRKLINEL   24 (140)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57999999999999999986653

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.82  E-value=0.0011  Score=47.97  Aligned_cols=22  Identities=32%  Similarity=0.487  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++|+|++|||||||++.+...
T Consensus         3 ~~~i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         3 LIYVVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4789999999999999998665

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PF07728 AAA_5: AAA domain (dynein-related subfamily); InterPro: IPR011704 The ATPases Associated to a variety of cellular Activities (AAA) are a family distinguished by a highly conserved module of 230 amino acids []

Probab=96.82  E-value=0.0013  Score=45.51  Aligned_cols=23  Identities=30%  Similarity=0.553  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .|+++|++|+|||+|++.+....
T Consensus         1 ~vlL~G~~G~GKt~l~~~la~~~   23 (139)
T PF07728_consen    1 PVLLVGPPGTGKTTLARELAALL   23 (139)
T ss_dssp             EEEEEESSSSSHHHHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHHHh
Confidence            47999999999999999886544

The highly conserved nature of this module across taxa suggests that it has a key cellular role. Members of the family are involved in diverse cellular functions including gene expression, peroxisome assembly and vesicle mediated transport. Although the role of this ATPase AAA domain is not, as yet, clear, the AAA+ superfamily of proteins to which the AAA ATPases belong has a chaperone-like function in the assembly, operation or disassembly of proteins []. This ATPase domain includes some proteins not detected by the IPR003959 from INTERPRO model.; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NBX_X 4AKI_A 4AI6_B 4AKH_A 4AKG_A 3QMZ_A 3VKH_A 3VKG_A.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.79  E-value=0.0012  Score=48.66  Aligned_cols=22  Identities=32%  Similarity=0.513  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+|.|++|+|||||.+.+.+..
T Consensus         2 igi~G~~GsGKSTl~~~l~~~l   23 (198)
T cd02023           2 IGIAGGSGSGKTTVAEEIIEQL   23 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            6899999999999999986653

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>TIGR00174 miaA tRNA isopentenyltransferase (miaA)

Probab=96.78  E-value=0.0068  Score=47.27  Aligned_cols=21  Identities=33%  Similarity=0.691  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|+|++|+|||+|..++...
T Consensus         2 i~i~G~t~~GKs~la~~l~~~   22 (287)
T TIGR00174         2 IFIMGPTAVGKSQLAIQLAKK   22 (287)
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            689999999999999999654

Catalyzes the first step in the modification of an adenosine near the anticodon to 2-methylthio-N6-isopentyladenosine.

>PRK13949 shikimate kinase; Provisional

Probab=96.77  E-value=0.0014  Score=47.06  Aligned_cols=22  Identities=32%  Similarity=0.591  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+++|++|+||||+.+.+...
T Consensus         3 ~I~liG~~GsGKstl~~~La~~   24 (169)
T PRK13949          3 RIFLVGYMGAGKTTLGKALARE   24 (169)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999988654

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.73  E-value=0.0015  Score=47.62  Aligned_cols=25  Identities=32%  Similarity=0.545  Sum_probs=21.3

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .-.++++|++|+|||||++.+++..
T Consensus        25 g~~i~I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          25 RKNILISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhc
Confidence            3468999999999999999987643

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.71  E-value=0.0071  Score=44.64  Aligned_cols=22  Identities=36%  Similarity=0.640  Sum_probs=19.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+|.|++|+||||+++.+....
T Consensus         4 ilI~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           4 VLVTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            7899999999999999876554

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PRK05480 uridine/cytidine kinase; Provisional

Probab=96.71  E-value=0.0017  Score=48.33  Aligned_cols=25  Identities=24%  Similarity=0.409  Sum_probs=22.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ....|+|.|++|||||||.+.+...
T Consensus         5 ~~~iI~I~G~sGsGKTTl~~~l~~~   29 (209)
T PRK05480          5 KPIIIGIAGGSGSGKTTVASTIYEE   29 (209)
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998664

>cd01120 RecA-like_NTPases RecA-like NTPases

Probab=96.70  E-value=0.01  Score=41.71  Aligned_cols=22  Identities=41%  Similarity=0.690  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++|.|++|+|||+|+..+....
T Consensus         2 ~~i~G~~G~GKT~l~~~i~~~~   23 (165)
T cd01120           2 ILVFGPTGSGKTTLALQLALNI   23 (165)
T ss_pred             eeEeCCCCCCHHHHHHHHHHHH
Confidence            6899999999999999986543

This family includes the NTP binding domain of F1 and V1 H+ATPases, DnaB and related helicases as well as bacterial RecA and related eukaryotic and archaeal recombinases. This group also includes bacterial conjugation proteins and related DNA transfer proteins involved in type II and type IV secretion.

>PHA00729 NTP-binding motif containing protein

Probab=96.70  E-value=0.0019  Score=48.38  Aligned_cols=23  Identities=22%  Similarity=0.521  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+|++.|+||+|||+|..++...
T Consensus        18 ~nIlItG~pGvGKT~LA~aLa~~   40 (226)
T PHA00729         18 VSAVIFGKQGSGKTTYALKVARD   40 (226)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999998654

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.70  E-value=0.011  Score=45.59  Aligned_cols=84  Identities=23%  Similarity=0.273  Sum_probs=42.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      .|+|.|++|+||||+++.++.............+ ...+..+.+ ..++.+ +......|.......++.---++++-.+
T Consensus        82 lilisG~tGSGKTT~l~all~~i~~~~~~iitiE-dp~E~~~~~-~~q~~v-~~~~~~~~~~~l~~~lR~~PD~i~vgEi  158 (264)
T cd01129          82 IILVTGPTGSGKTTTLYSALSELNTPEKNIITVE-DPVEYQIPG-INQVQV-NEKAGLTFARGLRAILRQDPDIIMVGEI  158 (264)
T ss_pred             EEEEECCCCCcHHHHHHHHHhhhCCCCCeEEEEC-CCceecCCC-ceEEEe-CCcCCcCHHHHHHHHhccCCCEEEeccC
Confidence            4899999999999999988765432111000000 000111111 112221 1111123445555666655556667777


Q ss_pred             CCHhhHH
Q 028315           95 TRRETFT  101 (210)
Q Consensus        95 ~~~~~~~  101 (210)
                      .+++++.
T Consensus       159 R~~e~a~  165 (264)
T cd01129         159 RDAETAE  165 (264)
T ss_pred             CCHHHHH
Confidence            7776544

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.68  E-value=0.0015  Score=47.48  Aligned_cols=21  Identities=24%  Similarity=0.544  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+++|++||||||+.+.+..
T Consensus         5 ii~i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         5 IIFIVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            578999999999999999864

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>COG3638 ABC-type phosphate/phosphonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.67  E-value=0.0015  Score=48.88  Aligned_cols=21  Identities=48%  Similarity=0.699  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|+++|++|+|||||++.+-+
T Consensus        32 ~VaiIG~SGaGKSTLLR~lng   52 (258)
T COG3638          32 MVAIIGPSGAGKSTLLRSLNG   52 (258)
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            378999999999999999854

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=96.66  E-value=0.11  Score=37.10  Aligned_cols=147  Identities=14%  Similarity=0.121  Sum_probs=93.6

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRG   84 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (210)
                      .+.-+-.+...|+++|..+.++..|...+......         +. ..++... .     .-.|.  +....+    ..
T Consensus         7 ~~klp~ln~atiLLVg~e~~~~~~LA~a~l~~~~~---------~~-l~Vh~a~-s-----LPLp~--e~~~lR----pr   64 (176)
T PF11111_consen    7 FDKLPELNTATILLVGTEEALLQQLAEAMLEEDKE---------FK-LKVHLAK-S-----LPLPS--ENNNLR----PR   64 (176)
T ss_pred             cccCCCcceeEEEEecccHHHHHHHHHHHHhhccc---------ee-EEEEEec-c-----CCCcc--cccCCC----ce
Confidence            34445567899999999999999999999752211         11 1111110 0     01121  111111    34


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      .|.|++++|....-+++.+... +..+.... ..+ .+.++++-........+...+...++..+.++++.+.-.+..+.
T Consensus        65 IDlIVFvinl~sk~SL~~ve~S-L~~vd~~f-flG-KVCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~  141 (176)
T PF11111_consen   65 IDLIVFVINLHSKYSLQSVEAS-LSHVDPSF-FLG-KVCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGR  141 (176)
T ss_pred             eEEEEEEEecCCcccHHHHHHH-HhhCChhh-hcc-ceEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHH
Confidence            7999999999999888887733 22222111 112 34566666665565678889999999999999999998888776


Q ss_pred             HHHHHHHHHHHH
Q 028315          165 KQCFKDLLYKIL  176 (210)
Q Consensus       165 ~~l~~~i~~~~~  176 (210)
                      ..+=+.|++.+.
T Consensus       142 ~~lAqRLL~~lq  153 (176)
T PF11111_consen  142 TSLAQRLLRMLQ  153 (176)
T ss_pred             HHHHHHHHHHHH
Confidence            666666655543

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>KOG2743 consensus Cobalamin synthesis protein [Coenzyme transport and metabolism]

Probab=96.65  E-value=0.0074  Score=46.80  Aligned_cols=74  Identities=18%  Similarity=0.223  Sum_probs=42.4

Q ss_pred             EEEEEEEeCCCCcccccchhhhhc--------cccEEEEEEeCCCHhhHH---HHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYR--------GAHGIILVYDVTRRETFT---NLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~~~~---~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      .+...+++|.|...-..+...|+.        ..|+++-|+|+.+..-..   .....|.+.....+ .   .--+++||
T Consensus       145 kfD~IllETTGlAnPaPia~~Fw~dd~l~sdVkLDGIVTvvD~K~~~~~Lde~k~~g~i~EA~~QiA-~---AD~II~NK  220 (391)
T KOG2743|consen  145 KFDHILLETTGLANPAPIASMFWLDDELGSDVKLDGIVTVVDAKHILKHLDEEKPDGLINEATRQIA-L---ADRIIMNK  220 (391)
T ss_pred             CcceEEEeccCCCCcHHHHHHHhhhhhhcCceeeeeEEEEEehhhHHhhhcccCcccchHHHHHHHh-h---hheeeecc
Confidence            456778899997666666655543        358999999987532100   00012222222221 1   12578999


Q ss_pred             CCCCCCCcc
Q 028315          129 VDRDSERAV  137 (210)
Q Consensus       129 ~Dl~~~~~~  137 (210)
                      .|+..+.++
T Consensus       221 tDli~~e~~  229 (391)
T KOG2743|consen  221 TDLVSEEEV  229 (391)
T ss_pred             ccccCHHHH
Confidence            999876443

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.64  E-value=0.0018  Score=42.58  Aligned_cols=21  Identities=48%  Similarity=0.901  Sum_probs=18.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028315           14 FKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~   34 (210)
                      -.++++|++|+|||||++.+.
T Consensus        16 e~v~I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          16 VGVLITGDSGIGKTELALELI   36 (107)
T ss_pred             EEEEEEcCCCCCHHHHHHHhh
Confidence            357999999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>PRK14532 adenylate kinase; Provisional

Probab=96.64  E-value=0.0018  Score=47.28  Aligned_cols=22  Identities=23%  Similarity=0.498  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+++|+||+||||+..++...
T Consensus         2 ~i~~~G~pGsGKsT~a~~la~~   23 (188)
T PRK14532          2 NLILFGPPAAGKGTQAKRLVEE   23 (188)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7899999999999999998643

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.64  E-value=0.0016  Score=48.02  Aligned_cols=18  Identities=56%  Similarity=0.798  Sum_probs=16.6

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 028315           16 ILLIGDSGVGKSSILLSL   33 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l   33 (210)
                      .+++|++|+|||||++.+
T Consensus        36 TAlIGPSGcGKST~LR~l   53 (253)
T COG1117          36 TALIGPSGCGKSTLLRCL   53 (253)
T ss_pred             EEEECCCCcCHHHHHHHH
Confidence            578999999999999988

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.64  E-value=0.0017  Score=48.81  Aligned_cols=21  Identities=33%  Similarity=0.324  Sum_probs=18.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|.|++|||||||++.+.+.
T Consensus         2 igI~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           2 IGIAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             EEeeCCCCCCHHHHHHHHHHH
Confidence            689999999999999998654

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>PRK08233 hypothetical protein; Provisional

Probab=96.62  E-value=0.0021  Score=46.48  Aligned_cols=23  Identities=26%  Similarity=0.258  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +-|+|.|.+|+|||||.+++...
T Consensus         4 ~iI~I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          4 KIITIAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            66889999999999999999654

>PRK10646 ADP-binding protein; Provisional

Probab=96.62  E-value=0.013  Score=41.30  Aligned_cols=23  Identities=30%  Similarity=0.494  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -|++-|+-|+|||||++.+...-
T Consensus        30 vi~L~GdLGaGKTtf~rgl~~~L   52 (153)
T PRK10646         30 VIYLYGDLGAGKTTFSRGFLQAL   52 (153)
T ss_pred             EEEEECCCCCCHHHHHHHHHHHc
Confidence            47899999999999999997654

>PRK00625 shikimate kinase; Provisional

Probab=96.61  E-value=0.002  Score=46.48  Aligned_cols=22  Identities=36%  Similarity=0.380  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+++|.+|+||||+.+.+...
T Consensus         2 ~I~LiG~pGsGKTT~~k~La~~   23 (173)
T PRK00625          2 QIFLCGLPTVGKTSFGKALAKF   23 (173)
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6999999999999999988543

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=96.60  E-value=0.0021  Score=46.30  Aligned_cols=25  Identities=28%  Similarity=0.414  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      =.++|+|++|+|||||+|-+.+-..
T Consensus        26 e~vAi~GpSGaGKSTLLnLIAGF~~   50 (231)
T COG3840          26 EIVAILGPSGAGKSTLLNLIAGFET   50 (231)
T ss_pred             cEEEEECCCCccHHHHHHHHHhccC
Confidence            3689999999999999998865443

>cd01428 ADK Adenylate kinase (ADK) catalyzes the reversible phosphoryl transfer from adenosine triphosphates (ATP) to adenosine monophosphates (AMP) and to yield adenosine diphosphates (ADP)

Probab=96.60  E-value=0.0017  Score=47.49  Aligned_cols=22  Identities=36%  Similarity=0.593  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ||+++|+||+||||+.+.|...
T Consensus         1 ~I~i~G~pGsGKst~a~~La~~   22 (194)
T cd01428           1 RILLLGPPGSGKGTQAERLAKK   22 (194)
T ss_pred             CEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998654

This enzyme is required for the biosynthesis of ADP and is essential for homeostasis of adenosine phosphates.

>PRK10751 molybdopterin-guanine dinucleotide biosynthesis protein B; Provisional

Probab=96.59  E-value=0.002  Score=46.37  Aligned_cols=23  Identities=30%  Similarity=0.400  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .-++|+|.+|+|||||++++...
T Consensus         7 ~ii~ivG~sgsGKTTLi~~li~~   29 (173)
T PRK10751          7 PLLAIAAWSGTGKTTLLKKLIPA   29 (173)
T ss_pred             eEEEEECCCCChHHHHHHHHHHH
Confidence            35899999999999999999655

>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins

Probab=96.59  E-value=0.0052  Score=54.21  Aligned_cols=23  Identities=26%  Similarity=0.379  Sum_probs=20.8

Q ss_pred             EcCCCCcHHHHHHHHhhCCCCCC
Q 028315           19 IGDSGVGKSSILLSLISNSVHDP   41 (210)
Q Consensus        19 ~G~~~~GKSsli~~l~~~~~~~~   41 (210)
                      +|+.++|||||+|.+++..|...
T Consensus         1 ~g~qssgkstlln~lf~t~f~~m   23 (742)
T PF05879_consen    1 FGSQSSGKSTLLNHLFGTQFDVM   23 (742)
T ss_pred             CCCCCCcHHHHHHHHHCCCcccc
Confidence            59999999999999999988773

It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides

>PRK02496 adk adenylate kinase; Provisional

Probab=96.58  E-value=0.0023  Score=46.59  Aligned_cols=23  Identities=22%  Similarity=0.550  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|++|+|+||+||||+.+.+...
T Consensus         2 ~~i~i~G~pGsGKst~a~~la~~   24 (184)
T PRK02496          2 TRLIFLGPPGAGKGTQAVVLAEH   24 (184)
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999988643

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.57  E-value=0.0021  Score=46.54  Aligned_cols=24  Identities=25%  Similarity=0.354  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      =.++++|+.|+|||||++.+.+-.
T Consensus        26 e~~~l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          26 EVIGIVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             CEEEEECCCCChHHHHHHHHHcCC
Confidence            368999999999999999987654

RLI's are not transport proteins, and thus cluster with a group of soluble proteins that lack the transmembrane components commonly found in other members of the family. Structurally, RLI's have an N-terminal Fe-S domain and two nucleotide-binding domains, which are arranged to form two composite active sites in their interface cleft. RLI is one of the most conserved enzymes between archaea and eukaryotes with a sequence identity more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=96.57  E-value=0.017  Score=46.53  Aligned_cols=122  Identities=14%  Similarity=0.008  Sum_probs=69.3

Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      -.+|++|-|+|+.||.....-  +....+...  .+.+..+.|+||+||.+. -+.......+...+-..-|..|..+..
T Consensus       212 DSSDVvvqVlDARDPmGTrc~--~ve~ylkke--~phKHli~vLNKvDLVPt-wvt~~Wv~~lSkeyPTiAfHAsi~nsf  286 (572)
T KOG2423|consen  212 DSSDVVVQVLDARDPMGTRCK--HVEEYLKKE--KPHKHLIYVLNKVDLVPT-WVTAKWVRHLSKEYPTIAFHASINNSF  286 (572)
T ss_pred             cccceeEEeeeccCCcccccH--HHHHHHhhc--CCcceeEEEeeccccccH-HHHHHHHHHHhhhCcceeeehhhcCcc
Confidence            468999999999998653211  222333322  366788999999999753 244445556666666667888888888


Q ss_pred             CHHHHHHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCC
Q 028315          163 DVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCC  209 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~  209 (210)
                      |=..+++.+.+...-......-+---...++.-+.+.-+.-++|..|
T Consensus       287 GKgalI~llRQf~kLh~dkkqISVGfiGYPNvGKSSiINTLR~KkVC  333 (572)
T KOG2423|consen  287 GKGALIQLLRQFAKLHSDKKQISVGFIGYPNVGKSSIINTLRKKKVC  333 (572)
T ss_pred             chhHHHHHHHHHHhhccCccceeeeeecCCCCchHHHHHHHhhcccc
Confidence            86665544433322222222222222334444444444444444443

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	210
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		4e-43
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		2e-40
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		7e-37
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-36
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		1e-36
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		1e-36
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		2e-36
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		2e-36
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-36
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		3e-36
4fmc_B	171	Espg-Rab1 Complex Length = 171		5e-36
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		6e-36
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		6e-36
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		6e-36
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		1e-35
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-35
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-35
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		3e-35
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		5e-35
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		6e-35
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		8e-35
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		9e-35
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		2e-34
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-34
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		4e-34
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		4e-34
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		5e-34
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		5e-34
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		2e-33
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		4e-33
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		5e-33
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		1e-32
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		1e-32
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		1e-32
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		3e-32
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		3e-32
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		7e-32
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		8e-32
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		1e-31
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-31
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		2e-31
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		9e-31
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		2e-30
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		6e-30
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		1e-29
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		2e-29
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		3e-29
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		4e-29
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-28
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		2e-28
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-28
4fmc_F	117	Espg-Rab1 Complex Length = 117		3e-27
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		5e-26
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		6e-26
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		8e-26
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		3e-25
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		6e-25
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-24
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		3e-24
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		5e-24
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		5e-24
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		7e-24
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		8e-24
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		1e-23
2efc_B	181	Ara7-GdpATVPS9A Length = 181		1e-23
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-23
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-23
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-23
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-23
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-23
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		3e-23
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		3e-23
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		6e-23
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		7e-23
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		1e-22
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		2e-22
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		3e-22
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		3e-22
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		4e-22
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		9e-22
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		1e-21
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-21
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		2e-21
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		3e-21
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		7e-21
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		9e-21
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		1e-20
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		2e-20
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		3e-20
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		3e-20
1vg1_A	185	Gdp-bound Rab7 Length = 185		3e-20
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		3e-20
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		7e-20
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		8e-20
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		1e-19
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		1e-19
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-19
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		3e-19
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		5e-19
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		1e-18
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		1e-18
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		2e-18
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		6e-18
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		9e-18
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-17
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		2e-17
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		1e-15
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		1e-15
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		2e-15
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		2e-15
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		2e-15
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		2e-15
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		3e-15
2bku_A	177	Kap95p:rangtp Complex Length = 177		3e-15
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		3e-15
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		3e-15
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		4e-15
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		4e-15
1byu_A	216	Canine Gdp-Ran Length = 216		5e-15
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		5e-15
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		2e-14
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		4e-14
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		5e-14
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		6e-14
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		6e-14
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		6e-14
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		6e-14
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		7e-14
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		9e-14
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		1e-13
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		1e-13
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		1e-13
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		2e-13
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		2e-13
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-13
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		3e-13
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		3e-13
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		4e-13
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		5e-13
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		8e-13
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		9e-13
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		1e-12
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-12
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		1e-12
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-12
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-12
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		2e-12
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		5e-12
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		5e-12
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		7e-12
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		7e-12
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		7e-12
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		8e-12
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		9e-12
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		1e-11
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-11
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		1e-11
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		1e-11
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		1e-11
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		2e-11
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		2e-11
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		3e-11
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		3e-11
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		3e-11
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		3e-11
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		3e-11
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		3e-11
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		3e-11
1s1c_A	183	Crystal Structure Of The Complex Between The Human		4e-11
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		4e-11
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		4e-11
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		4e-11
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		4e-11
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		4e-11
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		4e-11
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		5e-11
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		6e-11
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		8e-11
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		9e-11
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		9e-11
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		1e-10
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		1e-10
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		1e-10
1mh1_A	186	Small G-Protein Length = 186		2e-10
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-10
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		2e-10
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		2e-10
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		2e-10
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-10
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		2e-10
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		2e-10
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-10
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-10
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		2e-10
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		3e-10
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		3e-10
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		3e-10
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		3e-10
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		3e-10
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		3e-10
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		5e-10
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		5e-10
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		5e-10
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		6e-10
4q21_A	189	Molecular Switch For Signal Transduction: Structura		7e-10
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		7e-10
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		7e-10
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		7e-10
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		7e-10
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		7e-10
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		8e-10
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		8e-10
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		8e-10
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		8e-10
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		8e-10
1wq1_R	166	Ras-Rasgap Complex Length = 166		9e-10
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		9e-10
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		9e-10
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		9e-10
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		9e-10
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		9e-10
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		9e-10
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		9e-10
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		1e-09
6q21_A	171	Molecular Switch For Signal Transduction: Structura		1e-09
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		1e-09
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		1e-09
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		1e-09
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		1e-09
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		1e-09
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		1e-09
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		1e-09
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		1e-09
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		1e-09
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		1e-09
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		2e-09
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		2e-09
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		2e-09
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		2e-09
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		2e-09
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		2e-09
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		3e-09
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-09
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		3e-09
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		3e-09
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-09
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		3e-09
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-09
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		4e-09
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		4e-09
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		4e-09
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		4e-09
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		4e-09
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		5e-09
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		6e-09
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		6e-09
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		7e-09
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		7e-09
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		7e-09
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		7e-09
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		8e-09
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		8e-09
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		9e-09
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		1e-08
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		1e-08
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		1e-08
2kb0_A	178	Cdc42(T35a) Length = 178		1e-08
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		1e-08
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		1e-08
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		1e-08
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		2e-08
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-08
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		2e-08
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		4e-08
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		4e-08
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		5e-08
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		7e-08
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		8e-08
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		9e-08
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		1e-07
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		1e-07
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		1e-07
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		2e-07
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		5e-07
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		6e-07
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		6e-07
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		6e-07
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		8e-07
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		1e-06
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		1e-06
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		1e-06
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		2e-06
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		3e-06
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		6e-06
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		1e-05
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		1e-05
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		1e-05
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		1e-05
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		2e-05
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		3e-05
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		3e-05
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		3e-05
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		3e-05
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		3e-05
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		4e-05
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		5e-05
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		5e-05
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		5e-05
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		5e-05
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		6e-05
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		9e-05
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		1e-04
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		2e-04
4goj_A	189	The Crystal Structure Of Full Length Arl3gppnhp In		2e-04
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		2e-04
1fzq_A	181	Crystal Structure Of Murine Arl3-Gdp Length = 181		2e-04
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		3e-04
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		4e-04
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		4e-04
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		4e-04
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		4e-04
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		4e-04
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		5e-04
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		5e-04
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		7e-04
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		7e-04
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		7e-04
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		7e-04
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		8e-04
3bh7_A	164	Crystal Structure Of The Rp2-Arl3 Complex Bound To		8e-04
4gok_B	169	The Crystal Structure Of Arl2gppnhp In Complex With		9e-04

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  170 bits (431), Expect = 4e-43,   Method: Compositional matrix adjust.
 Identities = 90/173 (52%), Positives = 117/173 (67%), Gaps = 5/173 (2%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP--SPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           + KIL+IG+SGVGK             DP  + TIGVDFK+K ++V G + KL IWDTAG
Sbjct: 15  TLKILIIGESGVGKSSLLLRFTDD-TFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAG 73
Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D V  LVGNK+D
Sbjct: 74  QERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDIVNXLVGNKID 132
Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           +++ R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E
Sbjct: 133 KEN-REVDRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 184

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  162 bits (409), Expect = 2e-40,   Method: Compositional matrix adjust.
 Identities = 87/166 (52%), Positives = 111/166 (66%), Gaps = 3/166 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGK             D    TIGVDFKI+ +++  K +KL I
Sbjct: 3   NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQI 62
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT R++F N+   W +E++ Y+  ++  K+LV
Sbjct: 63  WDTAGQERFRTITSSYYRGAHGIIIVYDVTDRDSFDNVKQ-WIQEIDRYAM-ENVNKLLV 120
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
           GNK D  S+R VT +EG  LA  H   F+E SAKN  +V+Q F  +
Sbjct: 121 GNKCDLVSKRVVTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTM 166

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  149 bits (377), Expect = 7e-37,   Method: Compositional matrix adjust.
 Identities = 92/209 (44%), Positives = 124/209 (59%), Gaps = 10/209 (4%)
Query: 7   NNSYDYSFKILLIGDSGVGKX-XXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           N+ YDY FK+LLIG+SGVGK             +D   TIGVDFKIK + + GK +KL I
Sbjct: 2   NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 61
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRG+HGII+VYDVT +E+F N   +W +E++ Y+T+   +K+LV
Sbjct: 62  WDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATST-VLKLLV 119
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
           GNK D   +R V  +     A  +K  FLE SA ++ +V+  F  +  +I E  S     
Sbjct: 120 GNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLN 179
Query: 186 SAVVK-----NQILKQKEVQESARGGNCC 209
               K     N  LK + +  +  GG CC
Sbjct: 180 ETTQKKEDKGNVNLKGQSLTNT--GGGCC 206

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 78/173 (45%), Positives = 114/173 (65%), Gaps = 7/173 (4%)
Query: 8   NSYDYSFKILLIGDSGVGKX---XXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLT 64
           ++Y Y FK ++IGD+GVGK              VHD   TIGV+F  +++T+ GK++KL 
Sbjct: 5   SAYAYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDL--TIGVEFGARMITIDGKQIKLQ 62
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAGQE F ++T SYYRGA G +LVYD+TRR+TF +L++ W ++   +S N + V +L
Sbjct: 63  IWDTAGQESFRSITRSYYRGAAGALLVYDITRRDTFNHLTT-WLEDARQHS-NSNMVIML 120
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +GNK D +S R V +EEG   A+EH  +F+E SAK   +V++ F +   +I E
Sbjct: 121 IGNKSDLESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYE 173

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  149 bits (376), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 82/170 (48%), Positives = 108/170 (63%), Gaps = 3/170 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL I
Sbjct: 10  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LV
Sbjct: 70  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLV 127
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           GNK D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 128 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  149 bits (375), Expect = 1e-36,   Method: Compositional matrix adjust.
 Identities = 82/170 (48%), Positives = 108/170 (63%), Gaps = 3/170 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL I
Sbjct: 10  NPEYDYLFKLLLIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LV
Sbjct: 70  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLV 127
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           GNK D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 128 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  148 bits (374), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 84/175 (48%), Positives = 113/175 (64%), Gaps = 3/175 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKX-XXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           N+ YDY FK+LLIG+SGVGK             +D   TIGVDFKIK + + GK +KL I
Sbjct: 2   NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 61
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRG+HGII+VYDVT +E+F N   +W +E++ Y+T+   +K+LV
Sbjct: 62  WDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATST-VLKLLV 119
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           GNK D   +R V  +     A  +K  FLE SA ++ +V+  F  +  +I E  S
Sbjct: 120 GNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMS 174

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  148 bits (374), Expect = 2e-36,   Method: Compositional matrix adjust.
 Identities = 82/171 (47%), Positives = 109/171 (63%), Gaps = 3/171 (1%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
           G+  YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL 
Sbjct: 18  GSPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQ 77
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+L
Sbjct: 78  IWDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLL 135
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           VGNK D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 136 VGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  148 bits (373), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 80/178 (44%), Positives = 108/178 (60%), Gaps = 3/178 (1%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSP-TIGVDFKIKLLTVGGK 59
           +GS     +Y Y FK ++IGD GVGK                P TIGV+F  +++ V G+
Sbjct: 3   LGSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQ 62
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           ++KL IWDTAGQERF  +T SYYRGA G ++VYD+TRR T+ +LSS       L  TN +
Sbjct: 63  KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNL--TNPN 120
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            V IL+GNK D +++R VT EE    A+E+  LFLE SAK  E+V+  F +   KI +
Sbjct: 121 TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  147 bits (372), Expect = 3e-36,   Method: Compositional matrix adjust.
 Identities = 81/163 (49%), Positives = 105/163 (64%), Gaps = 3/163 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL I
Sbjct: 27  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 86
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LV
Sbjct: 87  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLV 144
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           GNK D  +++ V        A      FLE SAKN  +V+Q F
Sbjct: 145 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSF 187

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  147 bits (370), Expect = 5e-36,   Method: Compositional matrix adjust.
 Identities = 81/167 (48%), Positives = 107/167 (64%), Gaps = 3/167 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDT
Sbjct: 3   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 62
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LVGNK
Sbjct: 63  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLVGNK 120
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 121 CDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 80/167 (47%), Positives = 107/167 (64%), Gaps = 3/167 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDT
Sbjct: 6   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 65
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+TSSYYRGAHGII+VYDVT +E++ N+   W +E++ Y++ ++  K+LVGNK
Sbjct: 66  AGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQ-WLQEIDRYAS-ENVNKLLVGNK 123
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 124 SDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 81/173 (46%), Positives = 111/173 (64%), Gaps = 3/173 (1%)
Query: 5   VGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKL 63
           +G+ +YD+ FK L+IG++G GK             D S  TIGV+F  K++ VGGK +KL
Sbjct: 3   LGSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKL 62
Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            IWDTAGQERF ++T SYYRGA G +LVYD+T RET+  L++ W  +  + ++ Q+ V I
Sbjct: 63  QIWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTN-WLTDARMLAS-QNIVII 120
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           L GNK D D++R VT  E    AQE++ +FLE SA   EDV++ F     KIL
Sbjct: 121 LCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKIL 173

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 80/167 (47%), Positives = 107/167 (64%), Gaps = 3/167 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDT
Sbjct: 6   YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 65
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+TSSYYRGAHGII+VYDVT +E++ N+   W +E++ Y++ ++  K+LVGNK
Sbjct: 66  AGQERFRTITSSYYRGAHGIIVVYDVTDQESYANVKQ-WLQEIDRYAS-ENVNKLLVGNK 123
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 124 SDLTTKKVVDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  146 bits (368), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 86/178 (48%), Positives = 114/178 (64%), Gaps = 4/178 (2%)
Query: 2   GSKVGNNS-YDYSFKILLIGDSGVGKX-XXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGK 59
           GS V   S YDY FK+LLIG+SGVGK             +D   TIGVDFKIK + + GK
Sbjct: 9   GSLVPRGSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGK 68
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +KL IWDTAGQERF T+TSSYYRG+HGII+VYDVT +E+F N   +W +E++ Y+T+  
Sbjct: 69  TVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESF-NGVKMWLQEIDRYATST- 126
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +K+LVGNK D   +R V  +     A  +K  FLE SA ++ +V+  F  +  +I E
Sbjct: 127 VLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKE 184

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  145 bits (367), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 86/171 (50%), Positives = 110/171 (64%), Gaps = 6/171 (3%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIW 66
           SYD   KILLIGDSGVGK            + PS   TIG+DFKIK + + GK++KL +W
Sbjct: 16  SYDSIMKILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQLW 74
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQERF T+T++YYRGA GIILVYDVT   TFTN+   W K V  ++ N +   +LVG
Sbjct: 75  DTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVG 132
Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           NK D ++ R VT ++G  LA+E    F+E SAKN ++V + F  L   I E
Sbjct: 133 NKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 182

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 81/170 (47%), Positives = 107/170 (62%), Gaps = 3/170 (1%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL I
Sbjct: 2   NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 61
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LV
Sbjct: 62  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLV 119
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           G K D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 120 GIKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  144 bits (363), Expect = 3e-35,   Method: Compositional matrix adjust.
 Identities = 74/161 (45%), Positives = 108/161 (67%), Gaps = 3/161 (1%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           +YDY FK+LLIGDSGVGK            +     TIG+DFKI+ + + GKR+KL IWD
Sbjct: 4   TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 63
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF T+T++YYRGA GI+LVYD+T  ++F N+ + W + +E +++  D  K+++GN
Sbjct: 64  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRN-WIRNIEEHAS-ADVEKMILGN 121
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           K D + +R V++E G  LA ++   F+E SAK   +V+  F
Sbjct: 122 KCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAF 162

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  143 bits (361), Expect = 5e-35,   Method: Compositional matrix adjust.
 Identities = 80/167 (47%), Positives = 106/167 (63%), Gaps = 3/167 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YD  FK+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDT
Sbjct: 3   YDALFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDT 62
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LVGNK
Sbjct: 63  AGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLVGNK 120
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D  +++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 121 CDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  143 bits (361), Expect = 6e-35,   Method: Compositional matrix adjust.
 Identities = 80/172 (46%), Positives = 109/172 (63%), Gaps = 3/172 (1%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
           G+ +YD+ FK L+IG++G GK             D S  TIGV+F  K++ VGGK +KL 
Sbjct: 1   GSETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQ 60
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAG ERF ++T SYYRGA G +LVYD+T RET+  L++ W  +  + ++ Q+ V IL
Sbjct: 61  IWDTAGLERFRSVTRSYYRGAAGALLVYDITSRETYNALTN-WLTDARMLAS-QNIVIIL 118
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
            GNK D D++R VT  E    AQE++ +FLE SA   EDV++ F     KIL
Sbjct: 119 CGNKKDLDADREVTFLEASRFAQENELMFLETSALTGEDVEEAFVQCARKIL 170

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  143 bits (360), Expect = 8e-35,   Method: Compositional matrix adjust.
 Identities = 76/160 (47%), Positives = 107/160 (66%), Gaps = 7/160 (4%)
Query: 12  YSFKILLIGDSGVGKX---XXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           Y FK ++IGD+GVGK              VHD   TIGV+F  +++ + GK++KL IWDT
Sbjct: 20  YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDL--TIGVEFGARMVNIDGKQIKLQIWDT 77
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQE F ++T SYYRGA G +LVYD+TRRETF +L+S W ++   +S++ + V +L+GNK
Sbjct: 78  AGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTS-WLEDARQHSSS-NMVIMLIGNK 135
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
            D +S R V REEG   A+EH  +F+E SAK   +V++ F
Sbjct: 136 SDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAF 175

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  142 bits (359), Expect = 9e-35,   Method: Compositional matrix adjust.
 Identities = 79/169 (46%), Positives = 108/169 (63%), Gaps = 3/169 (1%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           +YD+ FK L+IG++G GK             D S  TIGV+F  K++ VGGK +KL IWD
Sbjct: 6   TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 65
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF ++T SYYRGA G +LVYD+T RET+  L++ W  +  + ++ Q+ V IL GN
Sbjct: 66  TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTN-WLTDARMLAS-QNIVIILCGN 123
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           K D D++R VT  E    AQE++ +FLE SA   E+V++ F     KIL
Sbjct: 124 KKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKIL 172

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  142 bits (357), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 77/170 (45%), Positives = 104/170 (61%), Gaps = 3/170 (1%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSP-TIGVDFKIKLLTVGGKRLKLTIWD 67
           +Y Y FK ++IGD GVGK                P TIGV+F  +++ V G+++KL IWD
Sbjct: 26  NYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWD 85
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQ RF  +T SYYRGA G ++VYD+TRR T+ +LSS       L  TN + V IL+GN
Sbjct: 86  TAGQGRFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNL--TNPNTVIILIGN 143
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K D +++R VT EE    A+E+  LFLE SAK  E+V+  F +   KI +
Sbjct: 144 KADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 193

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  141 bits (356), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 81/160 (50%), Positives = 105/160 (65%), Gaps = 6/160 (3%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           D   KILLIGDSGVGK            + PS   TIG+DFKIK + + GK++KL IWDT
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQIWDT 59
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF T+T++YYRGA GIILVYD+T   TFTN+   W K V  ++ N +   +LVGNK
Sbjct: 60  AGQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNK 117
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
            D ++ R VT ++G  LA+E    F+E SAKN ++V + F
Sbjct: 118 SDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  140 bits (354), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 80/156 (51%), Positives = 104/156 (66%), Gaps = 6/156 (3%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           KILLIGDSGVGK            + PS   TIG+DFKIK + + GK++KL IWDTAGQE
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 63
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF T+T++YYRGA GIILVYD+T   TFTN+   W K V  ++ N +   +LVGNK D +
Sbjct: 64  RFRTITTAYYRGAXGIILVYDITDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNKSDXE 121
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           + R VT ++G  LA+E    F+E SAKN ++V + F
Sbjct: 122 T-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  140 bits (354), Expect = 4e-34,   Method: Compositional matrix adjust.
 Identities = 73/159 (45%), Positives = 106/159 (66%), Gaps = 3/159 (1%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           DY FK+LLIGDSGVGK            +     TIG+DFKI+ + + GKR+KL IWDTA
Sbjct: 4   DYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTA 63
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF T+T++YYRGA GI+LVYD+T  ++F N+ + W + +E +++  D  K+++GNK 
Sbjct: 64  GQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRN-WIRNIEEHAS-ADVEKMILGNKC 121
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           D + +R V++E G  LA ++   F+E SAK   +V+  F
Sbjct: 122 DVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAF 160

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  140 bits (353), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 83/165 (50%), Positives = 107/165 (64%), Gaps = 6/165 (3%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           KILLIGDSGVGK             +PS   TIG+DFKIK + + GK++KL +WDTAGQE
Sbjct: 9   KILLIGDSGVGKSCLLVRFVEDK-FNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 67
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF T+T++YYRGA GIILVYDVT   TFTN+   W K V  ++ N +   +LVGNK D +
Sbjct: 68  RFRTITTAYYRGAMGIILVYDVTDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNKSDME 125
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           + R VT ++G  LA+E    F+E SAKN ++V + F  L   I E
Sbjct: 126 T-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 169

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  140 bits (353), Expect = 5e-34,   Method: Compositional matrix adjust.
 Identities = 80/156 (51%), Positives = 104/156 (66%), Gaps = 6/156 (3%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           KILLIGDSGVGK            + PS   TIG+DFKIK + + GK++KL +WDTAGQE
Sbjct: 5   KILLIGDSGVGKSCLLVRFVEDKFN-PSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQE 63
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF T+T++YYRGA GIILVYDVT   TFTN+   W K V  ++ N +   +LVGNK D +
Sbjct: 64  RFRTITTAYYRGAXGIILVYDVTDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNKSDXE 121
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           + R VT ++G  LA+E    F+E SAKN ++V + F
Sbjct: 122 T-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIF 156

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  138 bits (347), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 77/162 (47%), Positives = 103/162 (63%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K+LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDTAGQER
Sbjct: 1   KLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQER 60
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LVGNK D  +
Sbjct: 61  FRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLVGNKCDLTT 118
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++ V        A      FLE SAKN  +V+Q F  +  +I
Sbjct: 119 KKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  137 bits (346), Expect = 4e-33,   Method: Compositional matrix adjust.
 Identities = 75/166 (45%), Positives = 105/166 (63%), Gaps = 5/166 (3%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIW 66
           ++DY FK+L+IG+S VGK              P+   T+G+DFK+K +    KR+KL IW
Sbjct: 19  NFDYMFKLLIIGNSSVGKTSFLFRYADD-TFTPAFVSTVGIDFKVKTVYRHEKRVKLQIW 77
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQER+ T+T++YYRGA G IL+YD+T  E+F N    WA +++ YS +   V ILVG
Sbjct: 78  DTAGQERYRTITTAYYRGAMGFILMYDITNEESF-NAVQDWATQIKTYSWDNAQV-ILVG 135
Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
           NK D + ER V  E+G +LA++    F E SAK    V+Q F+ L+
Sbjct: 136 NKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLV 181

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  137 bits (344), Expect = 5e-33,   Method: Compositional matrix adjust.
 Identities = 77/171 (45%), Positives = 106/171 (61%), Gaps = 5/171 (2%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIW 66
           ++DY FKIL+IG+S VGK              P+   T+G+DFK+K +    KR+KL IW
Sbjct: 1   NFDYMFKILIIGNSSVGKTSFLFRYADDSFT-PAFVSTVGIDFKVKTIYRNDKRIKLQIW 59
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQER+ T+T++YYRGA G IL+YD+T  E+F N    W+ +++ YS +   V +LVG
Sbjct: 60  DTAGQERYRTITTAYYRGAMGFILMYDITNEESF-NAVQDWSTQIKTYSWDNAQV-LLVG 117
Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           NK D + ER V+ E G  LA      F E SAK+  +VKQ F+ L+  I E
Sbjct: 118 NKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  136 bits (342), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 74/180 (41%), Positives = 110/180 (61%), Gaps = 8/180 (4%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKL 63
           G + YD +FK++L+GDSGVGK               +   T+G+DF+ K+L V G ++KL
Sbjct: 3   GVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKL 62
Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            +WDTAGQERF ++T +YYR AH ++L+YDVT + +F N+ + W  E+  Y+   D   +
Sbjct: 63  QMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQA-WLTEIHEYA-QHDVALM 120
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF----KDLLYKILEVP 179
           L+GNKVD   ER V RE+G  LA+E+   F+E SAK   +V   F    K+L  + ++ P
Sbjct: 121 LLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKAP 180

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  135 bits (341), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 77/174 (44%), Positives = 106/174 (60%), Gaps = 5/174 (2%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKL 63
           G++ +DY FKIL+IG+S VGK              P+   T+G+DFK+K +    KR+KL
Sbjct: 1   GSHXFDYXFKILIIGNSSVGKTSFLFRYADDSFT-PAFVSTVGIDFKVKTIYRNDKRIKL 59
Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            IWDTAG ER+ T+T++YYRGA G IL YD+T  E+F N    W+ +++ YS +   V +
Sbjct: 60  QIWDTAGLERYRTITTAYYRGAXGFILXYDITNEESF-NAVQDWSTQIKTYSWDNAQV-L 117
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           LVGNK D + ER V+ E G  LA      F E SAK+  +VKQ F+ L+  I E
Sbjct: 118 LVGNKCDXEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE 171

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  135 bits (340), Expect = 1e-32,   Method: Compositional matrix adjust.
 Identities = 75/170 (44%), Positives = 103/170 (60%), Gaps = 5/170 (2%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YD  FKI+LIGDSGVGK            + D   TIGV+F  + L + GKR+K  IWDT
Sbjct: 10  YDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDT 69
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGN 127
           AGQER+  +TS+YYRGA G ++VYD+++  ++ N +  W    EL     D V + L+GN
Sbjct: 70  AGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNH-WLS--ELRENADDNVAVGLIGN 126
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K D    RAV  EE    AQE++ LF E SA N+E+V + F++L+  I +
Sbjct: 127 KSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQ 176

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  134 bits (338), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 72/169 (42%), Positives = 111/169 (65%), Gaps = 4/169 (2%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           D+  ++++IG  GVGK             +    T+GVDFKIK + + GK+++L IWDTA
Sbjct: 24  DFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTA 83
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF ++TS+YYR A GIILVYD+T++ETF +L   W K ++ Y++ +D   +LVGNK+
Sbjct: 84  GQERFNSITSAYYRSAKGIILVYDITKKETFDDLPK-WMKMIDKYAS-EDAELLLVGNKL 141
Query: 130 DRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           D +++R +TR++G   AQ+   + F E SAK+  +V + F  L+  IL+
Sbjct: 142 DCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK 190

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  134 bits (338), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 70/169 (41%), Positives = 108/169 (63%), Gaps = 5/169 (2%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWD 67
           YD+ FKI+LIG++GVGK           +  P    TIGVDF IK + + G+++KL IWD
Sbjct: 23  YDFLFKIVLIGNAGVGKTCLVRRFTQG-LFPPGQGATIGVDFMIKTVEINGEKVKLQIWD 81
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF ++T SYYR A+ +IL YD+T  E+F  L   W +E+E Y++N+  + +LVGN
Sbjct: 82  TAGQERFRSITQSYYRSANALILTYDITCEESFRCLPE-WLREIEQYASNK-VITVLVGN 139
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           K+D    R V+++     ++     +LE SAK +++V++ F DL  +++
Sbjct: 140 KIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLI 188

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  133 bits (334), Expect = 7e-32,   Method: Compositional matrix adjust.
 Identities = 76/169 (44%), Positives = 104/169 (61%), Gaps = 5/169 (2%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           DY FK+LLIG+S VGK              P+   T+G+DFK+K +    KR+KL IWDT
Sbjct: 20  DYMFKLLLIGNSSVGKTSFLFRYADDSFT-PAFVSTVGIDFKVKTVYRHDKRIKLQIWDT 78
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQER+ T+T++YYRGA G +L+YD+  +E+F  +   WA +++ YS +   V ILVGNK
Sbjct: 79  AGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQD-WATQIKTYSWDNAQV-ILVGNK 136
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            D + ER V  E+G  LA +    F E SAK   +VKQ F+ L+  I E
Sbjct: 137 CDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICE 185

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  133 bits (334), Expect = 8e-32,   Method: Compositional matrix adjust.
 Identities = 75/159 (47%), Positives = 98/159 (61%), Gaps = 3/159 (1%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           D+ FK L+IG +G GK              D + TIGV+F  +++ VGGK +KL IWDTA
Sbjct: 23  DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTA 82
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF ++T SYYRGA G +LVYD+T RET+ +L++       L S N   V IL GNK 
Sbjct: 83  GQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPN--IVVILCGNKK 140
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           D D ER VT  E    AQE++ +FLE SA   E+V++ F
Sbjct: 141 DLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAF 179

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 73/178 (41%), Positives = 108/178 (60%), Gaps = 3/178 (1%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKR 60
           GS V   SYDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK 
Sbjct: 9   GSLVPRGSYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKT 68
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +K  IWDTAGQER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + 
Sbjct: 69  IKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNI 126
Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
           V +LVGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I  +
Sbjct: 127 VIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 184

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  132 bits (332), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 75/172 (43%), Positives = 101/172 (58%), Gaps = 13/172 (7%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YD+ FK+L+IGDSGVGK                  TIGVDFKI+ + + G+++KL IWDT
Sbjct: 6   YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDT 65
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC---VKILV 125
           AGQERF T+TS+YYRG HG+I+VYDVT  E+F N+   W  E+     NQ+C    +ILV
Sbjct: 66  AGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKR-WLHEI-----NQNCDDVCRILV 119
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAK---NTEDVKQCFKDLLYK 174
           GNK D    + V  E+    A +      E SAK   N E++  C  +L+ +
Sbjct: 120 GNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLR 171

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 71/172 (41%), Positives = 107/172 (62%), Gaps = 3/172 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK +K  IWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + V +LVGNK
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNIVIMLVGNK 119
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
            D    RAV  +E    A+++   F+E SA ++ +V++ FK++L +I  + S
Sbjct: 120 SDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVS 171

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  129 bits (325), Expect = 9e-31,   Method: Compositional matrix adjust.
 Identities = 71/169 (42%), Positives = 104/169 (61%), Gaps = 4/169 (2%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKR 60
           GS   +  YD+ FK++L+GD+ VGK             +    TIGVDF +K L + GKR
Sbjct: 18  GSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKR 77
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +KL IWDTAGQERF T+T SYYR A+G IL YD+T+R +F ++   W ++V  Y+   + 
Sbjct: 78  VKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPH-WIEDVRKYA-GSNI 135
Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           V++L+GNK D    R V+  E   LA+ +  L  +E SAK++ +V++ F
Sbjct: 136 VQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAF 184

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 71/176 (40%), Positives = 109/176 (61%), Gaps = 5/176 (2%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGK 59
           MG++  ++ YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK
Sbjct: 19  MGTR--DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGK 76
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +K  IWDTAGQER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + +
Sbjct: 77  TIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSN 134
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            V +LVGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I
Sbjct: 135 IVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  127 bits (318), Expect = 6e-30,   Method: Compositional matrix adjust.
 Identities = 69/174 (39%), Positives = 106/174 (60%), Gaps = 3/174 (1%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLT 64
           G++ YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK +K  
Sbjct: 1   GSDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 60
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAG ER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + V +L
Sbjct: 61  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNIVIML 118
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
           VGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I  +
Sbjct: 119 VGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 172

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  126 bits (316), Expect = 1e-29,   Method: Compositional matrix adjust.
 Identities = 70/173 (40%), Positives = 103/173 (59%), Gaps = 5/173 (2%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FKI+LIGDSGVGK            + +   TIGV+F  + + V  K++K  IWDT
Sbjct: 7   YDYLFKIVLIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDT 66
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGN 127
           AG ER+  +TS+YYRGA G ++VYD+++  ++ N +  W    EL     D V + L+GN
Sbjct: 67  AGLERYRAITSAYYRGAVGALIVYDISKSSSYENCNH-WL--TELRENADDNVAVGLIGN 123
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           K D    RAV  +E    A E++ LF E SA N+++V + F++L+  I ++ S
Sbjct: 124 KSDLAHLRAVPTDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVS 176

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  125 bits (314), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 70/176 (39%), Positives = 108/176 (61%), Gaps = 5/176 (2%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGK 59
           MG++  ++ YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK
Sbjct: 19  MGTR--DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGK 76
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +K  IWDTAG ER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + +
Sbjct: 77  TIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSN 134
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            V +LVGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I
Sbjct: 135 IVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  124 bits (311), Expect = 3e-29,   Method: Compositional matrix adjust.
 Identities = 70/176 (39%), Positives = 107/176 (60%), Gaps = 5/176 (2%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGK 59
           MG++  ++ YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK
Sbjct: 1   MGTR--DDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGK 58
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +K  IWDTAG ER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + +
Sbjct: 59  TIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSN 116
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            V  LVGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I
Sbjct: 117 IVIXLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 172

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  124 bits (311), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 69/173 (39%), Positives = 101/173 (58%), Gaps = 5/173 (2%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLT 64
           G+  Y++ FK++LIG+SGVGK             HD   TIGV+F  + + +G   +K  
Sbjct: 18  GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQ 77
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKI 123
           IWDTAG ER+  +TS+YYRGA G +LV+D+T+ +T+  +   W K  ELY       V +
Sbjct: 78  IWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVER-WLK--ELYDHAEATIVVM 134
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           LVGNK D    R V  EE  + A+ +  LFLE SA ++ +V+  F+ +L +I 
Sbjct: 135 LVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIF 187

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  122 bits (307), Expect = 1e-28,   Method: Compositional matrix adjust.
 Identities = 68/167 (40%), Positives = 101/167 (60%), Gaps = 3/167 (1%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK++LIGDSGVGK            + +   TIGV+F  + + V GK +K  IWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AG ER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + V  LVGNK
Sbjct: 62  AGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNIVIXLVGNK 119
Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I
Sbjct: 120 SDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 166

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  122 bits (305), Expect = 2e-28,   Method: Compositional matrix adjust.
 Identities = 68/169 (40%), Positives = 99/169 (58%), Gaps = 5/169 (2%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           Y++ FK++LIG+SGVGK             HD   TIGV+F  + + +G   +K  IWDT
Sbjct: 7   YNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDT 66
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGN 127
           AG ER+  +TS+YYRGA G +LV+D+T+ +T+  +   W K  ELY       V +LVGN
Sbjct: 67  AGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVER-WLK--ELYDHAEATIVVMLVGN 123
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           K D    R V  EE  + A+ +  LFLE SA ++ +V+  F+ +L +I 
Sbjct: 124 KSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIF 172

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  121 bits (303), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 70/171 (40%), Positives = 99/171 (57%), Gaps = 4/171 (2%)
Query: 10  YDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTV-GGKRLKLTIWD 67
           YDY FKI+LIGDSGVGK            + +   TIGV+F  K + +   K +K  IWD
Sbjct: 4   YDYLFKIVLIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWD 63
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQER+  +TS+YYRGA G +LVYD+T++ +F N+   W KE+   + + + V +LVGN
Sbjct: 64  TAGQERYRAITSAYYRGAVGALLVYDITKKNSFENIEK-WLKELR-DNADSNIVILLVGN 121
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
           K D    R +   +    A++ K  F+E SA    +V+  F  LL +I  V
Sbjct: 122 KSDLKHLRVINDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNV 172

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 63/116 (54%), Positives = 82/116 (70%), Gaps = 3/116 (2%)
Query: 16  ILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +LLIGDSGVGK             +    TIGVDFKI+ + + GK +KL IWDTAGQERF
Sbjct: 1   LLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERF 60
Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
            T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y++ ++  K+LVGNK D
Sbjct: 61  RTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYAS-ENVNKLLVGNKCD 114

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  114 bits (284), Expect = 5e-26,   Method: Compositional matrix adjust.
 Identities = 64/160 (40%), Positives = 88/160 (55%), Gaps = 6/160 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXX-XVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K++L+G++ VGK              +  PTIG  F  + +T+    +K  IWDTAGQ
Sbjct: 3   SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQ 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           ERF +L   YYR A   ++VYDVT+ ++F   +  W KE+     ++D +  LVGNK+D 
Sbjct: 63  ERFASLAPXYYRNAQAALVVYDVTKPQSFIK-ARHWVKELH-EQASKDIIIALVGNKIDX 120
Query: 131 --RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
                ER V REEG  LA+E   LF E SAK  E+V   F
Sbjct: 121 LQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF 160

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  113 bits (283), Expect = 6e-26,   Method: Compositional matrix adjust.
 Identities = 68/177 (38%), Positives = 98/177 (55%), Gaps = 3/177 (1%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS V   S  YSFK++L+G+  VGK            +D    T+   F  K L +GGKR
Sbjct: 9   GSLVPRGSRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKR 68
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           + L IWDTAGQERF  L   YYR ++G ILVYD+T  ++F  + + W KE+     N+ C
Sbjct: 69  VNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKN-WVKELRKMLGNEIC 127
Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           + I VGNK+D + ER V+ +E    A+         SAK  + +++ F DL  +++E
Sbjct: 128 LCI-VGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 183

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  113 bits (282), Expect = 8e-26,   Method: Compositional matrix adjust.
 Identities = 66/170 (38%), Positives = 96/170 (56%), Gaps = 3/170 (1%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           S  YSFK++L+G+  VGK            +D    T+G  F  K L +GGKR+ L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF  L   YYR ++G ILVYD+T  ++F  + + W KE+     N+ C+ I VGN
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKN-WVKELRKMLGNEICLCI-VGN 119
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K+D + ER V+ +E    A+         SAK  + +++ F DL  +++E
Sbjct: 120 KIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  111 bits (277), Expect = 3e-25,   Method: Compositional matrix adjust.
 Identities = 67/179 (37%), Positives = 94/179 (52%), Gaps = 6/179 (3%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS V   S    FKI++IGDS VGK             D +  TIGVDF+ + + + G+R
Sbjct: 9   GSLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER 68
Query: 61  LKLTIWDTAGQERF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           +K+ +WDTAGQERF  ++   YYR  H ++ VYD+T   +F +L + W +E + +    D
Sbjct: 69  IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPA-WIEECKQHLLAND 127
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED---VKQCFKDLLYKI 175
             +ILVGNK D  S   V  +     A  H     E SAKN  D   V+  F  L +K+
Sbjct: 128 IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKL 186

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  110 bits (275), Expect = 6e-25,   Method: Compositional matrix adjust.
 Identities = 65/170 (38%), Positives = 95/170 (55%), Gaps = 3/170 (1%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           S  YSFK++L+G+  VGK            +D    T+   F  K L +GGKR+ L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWD 61
Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF  L   YYR ++G ILVYD+T  ++F  + + W KE+     N+ C+ I VGN
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKN-WVKELRKMLGNEICLCI-VGN 119
Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K+D + ER V+ +E    A+         SAK  + +++ F DL  +++E
Sbjct: 120 KIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  108 bits (270), Expect = 2e-24,   Method: Compositional matrix adjust.
 Identities = 63/167 (37%), Positives = 89/167 (53%), Gaps = 6/167 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI++IGDS VGK             D +  TIGVDF+ + + + G+R+K+ +WDTAGQE
Sbjct: 30  FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 89
Query: 73  RF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           RF  ++   YYR  H ++ VYD T   +F +L + W +E + +    D  +ILVGNK D 
Sbjct: 90  RFRKSMVQHYYRNVHAVVFVYDXTNXASFHSLPA-WIEECKQHLLANDIPRILVGNKCDL 148
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTED---VKQCFKDLLYKI 175
            S   V  +     A  H     E SAKN  D   V+  F  L +K+
Sbjct: 149 RSAIQVPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTLAHKL 195

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  108 bits (269), Expect = 3e-24,   Method: Compositional matrix adjust.
 Identities = 60/163 (36%), Positives = 89/163 (54%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 4   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 63
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  +TF    + W KE++  ++  + V  L GNK D  
Sbjct: 64  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKN-WVKELQRQAS-PNIVIALAGNKADLA 121
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           S+RAV  +E    A ++  LF+E SAK   +V + F  +  K+
Sbjct: 122 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 164

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  107 bits (267), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 60/184 (32%), Positives = 105/184 (57%), Gaps = 12/184 (6%)
Query: 5   VGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLL--------- 54
           + +  YDY  K L +GDSGVGK            +     T+G+DF+ K +         
Sbjct: 3   MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDG 62
Query: 55  TVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL 113
            VG G+R+ L +WDTAG ERF +LT++++R A G +L++D+T  ++F N+ + W  ++++
Sbjct: 63  AVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRN-WISQLQM 121
Query: 114 YSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY 173
           ++ +++   +L GNK D + +RAV  EE   LA+++   + E SA N  ++    + LL 
Sbjct: 122 HAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLD 181
Query: 174 KILE 177
            I++
Sbjct: 182 LIMK 185

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  107 bits (266), Expect = 5e-24,   Method: Compositional matrix adjust.
 Identities = 59/156 (37%), Positives = 84/156 (53%), Gaps = 3/156 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 9   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQE 68
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T +ETF   +  W KE++  ++    V  L GNK D  
Sbjct: 69  RYHSLAPMYYRGAQAAIVVYDITNQETFAR-AKTWVKELQRQAS-PSIVIALAGNKADLA 126
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
           ++R V  EE    A ++  LF+E SAK   +V   F
Sbjct: 127 NKRMVEYEEAQAYADDNSLLFMETSAKTAMNVNDLF 162

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  106 bits (265), Expect = 7e-24,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 68  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 125
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 126 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 168

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  106 bits (265), Expect = 8e-24,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 89/163 (54%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 8   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 67
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 68  RYHSLAPXYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 125
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF E SAK + +V + F  +  K+
Sbjct: 126 NKRAVDFQEAQSYADDNSLLFXETSAKTSXNVNEIFXAIAKKL 168

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 64/177 (36%), Positives = 91/177 (51%), Gaps = 5/177 (2%)
Query: 3   SKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXX-XXVHDPSPTIGVDFKIKLLTVGGKRL 61
           +  GN S +   K++L+GD G GK            V     TIG  F  + L V    +
Sbjct: 4   AAAGNKSINA--KLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATV 61
Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
           K  IWDTAGQER+ +L   YYRGA   I+V+DVT + +F   +  W +E++    N + V
Sbjct: 62  KFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFER-AKKWVQELQAQG-NPNMV 119
Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
             L GNK D    R VT E+    AQE+   F+E SAK   +VK+ F ++  ++  V
Sbjct: 120 MALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRV 176

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 88/163 (53%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TI   F  + + +    +K  IWDTAGQE
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQE 65
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  +TF    + W KE++  ++  + V  L GNK D  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKN-WVKELQRQAS-PNIVIALAGNKADLA 123
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           S+RAV  +E    A ++  LF+E SAK   +V + F  +  K+
Sbjct: 124 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  105 bits (262), Expect = 2e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  105 bits (261), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 88/163 (53%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  +TF    + W KE++  ++  + V  L GNK D  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNTDTFARAKN-WVKELQRQAS-PNIVIALAGNKADLA 123
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           S+RAV  +E    A ++  LF+E SAK   +V + F  +  K+
Sbjct: 124 SKRAVEFQEAQAYADDNSLLFMETSAKTAMNVNEIFMAIAKKL 166

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 59/163 (36%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAGQE
Sbjct: 7   FKLVLLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 67  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 167

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  103 bits (258), Expect = 6e-23,   Method: Compositional matrix adjust.
 Identities = 61/157 (38%), Positives = 89/157 (56%), Gaps = 3/157 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++ +G+  VGK             ++   TIG+DF  K L +    ++L +WDTAGQE
Sbjct: 2   YKLVFLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQE 61
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   I+VYD+T R++F N ++ W +++ L    +D +  LVGNK D  
Sbjct: 62  RFRSLIPSYIRDSAAAIVVYDITNRQSFEN-TTKWIQDI-LNERGKDVIIALVGNKTDLG 119
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
             R VT EEG   AQE+   F E SAK   ++K  FK
Sbjct: 120 DLRKVTYEEGXQKAQEYNTXFHETSAKAGHNIKVLFK 156

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  103 bits (257), Expect = 7e-23,   Method: Compositional matrix adjust.
 Identities = 58/163 (35%), Positives = 89/163 (54%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+S VGK            H+    TIG  F  + + +    +K  IWDTAG E
Sbjct: 6   FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLE 65
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           R+ +L   YYRGA   I+VYD+T  E+F    + W KE++  ++  + V  L GNK D  
Sbjct: 66  RYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQAS-PNIVIALSGNKADLA 123
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+
Sbjct: 124 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL 166

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  102 bits (255), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 57/163 (34%), Positives = 90/163 (55%), Gaps = 3/163 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K+ L+GD+GVGK             H+ SPTIG  F  K +  G +  K  IWDTAGQE
Sbjct: 24  LKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQE 83
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L   YYRG+   ++VYD+T++++F  L   W KE++ +   ++ V  + GNK D  
Sbjct: 84  RFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKK-WVKELKEHGP-ENIVMAIAGNKCDLS 141
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             R V  ++    A+    + +E SAKN  ++++ F+ +  +I
Sbjct: 142 DIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  102 bits (253), Expect = 2e-22,   Method: Compositional matrix adjust.
 Identities = 59/165 (35%), Positives = 90/165 (54%), Gaps = 3/165 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 3   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   +S W  +V       D + +LVGNK D  
Sbjct: 63  RFRSLIPSYIRDSTVAVVVYDITNLNSFQQ-TSKWIDDVRT-ERGSDVIIMLVGNKTDLA 120
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +R +T EEG   A+E   +F+E SAK   +VKQ F+ +   +LE
Sbjct: 121 DKRQITIEEGEQRAKELSVMFIETSAKTGYNVKQLFRRVASALLE 165

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 65/174 (37%), Positives = 98/174 (56%), Gaps = 7/174 (4%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD GVGK               +  TIGV+F  + L V G+ + L IWDTAGQER
Sbjct: 9   KVILLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQER 68
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKVD 130
           F +L + +YRGA   +L + V  R++F NL + W KE   Y+  +D      +++GNKVD
Sbjct: 69  FKSLRTPFYRGADCCLLTFSVDDRQSFENLGN-WQKEFIYYADVKDPEHFPFVVLGNKVD 127
Query: 131 RDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           ++ +R VT EE      E+    +LE SAK+  +V   F++ + ++L V   LE
Sbjct: 128 KE-DRQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAFEEAVRQVLAVEEQLE 180

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  101 bits (251), Expect = 3e-22,   Method: Compositional matrix adjust.
 Identities = 60/164 (36%), Positives = 84/164 (51%), Gaps = 5/164 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            K+ L+GD+GVGK             DP+  PTIG  F  K +    +  K  IWDTAGQ
Sbjct: 6   LKVCLLGDTGVGKSSIVWRFVEDSF-DPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQ 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ERF  L   YYRG+   I+VYD+T+ ETF+ L + W +E+  +      V I  GNK D 
Sbjct: 65  ERFRALAPMYYRGSAAAIIVYDITKEETFSTLKN-WVRELRQHGPPSIVVAI-AGNKCDL 122
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V   +    A     +F+E SAKN  ++ + F ++  +I
Sbjct: 123 TDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 166

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  100 bits (250), Expect = 4e-22,   Method: Compositional matrix adjust.
 Identities = 59/185 (31%), Positives = 101/185 (54%), Gaps = 16/185 (8%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGK----- 59
           G+  YDY  K+L +GDSGVGK            +     T+G+DF+ K +    +     
Sbjct: 18  GSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGS 77
Query: 60  -----RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-- 112
                ++ L +WDTAGQERF +LT++++R A G +L++D+T +++F N+ + W  +++  
Sbjct: 78  SGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRN-WMSQLQAN 136
Query: 113 LYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            Y  N D V  L+GNK D   +R V   +   LA ++   + E SA   ++V++  + LL
Sbjct: 137 AYCENPDIV--LIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLL 194
Query: 173 YKILE 177
             I++
Sbjct: 195 DLIMK 199

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 99.8 bits (247), Expect = 9e-22,   Method: Compositional matrix adjust.
 Identities = 61/159 (38%), Positives = 92/159 (57%), Gaps = 9/159 (5%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           ++KI+L GD+ VGK             +  S T+GVDF++K L V G+R  L +WDTAGQ
Sbjct: 28  AYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQ 87
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           ERF ++  SY+R A G++L+YDVT  ++F N+   W   +E  + ++    +LVGNK D 
Sbjct: 88  ERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIRE-WVDMIE-DAAHETVPIMLVGNKADI 145
Query: 131 RDS-----ERAVTREEGMILAQEHKCLFLECSAKNTEDV 164
           RD+     ++ V    G  LA  +  LF E SAK+  ++
Sbjct: 146 RDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNI 184

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score = 99.4 bits (246), Expect = 1e-21,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 87/157 (55%), Gaps = 3/157 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 15  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 74
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F + +S W  +V       D + +LVGNK D  
Sbjct: 75  RFRSLIPSYIRDSTVAVVVYDITNTNSF-HQTSKWIDDVRT-ERGSDVIIMLVGNKTDLS 132
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+
Sbjct: 133 DKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFR 169

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 86/157 (54%), Gaps = 3/157 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   ++ W  +V       D + +LVGNK D  
Sbjct: 67  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQ-TTKWIDDVRT-ERGSDVIIMLVGNKTDLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+
Sbjct: 125 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFR 161

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score = 98.6 bits (244), Expect = 2e-21,   Method: Compositional matrix adjust.
 Identities = 59/164 (35%), Positives = 83/164 (50%), Gaps = 5/164 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            K+ L+GD+GVGK             DP+  PTIG  F  K +    +  K  IWDTAG 
Sbjct: 7   LKVCLLGDTGVGKSSIMWRFVEDSF-DPNINPTIGASFMTKTVQYQNELHKFLIWDTAGL 65
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ERF  L   YYRG+   I+VYD+T+ ETF+ L + W +E+  +      V I  GNK D 
Sbjct: 66  ERFRALAPMYYRGSAAAIIVYDITKEETFSTLKN-WVRELRQHGPPSIVVAI-AGNKCDL 123
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V   +    A     +F+E SAKN  ++ + F ++  +I
Sbjct: 124 TDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 167

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score = 98.2 bits (243), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 61/197 (30%), Positives = 102/197 (51%), Gaps = 3/197 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAG E
Sbjct: 14  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLE 73
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   ++ W  +V       D + +LVGNK D  
Sbjct: 74  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQ-TTKWIDDVRT-ERGSDVIIMLVGNKTDLA 131
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQ 192
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+ +   +  + S  ++    + + 
Sbjct: 132 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDI 191
Query: 193 ILKQKEVQESARGGNCC 209
            L++ + Q  + GG  C
Sbjct: 192 KLEKPQEQPVSEGGCSC 208

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score = 97.1 bits (240), Expect = 7e-21,   Method: Compositional matrix adjust.
 Identities = 56/157 (35%), Positives = 86/157 (54%), Gaps = 3/157 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 2   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQE 61
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   ++ W  +V       D + +LVGNK D  
Sbjct: 62  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQ-TTKWIDDVRT-ERGSDVIIMLVGNKTDLA 119
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+
Sbjct: 120 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFR 156

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score = 96.7 bits (239), Expect = 9e-21,   Method: Compositional matrix adjust.
 Identities = 61/185 (32%), Positives = 101/185 (54%), Gaps = 18/185 (9%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLT--------V 56
           +  YDY  K+L +GDSGVGK            + P    T+G+DF+ K +          
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFN-PKFITTVGIDFREKRVVYDTQGADGA 63
Query: 57  GGKRLK--LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-- 112
            GK  K  L +WDTAG ERF +LT++++R A G +L++D+T +++F N+ + W  +++  
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRN-WMSQLQAN 122
Query: 113 LYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            Y  N D V  L+GNK D   +R V   +   LA+++   + E SA   ++V++  + LL
Sbjct: 123 AYCENPDIV--LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180
Query: 173 YKILE 177
             I++
Sbjct: 181 DLIMK 185

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 61/185 (32%), Positives = 101/185 (54%), Gaps = 18/185 (9%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLT--------V 56
           +  YDY  K+L +GDSGVGK            + P    T+G+DF+ K +          
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFN-PKFITTVGIDFREKRVVYDTQGADGA 63
Query: 57  GGKRLK--LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-- 112
            GK  K  L +WDTAG ERF +LT++++R A G +L++D+T +++F N+ + W  +++  
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRN-WMSQLQAN 122
Query: 113 LYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            Y  N D V  L+GNK D   +R V   +   LA+++   + E SA   ++V++  + LL
Sbjct: 123 AYCENPDIV--LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180
Query: 173 YKILE 177
             I++
Sbjct: 181 DLIMK 185

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score = 95.1 bits (235), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 60/180 (33%), Positives = 97/180 (53%), Gaps = 18/180 (10%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLT--------V 56
           +  YDY  K+L +GDSGVGK            + P    T+G+DF+ K +          
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFN-PKFITTVGIDFREKRVVYDTQGADGA 63
Query: 57  GGKRLK--LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-- 112
            GK  K  L +WDTAG ERF +LT++++R A G +L +D+T +++F N+ + W  +++  
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRN-WXSQLQAN 122
Query: 113 LYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            Y  N D V  L+GNK D   +R V   +   LA+++   + E SA   ++V++  + LL
Sbjct: 123 AYCENPDIV--LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score = 95.1 bits (235), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 60/180 (33%), Positives = 97/180 (53%), Gaps = 18/180 (10%)
Query: 7   NNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS--PTIGVDFKIKLLT--------V 56
           +  YDY  K+L +GDSGVGK            + P    T+G+DF+ K +          
Sbjct: 5   DGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFN-PKFITTVGIDFREKRVVYDTQGADGA 63
Query: 57  GGKRLK--LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE-- 112
            GK  K  L +WDTAG ERF +LT++++R A G +L +D+T +++F N+ + W  +++  
Sbjct: 64  SGKAFKVHLQLWDTAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRN-WXSQLQAN 122
Query: 113 LYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            Y  N D V  L+GNK D   +R V   +   LA+++   + E SA   ++V++  + LL
Sbjct: 123 AYCENPDIV--LIGNKADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLL 180

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 56/174 (32%), Positives = 92/174 (52%), Gaps = 5/174 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++GDSGVGK             +    TIG DF  K + V  + + + IWDTAGQE
Sbjct: 9   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 68
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L  ++YRGA   +LV+DVT   TF  L S W  E  + ++ +D      +++GNK+
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDS-WRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           D ++ +  T+        ++   + E SAK   +V+Q F+ +    L+  + +E
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 56/174 (32%), Positives = 92/174 (52%), Gaps = 5/174 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++GDSGVGK             +    TIG DF  K + V  + + + IWDTAGQE
Sbjct: 9   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 68
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L  ++YRGA   +LV+DVT   TF  L S W  E  + ++ +D      +++GNK+
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDS-WRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
           D ++ +  T+        ++   + E SAK   +V+Q F+ +    L+  + +E
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score = 94.7 bits (234), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 56/173 (32%), Positives = 92/173 (53%), Gaps = 5/173 (2%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GDSGVGK             +    TIG DF  K + V  + + + IWDTAGQER
Sbjct: 10  KVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQER 69
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKVD 130
           F +L  ++YRGA   +LV+DVT   TF  L S W  E  + ++ +D      +++GNK+D
Sbjct: 70  FQSLGVAFYRGADCCVLVFDVTAPNTFKTLDS-WRDEFLIQASPRDPENFPFVVLGNKID 128
Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
            ++ +  T+        ++   + E SAK   +V+Q F+ +    L+  + +E
Sbjct: 129 FENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVE 181

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score = 93.6 bits (231), Expect = 7e-20,   Method: Compositional matrix adjust.
 Identities = 55/157 (35%), Positives = 85/157 (54%), Gaps = 3/157 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAG E
Sbjct: 7   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 66
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   ++ W  +V       D + +LVGNK D  
Sbjct: 67  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQ-TTKWIDDVRT-ERGSDVIIMLVGNKTDLA 124
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+
Sbjct: 125 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFR 161

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score = 93.6 bits (231), Expect = 8e-20,   Method: Compositional matrix adjust.
 Identities = 60/194 (30%), Positives = 101/194 (52%), Gaps = 3/194 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK             +    TIG+DF  K + +  + ++L +WDTAG E
Sbjct: 17  FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLE 76
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   ++ W  +V       D + +LVGNK D  
Sbjct: 77  RFRSLIPSYIRDSTVAVVVYDITNVNSFQQ-TTKWIDDVRT-ERGSDVIIMLVGNKTDLA 134
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQ 192
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+ +   +  + S  ++    + + 
Sbjct: 135 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMIDI 194
Query: 193 ILKQKEVQESARGG 206
            L++ + Q  + GG
Sbjct: 195 KLEKPQEQPVSEGG 208

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 59/168 (35%), Positives = 93/168 (55%), Gaps = 7/168 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+GD GVGK                  TIGV+F  K L V G  + + IWDTAGQE
Sbjct: 8   FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE 67
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L + +YRG+   +L + V   ++F NLS+ W KE   Y+  ++      +++GNK+
Sbjct: 68  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSN-WKKEFIYYADVKEPESFPFVILGNKI 126
Query: 130 DRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKIL 176
           D  SER V+ EE     +++    + E SAK+  +V   F++ + ++L
Sbjct: 127 DI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 173

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score = 92.8 bits (229), Expect = 1e-19,   Method: Compositional matrix adjust.
 Identities = 62/180 (34%), Positives = 98/180 (54%), Gaps = 10/180 (5%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKR 60
           G+  G +S    FK++L+GD GVGK                  TIGV+F  K L V G  
Sbjct: 1   GAMAGKSSL---FKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHF 57
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           + + IWDTAGQERF +L + +YRG+   +L + V   ++F NLS+ W KE   Y+  ++ 
Sbjct: 58  VTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSN-WKKEFIYYADVKEP 116
Query: 121 VK---ILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKIL 176
                +++GNK+D  SER V+ EE     +++    + E SAK+  +V   F++ + ++L
Sbjct: 117 ESFPFVILGNKIDI-SERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVL 175

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score = 92.0 bits (227), Expect = 2e-19,   Method: Compositional matrix adjust.
 Identities = 60/168 (35%), Positives = 92/168 (54%), Gaps = 7/168 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI+L+GD GVGK                  TIGV+F  K L V G  + + IWDTAGQE
Sbjct: 12  FKIILLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQE 71
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L + +YRG+   +L + V   ++F NLS+ W KE   Y+  ++      +++GNK 
Sbjct: 72  RFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSN-WKKEFIYYADVKEPESFPFVILGNKT 130
Query: 130 DRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKIL 176
           D   ER V+ EE     +++    + E SAK++ +V   F++ + +IL
Sbjct: 131 DI-KERQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAFEEAVRRIL 177

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score = 91.7 bits (226), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 54/168 (32%), Positives = 88/168 (52%), Gaps = 5/168 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++GDSGVGK             +    TIG DF  K + V  + + + IWDTAG E
Sbjct: 9   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLE 68
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVGNKV 129
           RF +L  ++YRGA   +LV+DVT   TF  L S W  E  + ++ +D      +++GNK+
Sbjct: 69  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDS-WRDEFLIQASPRDPENFPFVVLGNKI 127
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           D ++ +  T+        ++   + E SAK   +V+Q F+ +    L+
Sbjct: 128 DLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK 175

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score = 90.9 bits (224), Expect = 5e-19,   Method: Compositional matrix adjust.
 Identities = 58/166 (34%), Positives = 86/166 (51%), Gaps = 4/166 (2%)
Query: 13  SFKILLIGDSGVGKXXXXXXX-XXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K++++G+  VGK              D   TIGVDF  + + V  + ++L +WDTAGQ
Sbjct: 5   AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E F  +T +YYRGA   +LV+  T RE+F  +SS W ++V   +   D    LV NK+D 
Sbjct: 65  EEFDAITKAYYRGAQACVLVFSTTDRESFEAISS-WREKV--VAEVGDIPTALVQNKIDL 121
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             +  +  EE   LA+  K  F   S K   +V + FK L  K L+
Sbjct: 122 LDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 60/172 (34%), Positives = 95/172 (55%), Gaps = 10/172 (5%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLK-LTIWDTAGQ 71
            K++++GDSGVGK                  TIG DF  K +TV G ++  + +WDTAGQ
Sbjct: 9   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 68
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS---TNQDCVKILVGNK 128
           ERF +L  ++YRGA   +LVYDVT   +F N+ S W  E  +++   + +    +++GNK
Sbjct: 69  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKS-WRDEFLVHANVNSPETFPFVILGNK 127
Query: 129 VD-RDSERAVTREEGMILAQE--HKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +D  +S++ V+ +    LA+      LFL  SAKN  +V   F+++    L+
Sbjct: 128 IDAEESKKIVSEKSAQELAKSLGDIPLFL-TSAKNAINVDTAFEEIARSALQ 178

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 89.4 bits (220), Expect = 1e-18,   Method: Compositional matrix adjust.
 Identities = 57/164 (34%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXX-XXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V    PTI   ++ K + V  ++  L I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T + TF +L  +  + + +  T+ D   ILVGNK D +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTD-DVPMILVGNKCDLE 121
Query: 133 SERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++ + C FLE SAK+  +V + F DL+ +I
Sbjct: 122 DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 89.0 bits (219), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 57/164 (34%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXX-XXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V    PTI   ++ K + V  ++  L I DTAG E
Sbjct: 6   YKLVVLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTE 64
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T + TF +L  +  + + +  T+ D   ILVGNK D +
Sbjct: 65  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTD-DVPMILVGNKCDLE 123
Query: 133 SERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++ + C FLE SAK+  +V + F DL+ +I
Sbjct: 124 DERVVGKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQI 167

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 87.0 bits (214), Expect = 6e-18,   Method: Compositional matrix adjust.
 Identities = 57/164 (34%), Positives = 89/164 (54%), Gaps = 4/164 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXX-XXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + V  ++  L I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T + TF +L  +  + + +  T +D   ILVGNK D +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT-EDVPMILVGNKCDLE 121
Query: 133 SERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++   C FLE SAK+  +V + F DL+ +I
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 86.7 bits (213), Expect = 9e-18,   Method: Compositional matrix adjust.
 Identities = 57/164 (34%), Positives = 88/164 (53%), Gaps = 4/164 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXX-XXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V    PTI   ++ K + V  ++  L I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T + TF +L  +  + + +  T +D   ILVGNK D +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDT-EDVPMILVGNKCDLE 121
Query: 133 SERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++   C FLE SAK+  +V + F DL+ +I
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 50/148 (33%), Positives = 76/148 (51%), Gaps = 7/148 (4%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V D  PTI  D   K+ +V G   +L I DTAGQE FG +   Y R  HG +LV+ +  R
Sbjct: 35  VSDYDPTIE-DSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAINDR 93
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F  +  ++ + + +   + D   +LVGNK D +S+R V R E       H   + E S
Sbjct: 94  QSFNEVGKLFTQILRVKDRD-DFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEAS 152
Query: 158 AKNTEDVKQCFKDLL-----YKILEVPS 180
           AK   +V + F+ L+     Y+  E+P 
Sbjct: 153 AKLRLNVDEAFEQLVRAVRKYQEQELPP 180

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 50/135 (37%), Positives = 73/135 (54%), Gaps = 2/135 (1%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V D  PTI  D   K   +  +  +L I DTAGQE FG +   Y R   G +LV+ VT R
Sbjct: 31  VTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTDR 89
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
            +F  +   + +++       +   IL+GNK D D +R VT+EEG  LA++ K  ++E S
Sbjct: 90  GSFEEIYK-FQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEAS 148
Query: 158 AKNTEDVKQCFKDLL 172
           AK   +V Q F +L+
Sbjct: 149 AKIRMNVDQAFHELV 163

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/162 (29%), Positives = 83/162 (51%), Gaps = 2/162 (1%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAG E 
Sbjct: 9   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLED 67
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G +LV+ +T  E+FT  +    + + + +       ++VGNK D + 
Sbjct: 68  YAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEE 127
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            R V  EE    A+E    ++E SAK   +V + F DL+ +I
Sbjct: 128 RRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 169

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score = 79.3 bits (194), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 47/162 (29%), Positives = 83/162 (51%), Gaps = 2/162 (1%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAG E 
Sbjct: 5   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLED 63
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G +LV+ +T  E+FT  +    + + + +       ++VGNK D + 
Sbjct: 64  YAAIRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEE 123
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            R V  EE    A+E    ++E SAK   +V + F DL+ +I
Sbjct: 124 RRQVPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 87/162 (53%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXX-XXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAGQE 
Sbjct: 20  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQED 78
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D + 
Sbjct: 79  YAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLED 137
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +R V+ EE    A++    ++E SAK   +V + F DL+ +I
Sbjct: 138 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 87/162 (53%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXX-XXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAGQE 
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D + 
Sbjct: 67  YAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLED 125
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +R V+ EE    A++    ++E SAK   +V + F DL+ +I
Sbjct: 126 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 80/161 (49%), Gaps = 3/161 (1%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S KI ++G   VGK             D + PTI   F  KL+TV G+   L + DTAGQ
Sbjct: 4   SRKIAILGYRSVGKSSLTIQFVEGQFVDSADPTIENTFT-KLITVNGQEYHLQLVDTAGQ 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           + +     +Y    +G ILVY VT  ++F  +  +  K +++    Q  + +LVGNK D 
Sbjct: 63  DEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDL 121
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             ER ++ EEG  LA+     FLE SAK  +     F+ ++
Sbjct: 122 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 162

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 78.6 bits (192), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 56/174 (32%), Positives = 85/174 (48%), Gaps = 5/174 (2%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGK-RLKLTIW 66
           S+    KI+++GD   GK                  TIG+DF ++ +T+ G   + L IW
Sbjct: 2   SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVW--AKEVELYSTNQDCVKIL 124
           D  GQ   G +   Y  GA G++LVYD+T  ++F NL   +   K+V   S  Q  V  L
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVA-L 120
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
           VGNK+D +  R +  E+ +   QE+       SAK  + V  CF+ +  +IL +
Sbjct: 121 VGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI 174

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score = 78.6 bits (192), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 88/162 (54%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXXXXXX-XXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAGQE 
Sbjct: 16  KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQED 74
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   ++ + +++     +++   +LVGNK D + 
Sbjct: 75  YAAIRDNYFRSGEGFLCVFSITEMESFA-ATADFREQILRVKEDENVPFLLVGNKSDLED 133
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +R V+ EE    A++    ++E SAK   +V + F DL+ +I
Sbjct: 134 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 175

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 49/170 (28%), Positives = 85/170 (50%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                 PT+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRKV--KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 54/172 (31%), Positives = 83/172 (48%), Gaps = 4/172 (2%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIG-VDFKIKLLTVGGKRLKLTIWDTAG 70
           ++KI LIGD GVGK              + + T+G V+  +  L   G  +K  +WDTAG
Sbjct: 11  TYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAG 70
Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QE+   L   YY GA G IL +DVT R T  NL+  W KE +    N+  + ++  NK+D
Sbjct: 71  QEKKAVLKDVYYIGASGAILFFDVTSRITCQNLAR-WVKEFQAVVGNEAPI-VVCANKID 128
Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL 182
             + + ++++  M + +     + E SAK   +    F  L       P L+
Sbjct: 129 IKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLI 180

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 79/161 (49%), Gaps = 3/161 (1%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S KI ++G   VGK             D   PTI   F  KL+TV G+   L + DTAGQ
Sbjct: 6   SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQ 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           + +     +Y    +G ILVY VT  ++F  +  +  K +++    Q  + +LVGNK D 
Sbjct: 65  DEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDL 123
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             ER ++ EEG  LA+     FLE SAK  +     F+ ++
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 164

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 79/161 (49%), Gaps = 3/161 (1%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S KI ++G   VGK             D   PTI   F  KL+TV G+   L + DTAGQ
Sbjct: 6   SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQ 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           + +     +Y    +G ILVY VT  ++F  +  +  K +++    Q  + +LVGNK D 
Sbjct: 65  DEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDL 123
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             ER ++ EEG  LA+     FLE SAK  +     F+ ++
Sbjct: 124 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 164

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 77.8 bits (190), Expect = 4e-15,   Method: Compositional matrix adjust.
 Identities = 54/161 (33%), Positives = 79/161 (49%), Gaps = 3/161 (1%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S KI ++G   VGK             D   PTI   F  KL+TV G+   L + DTAGQ
Sbjct: 1   SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVDTAGQ 59
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           + +     +Y    +G ILVY VT  ++F  +  +  K +++    Q  + +LVGNK D 
Sbjct: 60  DEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPI-MLVGNKKDL 118
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             ER ++ EEG  LA+     FLE SAK  +     F+ ++
Sbjct: 119 HMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRII 159

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 49/170 (28%), Positives = 85/170 (50%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                 PT+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score = 77.4 bits (189), Expect = 5e-15,   Method: Compositional matrix adjust.
 Identities = 46/162 (28%), Positives = 86/162 (53%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXX-XXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAGQE 
Sbjct: 6   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGQED 64
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D + 
Sbjct: 65  YAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLED 123
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +R V+ EE    A +    ++E SAK   +V + F DL+ +I
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 45/162 (27%), Positives = 86/162 (53%), Gaps = 3/162 (1%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++G  GVGK            V D  PT    ++ K++ + G+ +++ I DTAG E 
Sbjct: 8   KVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVV-LDGEEVQIDILDTAGLED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D + 
Sbjct: 67  YAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLED 125
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +R V+ EE    A++    ++E SAK   +V + F DL+ +I
Sbjct: 126 KRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 46/136 (33%), Positives = 71/136 (52%), Gaps = 2/136 (1%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PT+   +  K++T+G     L + DTAGQ+ +  L  S+  G HG +LVY VT   +F  
Sbjct: 55  PTVENTYS-KIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQV 113
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           + S++ K  E +   +  V +LVGNK D   ER V   EG  LA+     F+E SA+  +
Sbjct: 114 IESLYQKLHEGHGKTRVPV-VLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQ 172
Query: 163 DVKQCFKDLLYKILEV 178
             +  F  ++ +I  V
Sbjct: 173 LTQGIFTKVIQEIARV 188

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 84/169 (49%), Gaps = 6/169 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD  
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDIK 132
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 133 DRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 179

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 3   QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 63  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 119
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 120 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 167

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 73.9 bits (180), Expect = 6e-14,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 73.6 bits (179), Expect = 7e-14,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLEDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 84/169 (49%), Gaps = 6/169 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQE
Sbjct: 16  FKLVLVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 75
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD  
Sbjct: 76  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDIK 132
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 133 DRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 179

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 48/170 (28%), Positives = 83/170 (48%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+ +DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIXFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 45/160 (28%), Positives = 74/160 (46%), Gaps = 2/160 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +++ + G  GVGK             +   PT+   ++ ++++       L I DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +        H  ILVY +T R++   L  ++ +  E+    +    +LVGNK D  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
             R V   E   LA+  KC F+E SAK   +VK+ F++LL
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 162

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 54/175 (30%), Positives = 84/175 (48%), Gaps = 23/175 (13%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K++L+GD G GK             +  +PT+   + + L  V GK + L IWDTAGQ
Sbjct: 34  SVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVNL-QVKGKPVHLHIWDTAGQ 92
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG-- 126
           + +  L   +Y  A  ++L +DVT   +F N+ + W  EV     N  C K   I+VG  
Sbjct: 93  DDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEV-----NHFCKKVPIIVVGCK 147
Query: 127 ----------NKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKD 170
                     NK+ R+    VT   G  +A+    + +LECSA+  ++V   F++
Sbjct: 148 TDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQE 202

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 49/181 (27%), Positives = 85/181 (46%), Gaps = 6/181 (3%)
Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS          FK++L+GD G GK                  T+GV+    +       
Sbjct: 1   GSMAAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGP 60
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +K  +WDTAG E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++ 
Sbjct: 61  IKFNVWDTAGLEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENI 117
Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             +L GNKVD    +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+
Sbjct: 118 PIVLCGNKVDIKDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPN 175
Query: 181 L 181
           L
Sbjct: 176 L 176

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 47/170 (27%), Positives = 84/170 (49%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAGQ
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQ 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E++G L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKYGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 55/184 (29%), Positives = 87/184 (47%), Gaps = 15/184 (8%)
Query: 6   GNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLT 64
           G+ S     K + +GD  VGK              D  PT+  +F   ++ V G  + L 
Sbjct: 1   GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSANVV-VNGATVNLG 59
Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           +WDTAGQE +  L    YRGA   IL + +  + ++ N+S  W  E++ Y+     V  L
Sbjct: 60  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPGVPIV--L 117
Query: 125 VGNKVD-RDSERAVTREEGMIL-----AQEHKCL-----FLECSAKNTEDVKQCFKDLLY 173
           VG K+D RD ++      G +       +E K L     ++ECS+K+ E+VK  F   + 
Sbjct: 118 VGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIR 177
Query: 174 KILE 177
            +L+
Sbjct: 178 VVLQ 181

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 38/109 (34%), Positives = 64/109 (58%), Gaps = 5/109 (4%)
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +K  IWDTAGQER+ ++   YYRGA   I+V+D++   T  + +  W  ++++ S   +
Sbjct: 92  NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTL-DRAKTWVNQLKISS---N 147
Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF 168
            + ILV NK+D++  + V   E    AQ++  LF++ SAK   ++K  F
Sbjct: 148 YIIILVANKIDKNKFQ-VDILEVQKYAQDNNLLFIQTSAKTGTNIKNIF 195

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 71.6 bits (174), Expect = 3e-13,   Method: Compositional matrix adjust.
 Identities = 39/110 (35%), Positives = 61/110 (55%), Gaps = 1/110 (0%)
Query: 63  LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK 122
           L I DT G  +F  +        H  ILV+ VT +++   L  ++   V++  + +D   
Sbjct: 58  LQITDTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPV 117
Query: 123 ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
           +LVGNK D +++R V   E   +AQE KC F+E SAK   +VK+ F++LL
Sbjct: 118 MLVGNKCD-ETQREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELL 166

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 71.2 bits (173), Expect = 4e-13,   Method: Compositional matrix adjust.
 Identities = 47/170 (27%), Positives = 83/170 (48%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAG 
Sbjct: 6   QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGL 65
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 66  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 122
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 123 KDRKV--KAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 170

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 70.9 bits (172), Expect = 5e-13,   Method: Compositional matrix adjust.
 Identities = 47/170 (27%), Positives = 83/170 (48%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+GD G GK                  T+GV+    +       +K  +WDTAG 
Sbjct: 10  QFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGL 69
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 70  EKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHR--DLVRVCENIPIVLCGNKVDI 126
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
              +   + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 127 KDRK--VKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 174

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 70.1 bits (170), Expect = 8e-13,   Method: Compositional matrix adjust.
 Identities = 48/175 (27%), Positives = 81/175 (46%), Gaps = 15/175 (8%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K + +GD  VGK              D  PT+  +F   ++ V G  + L +WDTAGQE 
Sbjct: 8   KCVTVGDGAVGKTCMLISYTSNTFPTDYVPTVFDNFSANVV-VDGNTVNLGLWDTAGQED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    YRGA   IL + +  + ++ N++  W  E+  Y+       ILVG K+D RD
Sbjct: 67  YNRLRPLSYRGADVFILAFSLISKASYENVAKKWIPELRHYAPGVPI--ILVGTKLDLRD 124
Query: 133 SERAVTREEGMILAQEHK----------CLFLECSAKNTEDVKQCFKDLLYKILE 177
            ++      G +    ++           +++ECS+K  ++VK  F   +  +L+
Sbjct: 125 DKQFFIDHPGAVPITTNQGEELKKLIGSPIYIECSSKTQQNVKAVFDAAIKVVLQ 179

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 70.1 bits (170), Expect = 9e-13,   Method: Compositional matrix adjust.
 Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 13/176 (7%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K + +GD  VGK              D  PT+  +F   +  V G+ + L +WDTAGQE
Sbjct: 10  IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFSANV-AVDGQIVNLGLWDTAGQE 68
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-- 130
            +  L    YRGA   +L + +  + ++ N+   W  E+  ++ N   V  LVG K+D  
Sbjct: 69  DYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPNVPIV--LVGTKLDLR 126
Query: 131 ------RDSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
                  D    +T  +G  L ++     ++ECS+K  ++VK  F   +  +L+ P
Sbjct: 127 DDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPP 182

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 56/189 (29%), Positives = 88/189 (46%), Gaps = 11/189 (5%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           +FK++L+GD G GK                  TIGV+            +K  +WDTAG 
Sbjct: 12  TFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGL 71
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 72  EKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPN-WHR--DLVRVCENIPIVLCGNKVDV 128
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKN 191
             ER V + + +   ++    + + SAK+  + ++ F  L  K+   P L       V +
Sbjct: 129 -KERKV-KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL-----EFVAS 181
Query: 192 QILKQKEVQ 200
             L   EVQ
Sbjct: 182 PALAPPEVQ 190

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 69.7 bits (169), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 82/163 (50%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    ++D   +LVGNK D  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHH-YREQIKRVKDSEDVPMVLVGNKCDLP 122
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           S R V  ++   LA+ +   F+E SAK  + V   F  L+ +I
Sbjct: 123 S-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 69.3 bits (168), Expect = 1e-12,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 82/163 (50%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    ++D   +LVGNK D  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHH-YREQIKRVKDSEDVPMVLVGNKSDLP 122
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           S R V  ++   LA+ +   F+E SAK  + V   F  L+ +I
Sbjct: 123 S-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 51/170 (30%), Positives = 82/170 (48%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           +FK++L+GD G GK                  TIGV+            +K  +WDTAG 
Sbjct: 5   TFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGL 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 65  EKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPN-WHR--DLVRVCENIPIVLCGNKVDV 121
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             ER V + + +   ++    + + SAK+  + ++ F  L  K+   P L
Sbjct: 122 -KERKV-KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL 169

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 51/170 (30%), Positives = 82/170 (48%), Gaps = 6/170 (3%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           +FK++L+GD G GK                  TIGV+            +K  +WDTAG 
Sbjct: 4   TFKLVLVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGL 63
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E+FG L   YY  A   I+++DVT R T+ N+ + W +  +L    ++   +L GNKVD 
Sbjct: 64  EKFGGLRDGYYINAQCAIIMFDVTSRITYKNVPN-WHR--DLVRVCENIPIVLCGNKVDV 120
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             ER V + + +   ++    + + SAK+  + ++ F  L  K+   P L
Sbjct: 121 -KERKV-KAKTITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLAGNPQL 168

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 49/177 (27%), Positives = 83/177 (46%), Gaps = 17/177 (9%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K +++GD  VGK             +   PT+   + + + TVGGK+  L ++DTAGQE
Sbjct: 19  LKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSV-TVGGKQYLLGLYDTAGQE 77
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-R 131
            +  L    Y      ++ + V    +F N+   W  E++ Y+ N     +L+G ++D R
Sbjct: 78  DYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVP--FLLIGTQIDLR 135
Query: 132 DSERAVTR-----------EEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           D  + + R           E+G  LA+E   C ++ECSA   + +K  F + +  IL
Sbjct: 136 DDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL 192

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ I  + V GK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 65
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D   
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRQ 123
Query: 131 ---------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
                    +  +  V  EEG  +A       +LECSAK  E V++ F+
Sbjct: 124 DEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 172

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 67.4 bits (163), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ I  + V GK+++L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFXPNVPI--ILVGNKKDLRQ 143
Query: 131 ---------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
                    +  +  V  EEG  +A       +LECSAK  E V++ F+
Sbjct: 144 DEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ I  + V GK+++L +WDTAGQE 
Sbjct: 27  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-IADIEVDGKQVELALWDTAGQED 85
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRQ 143
Query: 131 ---------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
                    +  +  V  EEG  +A       +LECSAK  E V++ F+
Sbjct: 144 DEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFE 192

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 81/163 (49%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    + D   +LVGNK D  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL- 120
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           + R V   +   LA+ +   ++E SAK  + V+  F  L+ +I
Sbjct: 121 AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 67.0 bits (162), Expect = 7e-12,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 81/163 (49%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 4   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    + D   +LVGNK D  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL- 120
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           + R V   +   LA+ +   ++E SAK  + V+  F  L+ +I
Sbjct: 121 AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 48/130 (36%), Positives = 73/130 (56%), Gaps = 2/130 (1%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PTI  DF  K + V      L I DTAG E+F ++   Y +   G ILVY +  +++F +
Sbjct: 34  PTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVNQQSFQD 92
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           +  +  + + +    +  V ILVGNKVD +SER V+  EG  LA+E  C F+E SAK+  
Sbjct: 93  IKPMRDQIIRVKRYEKVPV-ILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKT 151
Query: 163 DVKQCFKDLL 172
            V + F +++
Sbjct: 152 MVDELFAEIV 161

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 81/163 (49%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 4   YKLVVVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    + D   +LVGNK D  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL- 120
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           + R V   +   LA+ +   ++E SAK  + V+  F  L+ +I
Sbjct: 121 AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 66.6 bits (161), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 3/136 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V D  PTI  D  +K   +  +   L + DTAGQE F  +   Y R   G ++VY VT +
Sbjct: 44  VDDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 102
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
            +F ++   + + +      +    ILV NKVD    R VTR++G  +A ++   ++E S
Sbjct: 103 ASFEHVDR-FHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETS 161
Query: 158 AKNTE-DVKQCFKDLL 172
           AK+   +V + F DL+
Sbjct: 162 AKDPPLNVDKTFHDLV 177

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/163 (26%), Positives = 81/163 (49%), Gaps = 4/163 (2%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGK            V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 4   YKLVVVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62
Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    + D   +LVGNK D  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL- 120
Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           + R V   +   LA+ +   ++E SAK  + V+  F  L+ +I
Sbjct: 121 AGRTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 77/152 (50%), Gaps = 11/152 (7%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + KI+++GD  VGK           +  P+   PT+  +F   ++    +   L +WDTA
Sbjct: 23  ALKIVVVGDGAVGKTCLLLAFSKGEI--PTAYVPTVFENFS-HVMKYKNEEFILHLWDTA 79
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQE +  L    Y  +  ++L + V  R +F N+S+ W  E++ Y      V  LVG KV
Sbjct: 80  GQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV--LVGLKV 137
Query: 130 D--RDSERAVTREEGMILAQEHKCL-FLECSA 158
           D  +D    VT++EG  L Q+  C+ ++E S+
Sbjct: 138 DLRKDGSDDVTKQEGDDLCQKLGCVAYIEASS 169

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 44/136 (32%), Positives = 70/136 (51%), Gaps = 3/136 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V D  PTI  D  +K   +  +   L + DTAGQE F  +   Y R   G ++VY VT +
Sbjct: 39  VPDYDPTIE-DSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDK 97
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
            +F ++   + + +      +    ILV NKVD    R VTR++G  +A ++   ++E S
Sbjct: 98  ASFEHVDR-FHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETS 156
Query: 158 AKNTE-DVKQCFKDLL 172
           AK+   +V + F DL+
Sbjct: 157 AKDPPLNVDKTFHDLV 172

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/152 (30%), Positives = 77/152 (50%), Gaps = 11/152 (7%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + KI+++GD  VGK           +  P+   PT+  +F   ++    +   L +WDTA
Sbjct: 22  ALKIVVVGDGAVGKTCLLLAFSKGEI--PTAYVPTVFENFS-HVMKYKNEEFILHLWDTA 78
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQE +  L    Y  +  ++L + V  R +F N+S+ W  E++ Y      V  LVG KV
Sbjct: 79  GQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV--LVGLKV 136
Query: 130 D--RDSERAVTREEGMILAQEHKCL-FLECSA 158
           D  +D    VT++EG  L Q+  C+ ++E S+
Sbjct: 137 DLRKDGSDDVTKQEGDDLCQKLGCVAYIEASS 168

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 50/159 (31%), Positives = 78/159 (49%), Gaps = 5/159 (3%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXX-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K+ + G +GVGK            + +  PT+   ++ +  T+  + + + I DTAGQE 
Sbjct: 30  KLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQED 88
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
                  + R   G +LVYD+T R +F  +  +    ++     ++   ILVGNK D D 
Sbjct: 89  -TIQREGHMRWGEGFVLVYDITDRGSFEEVLPL-KNILDEIKKPKNVTLILVGNKADLDH 146
Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTE-DVKQCFKDL 171
            R V+ EEG  LA E  C F ECSA   E ++ + F +L
Sbjct: 147 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYEL 185

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 65.1 bits (157), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 49/166 (29%), Positives = 78/166 (46%), Gaps = 15/166 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K + +GD  VGK              D  PT+  +F   ++ V G  + L +WDTAGQE 
Sbjct: 8   KCVTVGDGAVGKTCMLISYTGNTFPTDYVPTVFDNFSANVV-VDGSTVNLGLWDTAGQED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    YRGA   +L + +  + ++ N+   W  E++ Y+     V  LVG K+D RD
Sbjct: 67  YNRLRPLSYRGADVFLLAFSLISKASYENIHKKWLPELKHYAPGIPIV--LVGTKLDLRD 124
Query: 133 SERAVTREEG---MILAQEHK-------CLFLECSAKNTEDVKQCF 168
            ++ +    G   +  AQ  +         +LECS+K  ++VK  F
Sbjct: 125 DKQFLKDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVF 170

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 42/131 (32%), Positives = 68/131 (51%), Gaps = 3/131 (2%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PTI  D  +K   +  +   L + DTAGQE F  +   Y R   G ++VY VT + +F +
Sbjct: 49  PTIE-DSYLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEH 107
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           +   + + +      +    ILV NKVD    R VTR++G  +A ++   ++E SAK+  
Sbjct: 108 VDR-FHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPP 166
Query: 163 -DVKQCFKDLL 172
            +V + F DL+
Sbjct: 167 LNVDKTFHDLV 177

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 123
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 124 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 121
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 122 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 123
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 124 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 5   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 63
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 64  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 121
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 122 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 170

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 123
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 124 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 8   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 124
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 125 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 125
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 126 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 11  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 69
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 70  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 127
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 128 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 176

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 7   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 65
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 66  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 123
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 124 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 125
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 126 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 64.7 bits (156), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 9   KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 67
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 68  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 125
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 126 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 174

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 10  KLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 68
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 126
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 127 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 47/169 (27%), Positives = 79/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 8   KLVIVGDVACGKTCLLIVFSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 67  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 124
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 125 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 173

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 64.3 bits (155), Expect = 5e-11,   Method: Compositional matrix adjust.
 Identities = 41/131 (31%), Positives = 68/131 (51%), Gaps = 3/131 (2%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PTI   ++ K   +  +   L + DTAGQE F  +   Y R   G ++VY VT + +F +
Sbjct: 49  PTIEDSYR-KHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEH 107
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           +   + + +      +    ILV NKVD    R VTR++G  +A ++   ++E SAK+  
Sbjct: 108 VDR-FHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPP 166
Query: 163 -DVKQCFKDLL 172
            +V + F DL+
Sbjct: 167 LNVDKTFHDLV 177

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 51/160 (31%), Positives = 76/160 (47%), Gaps = 7/160 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           ++++L+GD GVGK             D    +G D   + LTV G+   L + DT   E+
Sbjct: 5   YRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEK 64
Query: 74  FGTLTS--SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ-DCVKI-LVGNKV 129
                S  S  +G    ++VY +  R +F + S +    ++L  T+Q D V I LVGNK 
Sbjct: 65  LDKSWSQESCLQGGSAYVIVYSIADRGSFESASEL---RIQLRRTHQADHVPIILVGNKA 121
Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK 169
           D    R V+ EEG   A    C F+E SA    +V + F+
Sbjct: 122 DLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFE 161

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 78/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAGQE 
Sbjct: 27  KLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGQED 85
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  L    Y     I++ + V   ++  N+   W  EV+ +  N     ILV NK D   
Sbjct: 86  YDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPNVPI--ILVANKKDLRS 143
Query: 131 ---------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
                    R  +  V  ++G  +A   +   +LECSAK  E V++ F+
Sbjct: 144 DEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFE 192

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 63.2 bits (152), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 75/167 (44%), Gaps = 15/167 (8%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K +L+GD  VGK                     D    +++V G+ ++L + DTAGQ+ F
Sbjct: 22  KCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNFSAVVSVDGRPVRLQLCDTAGQDEF 81
Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVE---------LYSTNQDC---VK 122
             L    Y      +L + V    +F N+S  W  E+          L  T  D    VK
Sbjct: 82  DKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPIILVGTQSDLREDVK 141
Query: 123 ILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           +L+  ++D+  E+ V  E   +LA+E K   ++ECSA   +++K+ F
Sbjct: 142 VLI--ELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 73/138 (52%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 47  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNS 105
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++ +++ ++++    + D   +LVGNK D  + R V  ++   LA+ +   F+E S
Sbjct: 106 KSFADI-NLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETS 163
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 164 AKTRQGVEDAFYTLVREI 181

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 82/178 (46%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK           +  +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 88
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 89  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 146
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 147 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 63
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 64  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 121
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 122 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 181
Query: 179 PSL 181
           P +
Sbjct: 182 PPV 184

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 71/138 (51%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 30  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 88
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    ++D   +LVGNK D  S R V  ++   LA+ +   F+E S
Sbjct: 89  KSFEDIHH-YREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDLARSYGIPFIETS 146
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V   F  L+ +I
Sbjct: 147 AKTRQGVDDAFYTLVREI 164

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 40/138 (28%), Positives = 71/138 (51%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 30  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 88
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    ++D   +LVGNK D  S R V  ++   LA+ +   F+E S
Sbjct: 89  KSFEDIHH-YREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDLARSYGIPFIETS 146
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V   F  L+ +I
Sbjct: 147 AKTRQGVDDAFYTLVREI 164

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 7   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 65
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 66  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 123
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 124 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 183
Query: 179 PSL 181
           P +
Sbjct: 184 PPV 186

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 49/198 (24%), Positives = 90/198 (45%), Gaps = 27/198 (13%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVG 57
           MGS   ++ +  + K +++GD  VGK              PS   PT+  ++ + ++ +G
Sbjct: 1   MGSSHHHHHHMQTIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IG 57
Query: 58  GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTN 117
           G+   L ++DTAGQE +  L    Y      ++ + V    +F N+   W  E+      
Sbjct: 58  GEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----T 112
Query: 118 QDCVK---ILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNT 161
             C K   +LVG ++D            ++ ++ +T E    LA++ K + ++ECSA   
Sbjct: 113 HHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQ 172
Query: 162 EDVKQCFKDLLYKILEVP 179
           + +K  F + +   LE P
Sbjct: 173 KGLKNVFDEAILAALEPP 190

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 83/183 (45%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/179 (26%), Positives = 82/179 (45%), Gaps = 17/179 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L+
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLK 178

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 88
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 89  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 146
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 147 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 10  AIKCVVVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 68
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 69  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 126
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 127 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 62.0 bits (149), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 22  AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 80
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 81  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 138
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 139 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 196

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 62.0 bits (149), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 46/169 (27%), Positives = 78/169 (46%), Gaps = 17/169 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++++GD   GK             +   PT+  ++ +  + V GK+++L +WDTAG E 
Sbjct: 10  KLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVFENY-VADIEVDGKQVELALWDTAGLED 68
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D R+
Sbjct: 69  YDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDLRN 126
Query: 133 SER-----------AVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            E             V  EEG  +A       ++ECSAK  + V++ F+
Sbjct: 127 DEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFE 175

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 13  AIKCVVVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 71
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 72  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 129
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 130 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 187

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 45/171 (26%), Positives = 78/171 (45%), Gaps = 21/171 (12%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           K++++GD   GK              P+   PT+  ++ +  + V GK+++L +WDTAGQ
Sbjct: 7   KLVIVGDVACGKTCLLIVFSKDQF--PAVYVPTVFENY-VADIEVDGKQVELALWDTAGQ 63
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E +       Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D 
Sbjct: 64  EDYDRARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPI--ILVGNKKDL 121
Query: 132 DSERAVTRE------------EGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
            ++    RE            EG  +A       ++ECSAK  + V++ F+
Sbjct: 122 RNDEHTARELAKMKQEPVKPAEGRDMANRIGAFGYMECSAKTKDGVREVFE 172

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 61.2 bits (147), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 48/183 (26%), Positives = 87/183 (47%), Gaps = 20/183 (10%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDP-SPTIGVDFKIKLLTVGGK 59
           M  +VGN+      K++++GD   GK             +   PT+  ++ +  + V G+
Sbjct: 1   MSQQVGNS---IRRKLVIVGDGACGKTCLLIVNSKGQFPEVYVPTVFENY-VADVEVDGR 56
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           R++L +WDTAGQE +  L    Y  ++ +++ + +   ++  N+   W  EV  +   Q 
Sbjct: 57  RVELALWDTAGQEDYDRLRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVLHFC--QG 114
Query: 120 CVKILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQ 166
              ILVG KVD            ++ ++ VT +EG  +A +     + ECSAK    V++
Sbjct: 115 VPIILVGCKVDLRNDPQTIEQLRQEGQQPVTSQEGQSVADQIGATGYYECSAKTGYGVRE 174
Query: 167 CFK 169
            F+
Sbjct: 175 VFE 177

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 47/190 (24%), Positives = 86/190 (45%), Gaps = 27/190 (14%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTI 65
           S+  + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L +
Sbjct: 1   SHMQTIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGL 57
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK--- 122
           +DTAGQE +  L    Y      ++ + V    +F N+   W  E+        C K   
Sbjct: 58  FDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPF 112
Query: 123 ILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
           +LVG ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F 
Sbjct: 113 LLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 172
Query: 170 DLLYKILEVP 179
           + +   LE P
Sbjct: 173 EAILAALEPP 182

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 39/138 (28%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 47  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNT 105
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    ++D   +LVGNK D  S R V  ++   LA+ +   F+E S
Sbjct: 106 KSFEDIHH-YREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETS 163
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V   F  L+ +I
Sbjct: 164 AKTRQGVDDAFYTLVREI 181

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 60.8 bits (146), Expect = 5e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 36  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 94
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 95  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 152
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 153 AKTRQGVEDAFYTLVREI 170

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 60.5 bits (145), Expect = 6e-10,   Method: Compositional matrix adjust.
 Identities = 47/190 (24%), Positives = 86/190 (45%), Gaps = 27/190 (14%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTI 65
           S+  + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L +
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGL 58
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK--- 122
           +DTAGQE +  L    Y      ++ + V    +F N+   W  E+        C K   
Sbjct: 59  FDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPF 113
Query: 123 ILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
           +LVG ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F 
Sbjct: 114 LLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 173
Query: 170 DLLYKILEVP 179
           + +   LE P
Sbjct: 174 EAILAALEPP 183

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 47/190 (24%), Positives = 86/190 (45%), Gaps = 27/190 (14%)
Query: 9   SYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTI 65
           S+  + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L +
Sbjct: 2   SHMQTIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGL 58
Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK--- 122
           +DTAGQE +  L    Y      ++ + V    +F N+   W  E+        C K   
Sbjct: 59  FDTAGQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPF 113
Query: 123 ILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFK 169
           +LVG ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F 
Sbjct: 114 LLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFD 173
Query: 170 DLLYKILEVP 179
           + +   LE P
Sbjct: 174 EAILAALEPP 183

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 46/174 (26%), Positives = 79/174 (45%), Gaps = 17/174 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLL 172
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAI 173

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 34  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 92
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 93  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 150
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 151 AKTRQGVEDAFYTLVREI 168

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 34  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 92
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 93  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 150
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 151 AKTRQGVEDAFYTLVREI 168

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 60.5 bits (145), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 10  TIKCVVVGDGAVGKNCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 66
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 67  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 121
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 122 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 181
Query: 174 KILEVP 179
             LE P
Sbjct: 182 AALEPP 187

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEESYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 10  TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 66
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 67  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 121
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 122 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 181
Query: 174 KILEVP 179
             LE P
Sbjct: 182 AALEPP 187

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 47/183 (25%), Positives = 82/183 (44%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG 
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 60.1 bits (144), Expect = 8e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 47/183 (25%), Positives = 82/183 (44%), Gaps = 17/183 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG 
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  
Sbjct: 120 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCP 179
Query: 179 PSL 181
           P +
Sbjct: 180 PPV 182

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 4   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 60
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 61  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 115
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 116 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 175
Query: 174 KILEVP 179
             LE P
Sbjct: 176 AALEPP 181

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDEYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 60.1 bits (144), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEFDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 84/186 (45%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDVAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 68/133 (51%), Gaps = 3/133 (2%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   ++F +
Sbjct: 34  PTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFED 92
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           +   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E SAK  +
Sbjct: 93  IHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETSAKTRQ 150
Query: 163 DVKQCFKDLLYKI 175
            V+  F  L+ +I
Sbjct: 151 GVEDAFYTLVREI 163

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/133 (27%), Positives = 68/133 (51%), Gaps = 3/133 (2%)
Query: 43  PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTN 102
           PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   ++F +
Sbjct: 34  PTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNTKSFED 92
Query: 103 LSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE 162
           +   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E SAK  +
Sbjct: 93  IHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETSAKTRQ 150
Query: 163 DVKQCFKDLLYKI 175
            V+  F  L+ +I
Sbjct: 151 GVEDAFYTLVREI 163

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 4   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  +     +LVG K+D 
Sbjct: 63  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI--LLVGTKLDL 120
Query: 131 ----------RDSERA-VTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
                     RD + A +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 121 RDDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 59.7 bits (143), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 4   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  +     +LVG K+D 
Sbjct: 63  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI--LLVGTKLDL 120
Query: 131 ----------RDSERA-VTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
                     RD + A +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 121 RDDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAVL 178

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGEICLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  +     +LVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPHTPI--LLVGTKLDL 119
Query: 131 ----------RDSERA-VTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
                     RD + A +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 120 RDDKDTIERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 59.3 bits (142), Expect = 1e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  P+I   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 35  VDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 93
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 94  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 151
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 152 AKTRQGVEDAFYTLVREI 169

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 59.3 bits (142), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGN+ D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/135 (27%), Positives = 68/135 (50%), Gaps = 3/135 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLL 172
           AK  + V+  F  L+
Sbjct: 146 AKTRQGVEDAFYTLV 160

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG 
Sbjct: 30  AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 88
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 89  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 146
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 147 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 204

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/178 (25%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG 
Sbjct: 6   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGL 64
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D 
Sbjct: 65  EDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPNTPI--ILVGTKLDL 122
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L
Sbjct: 123 RDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL 180

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 46/186 (24%), Positives = 83/186 (44%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + +  +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTV-XIGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  P+I   ++ K + + G+   L I DTAGQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 58.5 bits (140), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 84/184 (45%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK           +  PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKL--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DT GQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTGGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTA QE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 70/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG+E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGKEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DT GQE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTTGQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTA QE +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 3e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAGQE    +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEASAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 58.2 bits (139), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 83/184 (45%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 7   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 63
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 64  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 118
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 119 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 178
Query: 174 KILE 177
             LE
Sbjct: 179 AALE 182

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 83/184 (45%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 5   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 61
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 62  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 116
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 117 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 176
Query: 174 KILE 177
             LE
Sbjct: 177 AALE 180

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 83/184 (45%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 83/184 (45%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 82/184 (44%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA     +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETXLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 57.4 bits (137), Expect = 6e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 34  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNT 92
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 93  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 150
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 151 AKTRQGVEDAFYTLVREI 168

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 45/186 (24%), Positives = 83/186 (44%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 7   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 63
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           G E +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 64  GLEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 118
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 119 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 178
Query: 174 KILEVP 179
             LE P
Sbjct: 179 AALEPP 184

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 45/186 (24%), Positives = 83/186 (44%), Gaps = 27/186 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           G E +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GLEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILEVP 179
             LE P
Sbjct: 175 AALEPP 180

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGGEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 57.0 bits (136), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGVEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 57.0 bits (136), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 45/178 (25%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V  K + L +WDTAGQ
Sbjct: 3   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQ 61
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    ++ N+ + W  EV  +  +     ILVG K+D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI--ILVGTKLDL 119
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ LA+E   + +LECSA     +K  F + +  +L
Sbjct: 120 RDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 177

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 37/138 (26%), Positives = 69/138 (50%), Gaps = 3/138 (2%)
Query: 38  VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           V +  PTI   ++ K + + G+   L I DTAG E +  +   Y R   G + V+ +   
Sbjct: 29  VDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGIEEYSAMRDQYMRTGEGFLCVFAINNT 87
Query: 98  ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS 157
           ++F ++   + ++++    + D   +LVGNK D  + R V   +   LA+ +   ++E S
Sbjct: 88  KSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDLARSYGIPYIETS 145
Query: 158 AKNTEDVKQCFKDLLYKI 175
           AK  + V+  F  L+ +I
Sbjct: 146 AKTRQGVEDAFYTLVREI 163

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 56.6 bits (135), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/178 (25%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V  K + L +WDTAGQ
Sbjct: 9   AIKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQ 67
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    ++ N+ + W  EV  +  +     ILVG K+D 
Sbjct: 68  EDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI--ILVGTKLDL 125
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ LA+E   + +LECSA     +K  F + +  +L
Sbjct: 126 RDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 183

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/178 (25%), Positives = 80/178 (44%), Gaps = 17/178 (9%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V  K + L +WDTAGQ
Sbjct: 10  AIKCVVVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDSKPVNLGLWDTAGQ 68
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           E +  L    Y      ++ + +    ++ N+ + W  EV  +  +     ILVG K+D 
Sbjct: 69  EDYDRLRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPI--ILVGTKLDL 126
Query: 131 RDSE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKIL 176
           RD +             +T  +G+ LA+E   + +LECSA     +K  F + +  +L
Sbjct: 127 RDDKDTIEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVFDEAIRAVL 184

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 17/179 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLED 215
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y      ++ + +    +F ++ + W  EV  +  N     ILVG K+D RD
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI--ILVGTKLDLRD 273
Query: 133 SE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVP 179
            +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  P
Sbjct: 274 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 332

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 44/184 (23%), Positives = 82/184 (44%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   P +  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPAVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 17/179 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLED 215
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y      ++ + +    +F ++ + W  EV  +  N     ILVG K+D RD
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI--ILVGTKLDLRD 273
Query: 133 SE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVP 179
            +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  P
Sbjct: 274 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 332

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 17/179 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAG E 
Sbjct: 157 KCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGLED 215
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-RD 132
           +  L    Y      ++ + +    +F ++ + W  EV  +  N     ILVG K+D RD
Sbjct: 216 YDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPNTPI--ILVGTKLDLRD 273
Query: 133 SE-----------RAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVP 179
            +             +T  +G+ +A+E   + +LECSA     +K  F + +  +L  P
Sbjct: 274 DKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 332

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 55.8 bits (133), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 45/184 (24%), Positives = 82/184 (44%), Gaps = 27/184 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L + DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLRDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA   + +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAIL 174
Query: 174 KILE 177
             LE
Sbjct: 175 AALE 178

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 55.8 bits (133), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 48/171 (28%), Positives = 79/171 (46%), Gaps = 16/171 (9%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPT----IGVDFKIKLLTVGGKR---LKLTIW 66
           ++++LIG+ GVGK           VHD   +    +G D   + L V G+    + L +W
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAG--VHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKIL 124
           +  G+  +  L     +     ++VY +T R +F   S +    ++L    Q  D   IL
Sbjct: 65  ENKGENEW--LHDHXMQVGDAYLIVYSITDRASFEKASEL---RIQLRRARQTEDIPIIL 119
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           VGNK D    R V+  EG   A    C F+E SA    +VK+ F+ ++ ++
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 44/183 (24%), Positives = 81/183 (44%), Gaps = 27/183 (14%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVHDPS---PTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           + K +++GD  VGK              PS   PT+  ++ + ++ +GG+   L ++DTA
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKF--PSEYVPTVFDNYAVTVM-IGGEPYTLGLFDTA 59
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK---ILVG 126
           GQE +  L    Y      ++ + V    +F N+   W  E+        C K   +LVG
Sbjct: 60  GQEDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI-----THHCPKTPFLLVG 114
Query: 127 NKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLY 173
            ++D            ++ ++ +T E    LA++ K + ++ECSA     +K  F + + 
Sbjct: 115 TQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQRGLKNVFDEAIL 174
Query: 174 KIL 176
             L
Sbjct: 175 AAL 177

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 52/202 (25%), Positives = 84/202 (41%), Gaps = 36/202 (17%)
Query: 13  SFKILLIGDSGVGKXXXXXXXXXXXVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK              +  PT+  ++   ++ V GK + L +WDTAGQ
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVM-VDGKPVNLGLWDTAGQ 63
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRR-------------------ETFTNLSSVWAKEVE 112
           E +  L    Y    G     D+T R                    +F N+ + W  EV 
Sbjct: 64  EDYDRLRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVR 123
Query: 113 LYSTNQDCVKILVGNKVD-RDSE-----------RAVTREEGMILAQEHKCL-FLECSAK 159
            +  N     ILVG K+D RD +             +T  +G+ +A+E   + +LECSA 
Sbjct: 124 HHCPNTPI--ILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSAL 181
Query: 160 NTEDVKQCFKDLLYKILEVPSL 181
               +K  F + +  +L  P +
Sbjct: 182 TQRGLKTVFDEAIRAVLCPPPV 203

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 41/134 (30%), Positives = 59/134 (44%), Gaps = 14/134 (10%)
Query: 2   GSKVGNNSY-DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKR 60
            SK+ +N + +   +IL++G  G GK           V    PTIG + +    TV  K 
Sbjct: 5   ASKLFSNLFGNKEMRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGFNVE----TVQYKN 60
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD- 119
           +  T+WD  GQ+R  +L   YYR   G+I V D   R          A+EV     N+D 
Sbjct: 61  ISFTVWDVGGQDRIRSLWRHYYRNTEGVIFVIDSNDRSRIGE-----AREVMQRMLNEDE 115
Query: 120 ---CVKILVGNKVD 130
               V ++  NK D
Sbjct: 116 LRNAVWLVFANKQD 129

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 52/184 (28%), Positives = 84/184 (45%), Gaps = 20/184 (10%)
Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPT----IGVDFKIKLLTV 56
           + S+ GN  Y    +++LIG+ GVGK           VHD   +    +G D   + L V
Sbjct: 29  ISSESGNTYY----RVVLIGEQGVGKSTLANIFAG--VHDSMDSDCEVLGEDTYERTLMV 82
Query: 57  GGKR---LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL 113
            G+    + L +W+  G+  +  L     +     ++VY +T R +F   S +    ++L
Sbjct: 83  DGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASEL---RIQL 137
Query: 114 YSTNQ--DCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
               Q  D   ILVGNK D    R V+  EG   A    C F+E SA    +VK+ F+ +
Sbjct: 138 RRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGI 197
Query: 172 LYKI 175
           + ++
Sbjct: 198 VRQV 201

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 54.3 bits (129), Expect = 5e-08,   Method: Compositional matrix adjust.
 Identities = 50/177 (28%), Positives = 82/177 (46%), Gaps = 19/177 (10%)
Query: 8   NSYDYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPT----IGVDFKIKLLTVGGKR--- 60
           N+Y   ++++LIG+ GVGK           VHD   +    +G D   + L V G+    
Sbjct: 4   NTY---YRVVLIGEQGVGKSTLANIFAG--VHDSMDSDCEVLGEDTYERTLMVDGESATI 58
Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ-- 118
           + L +W+  G+  +  L     +     ++VY +T R +F   S +    ++L    Q  
Sbjct: 59  ILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASEL---RIQLRRARQTE 113
Query: 119 DCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           D   ILVGNK D    R V+  EG   A    C F+E SA    +VK+ F+ ++ ++
Sbjct: 114 DIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 53.5 bits (127), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 46/170 (27%), Positives = 77/170 (45%), Gaps = 9/170 (5%)
Query: 11  DYSFKILLIGDSGVGKXXXXXX---XXXXXVHDP-SPTIGVDFKIKLLTVGGKRLKLTIW 66
           D  FK++L+G+SGVGK               H+P +P    D   + + V  + + L ++
Sbjct: 21  DGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPE---DTYERRIMVDKEEVTLVVY 77
Query: 67  DTAGQ-ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           D   Q +  G L     +     ++V+ VT R +F+ +     + +     + D   ILV
Sbjct: 78  DIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLR-LRAGRPHHDLPVILV 136
Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           GNK D    R V+ EEG  LA    C  +E SA    + ++ F+  + +I
Sbjct: 137 GNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 40/135 (29%), Positives = 60/135 (44%), Gaps = 14/135 (10%)
Query: 1   MGSKVGNNSY-DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGK 59
             SK+ +N + +   +IL++G  G GK           V    PTIG + +    TV  K
Sbjct: 4   FASKLFSNLFGNKEMRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGFNVE----TVQYK 59
Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            +  T+WD  GQ+R  +L   YYR   G+I V D   R          A+EV     N+D
Sbjct: 60  NISFTVWDVGGQDRIRSLWRHYYRNTEGVIFVVDSNDRSRIGE-----AREVMQRMLNED 114
Query: 120 CVK----ILVGNKVD 130
            ++    ++  NK D
Sbjct: 115 ELRNAAWLVFANKQD 129

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 53.5 bits (127), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 37/121 (30%), Positives = 53/121 (43%), Gaps = 13/121 (10%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK           V    PTIG + +    TV  K +  T+WD  GQ+R
Sbjct: 1   MRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGFNVE----TVQYKNISFTVWDVGGQDR 56
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK----ILVGNKV 129
             +L   YYR   G+I V D   R          A+EV     N+D ++    ++  NK 
Sbjct: 57  IRSLWRHYYRNTEGVIFVVDSNDRSRIGE-----AREVMQRMLNEDELRNAAWLVFANKQ 111
Query: 130 D 130
           D
Sbjct: 112 D 112

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/163 (22%), Positives = 76/163 (46%), Gaps = 17/163 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI+++GDS  GK             +   PT+  ++      +  +R++L++WDT+G   
Sbjct: 9   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSPY 67
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LVG K D   
Sbjct: 68  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRT 125
Query: 131 ---------RDSERAVTREEGMILAQE-HKCLFLECSAKNTED 163
                       +  V+ ++G  +A++     ++ECSA  +E+
Sbjct: 126 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 168

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/163 (22%), Positives = 76/163 (46%), Gaps = 17/163 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI+++GDS  GK             +   PT+  ++      +  +R++L++WDT+G   
Sbjct: 25  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSPY 83
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LVG K D   
Sbjct: 84  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRT 141
Query: 131 ---------RDSERAVTREEGMILAQE-HKCLFLECSAKNTED 163
                       +  V+ ++G  +A++     ++ECSA  +E+
Sbjct: 142 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 184

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 36/163 (22%), Positives = 76/163 (46%), Gaps = 17/163 (10%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           KI+++GDS  GK             +   PT+  ++      +  +R++L++WDT+G   
Sbjct: 30  KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTSGSPY 88
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LVG K D   
Sbjct: 89  YDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTK--MLLVGCKSDLRT 146
Query: 131 ---------RDSERAVTREEGMILAQE-HKCLFLECSAKNTED 163
                       +  V+ ++G  +A++     ++ECSA  +E+
Sbjct: 147 DVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 189

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 35/125 (28%), Positives = 55/125 (44%), Gaps = 5/125 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ+R
Sbjct: 18  MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNICFTVWDVGGQDR 73
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
              L   Y++   G+I V D   RE    ++    K + L    +D V +L  NK D  +
Sbjct: 74  IRPLWKHYFQNTQGLIFVVDSNDRERIQEVADELQKML-LVDELRDAVLLLFANKQDLPN 132
Query: 134 ERAVT 138
             A++
Sbjct: 133 AMAIS 137

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 6/164 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K+LL+G  GVGK               +   G  +  + + V G+   L ++D   Q+ 
Sbjct: 3   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDG 61
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKILVGNKVDR 131
              L           ++VY VT + +F   S +    V+L    Q  D   ILVGNK D 
Sbjct: 62  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASEL---RVQLRRARQTDDVPIILVGNKSDL 118
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V+ +EG   A    C F+E SA    +V+  F+ ++ +I
Sbjct: 119 VRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 6/164 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K+LL+G  GVGK               +   G  +  + + V G+   L ++D   Q+ 
Sbjct: 8   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDG 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKILVGNKVDR 131
              L           ++VY VT + +F   S +    V+L    Q  D   ILVGNK D 
Sbjct: 67  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASEL---RVQLRRARQTDDVPIILVGNKSDL 123
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V+ +EG   A    C F+E SA    +V+  F+ ++ +I
Sbjct: 124 VRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 47/171 (27%), Positives = 78/171 (45%), Gaps = 16/171 (9%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPT----IGVDFKIKLLTVGGKR---LKLTIW 66
           ++++LIG+ GVGK           VHD   +    +G D   + L V G+    + L +W
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAG--VHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMW 64
Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKIL 124
           +  G+  +  L     +     ++VY +T R +F   S +    ++L    Q  D   IL
Sbjct: 65  ENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASEL---RIQLRRARQTEDIPIIL 119
Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           VGNK D    R V+  EG   A      F+E SA    +VK+ F+ ++ ++
Sbjct: 120 VGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 50.8 bits (120), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 71/164 (43%), Gaps = 6/164 (3%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K+LL+G  GVGK               +   G  +  + + V G+   L ++D   Q+ 
Sbjct: 8   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDG 66
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ--DCVKILVGNKVDR 131
              L           ++VY VT + +F   S +    V+L    Q  D   ILVGNK D 
Sbjct: 67  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASEL---RVQLRRARQTDDVPIILVGNKSDL 123
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V+ +EG   A    C F+E SA    +V+  F+ ++ +I
Sbjct: 124 VRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 50.1 bits (118), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 45/189 (23%), Positives = 83/189 (43%), Gaps = 18/189 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD   GK             +   PT+  ++   L T   +R++L++WDT+G   
Sbjct: 29  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPY 87
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  ++L +D++R ET  +    W  E+  Y  +     +L+G K D   
Sbjct: 88  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV--LLIGCKTDLRT 145
Query: 131 ---------RDSERAVTREEGMILAQEHKC-LFLECSAKNTE-DVKQCFKDLLYKILEVP 179
                       +  ++ E+G  +A++    ++LE SA  +E  +   F+      L  P
Sbjct: 146 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP 205
Query: 180 SLLEQGSAV 188
           S L Q S V
Sbjct: 206 SPLPQKSPV 214

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/189 (23%), Positives = 83/189 (43%), Gaps = 18/189 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD   GK             +   PT+  ++   L T   +R++L++WDT+G   
Sbjct: 12  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPY 70
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  ++L +D++R ET  +    W  E+  Y  +     +L+G K D   
Sbjct: 71  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTRV--LLIGCKTDLRT 128
Query: 131 ---------RDSERAVTREEGMILAQEHKC-LFLECSAKNTE-DVKQCFKDLLYKILEVP 179
                       +  ++ E+G  +A++    ++LE SA  +E  +   F+      L  P
Sbjct: 129 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP 188
Query: 180 SLLEQGSAV 188
           S L Q S V
Sbjct: 189 SPLPQKSPV 197

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 45/189 (23%), Positives = 83/189 (43%), Gaps = 18/189 (9%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           K++L+GD   GK             +   PT+  ++   L T   +R++L++WDT+G   
Sbjct: 13  KLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPY 71
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
           +  +    Y  +  ++L +D++R ET  +    W  E+  Y  +     +L+G K D   
Sbjct: 72  YDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPSTR--VLLIGCKTDLRT 129
Query: 131 ---------RDSERAVTREEGMILAQEHKC-LFLECSAKNTE-DVKQCFKDLLYKILEVP 179
                       +  ++ E+G  +A++    ++LE SA  +E  +   F+      L  P
Sbjct: 130 DLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP 189
Query: 180 SLLEQGSAV 188
           S L Q S V
Sbjct: 190 SPLPQKSPV 198

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 43/164 (26%), Positives = 72/164 (43%), Gaps = 3/164 (1%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ- 71
           FK++L+G+SGVGK             H        D   + + V  + + L ++D   Q 
Sbjct: 3   FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQG 62
Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           +  G L     +     ++V+ VT R +F+ +     + +     + D   ILVGNK D 
Sbjct: 63  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLR-LRAGRPHHDLPVILVGNKSDL 121
Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V+ EEG  LA    C  +E SA    + ++ F+  + +I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 49.3 bits (116), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 44/169 (26%), Positives = 75/169 (44%), Gaps = 7/169 (4%)
Query: 11  DYSFKILLIGDSGVGKXXXXXX---XXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           D  FK++L+G+SGVGK               H+   +   D   + + V  + + L ++D
Sbjct: 10  DGVFKVMLLGESGVGKSTLAGTFGGLQGDNAHEMENS--EDTYERRIMVDKEEVTLIVYD 67
Query: 68  TAGQ-ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
              Q +  G L     +     ++V+ VT R +F+ +     + +     + D   ILVG
Sbjct: 68  IWEQGDAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLR-LRAGRPHHDLPVILVG 126
Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           NK D    R V+ EEG  LA    C  +E SA    + ++ F+  + +I
Sbjct: 127 NKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 175

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 44/170 (25%), Positives = 69/170 (40%), Gaps = 14/170 (8%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK           V    PTIG + +    T+  K LKL +WD  GQ  
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVE----TLSYKNLKLNVWDLGGQTS 74
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTN---QDCVKILVGNKVD 130
                  YY     +I V D T ++  +  S    KE+ L       QD   ++  NK D
Sbjct: 75  IRPYWRCYYADTAAVIFVVDSTDKDRMSTAS----KELHLMLQEEELQDAALLVFANKQD 130
Query: 131 RD---SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +    S   V++E  ++  ++     +  SA   E + +    L+  I E
Sbjct: 131 QPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKE 180

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 38/123 (30%), Positives = 57/123 (46%), Gaps = 13/123 (10%)
Query: 55  TVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV------TRRETFTNLSSVWA 108
           TV  + + L + DTA  +        Y   AH  ++VY V          ++  L ++ A
Sbjct: 63  TVDHQPVHLRVMDTADLDTPRN-CERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHA 121
Query: 109 KEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA-KNTEDVKQC 167
           KE     T +    +L+GNK+D    R VT+ EG+ LA    CLF E SA  + E V+  
Sbjct: 122 KE-----TQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHV 176
Query: 168 FKD 170
           F +
Sbjct: 177 FHE 179

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 1  MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 56
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   Y++   G+I V D   RE
Sbjct: 57 IRPLWRHYFQNTQGLIFVVDSNDRE 81

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 46.6 bits (109), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 166 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 221
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRE 98
              L   Y++   G+I V D   RE
Sbjct: 222 IRPLWRHYFQNTQGLIFVVDSNDRE 246

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 18 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 73
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   Y++   G+I V D   RE
Sbjct: 74 IRPLWRHYFQNTQGLIFVVDSNDRE 98

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 46.2 bits (108), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 17 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 72
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   Y++   G+I V D   RE
Sbjct: 73 IRPLWRHYFQNTQGLIFVVDSNDRE 97

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 45.8 bits (107), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 4/84 (4%)
Query: 15 KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL++G    GK           V    PTIG + +    TV  + +  T+WD  GQ++ 
Sbjct: 19 RILMVGLDAAGKTTILYKVKLGEVVTTIPTIGFNVE----TVEFRNISFTVWDVGGQDKI 74
Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   YY    G+I V D   RE
Sbjct: 75 RPLWRHYYSNTDGLIFVVDSNDRE 98

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 32/125 (25%), Positives = 53/125 (42%), Gaps = 5/125 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 30  MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNICFTVWDVGGQDK 85
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
              L   Y++   G+I V D   RE     +    K ++     +D V ++  NK D  +
Sbjct: 86  IRPLWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQ-EDELRDAVLLVFANKQDMPN 144
Query: 134 ERAVT 138
              V+
Sbjct: 145 AMPVS 149

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 18 MRILMVGLDAAGKTSILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 73
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY+    II V D   R+
Sbjct: 74 IRPLWRHYYQNTQAIIFVVDSNDRD 98

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 29/98 (29%), Positives = 43/98 (43%), Gaps = 5/98 (5%)
Query: 1  MGSKVGNNSY-DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGK 59
            SK+ +N + +   +IL++G  G GK           V    PTIG + +     V   
Sbjct: 4  FASKLFSNLFGNKEMRILMVGLDGAGKTTVLYKLKLGEVITTIPTIGFNVE----CVQYC 59
Query: 60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR 97
           +  T+WD  GQ+R  +L   YY    G+I V D   R
Sbjct: 60 NISFTVWDVGGQDRIRSLWRHYYCNTEGVIFVVDSNDR 97

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 45.1 bits (105), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK                PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 323 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 378
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRE 98
              L   YY G  G+I V D   R+
Sbjct: 379 IRPLWRHYYTGTQGLIFVVDCADRD 403

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 44.7 bits (104), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 25/86 (29%), Positives = 38/86 (44%), Gaps = 4/86 (4%)
Query: 13 SFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
          S +IL++G    GK           +    PTIG + +    TV  K +  T+WD  G +
Sbjct: 2  SMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGLD 57
Query: 73 RFGTLTSSYYRGAHGIILVYDVTRRE 98
          +   L   Y++   G+I V D   RE
Sbjct: 58 KIRPLWRHYFQNTQGLIFVVDSNDRE 83

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK           +    PTIG + +    TV  K +  T+WD  GQ++
Sbjct: 21  MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDK 76
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRE 98
              L   Y++   G+I V D   R+
Sbjct: 77  IRPLWRHYFQNTQGLIFVVDSNDRD 101

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 14 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 69
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 70 IRPLWRHYYTGTQGLIFVVDCADRD 94

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 1  MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 56
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 57 IRPLWRHYYTGTQGLIFVVDCADRD 81

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 13 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 68
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 69 IRPLWRHYYTGTQGLIFVVDCADRD 93

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 1  MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 56
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 57 IRPLWRHYYTGTQGLIFVVDCADRD 81

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 43.9 bits (102), Expect = 6e-05,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 62/161 (38%), Gaps = 22/161 (13%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK           V   SPT+G  F IK L   G   KL IWD  GQ+ 
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKS 74
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTN----LSSVWAKE------VELYSTNQDCVKI 123
             +   +Y+    G+I V D   R+   +    L S+  +E      + +++  QD    
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV 164
           L  N +    E    R         H      CSA   ED+
Sbjct: 135 LSXNAIQEALELDSIR--------SHHWRIQGCSAVTGEDL 167

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 42/161 (26%), Positives = 62/161 (38%), Gaps = 22/161 (13%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK           V   SPT+G  F IK L   G   KL IWD  GQ+ 
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLG--FNIKTLEHRG--FKLNIWDVGGQKS 74
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTN----LSSVWAKE------VELYSTNQDCVKI 123
             +   +Y+    G+I V D   R+   +    L S+  +E      + +++  QD    
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 134
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV 164
           L  N +    E    R         H      CSA   ED+
Sbjct: 135 LSCNAIQEALELDSIR--------SHHWRIQGCSAVTGEDL 167

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 23/85 (27%), Positives = 38/85 (44%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           ++L++G    GK           +   SPT+G + K    T+  +  KL IWD  GQ+ 
Sbjct: 17 LRLLMLGLDNAGKTTILKKFNGEDIDTISPTLGFNIK----TLEHRGFKLNIWDVGGQKS 72
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
            +   +Y+    G+I V D   R+
Sbjct: 73 LRSYWRNYFESTDGLIWVVDSADRQ 97

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 42.7 bits (99), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 36/136 (26%), Positives = 61/136 (44%), Gaps = 20/136 (14%)
Query: 39  HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE 98
            D  PT+G  F ++ +T G   +K  IWD  GQ RF ++   Y RG + I+ + D   RE
Sbjct: 49  EDMIPTVG--FNMRKVTKGNVTIK--IWDIGGQPRFRSMWERYCRGVNAIVYMIDAADRE 104
Query: 99  TFTNLSSVWAKEVELYS-----TNQDCVKILVGNKVDRDS---ERAVTREEGMILAQEHK 150
                    A   EL++       Q    +++GNK D  +   E+ +  +  +   Q+ +
Sbjct: 105 KIE------ASRNELHNLLDKPQLQGIPVLVLGNKRDLPNALDEKQLIEKMNLSAIQDRE 158
Query: 151 --CLFLECSAKNTEDV 164
             C  + C  K+  D+
Sbjct: 159 ICCYSISCKEKDNIDI 174

>pdb|4GOJ|A Chain A, The Crystal Structure Of Full Length Arl3gppnhp In Complex With Unc119a Length = 189

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           D   +ILL+G    GK           +   +PT G + K    +V  +  KL +WD  G
Sbjct: 15  DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIK----SVQSQGFKLNVWDIGG 70
Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETF 100
           Q +      SY+     +I V D   R+ F
Sbjct: 71  QRKIRPYWRSYFENTDILIYVIDSADRKRF 100

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 15 KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          +IL +G    GK                PT+G + +    TV  K +K  +WD  GQ++ 
Sbjct: 2  RILXLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDKI 57
Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
            L   YY G  G+I V D   R+
Sbjct: 58 RPLWRHYYTGTQGLIFVVDCADRD 81

>pdb|1FZQ|A Chain A, Crystal Structure Of Murine Arl3-Gdp Length = 181

Iteration: 1
 Score = 42.4 bits (98), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 25/90 (27%), Positives = 37/90 (41%), Gaps = 4/90 (4%)
Query: 11  DYSFKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           D   +ILL+G    GK           +   +PT G + K    +V  +  KL +WD  G
Sbjct: 14  DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIK----SVQSQGFKLNVWDIGG 69
Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETF 100
           Q +      SY+     +I V D   R+ F
Sbjct: 70  QRKIRPYWRSYFENTDILIYVIDSADRKRF 99

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHD---PSPTIGVDFKIKLLTVGGKR---LKLTIWDT 68
           K+ ++G++G GK             D    S T+G+D K   + +  KR   L L +WD 
Sbjct: 4   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 63
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AG+E F +    +       + VYD+++ +   +    W   ++  +++     ILVG  
Sbjct: 64  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPV--ILVGTH 121
Query: 129 VDRDSER 135
           +D   E+
Sbjct: 122 LDVSDEK 128

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  G ++
Sbjct: 4  MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGLDK 59
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 60 IRPLWRHYYTGTQGLIFVVDCADRD 84

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 32/127 (25%), Positives = 58/127 (45%), Gaps = 8/127 (6%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHD---PSPTIGVDFKIKLLTVGGKR---LKLTIWDT 68
           K+ ++G++G GK             D    S T+G+D K   + +  KR   L L +WD 
Sbjct: 2   KLXIVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDF 61
Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AG+E F +    +       + VYD+++ +   +    W   ++  +++     ILVG  
Sbjct: 62  AGREEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPV--ILVGTH 119
Query: 129 VDRDSER 135
           +D   E+
Sbjct: 120 LDVSDEK 126

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 41.6 bits (96), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  G ++
Sbjct: 3  MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGLDK 58
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 59 IRPLWRHYYTGTQGLIFVVDCADRD 83

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 33/132 (25%), Positives = 64/132 (48%), Gaps = 8/132 (6%)
Query: 15  KILLIGDSGVGKXXXXXXXXXX---XVHDPSPTIGVDFKIKLLTVGGK--RLKLTIWDTA 69
           K+ ++G++ VGK              + D + T GV+  +  +T+      ++L + DTA
Sbjct: 22  KVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTA 81
Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD--CVKILVGN 127
           G + +    S Y+ G +  ILV+DV+  E+F +  + W + ++    +++     +LV N
Sbjct: 82  GSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKA-WFELLKSARPDRERPLRAVLVAN 140
Query: 128 KVDRDSERAVTR 139
           K D   +R   R
Sbjct: 141 KTDLPPQRHQVR 152

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 4/85 (4%)
Query: 14 FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +IL++G    GK                PT+G + +    TV  K +K  +WD  G ++
Sbjct: 14 MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGLDK 69
Query: 74 FGTLTSSYYRGAHGIILVYDVTRRE 98
             L   YY G  G+I V D   R+
Sbjct: 70 IRPLWRHYYTGTQGLIFVVDCADRD 94

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 15 KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          K++++G    GK           V   SPTIG +  ++ + +   R  +  WD  GQE  
Sbjct: 18 KVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSN--VEEIVINNTRFLM--WDIGGQESL 73
Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
           +  ++YY     +I+V D T RE
Sbjct: 74 RSSWNTYYTNTEFVIVVVDSTDRE 97

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 40.8 bits (94), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 15 KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          K++++G    GK           V   SPTIG +  ++ + +   R  +  WD  GQE  
Sbjct: 18 KVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSN--VEEIVINNTRFLM--WDIGGQESL 73
Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
           +  ++YY     +I+V D T RE
Sbjct: 74 RSSWNTYYTNTEFVIVVVDSTDRE 97

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K++++G    GK           V   SPTIG +  ++ + +   R  +  WD  GQE  
Sbjct: 23  KVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSN--VEEIVINNTRFLM--WDIGGQESL 78
Query: 75  GTLTSSYYRGAHGIILVYDVTRRE 98
            +  ++YY     +I+V D T RE
Sbjct: 79  RSSWNTYYTNTEFVIVVVDSTDRE 102

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 24/138 (17%)
Query: 39  HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE 98
            D  PT+G  F ++ +T G   +KL  WD  GQ RF ++   Y RG   I+ + D   +E
Sbjct: 49  EDMIPTVG--FNMRKITKGNVTIKL--WDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE 104
Query: 99  TFTNLSSVWAKEVELYS-----TNQDCVKILVGNKVDRDSERAVTREE-------GMILA 146
                    A + EL++       Q    +++GNK  RD   A+  +E         I  
Sbjct: 105 KIE------ASKNELHNLLDKPQLQGIPVLVLGNK--RDLPGALDEKELIEKMNLSAIQD 156
Query: 147 QEHKCLFLECSAKNTEDV 164
           +E  C  + C  K+  D+
Sbjct: 157 REICCYSISCKEKDNIDI 174

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 38/138 (27%), Positives = 60/138 (43%), Gaps = 24/138 (17%)
Query: 39  HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE 98
            D  PT+G  F ++ +T G   +KL  WD  GQ RF ++   Y RG   I+ + D   +E
Sbjct: 58  EDMIPTVG--FNMRKITKGNVTIKL--WDIGGQPRFRSMWERYCRGVSAIVYMVDAADQE 113
Query: 99  TFTNLSSVWAKEVELYS-----TNQDCVKILVGNKVDRDSERAVTREE-------GMILA 146
                    A + EL++       Q    +++GNK  RD   A+  +E         I  
Sbjct: 114 KIE------ASKNELHNLLDKPQLQGIPVLVLGNK--RDLPGALDEKELIEKMNLSAIQD 165
Query: 147 QEHKCLFLECSAKNTEDV 164
           +E  C  + C  K+  D+
Sbjct: 166 REICCYSISCKEKDNIDI 183

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 40.4 bits (93), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 15 KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
          K++++G    GK           V   SPTIG + +     +  K     +WD  GQE  
Sbjct: 18 KVIIVGLDNAGKTTILYQFLMNEVVHTSPTIGSNVE----EIVVKNTHFLMWDIGGQESL 73
Query: 75 GTLTSSYYRGAHGIILVYDVTRRE 98
           +  ++YY     IILV D   RE
Sbjct: 74 RSSWNTYYSNTEFIILVVDSIDRE 97

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 40.4 bits (93), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 4/84 (4%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K++++G    GK           V   SPTIG +  ++ + +   R  +  WD  GQE  
Sbjct: 24  KVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSN--VEEIVINNTRFLM--WDIGGQESL 79
Query: 75  GTLTSSYYRGAHGIILVYDVTRRE 98
            +  ++YY     +I+V D T RE
Sbjct: 80  RSSWNTYYTNTEFVIVVVDSTDRE 103

>pdb|3BH7|A Chain A, Crystal Structure Of The Rp2-Arl3 Complex Bound To Gdp-Alf4 Length = 164

Iteration: 1
 Score = 40.0 bits (92), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 15  KILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +ILL+G    GK           +   +PT G + K    +V  +  KL +WD  GQ + 
Sbjct: 6   RILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIK----SVQSQGFKLNVWDIGGQRKI 61
Query: 75  GTLTSSYYRGAHGIILVYDVTRRETF 100
                SY+     +I V D   R+ F
Sbjct: 62  RPYWRSYFENTDILIYVIDSADRKRF 87

>pdb|4GOK|B Chain B, The Crystal Structure Of Arl2gppnhp In Complex With Unc119a Length = 169

Iteration: 1
 Score = 40.0 bits (92), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 38/161 (23%), Positives = 61/161 (37%), Gaps = 22/161 (13%)
Query: 14  FKILLIGDSGVGKXXXXXXXXXXXVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK           V   SPT+G + K    T+  +  KL IWD  G + 
Sbjct: 2   LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIK----TLEHRGFKLNIWDVGGLKS 57
Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTN----LSSVWAKE------VELYSTNQDCVKI 123
             +   +Y+    G+I V D   R+   +    L S+  +E      + +++  QD    
Sbjct: 58  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA 117
Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV 164
           L  N +    E    R         H      CSA   ED+
Sbjct: 118 LSCNAIQEALELDSIR--------SHHWRIQGCSAVTGEDL 150

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	210
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	2e-92
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-91
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	2e-90
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	5e-90
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	9e-90
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	2e-89
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	6e-89
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-88
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-88
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	2e-88
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	5e-88
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	9e-88
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-87
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	2e-87
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	3e-87
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	6e-87
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	7e-87
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	8e-87
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	8e-87
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	8e-87
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	2e-86
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	2e-86
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-85
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	3e-85
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	4e-85
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	4e-85
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	4e-84
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	5e-84
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	6e-84
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	7e-84
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	2e-83
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-82
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	5e-82
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-81
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	9e-81
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	2e-80
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	4e-80
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-79
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	2e-79
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-77
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	8e-77
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	3e-76
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	4e-72
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	5e-72
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	1e-71
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	2e-71
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	2e-70
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	6e-69
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	6e-69
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	3e-68
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	3e-68
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	1e-67
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	5e-67
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	3e-66
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	5e-66
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-65
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	3e-65
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-64
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	1e-63
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-63
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	3e-63
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	2e-62
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	4e-61
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	4e-61
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	6e-59
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	4e-57
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-55
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	2e-54
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	1e-52
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-50
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-48
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	1e-44
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	3e-42
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-42
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	1e-40
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	2e-40
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	3e-40
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	6e-39
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	1e-38
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	1e-38
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	3e-38
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	3e-37
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	1e-36
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	1e-26
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-26
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	3e-23
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	2e-18
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	4e-17
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	5e-17
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	6e-17
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	8e-17
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	8e-17
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	2e-16
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	3e-16
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	6e-16
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	6e-16
3llu_A	196	RAS-related GTP-binding protein C; structural geno	1e-15
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	2e-15
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	4e-15
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	5e-15
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	9e-15
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	2e-13
2fh5_B	214	SR-beta, signal recognition particle receptor beta	4e-12
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	1e-11
1nrj_B	218	SR-beta, signal recognition particle receptor beta	3e-11
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	8e-11
2ged_A	193	SR-beta, signal recognition particle receptor beta	3e-10
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	8e-08
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	6e-06
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	6e-05
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	7e-05
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	2e-04
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	2e-04
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	8e-04

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  267 bits (685), Expect = 2e-92
 Identities = 94/186 (50%), Positives = 125/186 (67%), Gaps = 3/186 (1%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS   +     + KIL+IG+SGVGKSS+LL    ++       TIGVDFK+K ++V G +
Sbjct: 4   GSSGMDEDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNK 63

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
            KL IWDTAGQERF TLT SYYRGA G+ILVYDVTRR+TF  L + W  E+E Y T  D 
Sbjct: 64  AKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDN-WLNELETYCTRNDI 122

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           V +LVGNK+D++  R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P 
Sbjct: 123 VNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPG 181

Query: 181 LLEQGS 186
           L E  +
Sbjct: 182 LWESEN 187

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  266 bits (682), Expect = 1e-91
 Identities = 90/207 (43%), Positives = 124/207 (59%), Gaps = 6/207 (2%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N+ YDY FK+LLIG+SGVGKS +LL    ++  +    TIGVDFKIK + + GK +KL I
Sbjct: 2   NSEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQI 61

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRG+HGII+VYDVT +E+F  +   W +E++ Y+     +K+LV
Sbjct: 62  WDTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKM-WLQEIDRYA-TSTVLKLLV 119

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
           GNK D   +R V  +     A  +K  FLE SA ++ +V+  F  +  +I E  S     
Sbjct: 120 GNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLN 179

Query: 186 SAVVKNQI---LKQKEVQESARGGNCC 209
               K +    +  K    +  GG CC
Sbjct: 180 ETTQKKEDKGNVNLKGQSLTNTGGCCC 206

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  261 bits (670), Expect = 2e-90
 Identities = 81/178 (45%), Positives = 113/178 (63%), Gaps = 3/178 (1%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGK 59
           +GS     +Y Y FK ++IGD GVGKS +L        + D   TIGV+F  +++ V G+
Sbjct: 3   LGSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQ 62

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           ++KL IWDTAGQERF  +T SYYRGA G ++VYD+TRR T+ +LSS W  +    + N +
Sbjct: 63  KIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSS-WLTDARNLT-NPN 120

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            V IL+GNK D +++R VT EE    A+E+  LFLE SAK  E+V+  F +   KI +
Sbjct: 121 TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  261 bits (669), Expect = 5e-90
 Identities = 72/174 (41%), Positives = 111/174 (63%), Gaps = 4/174 (2%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKL 63
           G + YD +FK++L+GDSGVGK+ +L+     +    +   T+G+DF+ K+L V G ++KL
Sbjct: 3   GVDFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKL 62

Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            +WDTAGQERF ++T +YYR AH ++L+YDVT + +F N+ + W  E+  Y+   D   +
Sbjct: 63  QMWDTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQA-WLTEIHEYA-QHDVALM 120

Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           L+GNKVD   ER V RE+G  LA+E+   F+E SAK   +V   F  +  ++  
Sbjct: 121 LLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 174

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  260 bits (667), Expect = 9e-90
 Identities = 67/181 (37%), Positives = 97/181 (53%), Gaps = 6/181 (3%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS V   S    FKI++IGDS VGK+ +     +    D +  TIGVDF+ + + + G+R
Sbjct: 9   GSLVPRGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGER 68

Query: 61  LKLTIWDTAGQERF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           +K+ +WDTAGQERF  ++   YYR  H ++ VYD+T   +F +L + W +E + +    D
Sbjct: 69  IKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPA-WIEECKQHLLAND 127

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED---VKQCFKDLLYKIL 176
             +ILVGNK D  S   V  +     A  H     E SAKN  D   V+  F  L +K+ 
Sbjct: 128 IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK 187

Query: 177 E 177
            
Sbjct: 188 S 188

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  260 bits (667), Expect = 2e-89
 Identities = 78/198 (39%), Positives = 115/198 (58%), Gaps = 3/198 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
           G++ +DY FKIL+IG+S VGK+S L     +S       T+G+DFK+K +    KR+KL 
Sbjct: 1   GSHMFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQ 60

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAG ER+ T+T++YYRGA G IL+YD+T  E+F  +   W+ +++ YS   +   +L
Sbjct: 61  IWDTAGLERYRTITTAYYRGAMGFILMYDITNEESFNAVQD-WSTQIKTYS-WDNAQVLL 118

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQ 184
           VGNK D + ER V+ E G  LA      F E SAK+  +VKQ F+ L+  I E  S    
Sbjct: 119 VGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLD 178

Query: 185 GSAVVKNQILKQKEVQES 202
            +        +  ++ + 
Sbjct: 179 TADPAVTGAKQGPQLTDQ 196

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  258 bits (662), Expect = 6e-89
 Identities = 76/175 (43%), Positives = 110/175 (62%), Gaps = 3/175 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
             ++DY FK+L+IG+S VGK+S L     ++       T+G+DFK+K +    KR+KL I
Sbjct: 17  QGNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQI 76

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQER+ T+T++YYRGA G IL+YD+T  E+F  +   WA +++ YS   +   ILV
Sbjct: 77  WDTAGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQD-WATQIKTYS-WDNAQVILV 134

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           GNK D + ER V  E+G +LA++    F E SAK    V+Q F+ L+  I +  S
Sbjct: 135 GNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  258 bits (661), Expect = 1e-88
 Identities = 78/176 (44%), Positives = 108/176 (61%), Gaps = 3/176 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRL 61
           S +     DY FK+LLIG+S VGK+S L     +S       T+G+DFK+K +    KR+
Sbjct: 12  SGLVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRI 71

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
           KL IWDTAGQER+ T+T++YYRGA G +L+YD+  +E+F  +   WA +++ YS   +  
Sbjct: 72  KLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIANQESFAAVQD-WATQIKTYS-WDNAQ 129

Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            ILVGNK D + ER V  E+G  LA +    F E SAK   +VKQ F+ L+  I E
Sbjct: 130 VILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICE 185

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  258 bits (661), Expect = 1e-88
 Identities = 85/172 (49%), Positives = 115/172 (66%), Gaps = 3/172 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGKS +LL    ++  +    TIGVDFKI+ + + GK +KL I
Sbjct: 27  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 86

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y+ +++  K+LV
Sbjct: 87  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYA-SENVNKLLV 144

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D  +++ V        A      FLE SAKN  +V+Q F  +  +I +
Sbjct: 145 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK 196

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  257 bits (658), Expect = 2e-88
 Identities = 76/172 (44%), Positives = 104/172 (60%), Gaps = 4/172 (2%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
              YD+ FK+L+IGDSGVGKSS+LL    N+       TIGVDFKI+ + + G+++KL I
Sbjct: 3   ARDYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQI 62

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TS+YYRG HG+I+VYDVT  E+F N+   W  E+     +    +ILV
Sbjct: 63  WDTAGQERFRTITSTYYRGTHGVIVVYDVTSAESFVNVKR-WLHEINQNCDD--VCRILV 119

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D    + V  E+    A +      E SAK   +V++ F  +   +L 
Sbjct: 120 GNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLR 171

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  256 bits (656), Expect = 5e-88
 Identities = 86/188 (45%), Positives = 118/188 (62%), Gaps = 3/188 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           N  YDY FK+LLIGDSGVGKS +LL    ++  +    TIGVDFKI+ + + GK +KL I
Sbjct: 10  NPEYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQI 69

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+TSSYYRGAHGII+VYDVT +E+F N+   W +E++ Y+ +++  K+LV
Sbjct: 70  WDTAGQERFRTITSSYYRGAHGIIVVYDVTDQESFNNVKQ-WLQEIDRYA-SENVNKLLV 127

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
           GNK D  +++ V        A      FLE SAKN  +V+Q F  +  +I +        
Sbjct: 128 GNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATA 187

Query: 186 SAVVKNQI 193
               K+ +
Sbjct: 188 GGAEKSNV 195

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  255 bits (654), Expect = 9e-88
 Identities = 72/171 (42%), Positives = 109/171 (63%), Gaps = 3/171 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
            ++ YDY FK++LIGDSGVGKS++L     N  +  S  TIGV+F  + + V GK +K  
Sbjct: 22  RDDEYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQ 81

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAG ER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + V +L
Sbjct: 82  IWDTAGLERYRAITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNIVIML 139

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           VGNK D    RAV  +E    A+++   F+E SA ++ +V+  F+ +L +I
Sbjct: 140 VGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  255 bits (653), Expect = 1e-87
 Identities = 82/172 (47%), Positives = 113/172 (65%), Gaps = 3/172 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
           + +YD+ FK L+IG++G GKS +L   I     D S  TIGV+F  K++ VGGK +KL I
Sbjct: 4   SETYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQI 63

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF ++T SYYRGA G +LVYD+T RET+  L++ W  +  + + +Q+ V IL 
Sbjct: 64  WDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTN-WLTDARMLA-SQNIVIILC 121

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D D++R VT  E    AQE++ +FLE SA   E+V++ F     KIL 
Sbjct: 122 GNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILN 173

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  254 bits (652), Expect = 2e-87
 Identities = 77/172 (44%), Positives = 115/172 (66%), Gaps = 3/172 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
             +YDY FK+LLIGDSGVGK+ +L     ++ +     TIG+DFKI+ + + GKR+KL I
Sbjct: 2   AKTYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQI 61

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQERF T+T++YYRGA GI+LVYD+T  ++F N+ + W + +E ++ + D  K+++
Sbjct: 62  WDTAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRN-WIRNIEEHA-SADVEKMIL 119

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D + +R V++E G  LA ++   F+E SAK   +V+  F  L   I  
Sbjct: 120 GNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKA 171

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  254 bits (652), Expect = 3e-87
 Identities = 68/178 (38%), Positives = 109/178 (61%), Gaps = 3/178 (1%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK 59
           +  +     YD+ FKI+LIG++GVGK+ ++              TIGVDF IK + + G+
Sbjct: 14  LVPRGSMEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGE 73

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           ++KL IWDTAGQERF ++T SYYR A+ +IL YD+T  E+F  L   W +E+E Y+ +  
Sbjct: 74  KVKLQIWDTAGQERFRSITQSYYRSANALILTYDITCEESFRCLPE-WLREIEQYA-SNK 131

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            + +LVGNK+D    R V+++     ++     +LE SAK +++V++ F DL  +++ 
Sbjct: 132 VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLIS 189

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  254 bits (650), Expect = 6e-87
 Identities = 80/173 (46%), Positives = 108/173 (62%), Gaps = 3/173 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
           G+   D+ FK L+IG +G GKS +L   I N     S  TIGV+F  +++ VGGK +KL 
Sbjct: 18  GSIWSDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQ 77

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAGQERF ++T SYYRGA G +LVYD+T RET+ +L++ W  +    + + + V IL
Sbjct: 78  IWDTAGQERFRSVTRSYYRGAAGALLVYDITSRETYNSLAA-WLTDARTLA-SPNIVVIL 135

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            GNK D D ER VT  E    AQE++ +FLE SA   E+V++ F      IL 
Sbjct: 136 CGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILN 188

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  253 bits (649), Expect = 7e-87
 Identities = 68/173 (39%), Positives = 106/173 (61%), Gaps = 3/173 (1%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
           G+  Y++ FK++LIG+SGVGK+++L     N     S  TIGV+F  + + +G   +K  
Sbjct: 18  GSEDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQ 77

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           IWDTAG ER+  +TS+YYRGA G +LV+D+T+ +T+  +   W KE+  ++     V +L
Sbjct: 78  IWDTAGLERYRAITSAYYRGAVGALLVFDLTKHQTYAVVER-WLKELYDHA-EATIVVML 135

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           VGNK D    R V  EE  + A+ +  LFLE SA ++ +V+  F+ +L +I  
Sbjct: 136 VGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFA 188

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  253 bits (648), Expect = 8e-87
 Identities = 73/179 (40%), Positives = 118/179 (65%), Gaps = 4/179 (2%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK 59
           +  +      D+  ++++IG  GVGK+S++     ++  +    T+GVDFKIK + + GK
Sbjct: 14  LVPRGSPRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGK 73

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           +++L IWDTAGQERF ++TS+YYR A GIILVYD+T++ETF +L   W K ++ Y+ ++D
Sbjct: 74  KIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITKKETFDDLPK-WMKMIDKYA-SED 131

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKILE 177
              +LVGNK+D +++R +TR++G   AQ+     F E SAK+  +V + F  L+  IL+
Sbjct: 132 AELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK 190

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  253 bits (648), Expect = 8e-87
 Identities = 78/176 (44%), Positives = 111/176 (63%), Gaps = 3/176 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRL 61
           S        Y FK ++IGD+GVGKS +LL             TIGV+F  +++ + GK++
Sbjct: 11  SSGLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQI 70

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
           KL IWDTAGQE F ++T SYYRGA G +LVYD+TRRETF +L+S W ++   +S + + V
Sbjct: 71  KLQIWDTAGQESFRSITRSYYRGAAGALLVYDITRRETFNHLTS-WLEDARQHS-SSNMV 128

Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +L+GNK D +S R V REEG   A+EH  +F+E SAK   +V++ F +   +I  
Sbjct: 129 IMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYR 184

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  254 bits (651), Expect = 8e-87
 Identities = 82/225 (36%), Positives = 119/225 (52%), Gaps = 18/225 (8%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK 59
           M S+     YD  FKI+LIGDSGVGKS++L     N  +  S  TIGV+F  + L + GK
Sbjct: 1   MSSEDYGYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGK 60

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           R+K  IWDTAGQER+  +TS+YYRGA G ++VYD+++  ++ N +  W  E+   + + +
Sbjct: 61  RIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISKSSSYENCNH-WLSELRENA-DDN 118

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE-- 177
               L+GNK D    RAV  EE    AQE++ LF E SA N+E+V + F++L+  I +  
Sbjct: 119 VAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKV 178

Query: 178 -------------VPSLLEQGSAVVKNQILKQKEVQESARGGNCC 209
                          +            +       + A G NCC
Sbjct: 179 SKHQMDLGDSSANGNANGASAPNGPTISLTPTPNENKKANGNNCC 223

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  252 bits (646), Expect = 2e-86
 Identities = 60/182 (32%), Positives = 106/182 (58%), Gaps = 12/182 (6%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTV--------- 56
           +  YDY  K L +GDSGVGK+S+L        +     T+G+DF+ K +           
Sbjct: 5   DGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAV 64

Query: 57  -GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS 115
             G+R+ L +WDTAG ERF +LT++++R A G +L++D+T  ++F N+ + W  ++++++
Sbjct: 65  GRGQRIHLQLWDTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRN-WISQLQMHA 123

Query: 116 TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +++   +L GNK D + +RAV  EE   LA+++   + E SA N  ++    + LL  I
Sbjct: 124 YSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLI 183

Query: 176 LE 177
           ++
Sbjct: 184 MK 185

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  252 bits (647), Expect = 2e-86
 Identities = 71/178 (39%), Positives = 113/178 (63%), Gaps = 4/178 (2%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS   +  YD+ FK++L+GD+ VGK+ ++    + +  +    TIGVDF +K L + GKR
Sbjct: 18  GSGDPDEQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKR 77

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +KL IWDTAGQERF T+T SYYR A+G IL YD+T+R +F ++   W ++V  Y+   + 
Sbjct: 78  VKLQIWDTAGQERFRTITQSYYRSANGAILAYDITKRSSFLSVPH-WIEDVRKYA-GSNI 135

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           V++L+GNK D    R V+  E   LA+ +  L  +E SAK++ +V++ F  +  +++ 
Sbjct: 136 VQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIM 193

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  250 bits (641), Expect = 1e-85
 Identities = 77/194 (39%), Positives = 117/194 (60%), Gaps = 3/194 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK++LIGDSGVGKS++L     N  +  S  TIGV+F  + + V GK +K  IWDT
Sbjct: 2   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 61

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQER+  +TS+YYRGA G +LVYD+ +  T+ N+   W KE+  ++ + + V +LVGNK
Sbjct: 62  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVER-WLKELRDHA-DSNIVIMLVGNK 119

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAV 188
            D    RAV  +E    A+++   F+E SA ++ +V++ FK++L +I  + S  +     
Sbjct: 120 SDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRA 179

Query: 189 VKNQILKQKEVQES 202
             ++      V  S
Sbjct: 180 AHDESPGNNVVDIS 193

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  250 bits (641), Expect = 3e-85
 Identities = 57/183 (31%), Positives = 105/183 (57%), Gaps = 12/183 (6%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK----- 59
           G+  YDY  K+L +GDSGVGK++ L     N  +     T+G+DF+ K +    +     
Sbjct: 18  GSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGS 77

Query: 60  -----RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY 114
                ++ L +WDTAGQERF +LT++++R A G +L++D+T +++F N+ + W  +++  
Sbjct: 78  SGKAFKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRN-WMSQLQAN 136

Query: 115 STNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYK 174
           +  ++   +L+GNK D   +R V   +   LA ++   + E SA   ++V++  + LL  
Sbjct: 137 AYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDL 196

Query: 175 ILE 177
           I++
Sbjct: 197 IMK 199

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  249 bits (639), Expect = 4e-85
 Identities = 89/211 (42%), Positives = 120/211 (56%), Gaps = 6/211 (2%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK 59
             S     SYD   KILLIGDSGVGKS +L+  + +  +     TIG+DFKIK + + GK
Sbjct: 8   SASSGNGKSYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGK 67

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           ++KL +WDTAGQERF T+T++YYRGA GIILVYDVT   TFTN+   W K V  ++ N +
Sbjct: 68  KVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTDERTFTNIKQ-WFKTVNEHA-NDE 125

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
              +LVGNK D +  R VT ++G  LA+E    F+E SAKN ++V + F  L   I E  
Sbjct: 126 AQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKI 184

Query: 180 SLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
                    V N       +   +   +  +
Sbjct: 185 D--SNKLVGVGNGKEGNISINSGSGNSSKSN 213

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  248 bits (635), Expect = 4e-85
 Identities = 66/170 (38%), Positives = 99/170 (58%), Gaps = 3/170 (1%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           S  YSFK++L+G+  VGK+S++L    N  +D    T+G  F  K L +GGKR+ L IWD
Sbjct: 2   SRAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWD 61

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF  L   YYR ++G ILVYD+T  ++F  + + W KE+       +    +VGN
Sbjct: 62  TAGQERFHALGPIYYRDSNGAILVYDITDEDSFQKVKN-WVKELRKML-GNEICLCIVGN 119

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K+D + ER V+ +E    A+         SAK  + +++ F DL  +++E
Sbjct: 120 KIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 169

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  245 bits (629), Expect = 4e-84
 Identities = 58/169 (34%), Positives = 89/169 (52%), Gaps = 4/169 (2%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDT 68
            + + K++++G+  VGKSS++              TIGVDF  + + V  + ++L +WDT
Sbjct: 2   SEVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDT 61

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQE F  +T +YYRGA   +LV+  T RE+F  +SS W ++V     +      LV NK
Sbjct: 62  AGQEEFDAITKAYYRGAQACVLVFSTTDRESFEAISS-WREKVVAEVGD--IPTALVQNK 118

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +D   +  +  EE   LA+  K  F   S K   +V + FK L  K L+
Sbjct: 119 IDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  247 bits (632), Expect = 5e-84
 Identities = 64/210 (30%), Positives = 107/210 (50%), Gaps = 4/210 (1%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK 59
           M +     +    FK++ +G+  VGK+S++   + +S  +    TIG+DF  K + +  +
Sbjct: 4   MSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDR 63

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            ++L +WDTAG ERF +L  SY R +   ++VYD+T   +F   +  W  +V       D
Sbjct: 64  TVRLQLWDTAGLERFRSLIPSYIRDSTVAVVVYDITNVNSFQQTTK-WIDDVRTER-GSD 121

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
            + +LVGNK D   +R V+ EEG   A+E   +F+E SAK   +VKQ F+ +   +  + 
Sbjct: 122 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGME 181

Query: 180 SLLEQGSAVVKNQILKQKEVQESARGGNCC 209
           S  +  S      I  +K  ++    G C 
Sbjct: 182 S-TQDRSREDMIDIKLEKPQEQPVSEGGCL 210

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  245 bits (628), Expect = 6e-84
 Identities = 55/176 (31%), Positives = 87/176 (49%), Gaps = 5/176 (2%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGK-RLKLTIW 66
           S+    KI+++GD   GK+S+       +       TIG+DF ++ +T+ G   + L IW
Sbjct: 2   SHMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIW 61

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST--NQDCVKIL 124
           D  GQ   G +   Y  GA G++LVYD+T  ++F NL   W   V+  S       +  L
Sbjct: 62  DIGGQTIGGKMLDKYIYGAQGVLLVYDITNYQSFENLED-WYTVVKKVSEESETQPLVAL 120

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           VGNK+D +  R +  E+ +   QE+       SAK  + V  CF+ +  +IL +  
Sbjct: 121 VGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKL 176

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  245 bits (627), Expect = 7e-84
 Identities = 84/168 (50%), Positives = 110/168 (65%), Gaps = 4/168 (2%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           D   KILLIGDSGVGKS +L+  + +        TIG+DFKIK + + GK++KL IWDTA
Sbjct: 1   DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTA 60

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF T+T++YYRGA GIILVYD+T   TFTN+   W K V  ++ N +   +LVGNK 
Sbjct: 61  GQERFRTITTAYYRGAMGIILVYDITDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNKS 118

Query: 130 DRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           D +  R VT ++G  LA+E    F+E SAKN ++V + F  L   I E
Sbjct: 119 DME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 165

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  244 bits (625), Expect = 2e-83
 Identities = 65/180 (36%), Positives = 96/180 (53%), Gaps = 3/180 (1%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKR 60
           GS     +   + K++L+GD G GKSS++L  + +   +    TIG  F  + L V    
Sbjct: 1   GSMAAAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDAT 60

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +K  IWDTAGQER+ +L   YYRGA   I+V+DVT + +F      W +E++    N + 
Sbjct: 61  VKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTNQASFERAKK-WVQELQAQG-NPNM 118

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
           V  L GNK D    R VT E+    AQE+   F+E SAK   +VK+ F ++  ++  V  
Sbjct: 119 VMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQP 178

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  243 bits (622), Expect = 1e-82
 Identities = 66/179 (36%), Positives = 103/179 (57%), Gaps = 9/179 (5%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLT 64
            + S   ++KI+L GD+ VGKSS L+ L  N    + S T+GVDF++K L V G+R  L 
Sbjct: 21  KSFSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQ 80

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           +WDTAGQERF ++  SY+R A G++L+YDVT  ++F N+   W   +E  + ++    +L
Sbjct: 81  LWDTAGQERFRSIAKSYFRKADGVLLLYDVTCEKSFLNIRE-WVDMIEDAA-HETVPIML 138

Query: 125 VGNKVD------RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           VGNK D       + ++ V    G  LA  +  LF E SAK+  ++ +    L  ++ +
Sbjct: 139 VGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK 197

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  241 bits (618), Expect = 5e-82
 Identities = 60/207 (28%), Positives = 108/207 (52%), Gaps = 5/207 (2%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTI 65
            +      K++++GDSGVGK+S++   ++    +    TIG DF  K + V  + + + I
Sbjct: 2   TSRKKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQI 61

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC---VK 122
           WDTAGQERF +L  ++YRGA   +LV+DVT   TF  L S W  E  + ++ +D      
Sbjct: 62  WDTAGQERFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDS-WRDEFLIQASPRDPENFPF 120

Query: 123 ILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLL 182
           +++GNK+D ++ +  T+        ++   + E SAK   +V+Q F+ +    L+  + +
Sbjct: 121 VVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV 180

Query: 183 EQGSAVVKNQILKQKEVQESARGGNCC 209
           E  +   +   L + E  +++     C
Sbjct: 181 ELYNEFPEPIKLDKNERAKASAESCSC 207

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  240 bits (614), Expect = 1e-81
 Identities = 61/174 (35%), Positives = 99/174 (56%), Gaps = 7/174 (4%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
                FK++L+GD GVGKSS++   ++N        TIGV+F  K L V G  + + IWD
Sbjct: 3   GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWD 62

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC---VKIL 124
           TAGQERF +L + +YRG+   +L + V   ++F NLS+ W KE   Y+  ++      ++
Sbjct: 63  TAGQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSN-WKKEFIYYADVKEPESFPFVI 121

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           +GNK+D   ER V+ EE     +++    + E SAK+  +V   F++ + ++L 
Sbjct: 122 LGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 174

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  237 bits (608), Expect = 9e-81
 Identities = 60/179 (33%), Positives = 96/179 (53%), Gaps = 3/179 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRL 61
             V   S     K+ L+GD+GVGKSSI+   + +       PTIG  F  K +  G +  
Sbjct: 13  GLVPRGSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELH 72

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
           K  IWDTAGQERF +L   YYRG+   ++VYD+T++++F  L   W KE++ +   ++ V
Sbjct: 73  KFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITKQDSFYTLKK-WVKELKEHG-PENIV 130

Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             + GNK D    R V  ++    A+    + +E SAKN  ++++ F+ +  +I  +  
Sbjct: 131 MAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDP 189

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  236 bits (605), Expect = 2e-80
 Identities = 60/167 (35%), Positives = 87/167 (52%), Gaps = 3/167 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
              K+ L+GD+GVGKSSI+   + +S      PTIG  F  K +    +  K  IWDTAG
Sbjct: 5   RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAG 64

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
            ERF  L   YYRG+   I+VYD+T+ ETF+ L + W +E+  +      V  + GNK D
Sbjct: 65  LERFRALAPMYYRGSAAAIIVYDITKEETFSTLKN-WVRELRQHG-PPSIVVAIAGNKCD 122

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
               R V   +    A     +F+E SAKN  ++ + F ++  +I  
Sbjct: 123 LTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  237 bits (607), Expect = 4e-80
 Identities = 53/181 (29%), Positives = 86/181 (47%), Gaps = 4/181 (2%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGV-DFKIKLLTVGGKRLKLTI 65
              + ++KI LIGD GVGK++ +  ++          T+G  +  +  L   G  +K  +
Sbjct: 6   ERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNV 65

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDTAGQE+   L   YY GA G IL +DVT R T  NL+  W KE +    N +   ++ 
Sbjct: 66  WDTAGQEKKAVLKDVYYIGASGAILFFDVTSRITCQNLAR-WVKEFQAVVGN-EAPIVVC 123

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQG 185
            NK+D  + + ++++  M + +     + E SAK   +    F  L       P L+   
Sbjct: 124 ANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVS 183

Query: 186 S 186
           +
Sbjct: 184 N 184

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  234 bits (599), Expect = 2e-79
 Identities = 60/174 (34%), Positives = 96/174 (55%), Gaps = 3/174 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRL 61
           S     +    FK++ +G+  VGK+S++   + +S  +    TIG+DF  K + +  + +
Sbjct: 4   SSGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTV 63

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
           +L +WDTAGQERF +L  SY R +   ++VYD+T   +F   S  W  +V       D +
Sbjct: 64  RLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITNTNSFHQTSK-WIDDVRTER-GSDVI 121

Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +LVGNK D   +R V+ EEG   A+E   +F+E SAK   +VKQ F+ +   +
Sbjct: 122 IMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  233 bits (597), Expect = 2e-79
 Identities = 62/170 (36%), Positives = 98/170 (57%), Gaps = 3/170 (1%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
           +    FK++L+G+S VGKSS++L  +    H+    TIG  F  + + +    +K  IWD
Sbjct: 2   NKICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWD 61

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQER+ +L   YYRGA   I+VYD+T  E+F    + W KE++  + + + V  L GN
Sbjct: 62  TAGQERYHSLAPMYYRGAQAAIVVYDITNEESFARAKN-WVKELQRQA-SPNIVIALSGN 119

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K D  ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+ +
Sbjct: 120 KADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  231 bits (591), Expect = 1e-77
 Identities = 49/198 (24%), Positives = 93/198 (46%), Gaps = 7/198 (3%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLT 64
                   FK++L+GD G GK++ +   ++         T+GV+    +       +K  
Sbjct: 8   AQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFN 67

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           +WDTAGQE+FG L   YY  A   I+++DVT R T+ N+ + W +++     N     +L
Sbjct: 68  VWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPN-WHRDLVRVCEN--IPIVL 124

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL-LE 183
            GNKVD    +     + ++  ++    + + SAK+  + ++ F  L  K++  P+L   
Sbjct: 125 CGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFV 182

Query: 184 QGSAVVKNQILKQKEVQE 201
              A+   +++    +  
Sbjct: 183 AMPALAPPEVVMDPALAA 200

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  228 bits (584), Expect = 8e-77
 Identities = 40/180 (22%), Positives = 79/180 (43%), Gaps = 10/180 (5%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVH---DPSPTIGVDFKIKLLTVGGKRLKL 63
           + +     K+ ++G++ VGKS+++    S       D + T GV+  +  +T+    + +
Sbjct: 14  DITATLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSV 73

Query: 64  TIW--DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS--TNQD 119
            ++  DTAG + +    S Y+ G +  ILV+DV+  E+F +  + W + ++       + 
Sbjct: 74  ELFLLDTAGSDLYKEQISQYWNGVYYAILVFDVSSMESFESCKA-WFELLKSARPDRERP 132

Query: 120 CVKILVGNKVDRDSER-AVTREEGMILAQEHKCLFLECSAKNT-EDVKQCFKDLLYKILE 177
              +LV NK D   +R  V  +     A  +   F + SA    +D    F  +      
Sbjct: 133 LRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYR 192

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  226 bits (578), Expect = 3e-76
 Identities = 58/178 (32%), Positives = 102/178 (57%), Gaps = 8/178 (4%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRL-KLT 64
           ++      K++++GDSGVGK+S++   +++        TIG DF  K +TV G ++  + 
Sbjct: 2   SSRKKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQ 61

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS---TNQDCV 121
           +WDTAGQERF +L  ++YRGA   +LVYDVT   +F N+ S W  E  +++   + +   
Sbjct: 62  VWDTAGQERFQSLGVAFYRGADCCVLVYDVTNASSFENIKS-WRDEFLVHANVNSPETFP 120

Query: 122 KILVGNKVD-RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
            +++GNK+D  +S++ V+ +    LA+    +     SAKN  +V   F+++    L+
Sbjct: 121 FVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 178

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  215 bits (550), Expect = 4e-72
 Identities = 55/172 (31%), Positives = 87/172 (50%), Gaps = 3/172 (1%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           +     + K++++G  GVGKS++ +  I +  V D  PTI  D   K+ +V G   +L I
Sbjct: 3   DPPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIE-DSYTKICSVDGIPARLDI 61

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
            DTAGQE FG +   Y R  HG +LV+ +  R++F  +      ++       D   +LV
Sbjct: 62  LDTAGQEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGK-LFTQILRVKDRDDFPVVLV 120

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           GNK D +S+R V R E       H   + E SAK   +V + F+ L+  + +
Sbjct: 121 GNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK 172

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  215 bits (551), Expect = 5e-72
 Identities = 45/178 (25%), Positives = 76/178 (42%), Gaps = 3/178 (1%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKR 60
            +       D  FK++L+G+SGVGKS++  +           P    D   + + V  + 
Sbjct: 12  ENLYFQGQKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEE 71

Query: 61  LKLTIWDTAGQERF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           + L ++D   Q    G L     +     ++V+ VT R +F+ +       +     + D
Sbjct: 72  VTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVTDRRSFSKVPE-TLLRLRAGRPHHD 130

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
              ILVGNK D    R V+ EEG  LA    C  +E SA    + ++ F+  + +I  
Sbjct: 131 LPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL 188

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  215 bits (550), Expect = 1e-71
 Identities = 57/207 (27%), Positives = 96/207 (46%), Gaps = 43/207 (20%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLK----- 62
               S+K +L+G+S VGKSSI+L L  ++ H+ +  TIG  F   ++ +    +K     
Sbjct: 3   EKKSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNN 62

Query: 63  --------------------------------LTIWDTAGQERFGTLTSSYYRGAHGIIL 90
                                             IWDTAGQER+ ++   YYRGA   I+
Sbjct: 63  EKNNNINSINDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIV 122

Query: 91  VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK 150
           V+D++   T     + W  +++    + + + ILV NK+D++ +  V   E    AQ++ 
Sbjct: 123 VFDISNSNTLDRAKT-WVNQLK---ISSNYIIILVANKIDKN-KFQVDILEVQKYAQDNN 177

Query: 151 CLFLECSAKNTEDVKQCFKDLLYKILE 177
            LF++ SAK   ++K  F  L  +I +
Sbjct: 178 LLFIQTSAKTGTNIKNIFYMLAEEIYK 204

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  215 bits (549), Expect = 2e-71
 Identities = 52/209 (24%), Positives = 103/209 (49%), Gaps = 8/209 (3%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKR 60
            +K    +     K++++G  GVGKS++ L  + +  V D  PT    ++ K + + G+ 
Sbjct: 3   ANKPKGQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEE 61

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +++ I DTAGQE +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++ 
Sbjct: 62  VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENV 120

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
             +LVGNK D + +R V+ EE    A++    ++E SAK   +V + F DL+ +I     
Sbjct: 121 PFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA--- 177

Query: 181 LLEQGSAVVKNQILKQKEVQESARGGNCC 209
              +     +    K+++         CC
Sbjct: 178 --RKMEDSKEKNGKKKRKSLAKRIRERCC 204

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  211 bits (540), Expect = 2e-70
 Identities = 50/177 (28%), Positives = 96/177 (54%), Gaps = 3/177 (1%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKR 60
           G   G+ +     K++++G  GVGKS++ L  + +  V D  PT    ++ K + + G+ 
Sbjct: 7   GGGGGSQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEE 65

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           +++ I DTAGQE +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++ 
Sbjct: 66  VQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENV 124

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             +LVGNK D + +R V+ EE    A++    ++E SAK   +V + F DL+ +I  
Sbjct: 125 PFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 181

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  208 bits (531), Expect = 6e-69
 Identities = 54/203 (26%), Positives = 90/203 (44%), Gaps = 9/203 (4%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
                 +++++ G  GVGKSS++L  +  +      PTI   ++ ++++       L I 
Sbjct: 3   PEQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQIT 61

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DT G  +F  +        H  ILV+ VT +++   L  ++   V++  + +D   +LVG
Sbjct: 62  DTTGSHQFPAMQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVG 121

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGS 186
           NK D   +R V   E   +AQE KC F+E SAK   +VK+ F++LL         L    
Sbjct: 122 NKCDET-QREVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDG 180

Query: 187 AVVKNQILKQKEVQESARGGNCC 209
                Q    +        G C 
Sbjct: 181 KRSGKQKRTDR------VKGKCT 197

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  207 bits (530), Expect = 6e-69
 Identities = 54/179 (30%), Positives = 91/179 (50%), Gaps = 4/179 (2%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGK 59
           M +    +    ++K++++GD GVGKS++ +       V D  PTI  D  +K   +  +
Sbjct: 6   MATSAVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIE-DSYLKHTEIDNQ 64

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
              L + DTAGQE F  +   Y R   G ++VY VT + +F ++   + + +      + 
Sbjct: 65  WAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDR-FHQLILRVKDRES 123

Query: 120 CVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK-NTEDVKQCFKDLLYKILE 177
              ILV NKVD    R VTR++G  +A ++   ++E SAK    +V + F DL+  I +
Sbjct: 124 FPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 182

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  206 bits (526), Expect = 3e-68
 Identities = 57/180 (31%), Positives = 88/180 (48%), Gaps = 3/180 (1%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
               S KI ++G   VGKSS+ +  +    V    PTI   F  KL+TV G+   L + D
Sbjct: 2   PQSKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFT-KLITVNGQEYHLQLVD 60

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQ+ +     +Y    +G ILVY VT  ++F  +  +  K +++         +LVGN
Sbjct: 61  TAGQDEYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK-VQIPIMLVGN 119

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSA 187
           K D   ER ++ EEG  LA+     FLE SAK  +     F+ ++ +  ++     QG +
Sbjct: 120 KKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQGKS 179

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  205 bits (524), Expect = 3e-68
 Identities = 44/164 (26%), Positives = 74/164 (45%), Gaps = 3/164 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+G+SGVGKS++  +       H        D   + + V  + + L ++D   Q 
Sbjct: 3   FKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQG 62

Query: 73  RF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
              G L     +     ++V+ VT R +F+ +       +     + D   ILVGNK D 
Sbjct: 63  DAGGWLQDHCLQTGDAFLIVFSVTDRRSFSKVPE-TLLRLRAGRPHHDLPVILVGNKSDL 121

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
              R V+ EEG  LA    C  +E SA    + ++ F+  + +I
Sbjct: 122 ARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  203 bits (520), Expect = 1e-67
 Identities = 48/163 (29%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++G  GVGKS++ L  + +  V D  PT    ++ K + + G+ +++ I DTAGQE
Sbjct: 5   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQE 63

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D +
Sbjct: 64  DYAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLE 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +R V+ EE    A +    ++E SAK   +V + F DL+ +I
Sbjct: 123 DKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  202 bits (516), Expect = 5e-67
 Identities = 43/162 (26%), Positives = 71/162 (43%), Gaps = 2/162 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K+LL+G  GVGKS++            +   G  +  + + V G+   L ++D   Q+ 
Sbjct: 3   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDG 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
              L           ++VY VT + +F   S     ++       D   ILVGNK D   
Sbjct: 62  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASE-LRVQLRRARQTDDVPIILVGNKSDLVR 120

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            R V+ +EG   A    C F+E SA    +V+  F+ ++ +I
Sbjct: 121 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  200 bits (511), Expect = 3e-66
 Identities = 54/163 (33%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  ++ + +    PTI  DF  K + V      L I DTAG E
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTE 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F ++   Y +   G ILVY +  +++F ++      ++      +    ILVGNKVD +
Sbjct: 63  QFASMRDLYIKNGQGFILVYSLVNQQSFQDIKP-MRDQIIRVKRYEKVPVILVGNKVDLE 121

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           SER V+  EG  LA+E  C F+E SAK+   V + F +++ ++
Sbjct: 122 SEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  200 bits (510), Expect = 5e-66
 Identities = 48/163 (29%), Positives = 80/163 (49%), Gaps = 2/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +++ + G  GVGKSS++L  +  +      PT+   ++ ++++       L I DT G  
Sbjct: 4   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSH 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +        H  ILVY +T R++   L  ++ +  E+    +    +LVGNK D  
Sbjct: 63  QFPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDES 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             R V   E   LA+  KC F+E SAK   +VK+ F++LL   
Sbjct: 123 PSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE 165

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  198 bits (506), Expect = 2e-65
 Identities = 48/165 (29%), Positives = 89/165 (53%), Gaps = 4/165 (2%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ + LI N  V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    + D   +LVGNK D  
Sbjct: 63  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHQ-YREQIKRVKDSDDVPMVLVGNKSD-L 120

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           + R V   +   LA+ +   ++E SAK  + V+  F  L+ +I +
Sbjct: 121 AARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  198 bits (507), Expect = 3e-65
 Identities = 48/174 (27%), Positives = 79/174 (45%), Gaps = 3/174 (1%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRL 61
                       K++++G   VGK+S+    +         PT+   +  K++T+G    
Sbjct: 14  LYFQGMPLVRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTYS-KIVTLGKDEF 72

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
            L + DTAGQ+ +  L  S+  G HG +LVY VT   +F  + S   +++          
Sbjct: 73  HLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTSLHSFQVIES-LYQKLHEGHGKTRVP 131

Query: 122 KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +LVGNK D   ER V   EG  LA+     F+E SA+  +  +  F  ++ +I
Sbjct: 132 VVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEI 185

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  195 bits (498), Expect = 6e-64
 Identities = 50/177 (28%), Positives = 92/177 (51%), Gaps = 4/177 (2%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKR 60
           G +         +K++++G  GVGKS++ + LI N  V +  PTI   ++ K + + G+ 
Sbjct: 10  GRENLYFQGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGET 68

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
             L I DTAGQE +  +   Y R   G + V+ +   ++F +++  + ++++    + D 
Sbjct: 69  CLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINNSKSFADINL-YREQIKRVKDSDDV 127

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             +LVGNK D    R V  ++   LA+ +   F+E SAK  + V+  F  L+ +I +
Sbjct: 128 PMVLVGNKCDLP-TRTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQ 183

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  193 bits (493), Expect = 1e-63
 Identities = 57/164 (34%), Positives = 91/164 (55%), Gaps = 4/164 (2%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ +  +    V    PTI   ++ K + V  ++  L I DTAG E
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTE 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +F  +   Y +   G  LVY +T + TF +L     +++      +D   ILVGNK D +
Sbjct: 63  QFTAMRDLYMKNGQGFALVYSITAQSTFNDLQD-LREQILRVKDTEDVPMILVGNKCDLE 121

Query: 133 SERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER V +E+G  LA++   C FLE SAK+  +V + F DL+ +I
Sbjct: 122 DERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  193 bits (494), Expect = 2e-63
 Identities = 52/197 (26%), Positives = 97/197 (49%), Gaps = 15/197 (7%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           +K++++G  GVGKS++ + LI N  V +  PTI   ++ K + + G+   L I DTAGQE
Sbjct: 5   YKLVVVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQE 63

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  +   Y R   G + V+ +   ++F ++   + ++++    ++D   +LVGNK D  
Sbjct: 64  EYSAMRDQYMRTGEGFLCVFAINNTKSFEDIHH-YREQIKRVKDSEDVPMVLVGNKCDLP 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQ 192
             R V  ++   LA+ +   F+E SAK  + V   F  L+ +I +            K +
Sbjct: 123 -SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK-----------HKEK 170

Query: 193 ILKQKEVQESARGGNCC 209
           + K  + ++      C 
Sbjct: 171 MSKDGKKKKKKSKTKCV 187

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  193 bits (492), Expect = 3e-63
 Identities = 45/165 (27%), Positives = 73/165 (44%), Gaps = 5/165 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           ++++L+GD GVGK+S+                   D   + LTV G+   L + DT   E
Sbjct: 5   YRVVLLGDPGVGKTSLASLFAGKQERDLHEQLG-EDVYERTLTVDGEDTTLVVVDTWEAE 63

Query: 73  RFGTLTS--SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           +     S  S  +G    ++VY +  R +F + S     ++           ILVGNK D
Sbjct: 64  KLDKSWSQESCLQGGSAYVIVYSIADRGSFESASE-LRIQLRRTHQADHVPIILVGNKAD 122

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
               R V+ EEG   A    C F+E SA    +V + F+ ++ ++
Sbjct: 123 LARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQL 167

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  192 bits (490), Expect = 2e-62
 Identities = 46/179 (25%), Positives = 80/179 (44%), Gaps = 10/179 (5%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNS---VHDPSPTIGVDFKIKLLTVGGK 59
           S + + S +  ++++LIG+ GVGKS++             D       D   + L V G+
Sbjct: 27  SVISSESGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLG-EDTYERTLMVDGE 85

Query: 60  R---LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST 116
               + L +W+  G+  +  L     +     ++VY +T R +F   S     ++     
Sbjct: 86  SATIILLDMWENKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASE-LRIQLRRARQ 142

Query: 117 NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +D   ILVGNK D    R V+  EG   A    C F+E SA    +VK+ F+ ++ ++
Sbjct: 143 TEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 201

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  187 bits (477), Expect = 4e-61
 Identities = 72/169 (42%), Positives = 99/169 (58%), Gaps = 6/169 (3%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K++L+G++ VGKSSI+L  +SN   +   PTIG  F  + +T+    +K  IWDTAGQ
Sbjct: 3   SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQ 62

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           ERF +L   YYR A   ++VYDVT+ ++F      W KE+   + ++D +  LVGNK+D 
Sbjct: 63  ERFASLAPXYYRNAQAALVVYDVTKPQSFIKARH-WVKELHEQA-SKDIIIALVGNKIDX 120

Query: 131 --RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
                ER V REEG  LA+E   LF E SAK  E+V   F  +  KI  
Sbjct: 121 LQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  188 bits (480), Expect = 4e-61
 Identities = 50/172 (29%), Positives = 86/172 (50%), Gaps = 5/172 (2%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLT 64
            + +     K+ + G +GVGKS++++  ++   + +  PT+   ++    T+  + + + 
Sbjct: 21  QSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSME 79

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           I DTAGQE        + R   G +LVYD+T R +F  +       ++     ++   IL
Sbjct: 80  ILDTAGQEDTIQ-REGHMRWGEGFVLVYDITDRGSFEEVLP-LKNILDEIKKPKNVTLIL 137

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK-NTEDVKQCFKDLLYKI 175
           VGNK D D  R V+ EEG  LA E  C F ECSA     ++ + F +L  ++
Sbjct: 138 VGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREV 189

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  182 bits (465), Expect = 6e-59
 Identities = 45/172 (26%), Positives = 81/172 (47%), Gaps = 7/172 (4%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
                   + ++G  G GKS++ +  ++   + +  P +   +     TV  + + L + 
Sbjct: 16  FQGPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYS-SEETVDHQPVHLRVM 74

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY--STNQDCVKIL 124
           DTA  +        Y   AH  ++VY V  R++F + SS + + + L+   T +    +L
Sbjct: 75  DTADLDTPRNCER-YLNWAHAFLVVYSVDSRQSFDSSSS-YLELLALHAKETQRSIPALL 132

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK-NTEDVKQCFKDLLYKI 175
           +GNK+D    R VT+ EG+ LA    CLF E SA  + E V+  F + + + 
Sbjct: 133 LGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREA 184

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  177 bits (452), Expect = 4e-57
 Identities = 36/178 (20%), Positives = 79/178 (44%), Gaps = 16/178 (8%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKR---LKLTIWD 67
            K++++G++G GK+++L  L+     D      T+G+D K   + +  KR   L L +WD
Sbjct: 3   MKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWD 62

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
            AG+E F +    +       + VYD+++ +   +    W   ++  +++     ILVG 
Sbjct: 63  FAGREEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARASS--SPVILVGT 120

Query: 128 KVDRDSER---AVTREEGMILAQEH-----KCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +D   E+   A   +    L  +      +      + + ++ + +  K ++ + L 
Sbjct: 121 HLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN 178

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  174 bits (443), Expect = 1e-55
 Identities = 48/191 (25%), Positives = 82/191 (42%), Gaps = 12/191 (6%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS---VHDPSPTIGVDFKIKLLTVGGKR---LKLTIWD 67
           ++++LIG+ GVGKS++             D       D   + L V G+    + L +W+
Sbjct: 7   YRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLG-EDTYERTLMVDGESATIILLDMWE 65

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
             G+  +  L     +     ++VY +T R +F   S     ++      +D   ILVGN
Sbjct: 66  NKGENEW--LHDHCMQVGDAYLIVYSITDRASFEKASE-LRIQLRRARQTEDIPIILVGN 122

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGSA 187
           K D    R V+  EG   A      F+E SA    +VK+ F+ ++ ++       E+   
Sbjct: 123 KSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSKEKNER 182

Query: 188 VVKNQILKQKE 198
            +  Q  K+KE
Sbjct: 183 RLAYQ--KRKE 191

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  170 bits (434), Expect = 2e-54
 Identities = 33/168 (19%), Positives = 72/168 (42%), Gaps = 12/168 (7%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K+ ++G+   GKS+++   ++ + V + SP  G  FK K + V G+   L I D  G  
Sbjct: 21  LKVGIVGNLSSGKSALVHRYLTGTYVQEESPEGG-RFK-KEIVVDGQSYLLLIRDEGGPP 78

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-- 130
                   +      ++ V+ +    +F  + + +   +  +    +   +LVG +    
Sbjct: 79  EL-----QFAAWVDAVVFVFSLEDEISFQTVYN-YFLRLCSFRNASEVPMVLVGTQDAIS 132

Query: 131 RDSERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQCFKDLLYKILE 177
             + R +       L+ + K C + E  A    +V++ F+D+  K++ 
Sbjct: 133 AANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVA 180

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  166 bits (422), Expect = 1e-52
 Identities = 35/168 (20%), Positives = 71/168 (42%), Gaps = 10/168 (5%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++ ++GD+  GKSS++   ++ S      T    +K K + V G+   + I + AG   
Sbjct: 8   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQYK-KEMLVDGQTHLVLIREEAGAPD 66

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVG--NKVD 130
                  +   A  +I V+ +    +F  +S +  +   L    +  +   LVG  +++ 
Sbjct: 67  A-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS 121

Query: 131 RDSERAVTREEGMIL-AQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             S R V       L A   +C + E  A    +V + F+++  K++ 
Sbjct: 122 ASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVT 169

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  169 bits (430), Expect = 2e-50
 Identities = 47/209 (22%), Positives = 77/209 (36%), Gaps = 19/209 (9%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIK--------L 53
           SK     +    K+ LIGD   GK+S+L  LI  +     S T G++   K         
Sbjct: 31  SKGEALVHLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLE 90

Query: 54  LTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL 113
                K      WD  GQE        +   +   +L+ D     T +N    W + +E 
Sbjct: 91  NDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHY-WLRHIEK 146

Query: 114 YSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY 173
           Y        I+V NK+D +    + +++        +  F   S KN + V+   K L  
Sbjct: 147 YGGK--SPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKS 204

Query: 174 KILEVPSLLEQGSAV----VKNQILKQKE 198
            +L   S+     A     VK ++++   
Sbjct: 205 AVLHPDSIYGTPLAPSWIKVKEKLVEATT 233

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  155 bits (395), Expect = 2e-48
 Identities = 50/179 (27%), Positives = 88/179 (49%), Gaps = 11/179 (6%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKLLTVGGKRLKL 63
             +   + KI+++GD  VGK+ +LL+     +  P+   PT+  +F   +     +   L
Sbjct: 17  IENGKKALKIVVVGDGAVGKTCLLLAFSKGEI--PTAYVPTVFENFSHVM-KYKNEEFIL 73

Query: 64  TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
            +WDTAGQE +  L    Y  +  ++L + V  R +F N+S+ W  E++ Y        +
Sbjct: 74  HLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDT--AKTV 131

Query: 124 LVGNKVD--RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEVP 179
           LVG KVD  +D    VT++EG  L Q+  C+ ++E S+     + + F+  +  I    
Sbjct: 132 LVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNK 190

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  145 bits (369), Expect = 1e-44
 Identities = 55/175 (31%), Positives = 89/175 (50%), Gaps = 15/175 (8%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLT 64
           G+ S     K + +GD  VGK+ +L+S  SN+      PT+  +F    + V G  + L 
Sbjct: 1   GSMSASRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLG 59

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           +WDTAGQE +  L    YRGA   IL + +  + ++ N+S  W  E++ Y+       +L
Sbjct: 60  LWDTAGQEDYNRLRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAPG--VPIVL 117

Query: 125 VGNKVD-RDSERA---------VTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           VG K+D RD ++          +T  +G  L +      ++ECS+K+ E+VK  F
Sbjct: 118 VGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  140 bits (354), Expect = 3e-42
 Identities = 50/177 (28%), Positives = 83/177 (46%), Gaps = 17/177 (9%)

Query: 6   GNNSYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLT 64
           G++      K++++GD   GK+ +L+    +       PT+  +  I  + V GK+++L 
Sbjct: 18  GSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELA 76

Query: 65  IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL 124
           +WDTAGQE +  L    Y     I++ + +   ++  N+   W  EV+ +  N     IL
Sbjct: 77  LWDTAGQEDYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPN--VPIIL 134

Query: 125 VGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           VGNK D            +  +  V  EEG  +A       +LECSAK  E V++ F
Sbjct: 135 VGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  139 bits (353), Expect = 7e-42
 Identities = 53/170 (31%), Positives = 85/170 (50%), Gaps = 17/170 (10%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K++L+GD G GK+S+L+     +  +  +PT+   + +  L V GK + L IWDTAGQ
Sbjct: 34  SVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQ 92

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD- 130
           + +  L   +Y  A  ++L +DVT   +F N+ + W  EV  +        I+VG K D 
Sbjct: 93  DDYDRLRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCKK--VPIIVVGCKTDL 150

Query: 131 -----------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
                      R+    VT   G  +A+    + +LECSA+  ++V   F
Sbjct: 151 RKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  136 bits (345), Expect = 1e-40
 Identities = 56/212 (26%), Positives = 96/212 (45%), Gaps = 14/212 (6%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           S     K + +GD  VGK+ +L+   SN    D  PT+  +F    + V G+ + L +WD
Sbjct: 5   SVSKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWD 63

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQE +  L    YRGA   +L + +  + ++ N+   W  E+  ++ N     +LVG 
Sbjct: 64  TAGQEDYSRLRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAPN--VPIVLVGT 121

Query: 128 KVD--------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILEV 178
           K+D         D    +T  +G  L ++     ++ECS+K  ++VK  F   +  +L+ 
Sbjct: 122 KLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP 181

Query: 179 PSLLEQGSAVVKNQILKQKEVQESARGGNCCS 210
           P   ++     KN       +     GG   +
Sbjct: 182 PR-RKEVPRRRKNHRRSGCSIASIVCGGCTAA 212

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  136 bits (343), Expect = 2e-40
 Identities = 48/182 (26%), Positives = 85/182 (46%), Gaps = 17/182 (9%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGK 59
           +G++          K++++GD   GK+ +L+    +       PT+  ++ +  + V GK
Sbjct: 13  LGTENLYFQSMIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY-VADIEVDGK 71

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
           +++L +WDTAGQE +  L    Y     I++ + V   ++  N+   W  EV+ +  N  
Sbjct: 72  QVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCPN-- 129

Query: 120 CVKILVGNKVD-RD-----------SERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQ 166
              ILV NK D R             +  V  ++G  +A   +   +LECSAK  E V++
Sbjct: 130 VPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVRE 189

Query: 167 CF 168
            F
Sbjct: 190 VF 191

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  135 bits (342), Expect = 3e-40
 Identities = 39/177 (22%), Positives = 87/177 (49%), Gaps = 18/177 (10%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTI 65
           + + +   KI+++GDS  GK+++L     +    +  PT+  ++      +  +R++L++
Sbjct: 22  DPNQNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSL 80

Query: 66  WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
           WDT+G   +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LV
Sbjct: 81  WDTSGSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN--TKMLLV 138

Query: 126 GNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTED-VKQCF 168
           G K D               +  V+ ++G  +A++     ++ECSA  +E+ V+  F
Sbjct: 139 GCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  132 bits (333), Expect = 6e-39
 Identities = 53/182 (29%), Positives = 86/182 (47%), Gaps = 18/182 (9%)

Query: 2   GSKVGNNSYDY-SFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGK 59
           GS + N  +   + K +++GD  VGK+ +L+S  +N+      PT+  D     + V GK
Sbjct: 18  GSHMENLYFQGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGK 76

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQD 119
            + L +WDTAGQE +  L    Y      ++ + +    +F N+ + W  EV  +  N  
Sbjct: 77  PVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCPN-- 134

Query: 120 CVKILVGNKVD-RD-----------SERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQ 166
              ILVG K+D RD               +T  +G+ +A+E   + +LECSA     +K 
Sbjct: 135 TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKT 194

Query: 167 CF 168
            F
Sbjct: 195 VF 196

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score =  130 bits (329), Expect = 1e-38
 Identities = 48/169 (28%), Positives = 78/169 (46%), Gaps = 15/169 (8%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           + K +++GD  VGK+ +L+S  +N+          D     + V GK + L +WDTAGQE
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-R 131
            +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D R
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPN--TPIILVGTKLDLR 122

Query: 132 D-----------SERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           D               +T  +G+ +A+E   + +LECSA     +K  F
Sbjct: 123 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  130 bits (329), Expect = 1e-38
 Identities = 39/173 (22%), Positives = 85/173 (49%), Gaps = 18/173 (10%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           +   KI+++GDS  GK+++L     +    +  PT+  ++      +  +R++L++WDT+
Sbjct: 5   NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASF-EIDTQRIELSLWDTS 63

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           G   +  +    Y  +  +++ +D++R ET  ++   W  E++ +  N     +LVG K 
Sbjct: 64  GSPYYDNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPN--TKMLLVGCKS 121

Query: 130 D------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTED-VKQCF 168
           D               +  V+ ++G  +A++     ++ECSA  +E+ V+  F
Sbjct: 122 DLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 174

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  130 bits (328), Expect = 3e-38
 Identities = 50/181 (27%), Positives = 84/181 (46%), Gaps = 17/181 (9%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDFKIKLLTVGGKR 60
           G      +     K +L+GD  VGK+S+++S  +N    +  PT   D    +++V G+ 
Sbjct: 9   GRGRAGGAEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRP 67

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC 120
           ++L + DTAGQ+ F  L    Y      +L + V    +F N+S  W  E+  +      
Sbjct: 68  VRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPK--A 125

Query: 121 VKILVGNKVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQC 167
             ILVG + D            +  E+ V  E   +LA+E K   ++ECSA   +++K+ 
Sbjct: 126 PIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEV 185

Query: 168 F 168
           F
Sbjct: 186 F 186

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  127 bits (321), Expect = 3e-37
 Identities = 50/180 (27%), Positives = 88/180 (48%), Gaps = 17/180 (9%)

Query: 3   SKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRL 61
           S + +       K +++GD  VGK+ +L+S  +++  +   PT+  D     +TVGGK+ 
Sbjct: 8   SSMAHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQY 66

Query: 62  KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV 121
            L ++DTAGQE +  L    Y      ++ + V    +F N+   W  E++ Y+ N    
Sbjct: 67  LLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPN--VP 124

Query: 122 KILVGNKVD-RD-----------SERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
            +L+G ++D RD            E+ +  E+G  LA+E     ++ECSA   + +K  F
Sbjct: 125 FLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score =  126 bits (318), Expect = 1e-36
 Identities = 39/175 (22%), Positives = 79/175 (45%), Gaps = 18/175 (10%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS-PTIGVDFKIKLLTVGGKRLKLTIWD 67
                 K++L+GD   GK+++L  L  +   +   PT+  ++    L    +R++L++WD
Sbjct: 23  PVVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWD 81

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           T+G   +  +    Y  +  ++L +D++R ET  +    W  E+  Y  +     +L+G 
Sbjct: 82  TSGSPYYDNVRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCPS--TRVLLIGC 139

Query: 128 KVD------------RDSERAVTREEGMILAQEHKCL-FLECSAKNTED-VKQCF 168
           K D               +  ++ E+G  +A++     +LE SA  +E  +   F
Sbjct: 140 KTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF 194

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score =  100 bits (250), Expect = 1e-26
 Identities = 41/181 (22%), Positives = 68/181 (37%), Gaps = 18/181 (9%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDP-----------SPTIGVDF-KIKLLTVGGKR 60
           +FKI+  G    GK++ L  + S                   T+  DF  + +  V G +
Sbjct: 14  NFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFK 73

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWA--KEVELYSTNQ 118
            +  ++   GQ  +        RG  GI+ V D        N  S+    + +  Y    
Sbjct: 74  TRFHLYTVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTL 133

Query: 119 DCVKILVG-NKVDRDSERAVTREE-GMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           D V I++  NK  RD   A+  E    ++  E K   LE  A   + V +  K++   +L
Sbjct: 134 DDVPIVIQVNK--RDLPDALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVL 191

Query: 177 E 177
            
Sbjct: 192 A 192

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score =  102 bits (256), Expect = 2e-26
 Identities = 46/172 (26%), Positives = 76/172 (44%), Gaps = 17/172 (9%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
               K +++GD  VGK+ +L+S  +N+          D     + V GK + L +WDTAG
Sbjct: 153 KELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAG 212

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKV 129
            E +  L    Y      ++ + +    +F ++ + W  EV  +  N     I LVG K+
Sbjct: 213 LEDYDRLRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCPN---TPIILVGTKL 269

Query: 130 D-RD-----------SERAVTREEGMILAQEHKCL-FLECSAKNTEDVKQCF 168
           D RD               +T  +G+ +A+E   + +LECSA     +K  F
Sbjct: 270 DLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score = 92.8 bits (230), Expect = 3e-23
 Identities = 35/221 (15%), Positives = 61/221 (27%), Gaps = 67/221 (30%)

Query: 20  GDSGVGKSSILLSLISNS----VHDPSPTIG-VDFKIKLL--------------TVGGKR 60
           G  G+GKS +    +  S      D +  +   DF  +++                    
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 61  LKLTIW-------DTAGQERFGTLTSSYYRGA---------------------------- 85
            K+ I        D   Q    T    Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 86  ---------HGIILVYDVTR--RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE 134
                     G +L  DV+R     F +    +   +           ++V  K D   E
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLK-FVSNLYNQLAKTKKPIVVVLTKCDEGVE 213

Query: 135 RAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           R +       L+++     +E SA++  +V   F  L+  I
Sbjct: 214 RYIRDAHTFALSKK-NLQVVETSARSNVNVDLAFSTLVQLI 253

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 80.4 bits (198), Expect = 2e-18
 Identities = 33/185 (17%), Positives = 70/185 (37%), Gaps = 16/185 (8%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQER 73
           K+LL+G SG GKSS+   + SN     +  +G    ++   +     + L +WD  GQ+ 
Sbjct: 5   KLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSHLRFLGNMTLNLWDCGGQDV 64

Query: 74  F-----GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           F            ++    +I V+DV   E   ++        +L   + D    ++ +K
Sbjct: 65  FMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHK 124

Query: 129 VD--RDSERAVTREEGMILAQEH-------KCLFLECSAKNTEDVKQCFKDLLYKILEVP 179
           +D  +  +R    +  M    E          +    S  +   + + +  ++  ++   
Sbjct: 125 MDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDES-LYKAWSQIVCSLIPNM 183

Query: 180 SLLEQ 184
           S  + 
Sbjct: 184 SNHQS 188

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 74.6 bits (184), Expect = 4e-17
 Identities = 43/161 (26%), Positives = 67/161 (41%), Gaps = 18/161 (11%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK++IL       V   SPT+G  F IK  T+  +  KL IWD  GQ+ 
Sbjct: 19  LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLG--FNIK--TLEHRGFKLNIWDVGGQKS 74

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
             +   +Y+    G+I V D   R+   +      +  EL S   +       +L+  NK
Sbjct: 75  LRSYWRNYFESTDGLIWVVDSADRQRMQD-----CQR-ELQSLLVEERLAGATLLIFANK 128

Query: 129 VDRD---SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ 166
            D     S  A+     +   + H      CSA   ED+  
Sbjct: 129 QDLPGALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLP 169

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 74.1 bits (183), Expect = 5e-17
 Identities = 43/159 (27%), Positives = 66/159 (41%), Gaps = 22/159 (13%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK++IL  L    V    PTIG  F ++  TV  K LK  +WD  G   
Sbjct: 8   MRILILGLDGAGKTTILYRLQVGEVVTTIPTIG--FNVE--TVTYKNLKFQVWDLGGLTS 63

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-----NQDCVKILVGNK 128
                  YY     +I V D   R+         +K  EL +       +  + ++  NK
Sbjct: 64  IRPYWRCYYSNTDAVIYVVDSCDRDRIGI-----SKS-ELVAMLEEEELRKAILVVFANK 117

Query: 129 VDRDSERAVTREE-----GMILAQEHKCLFLECSAKNTE 162
             +D E+A+T  E     G+   ++ K    + SA    
Sbjct: 118 --QDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGT 154

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 74.6 bits (184), Expect = 6e-17
 Identities = 42/170 (24%), Positives = 66/170 (38%), Gaps = 22/170 (12%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
            GS           +IL++G    GK++IL  L    +    PTIG  F ++  TV  K 
Sbjct: 17  RGSLFSRIFGKKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIG--FNVE--TVEYKN 72

Query: 61  LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST---- 116
           +  T+WD  GQ++   L   Y++   G+I V D   RE         + + EL       
Sbjct: 73  ICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVQE-----SAD-ELQKMLQED 126

Query: 117 -NQDCVKILVGNKVDRDSERAVTREE-----GMILAQEHKCLFLECSAKN 160
             +D V ++  NK  +D   A+   E     G+   +          A  
Sbjct: 127 ELRDAVLLVFANK--QDMPNAMPVSELTDKLGLQHLRSRTWYVQATCATQ 174

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 73.4 bits (181), Expect = 8e-17
 Identities = 42/162 (25%), Positives = 68/162 (41%), Gaps = 22/162 (13%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +IL++G    GK++IL  L    +    PTIG  F ++  TV  K +  T+WD  GQ++ 
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEIVTTIPTIG--FNVE--TVEYKNISFTVWDVGGQDKI 57

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNKV 129
             L   Y++   G+I V D   RE         A+E EL     +       +LV  NK 
Sbjct: 58  RPLWRHYFQNTQGLIFVVDSNDRERVNE-----ARE-ELMRMLAEDELRDAVLLVFANK- 110

Query: 130 DRDSERAVTREE-----GMILAQEHKCLFLECSAKNTEDVKQ 166
            +D   A+   E     G+   +          A + + + +
Sbjct: 111 -QDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYE 151

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 74.2 bits (183), Expect = 8e-17
 Identities = 41/163 (25%), Positives = 69/163 (42%), Gaps = 22/163 (13%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K++++G    GK++IL     N V   SPTIG    ++   +     +  +WD  GQE 
Sbjct: 17  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIG--SNVE--EIVINNTRFLMWDIGGQES 72

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
             +  ++YY     +I+V D T RE  +       +E ELY            +L+  NK
Sbjct: 73  LRSSWNTYYTNTEFVIVVVDSTDRERISV-----TRE-ELYKMLAHEDLRKAGLLIFANK 126

Query: 129 VDRDSERAVTREE-----GMILAQEHKCLFLECSAKNTEDVKQ 166
             +D +  +T  E      +   ++H+     C A   E + Q
Sbjct: 127 --QDVKECMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQ 167

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 73.1 bits (180), Expect = 2e-16
 Identities = 39/157 (24%), Positives = 67/157 (42%), Gaps = 22/157 (14%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K++++G    GK++IL     N V   SPTIG    ++ + +     +  +WD  GQE 
Sbjct: 22  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIG--SNVEEIVI--NNTRFLMWDIGGQES 77

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
             +  ++YY     +I+V D T RE  +       +E ELY            +L+  NK
Sbjct: 78  LRSSWNTYYTNTEFVIVVVDSTDRERISV-----TRE-ELYKMLAHEDLRKAGLLIFANK 131

Query: 129 VDRDSERAVTREE-----GMILAQEHKCLFLECSAKN 160
             +D +  +T  E      +   ++H+     C A  
Sbjct: 132 --QDVKECMTVAEISQFLKLTSIKDHQWHIQACCALT 166

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 72.3 bits (178), Expect = 3e-16
 Identities = 37/159 (23%), Positives = 61/159 (38%), Gaps = 22/159 (13%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK+SIL  L    V    PT+G    ++ L      +   +WD  GQ  
Sbjct: 23  IRVLMLGLDNAGKTSILYRLHLGDVVTTVPTVG--VNLETLQYKN--ISFEVWDLGGQTG 78

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
                  Y+     +I V D T R+         AK  ELY+   +       +L+  NK
Sbjct: 79  VRPYWRCYFSDTDAVIYVVDSTDRDRMGV-----AKH-ELYALLDEDELRKSLLLIFANK 132

Query: 129 VDRDSERAVTREE-----GMILAQEHKCLFLECSAKNTE 162
             +D   A +  E     G+          ++ S+K  +
Sbjct: 133 --QDLPDAASEAEIAEQLGVSSIMNRTWTIVKSSSKTGD 169

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 71.5 bits (176), Expect = 6e-16
 Identities = 45/161 (27%), Positives = 72/161 (44%), Gaps = 18/161 (11%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK++IL  L    V    PTIG  F ++  T+  K LKL +WD  GQ  
Sbjct: 19  LRILILGLDGAGKTTILYRLQIGEVVTTKPTIG--FNVE--TLSYKNLKLNVWDLGGQTS 74

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
                  YY     +I V D T ++  +      A + EL+   Q+       +LV  NK
Sbjct: 75  IRPYWRCYYADTAAVIFVVDSTDKDRMST-----ASK-ELHLMLQEEELQDAALLVFANK 128

Query: 129 VDRD---SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ 166
            D+    S   V++E  ++  ++     +  SA   E + +
Sbjct: 129 QDQPGALSASEVSKELNLVELKDRSWSIVASSAIKGEGITE 169

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 71.5 bits (176), Expect = 6e-16
 Identities = 39/155 (25%), Positives = 61/155 (39%), Gaps = 18/155 (11%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +ILL+G    GK+++L  L S  +   +PT G  F IK +   G   KL +WD  GQ +
Sbjct: 17  VRILLLGLDNAGKTTLLKQLASEDISHITPTQG--FNIKSVQSQG--FKLNVWDIGGQRK 72

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNK 128
                 SY+     +I V D   R+ F         + EL    ++     V +L+  NK
Sbjct: 73  IRPYWRSYFENTDILIYVIDSADRKRFEE-----TGQ-ELTELLEEEKLSCVPVLIFANK 126

Query: 129 VDRD---SERAVTREEGMILAQEHKCLFLECSAKN 160
            D         +     +   ++       CSA  
Sbjct: 127 QDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALT 161

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 71.2 bits (174), Expect = 1e-15
 Identities = 33/159 (20%), Positives = 51/159 (32%), Gaps = 19/159 (11%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSI----LLSLISNSVHDPSPTIGVDFKIKLLTVG 57
             +          +ILL+G    GKSSI       +  N       T         ++  
Sbjct: 9   SGRENLYFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNK--IYKDDISNS 66

Query: 58  GKRLKLTIWDTAGQERFGTLTS---SYYRGAHGIILVYDVTRR--ETFTNLSSVWAKEVE 112
              +   IWD  GQ  F   T      +RG   +I V D      E  T L      +  
Sbjct: 67  SF-VNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHI-TVSKAY 124

Query: 113 LYSTNQDCVKILV-GNKVD--RDSERAVTREEGMILAQE 148
             + +   +   V  +KVD   D  +  T+ +    A +
Sbjct: 125 KVNPD---MNFEVFIHKVDGLSDDHKIETQRDIHQRAND 160

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 70.3 bits (173), Expect = 2e-15
 Identities = 36/169 (21%), Positives = 70/169 (41%), Gaps = 19/169 (11%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGK 59
             S +         ++ L+G    GK++ +  + S   ++   PT+G  F ++ +T G  
Sbjct: 10  HSSGLVPRGSKEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVG--FNMRKITKGN- 66

Query: 60  RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS---- 115
            + + +WD  GQ RF ++   Y RG   I+ + D   +E         +K  EL++    
Sbjct: 67  -VTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAADQEKIEA-----SKN-ELHNLLDK 119

Query: 116 -TNQDCVKILVGNKVDRD---SERAVTREEGMILAQEHKCLFLECSAKN 160
              Q    +++GNK D      E+ +  +  +   Q+ +      S K 
Sbjct: 120 PQLQGIPVLVLGNKRDLPGALDEKELIEKMNLSAIQDREICCYSISCKE 168

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 70.0 bits (172), Expect = 4e-15
 Identities = 35/132 (26%), Positives = 59/132 (44%), Gaps = 17/132 (12%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K++ +G    GK+++L  L  + +    PT+      + LT+ G  +  T +D  G  + 
Sbjct: 27  KLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLH--PTSEELTIAG--MTFTTFDLGGHIQA 82

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC----VKILV-GNKV 129
             +  +Y    +GI+ + D    E         +KE EL S   D     V IL+ GNK+
Sbjct: 83  RRVWKNYLPAINGIVFLVDCADHERLLE-----SKE-ELDSLMTDETIANVPILILGNKI 136

Query: 130 DRDSERAVTREE 141
           DR    A++ E 
Sbjct: 137 DR--PEAISEER 146

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 69.2 bits (170), Expect = 5e-15
 Identities = 39/166 (23%), Positives = 67/166 (40%), Gaps = 24/166 (14%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVH--DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
             +L +G    GK++I+  L  ++    +  PTIG  F I+        L  T++D +GQ
Sbjct: 22  VHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIG--FSIEKFKSSS--LSFTVFDMSGQ 77

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-------TNQDCVKIL 124
            R+  L   YY+    II V D + R          AKE EL +        ++    IL
Sbjct: 78  GRYRNLWEHYYKEGQAIIFVIDSSDRLRMVV-----AKE-ELDTLLNHPDIKHRRIP-IL 130

Query: 125 V-GNKVDRD---SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ 166
              NK+D     +   V++   +   ++         A   E +++
Sbjct: 131 FFANKMDLRDAVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQE 176

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 68.4 bits (168), Expect = 9e-15
 Identities = 33/135 (24%), Positives = 58/135 (42%), Gaps = 19/135 (14%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
             K+L +G    GK+++L  L ++ +    PT       + L +G   +K T +D  G  
Sbjct: 23  HGKLLFLGLDNAGKTTLLHMLKNDRLATLQPTWH--PTSEELAIGN--IKFTTFDLGGHI 78

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-----TNQDCVKILV-G 126
           +   L   Y+   +GI+ + D    E F       A+  EL +       +D    ++ G
Sbjct: 79  QARRLWKDYFPEVNGIVFLVDAADPERFDE-----ARV-ELDALFNIAELKDVP-FVILG 131

Query: 127 NKVDRDSERAVTREE 141
           NK+D  +  AV+  E
Sbjct: 132 NKIDAPN--AVSEAE 144

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 66.8 bits (163), Expect = 2e-13
 Identities = 44/165 (26%), Positives = 67/165 (40%), Gaps = 24/165 (14%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
                   +IL++G    GK++IL  L    +    PTIG  F ++  TV  K +  T+W
Sbjct: 159 GLFGKKEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIG--FNVE--TVEYKNISFTVW 214

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-----NQDCV 121
           D  GQ++   L   Y++   G+I V D   RE         A+E EL         +D V
Sbjct: 215 DVGGQDKIRPLWRHYFQNTQGLIFVVDSNDRERVNE-----ARE-ELMRMLAEDELRDAV 268

Query: 122 KILV-GNKVDRDSERAVTREE-----GMILAQEHKCLFLECSAKN 160
            +LV  NK  +D   A+   E     G+   +          A +
Sbjct: 269 -LLVFANK--QDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATS 310

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 62.1 bits (151), Expect = 4e-12
 Identities = 25/125 (20%), Positives = 43/125 (34%), Gaps = 16/125 (12%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR-LKLTIWDTAGQER 73
            +L +G    GK+ + + L++    D   +I       +  V   R   LT+ D  G E 
Sbjct: 9   AVLFVGLCDSGKTLLFVRLLTGQYRDTQTSIT--DSSAIYKVNNNRGNSLTLIDLPGHES 66

Query: 74  F-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS------TNQDCVKILV- 125
               L   +   A  ++ V D    +           E  LY         ++   +L+ 
Sbjct: 67  LRFQLLDRFKSSARAVVFVVDSAAFQREVKD----VAE-FLYQVLIDSMALKNSPSLLIA 121

Query: 126 GNKVD 130
            NK D
Sbjct: 122 CNKQD 126

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 59.4 bits (144), Expect = 3e-11
 Identities = 29/142 (20%), Positives = 50/142 (35%), Gaps = 24/142 (16%)

Query: 2   GSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRL 61
           GS +G     Y   I++ G    GK+S+L  L ++SV     +        L        
Sbjct: 1   GSHMGIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQE-----PLSAADYDGS 55

Query: 62  KLTIWDTAGQERFGTLTSSYY----RGAHGIILVYD-VTRRETFTNLSSVWAKEVELYS- 115
            +T+ D  G  +     S Y     +   G+I + D     +  T        E  L   
Sbjct: 56  GVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTT-----TAE-FLVDI 109

Query: 116 ------TNQDCVKILV-GNKVD 130
                 + ++ + IL+  NK +
Sbjct: 110 LSITESSCENGIDILIACNKSE 131

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 331

 Score = 59.3 bits (143), Expect = 8e-11
 Identities = 31/184 (16%), Positives = 63/184 (34%), Gaps = 19/184 (10%)

Query: 16  ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG 75
           +LL+G    GKSSI   +  N     +  +       L       + L + +  GQ  + 
Sbjct: 2   VLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEHFSTL-IDLAVMELPGQLNYF 60

Query: 76  TLT---SSYYRGAHGIILVYDVTR--RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
             +      ++    ++ V D         TNL+ +       Y  N      ++ +KVD
Sbjct: 61  EPSYDSERLFKSVGALVYVIDSQDEYINAITNLAMIIE---YAYKVNPSINIEVLIHKVD 117

Query: 131 --RDSERAVTREEGMILAQE------HKCLFLECSAKNTED--VKQCFKDLLYKILEVPS 180
              +  +   + + M    E         + +     +  D  + + F  ++ K++   S
Sbjct: 118 GLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFDHSIYEAFSRIVQKLIPELS 177

Query: 181 LLEQ 184
            LE 
Sbjct: 178 FLEN 181

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 56.7 bits (137), Expect = 3e-10
 Identities = 29/143 (20%), Positives = 50/143 (34%), Gaps = 25/143 (17%)

Query: 1   MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR 60
           +G   G     Y   I++ G    GK+S+L  L ++SV     +        L       
Sbjct: 37  LGGGSGGGG-SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQE-----PLSAADYDG 90

Query: 61  LKLTIWDTAGQERFGTLTSSYYR----GAHGIILVYD-VTRRETFTNLSSVWAKEVELY- 114
             +T+ D  G  +     S Y +       G+I + D     +  T        E  L  
Sbjct: 91  SGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTT-----TAE-FLVD 144

Query: 115 ------STNQDCVKILV-GNKVD 130
                 S+ ++ + IL+  NK +
Sbjct: 145 ILSITESSCENGIDILIACNKSE 167

>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis, programmed cell death; HET: DTP; 6.90A {Drosophila melanogaster} PDB: 3iz8_A* Length = 1221

 Score = 51.0 bits (121), Expect = 8e-08
 Identities = 36/199 (18%), Positives = 65/199 (32%), Gaps = 39/199 (19%)

Query: 16  ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKR-----LKL--TIWDT 68
           +L+ G  G GK+     +  +          +DFKI  L +         L++   +   
Sbjct: 153 VLIDGVLGSGKT----WVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQ 208

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRR----ETFTN----LSSVWAKEVELYSTNQDC 120
                + + +         I  +    RR    + + N    L +V   +    + N  C
Sbjct: 209 IDPN-WTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQNAKA-WNAFNLSC 266

Query: 121 VKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN-TEDVKQCFKDLLYKILEV- 178
            KIL+     R   + VT     + A     + L+  +   T D     K LL K L+  
Sbjct: 267 -KILL---TTRF--KQVTD---FLSAATTTHISLDHHSMTLTPDEV---KSLLLKYLDCR 314

Query: 179 ----PSLLEQGSAVVKNQI 193
               P  +   +    + I
Sbjct: 315 PQDLPREVLTTNPRRLSII 333

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens} Length = 427

 Score = 45.1 bits (106), Expect = 6e-06
 Identities = 19/63 (30%), Positives = 30/63 (47%), Gaps = 5/63 (7%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPS-----PTIGVDFKIKLLTVGGKRLKLTIWD 67
            F IL +G++G+GKS+++ +L +            P + +      L     RLKLTI  
Sbjct: 42  CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVS 101

Query: 68  TAG 70
           T G
Sbjct: 102 TVG 104

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A* Length = 301

 Score = 42.1 bits (98), Expect = 6e-05
 Identities = 17/70 (24%), Positives = 35/70 (50%), Gaps = 10/70 (14%)

Query: 14 FKILLIGDSGVGKSSILLSLISNSVHDPS----------PTIGVDFKIKLLTVGGKRLKL 63
          F ++++G+SG+GKS+++ SL    ++              T+ ++     +   G +L+L
Sbjct: 19 FTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRL 78

Query: 64 TIWDTAGQER 73
          T+ DT G   
Sbjct: 79 TVVDTPGYGD 88

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A* Length = 274

 Score = 41.7 bits (97), Expect = 7e-05
 Identities = 22/68 (32%), Positives = 38/68 (55%), Gaps = 9/68 (13%)

Query: 12 YSFKILLIGDSGVGKSSILLSLISNSVHDP---------SPTIGVDFKIKLLTVGGKRLK 62
          + F ++++G+SG+GKS+++ SL    ++ P           T+ V+    L+  GG +L 
Sbjct: 7  FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLL 66

Query: 63 LTIWDTAG 70
          LTI DT G
Sbjct: 67 LTIVDTPG 74

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A* Length = 413

 Score = 40.8 bits (95), Expect = 2e-04
 Identities = 23/139 (16%), Positives = 41/139 (29%), Gaps = 16/139 (11%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIW 66
                + + G++G GKSS + +L      +     +  + V  +            +  W
Sbjct: 67  SSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP-NVVFW 125

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSS--VWAKEVELYSTNQDCVK-- 122
           D  G         +Y          YD      F  +S+      ++++        K  
Sbjct: 126 DLPGIGSTNFPPDTYLEKMK--FYEYDF-----FIIISATRFKKNDIDIAKAISMMKKEF 178

Query: 123 ILVGNKVDRDSERAVTREE 141
             V  KVD D       E 
Sbjct: 179 YFVRTKVDSDITNEADGEP 197

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens} Length = 418

 Score = 40.6 bits (94), Expect = 2e-04
 Identities = 22/66 (33%), Positives = 37/66 (56%), Gaps = 9/66 (13%)

Query: 14 FKILLIGDSGVGKSSILLSLISNSVHDP---------SPTIGVDFKIKLLTVGGKRLKLT 64
          F ++++G+SG+GKS+++ SL    ++ P           T+ V+    L+  GG +L LT
Sbjct: 32 FTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLT 91

Query: 65 IWDTAG 70
          I DT G
Sbjct: 92 IVDTPG 97

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens} Length = 239

 Score = 38.4 bits (89), Expect = 8e-04
 Identities = 34/221 (15%), Positives = 74/221 (33%), Gaps = 41/221 (18%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSV---HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
             +I+L+G +G GKS+   S++   V      + +I    + +  +      +L + DT 
Sbjct: 29  QLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKET--ELVVVDTP 86

Query: 70  G-----------QERFGTLTSSYYRGAHGIILVYDVTR-----RETFTNLSSVWAKEVEL 113
           G            +           G H ++LV  + R      +    +  ++ +    
Sbjct: 87  GIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPLGRYTEEEHKATEKILKMFGERARS 146

Query: 114 YSTNQDCVKILVGNKVDRDSERAVTREE--------GMILAQEHKCLFLECSAKNTEDVK 165
           +        IL+  + D   +  +             ++     +   L   A   E   
Sbjct: 147 FM-------ILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKATGAEQEA 199

Query: 166 QCFKDLLYKILEVPSLLEQGSAVVKNQILK--QKEVQESAR 204
           Q    LL  I  V  + E       N++ +  ++E+Q+  +
Sbjct: 200 Q-RAQLLGLIQRV--VRENKEGCYTNRMYQRAEEEIQKQTQ 237

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	210
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	100.0
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	100.0
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	100.0
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	100.0
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	100.0
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	100.0
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	100.0
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	100.0
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	100.0
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	100.0
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	100.0
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	100.0
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	100.0
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.98
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.97
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.97
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.97
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.97
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.97
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.97
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.97
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.97
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.97
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.97
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.97
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.97
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.97
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.97
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.93
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.96
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.96
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.96
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.95
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.95
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.95
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.95
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.95
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.94
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.94
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.94
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.94
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.94
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.94
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.93
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.93
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.93
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.93
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.92
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.92
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.92
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.92
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.91
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.91
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.91
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.9
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.9
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.9
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.9
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.89
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.89
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.89
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.89
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.89
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.88
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.88
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.88
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.88
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.87
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.87
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.87
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.87
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.86
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.86
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.86
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.86
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.86
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.86
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.86
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.86
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.86
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.85
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.85
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.85
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.85
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.85
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.85
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.84
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.84
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.84
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.83
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.83
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.82
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.82
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.82
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.82
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.81
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.81
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.81
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.81
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.81
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.8
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.79
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.78
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.77
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.77
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.77
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.75
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.75
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.75
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.73
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.72
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.72
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.71
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.68
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.67
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.66
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.66
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.64
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.63
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.63
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.59
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.59
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.58
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.57
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.56
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.56
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.54
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.49
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.44
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.43
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.33
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.28
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.25
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.2
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	99.08
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.02
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.98
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.93
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.92
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.92
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.89
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.82
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.74
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.73
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.72
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.6
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.4
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.35
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.33
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.31
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.3
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.17
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	98.01
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.0
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.87
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.83
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.74
2xxa_A	433	Signal recognition particle protein; protein trans	97.57
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.34
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.28
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.22
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.19
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.17
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.13
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.07
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.06
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.06
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.99
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.98
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.96
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.96
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.94
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.94
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.92
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.89
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.84
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.81
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.81
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.81
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.8
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.79
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.78
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.77
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	96.77
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	96.77
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.76
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.76
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.74
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.72
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.72
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.72
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.7
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.69
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.68
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.68
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	96.67
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.66
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.66
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	96.64
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.64
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.64
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.63
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	96.62
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.61
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.61
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.61
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.61
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.6
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.6
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.6
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.6
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.6
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	96.58
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.58
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.58
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.57
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.57
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	96.57
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.56
1g6h_A	257	High-affinity branched-chain amino acid transport	96.55
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.55
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.55
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.54
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.53
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.53
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.53
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.52
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.52
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.51
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.51
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.51
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.5
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.49
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.49
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.49
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.49
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.49
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.49
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.48
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.48
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.48
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.47
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.46
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.45
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	96.44
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.44
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	96.43
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.42
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.41
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.41
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.39
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.39
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.39
1via_A	175	Shikimate kinase; structural genomics, transferase	96.38
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.38
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.36
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	96.35
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	96.35
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.35
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.34
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.34
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.32
3co5_A	143	Putative two-component system transcriptional RES	96.3
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.3
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.3
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.3
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.3
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	96.3
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.29
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	96.29
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.28
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.28
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	96.27
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	96.26
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.24
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	96.23
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	96.23
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.22
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	96.22
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.21
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.21
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	96.21
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	96.2
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	96.2
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.19
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.18
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.18
2ewv_A	372	Twitching motility protein PILT; pilus retraction	96.16
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	96.16
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.16
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.16
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.15
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	96.15
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.14
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	96.13
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.12
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	96.11
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	96.11
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.11
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	96.1
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	96.1
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	96.1
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.09
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.09
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.09
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.08
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.07
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.06
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.05
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	96.05
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	96.05
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	96.05
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.03
3bos_A	242	Putative DNA replication factor; P-loop containing	96.02
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.02
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.01
1p9r_A	418	General secretion pathway protein E; bacterial typ	96.01
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.98
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.98
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.96
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.96
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	95.94
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.92
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.9
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.88
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	95.88
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.87
2og2_A	359	Putative signal recognition particle receptor; nuc	95.87
3uc9_A	233	Increased recombination centers protein 6; rossman	95.85
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	95.8
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	95.8
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.79
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.79
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.79
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	95.77
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	95.76
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	95.75
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.74
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.73
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	95.71
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.71
1tue_A	212	Replication protein E1; helicase, replication, E1E	95.69
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	95.66
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	95.65
2chg_A	226	Replication factor C small subunit; DNA-binding pr	95.65
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	95.63
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	95.63
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	95.61
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	95.6
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	95.55
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	95.55
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	95.51
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	95.46
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	95.44
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	95.39
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	95.37
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	95.33
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	95.31
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	95.31
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.28
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	95.28
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	95.26
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	95.25
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	95.24
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.23
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.22
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	95.22
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	95.21
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	95.2
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	95.2
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	95.16
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	95.14
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	95.13
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	95.12
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	95.09
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	95.08
2qgz_A	308	Helicase loader, putative primosome component; str	95.05
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.03
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	95.01
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	95.0
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.98
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	94.97
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	94.96
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	94.94
3ld9_A	223	DTMP kinase, thymidylate kinase; ssgcid, NIH, niai	94.93
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	94.9
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	94.88
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	94.88
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	94.87
2ga8_A	359	Hypothetical 39.9 kDa protein; YFR007W, YFH7, unkn	94.87
2bjv_A	265	PSP operon transcriptional activator; AAA, transcr	94.87
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.86
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.84
2ocp_A	241	DGK, deoxyguanosine kinase; protein-nucleotide com	94.84
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	94.83
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.82
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.82
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	94.82
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	94.82
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	94.82
3exa_A	322	TRNA delta(2)-isopentenylpyrophosphate transferase	94.82
3pxg_A	468	Negative regulator of genetic competence CLPC/MEC;	94.81
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.81
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	94.8
1p5z_B	263	DCK, deoxycytidine kinase; nucleoside kinase, P-lo	94.79
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	94.78
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	94.75
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.71
3tqf_A	181	HPR(Ser) kinase; transferase, hydrolase; 2.80A {Co	94.68
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	94.68
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	94.67
1c9k_A	180	COBU, adenosylcobinamide kinase; alpha/beta struct	94.67
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	94.66
2qby_B	384	CDC6 homolog 3, cell division control protein 6 ho	94.64
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	94.63
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	94.62
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	94.61
1um8_A	376	ATP-dependent CLP protease ATP-binding subunit CL;	94.58
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.55
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	94.54
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	94.52
3m6a_A	543	ATP-dependent protease LA 1; alpha, beta, ATP-bind	94.51

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.2e-43  Score=264.14  Aligned_cols=207  Identities=30%  Similarity=0.518  Sum_probs=143.1

Q ss_pred             CCCCCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchh
Q 028315            1 MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTS   79 (210)
Q Consensus         1 ~~~~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   79 (210)
                      |++......+.+++||+|+|++|||||||+++|..+.|.. +.||.+.++......+++..+.+++|||+|++.|..++.
T Consensus         1 ms~~~~~~~P~k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~   80 (216)
T 4dkx_A            1 MSTGGDFGNPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIP   80 (216)
T ss_dssp             ------------CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHH
T ss_pred             CCCCCCCCCCCCcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHH
Confidence            5555555555678999999999999999999999999877 789999999998889999999999999999999999999


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .+++.++++++|||++++.+|+.+. .|...+.... ..+.|++||+||+|+.+.+.++.++++.++..++++|++|||+
T Consensus        81 ~~~~~a~~~ilv~di~~~~Sf~~i~-~~~~~i~~~~-~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAk  158 (216)
T 4dkx_A           81 SYIRDSAAAVVVYDITNVNSFQQTT-KWIDDVRTER-GSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAK  158 (216)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHH-HHHHHHHHHH-TTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTT
T ss_pred             HHhccccEEEEEeecchhHHHHHHH-HHHHHHHHhc-CCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCC
Confidence            9999999999999999999999999 5666665554 4679999999999999889999999999999999999999999


Q ss_pred             CCcCHHHHHHHHHHHHHccchhhhcccccccccccchhhhhhhcCCCCCCC
Q 028315          160 NTEDVKQCFKDLLYKILEVPSLLEQGSAVVKNQILKQKEVQESARGGNCCS  210 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~c~~  210 (210)
                      +|.||+++|.+|++.+............... .+......+++.++++|||
T Consensus       159 tg~nV~e~F~~i~~~i~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~C~C  208 (216)
T 4dkx_A          159 AGYNVKQLFRRVAAALPGMESTQDRSREDMI-DIKLEKPQEQPVSEGGCSC  208 (216)
T ss_dssp             TTBSHHHHHHHHHHHC-----------------------------------
T ss_pred             CCcCHHHHHHHHHHHHHhhhccccccccccc-ccccCCCCCCCCCCCCCce
Confidence            9999999999999988755443332221111 1222223344455667776

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=6.6e-37  Score=226.42  Aligned_cols=172  Identities=48%  Similarity=0.800  Sum_probs=154.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~v   84 (206)
T 2bcg_Y            5 YDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGI   84 (206)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEE
Confidence            4788999999999999999999999998876 778888888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|
T Consensus        85 ilv~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  162 (206)
T 2bcg_Y           85 IIVYDVTDQESFNGVK-MWLQEIDRYA-TSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAF  162 (206)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999988 6777776554 4678999999999998877888888889998999999999999999999999


Q ss_pred             HHHHHHHHccchhhh
Q 028315          169 KDLLYKILEVPSLLE  183 (210)
Q Consensus       169 ~~i~~~~~~~~~~~~  183 (210)
                      ++|.+.+.+......
T Consensus       163 ~~l~~~i~~~~~~~~  177 (206)
T 2bcg_Y          163 LTMARQIKESMSQQN  177 (206)
T ss_dssp             HHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHHhhcc
Confidence            999999887655443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=8.3e-36  Score=223.26  Aligned_cols=176  Identities=43%  Similarity=0.704  Sum_probs=145.1

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      ....++.+||+|+|++|||||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+
T Consensus         7 ~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~   86 (223)
T 3cpj_B            7 GYDYDLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGA   86 (223)
T ss_dssp             ---CCEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTC
T ss_pred             CCCCCeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccC
Confidence            3445788999999999999999999999998876 678888888888888888889999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++|+|||++++.+++.+. .|+..+.... ..+.|++||+||+|+...+.+..+++..++...+++++++||++|.|++
T Consensus        87 d~vilV~D~~~~~s~~~~~-~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  164 (223)
T 3cpj_B           87 VGALIVYDISKSSSYENCN-HWLSELRENA-DDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVD  164 (223)
T ss_dssp             CEEEEEEC-CCHHHHHHHH-HHHHHHHHHC-C--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHH
T ss_pred             CEEEEEEeCCCHHHHHHHH-HHHHHHHHhC-CCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999988 6777776554 4578999999999998777788888889999999999999999999999


Q ss_pred             HHHHHHHHHHHccchhhhc
Q 028315          166 QCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~~~~  184 (210)
                      ++|++|.+.+.+.......
T Consensus       165 ~l~~~l~~~i~~~~~~~~~  183 (223)
T 3cpj_B          165 KAFEELINTIYQKVSKHQM  183 (223)
T ss_dssp             HHHHHHHHHHTTCC-----
T ss_pred             HHHHHHHHHHHHHhhhccc
Confidence            9999999999877665443

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=2.1e-35  Score=217.98  Aligned_cols=168  Identities=27%  Similarity=0.482  Sum_probs=147.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|||||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        11 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   89 (206)
T 2bov_A           11 SLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGF   89 (206)
T ss_dssp             CCCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEE
Confidence            3568999999999999999999999988766 556665544 45567788889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|||++++.++..+. .|...+.......+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|
T Consensus        90 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  168 (206)
T 2bov_A           90 LCVFSITEMESFAATA-DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVF  168 (206)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999988 677777666545689999999999998877888888999999899999999999999999999


Q ss_pred             HHHHHHHHccc
Q 028315          169 KDLLYKILEVP  179 (210)
Q Consensus       169 ~~i~~~~~~~~  179 (210)
                      ++|.+.+.+..
T Consensus       169 ~~l~~~i~~~~  179 (206)
T 2bov_A          169 FDLMREIRARK  179 (206)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHcc
Confidence            99999988653

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=1.5e-35  Score=219.02  Aligned_cols=171  Identities=32%  Similarity=0.582  Sum_probs=146.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCC   84 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEE
Confidence            4578999999999999999999999988766 778888888888888888889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccC---CCCcEEEEEeCCCCCCCCccCHHHHHHHHH-HcCCeEEEecccCCcCH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTN---QDCVKILVGNKVDRDSERAVTREEGMILAQ-EHKCLFLECSAKNTEDV  164 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~---~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i  164 (210)
                      |+|+|++++.+++.+. .|...+......   .+.|+++|+||+|+. .+.+..++...+.. ..+++++++||++|.|+
T Consensus        85 i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  162 (207)
T 1vg8_A           85 VLVFDVTAPNTFKTLD-SWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINV  162 (207)
T ss_dssp             EEEEETTCHHHHHTHH-HHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCH
Confidence            9999999999999887 676666544321   468999999999997 45567777777776 66789999999999999


Q ss_pred             HHHHHHHHHHHHccchhh
Q 028315          165 KQCFKDLLYKILEVPSLL  182 (210)
Q Consensus       165 ~~l~~~i~~~~~~~~~~~  182 (210)
                      +++|++|.+.+.+.+...
T Consensus       163 ~~l~~~l~~~~~~~~~~~  180 (207)
T 1vg8_A          163 EQAFQTIARNALKQETEV  180 (207)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhcccc
Confidence            999999999998766533

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=1.5e-34  Score=209.82  Aligned_cols=171  Identities=30%  Similarity=0.476  Sum_probs=149.0

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      ..+....+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ .....+++..+.+.+|||||++.+...+..+++
T Consensus        10 ~~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~   88 (183)
T 3kkq_A           10 AVPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMR   88 (183)
T ss_dssp             ----CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHH
T ss_pred             cCCccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHh
Confidence            344455689999999999999999999999988776 666666666 666788899999999999999999999999999


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc-CCc
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK-NTE  162 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~-~~~  162 (210)
                      .+|++++|||++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..+++..++..++++++++||+ +|.
T Consensus        89 ~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~  167 (183)
T 3kkq_A           89 TGDGFLIVYSVTDKASFEHVD-RFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPL  167 (183)
T ss_dssp             HCSEEEEEEETTCHHHHHTHH-HHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCB
T ss_pred             cCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCC
Confidence            999999999999999999998 676666555446789999999999998888899999999999999999999999 999


Q ss_pred             CHHHHHHHHHHHHHc
Q 028315          163 DVKQCFKDLLYKILE  177 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~  177 (210)
                      |++++|++|.+.+.+
T Consensus       168 ~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          168 NVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             SHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHhh
Confidence            999999999998864

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=7.9e-35  Score=210.12  Aligned_cols=175  Identities=45%  Similarity=0.771  Sum_probs=150.2

Q ss_pred             CCCCCCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchh
Q 028315            1 MGSKVGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTS   79 (210)
Q Consensus         1 ~~~~~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   79 (210)
                      |+++......++.+||+++|.+|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+.
T Consensus         3 ~~s~~~~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~   82 (179)
T 1z0f_A            3 LGSATAPYNYSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTR   82 (179)
T ss_dssp             --------CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHH
T ss_pred             CCCCCCccccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHH
Confidence            3455556667889999999999999999999999988766 678888888888888898899999999999999999999


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .+++.+|++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||+
T Consensus        83 ~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  160 (179)
T 1z0f_A           83 SYYRGAAGALMVYDITRRSTYNHLS-SWLTDARNLT-NPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAK  160 (179)
T ss_dssp             HHHHTCSEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTT
T ss_pred             HHhccCCEEEEEEeCcCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCC
Confidence            9999999999999999999999888 6777666554 4678999999999998777788888999999999999999999


Q ss_pred             CCcCHHHHHHHHHHHHHc
Q 028315          160 NTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~  177 (210)
                      +|.|++++|++|.+.+.+
T Consensus       161 ~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          161 TGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             TCTTHHHHHHHHHHHHC-
T ss_pred             CCCCHHHHHHHHHHHHhh
Confidence            999999999999988754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=4.4e-34  Score=209.38  Aligned_cols=171  Identities=49%  Similarity=0.803  Sum_probs=154.1

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        12 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   91 (196)
T 3tkl_A           12 EYDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHG   91 (196)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSE
T ss_pred             ccccceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCE
Confidence            34678999999999999999999999988776 77888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++
T Consensus        92 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l  169 (196)
T 3tkl_A           92 IIVVYDVTDQESFNNVK-QWLQEIDRYA-SENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQS  169 (196)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHH
Confidence            99999999999999998 6777776655 467899999999999888888888999999999999999999999999999


Q ss_pred             HHHHHHHHHccchh
Q 028315          168 FKDLLYKILEVPSL  181 (210)
Q Consensus       168 ~~~i~~~~~~~~~~  181 (210)
                      |++|.+.+.+....
T Consensus       170 ~~~l~~~i~~~~~~  183 (196)
T 3tkl_A          170 FMTMAAEIKKRMGP  183 (196)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999998866543

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=4.6e-34  Score=209.03  Aligned_cols=176  Identities=52%  Similarity=0.893  Sum_probs=154.7

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ....+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|
T Consensus        10 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   89 (195)
T 1x3s_A           10 EDVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQ   89 (195)
T ss_dssp             TTEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCC
T ss_pred             cCCCCceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCC
Confidence            344678999999999999999999999998776 7788888888888889999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++++|+|++++.++..+. .|+..+.......+.|+++|+||+|+. .+.+..+++..++...+++++++||++|.|+++
T Consensus        90 ~ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  167 (195)
T 1x3s_A           90 GVILVYDVTRRDTFVKLD-NWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQC  167 (195)
T ss_dssp             EEEEEEETTCHHHHHTHH-HHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHH
T ss_pred             EEEEEEECcCHHHHHHHH-HHHHHHHHhcCcCCCcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHH
Confidence            999999999999999988 777777655434678999999999994 456777888889999999999999999999999


Q ss_pred             HHHHHHHHHHccchhhhcc
Q 028315          167 CFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       167 l~~~i~~~~~~~~~~~~~~  185 (210)
                      +|++|.+.+.+.+..++..
T Consensus       168 l~~~l~~~~~~~~~~~~~~  186 (195)
T 1x3s_A          168 AFEELVEKIIQTPGLWESE  186 (195)
T ss_dssp             HHHHHHHHHHTSGGGTCC-
T ss_pred             HHHHHHHHHHhhhhhhccc
Confidence            9999999999876655543

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=3.5e-34  Score=209.47  Aligned_cols=172  Identities=44%  Similarity=0.741  Sum_probs=150.0

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      .......+.+||+++|++|+|||||+++|.+..+.. ..++.+.++....+.+++..+.+.+|||||++.+...+..+++
T Consensus        13 ~~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   92 (191)
T 2a5j_A           13 GLVPRGSYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYR   92 (191)
T ss_dssp             CCCCTTCEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHT
T ss_pred             ccccccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhc
Confidence            344555789999999999999999999999988876 6677787888778888988999999999999999999999999


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|
T Consensus        93 ~~d~ii~v~d~~~~~s~~~~~-~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~g  170 (191)
T 2a5j_A           93 GAAGALLVYDITRRETFNHLT-SWLEDARQHS-SSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACN  170 (191)
T ss_dssp             TCSEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTT
T ss_pred             cCCEEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCC
Confidence            999999999999999999988 6777776554 46789999999999987778888889999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcc
Q 028315          164 VKQCFKDLLYKILEV  178 (210)
Q Consensus       164 i~~l~~~i~~~~~~~  178 (210)
                      ++++|++|.+.+.+.
T Consensus       171 i~~l~~~l~~~i~~~  185 (191)
T 2a5j_A          171 VEEAFINTAKEIYRK  185 (191)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999988754

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=4e-34  Score=207.15  Aligned_cols=169  Identities=33%  Similarity=0.481  Sum_probs=147.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|++|+|||||+++|.++.+.. +.++.+.++ .....+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         4 ~~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i   82 (181)
T 3t5g_A            4 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   82 (181)
T ss_dssp             EEEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEE
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEE
Confidence            578999999999999999999999888766 677777776 666788899999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+++.+. .|...+.......+.|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++|+
T Consensus        83 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  161 (181)
T 3t5g_A           83 LVYSVTSIKSFEVIK-VIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  161 (181)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHH
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHH
Confidence            999999999999998 5766665554456899999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHHHccchh
Q 028315          170 DLLYKILEVPSL  181 (210)
Q Consensus       170 ~i~~~~~~~~~~  181 (210)
                      +|.+.+......
T Consensus       162 ~l~~~~~~~~~~  173 (181)
T 3t5g_A          162 RIILEAEKMDGA  173 (181)
T ss_dssp             HHHHHHHTC---
T ss_pred             HHHHHHHHhcCC
Confidence            999999876543

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=6.2e-34  Score=207.74  Aligned_cols=172  Identities=45%  Similarity=0.730  Sum_probs=152.8

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      ......++.+||+++|.+|+|||||+++|.+..+.. +.++.+.++....+...+..+.+.+|||||++.+...+..+++
T Consensus        14 ~~~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   93 (189)
T 2gf9_A           14 LVPRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYR   93 (189)
T ss_dssp             CCCTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGT
T ss_pred             CCCcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhcc
Confidence            344455789999999999999999999999998866 6788888888888888888999999999999999999999999


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++..++++++++||++|.|
T Consensus        94 ~~d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  171 (189)
T 2gf9_A           94 GAMGFLLMYDIANQESFAAVQ-DWATQIKTYS-WDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENIN  171 (189)
T ss_dssp             TCSEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBS
T ss_pred             CCCEEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCC
Confidence            999999999999999999888 6777776554 46789999999999987777888888999999999999999999999


Q ss_pred             HHHHHHHHHHHHHcc
Q 028315          164 VKQCFKDLLYKILEV  178 (210)
Q Consensus       164 i~~l~~~i~~~~~~~  178 (210)
                      ++++|++|.+.+.+.
T Consensus       172 i~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          172 VKQVFERLVDVICEK  186 (189)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHH
Confidence            999999999988753

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=3.2e-34  Score=207.45  Aligned_cols=171  Identities=37%  Similarity=0.621  Sum_probs=148.3

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRG   84 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (210)
                      ......+.+||+++|++|+|||||+++|.+..+.. ..++.+.++....+.+++..+.+.+|||||++.+...+..+++.
T Consensus         5 ~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   84 (181)
T 2efe_B            5 AAGNKSINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRG   84 (181)
T ss_dssp             -----CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTT
T ss_pred             CCCCCccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhcc
Confidence            34455788999999999999999999999988777 66788888888888888889999999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|+
T Consensus        85 ~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  162 (181)
T 2efe_B           85 AAAAIIVFDVTNQASFERAK-KWVQELQAQG-NPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNV  162 (181)
T ss_dssp             CSEEEEEEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTH
T ss_pred             CCEEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCH
Confidence            99999999999999999888 6777666554 468899999999999877788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHHcc
Q 028315          165 KQCFKDLLYKILEV  178 (210)
Q Consensus       165 ~~l~~~i~~~~~~~  178 (210)
                      +++|++|.+.+.+.
T Consensus       163 ~~l~~~l~~~~~~~  176 (181)
T 2efe_B          163 KEIFYEIARRLPRV  176 (181)
T ss_dssp             HHHHHHHHHTCC--
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999877543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=3.4e-34  Score=207.13  Aligned_cols=171  Identities=45%  Similarity=0.742  Sum_probs=151.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~   84 (181)
T 3tw8_B            5 DYDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHG   84 (181)
T ss_dssp             -CCEEEEEEEECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSE
T ss_pred             ccCcceEEEEECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCE
Confidence            34688999999999999999999999888766 77888888888888889999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.++..+. .|+..+....  .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        85 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  161 (181)
T 3tw8_B           85 VIVVYDVTSAESFVNVK-RWLHEINQNC--DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEM  161 (181)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHC--TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHH
Confidence            99999999999999988 6777776544  57899999999999888888888899999999999999999999999999


Q ss_pred             HHHHHHHHHccchhh
Q 028315          168 FKDLLYKILEVPSLL  182 (210)
Q Consensus       168 ~~~i~~~~~~~~~~~  182 (210)
                      |++|.+.+.+.+...
T Consensus       162 ~~~l~~~~~~~~~~~  176 (181)
T 3tw8_B          162 FNCITELVLRAKKDN  176 (181)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhh
Confidence            999999988665533

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2.2e-34  Score=212.30  Aligned_cols=170  Identities=40%  Similarity=0.759  Sum_probs=151.8

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      +...++.+||+++|++|||||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+
T Consensus        20 ~~~~~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   99 (201)
T 2ew1_A           20 MEDYDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSA   99 (201)
T ss_dssp             --CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTC
T ss_pred             ccccccceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcC
Confidence            3445788999999999999999999999998876 778888888888888899999999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++
T Consensus       100 d~~i~v~D~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~  177 (201)
T 2ew1_A          100 NALILTYDITCEESFRCLP-EWLREIEQYA-SNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVE  177 (201)
T ss_dssp             SEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHH
T ss_pred             CEEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999988 7777776654 4678999999999998777888888888888889999999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ++|++|.+.+.+.
T Consensus       178 ~l~~~l~~~i~~~  190 (201)
T 2ew1_A          178 KLFLDLACRLISE  190 (201)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998754

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=100.00  E-value=5.1e-34  Score=207.66  Aligned_cols=169  Identities=30%  Similarity=0.501  Sum_probs=143.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ..++||+++|++|||||||+++|.+..+.. +.++. .+.......+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         2 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i   80 (189)
T 4dsu_A            2 STEYKLVVVGADGVGKSALTIQLIQNHFVDEYDPTI-EDSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFL   80 (189)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCTTC-CEEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCc-hheEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEE
Confidence            367999999999999999999999988766 44444 4555566778899999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+++.+. .|...+.......+.|+++|+||+|+. .+.+..++...++..++++++++||++|.|++++|+
T Consensus        81 ~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~  158 (189)
T 4dsu_A           81 CVFAINNTKSFEDIH-HYREQIKRVKDSEDVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFY  158 (189)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHHHTTCSCCCEEEEEECTTSS-SCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHH
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEECccCc-ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999988 676666665546789999999999997 456777888899999999999999999999999999


Q ss_pred             HHHHHHHccchhh
Q 028315          170 DLLYKILEVPSLL  182 (210)
Q Consensus       170 ~i~~~~~~~~~~~  182 (210)
                      +|.+.+.......
T Consensus       159 ~l~~~~~~~~~~~  171 (189)
T 4dsu_A          159 TLVREIRKHKEKM  171 (189)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhhhc
Confidence            9999998666544

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=2.3e-34  Score=207.03  Aligned_cols=167  Identities=28%  Similarity=0.386  Sum_probs=135.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc--cccchhhhhccccEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER--FGTLTSSYYRGAHGI   88 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--~~~~~~~~~~~~d~~   88 (210)
                      .+.+||+++|++|||||||+++|.+..+....++++.++....+.+++..+.+.+|||||++.  +..+...+++.+|++
T Consensus         2 ~~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~   81 (175)
T 2nzj_A            2 MALYRVVLLGDPGVGKTSLASLFAGKQERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAY   81 (175)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHCC-----CCCSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEE
T ss_pred             ceEEEEEEECCCCccHHHHHHHHhcCCCccccCccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEE
Confidence            357999999999999999999999988877777788887777888899999999999999887  566677788999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|||++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus        82 i~v~d~~~~~s~~~~~-~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (175)
T 2nzj_A           82 VIVYSIADRGSFESAS-ELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELF  160 (175)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHH
Confidence            9999999999999988 666666554334578999999999998878888888888888889999999999999999999


Q ss_pred             HHHHHHHHcc
Q 028315          169 KDLLYKILEV  178 (210)
Q Consensus       169 ~~i~~~~~~~  178 (210)
                      ++|.+.+...
T Consensus       161 ~~l~~~~~~~  170 (175)
T 2nzj_A          161 EGVVRQLRLR  170 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999988653

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=3.6e-34  Score=211.14  Aligned_cols=170  Identities=40%  Similarity=0.727  Sum_probs=143.9

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ...++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|
T Consensus        24 ~~~~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  103 (201)
T 2hup_A           24 EQYDFLFKLVLVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSAN  103 (201)
T ss_dssp             --CCEEEEEEEEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCS
T ss_pred             cccccceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCC
Confidence            334678999999999999999999999988766 6778777787778888888899999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDVK  165 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i~  165 (210)
                      ++|+|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...++ +++++||++|.|++
T Consensus       104 ~iilv~D~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~  181 (201)
T 2hup_A          104 GAILAYDITKRSSFLSVP-HWIEDVRKYA-GSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVE  181 (201)
T ss_dssp             EEEEEEETTBHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHH
T ss_pred             EEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHH
Confidence            999999999999999988 6777776554 46789999999999987778888889999999999 99999999999999


Q ss_pred             HHHHHHHHHHHccc
Q 028315          166 QCFKDLLYKILEVP  179 (210)
Q Consensus       166 ~l~~~i~~~~~~~~  179 (210)
                      ++|++|.+.+.+..
T Consensus       182 ~l~~~l~~~i~~~~  195 (201)
T 2hup_A          182 EAFLRVATELIMRH  195 (201)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999987543

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.1e-33  Score=204.39  Aligned_cols=170  Identities=42%  Similarity=0.750  Sum_probs=142.9

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      +..++.+||+++|++|+|||||+++|.+..+..  +.++.+.++......+++..+.+.+|||||++.+...+..+++.+
T Consensus         5 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~   84 (180)
T 2g6b_A            5 DFYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDA   84 (180)
T ss_dssp             CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGC
T ss_pred             ccCCcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCC
Confidence            345788999999999999999999999988753  678888888877778899899999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++
T Consensus        85 d~ii~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (180)
T 2g6b_A           85 HALLLLYDVTNKASFDNIQ-AWLTEIHEYA-QHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVD  162 (180)
T ss_dssp             SEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHH
T ss_pred             CEEEEEEECCCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHH
Confidence            9999999999999999888 6777776554 3678999999999998878888888888998899999999999999999


Q ss_pred             HHHHHHHHHHHccc
Q 028315          166 QCFKDLLYKILEVP  179 (210)
Q Consensus       166 ~l~~~i~~~~~~~~  179 (210)
                      ++|+++.+.+.+..
T Consensus       163 ~l~~~l~~~~~~~~  176 (180)
T 2g6b_A          163 LAFTAIAKELKRRS  176 (180)
T ss_dssp             HHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999887544

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=5.8e-34  Score=203.82  Aligned_cols=165  Identities=38%  Similarity=0.646  Sum_probs=147.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|+|||||+++|.++.+.. +.++.+.++......+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1r2q_A            3 KICQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAA   82 (170)
T ss_dssp             EEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEE
Confidence            3578999999999999999999999988777 678888888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        83 i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  160 (170)
T 1r2q_A           83 IVVYDITNEESFARAK-NWVKELQRQA-SPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIF  160 (170)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999888 6766665554 4678999999999998777788888888998999999999999999999999


Q ss_pred             HHHHHHHH
Q 028315          169 KDLLYKIL  176 (210)
Q Consensus       169 ~~i~~~~~  176 (210)
                      ++|.+.+.
T Consensus       161 ~~i~~~~~  168 (170)
T 1r2q_A          161 MAIAKKLP  168 (170)
T ss_dssp             HHHHHTSC
T ss_pred             HHHHHHHh
Confidence            99988664

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=9.9e-34  Score=208.80  Aligned_cols=169  Identities=45%  Similarity=0.746  Sum_probs=151.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   83 (203)
T 1zbd_A            4 MFDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMG   83 (203)
T ss_dssp             SCSEEEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSE
T ss_pred             ccceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCE
Confidence            45688999999999999999999999988766 77888888888888889999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.+++.+. .|...+.... ..+.|+++|+||+|+...+.+..+++..++..++++++++||++|.|++++
T Consensus        84 ii~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  161 (203)
T 1zbd_A           84 FILMYDITNEESFNAVQ-DWSTQIKTYS-WDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQT  161 (203)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHS-CSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHH
Confidence            99999999999999888 6777776554 467899999999999887788888899999999999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |++|.+.+.+..
T Consensus       162 ~~~l~~~i~~~~  173 (203)
T 1zbd_A          162 FERLVDVICEKM  173 (203)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=4.3e-34  Score=204.68  Aligned_cols=166  Identities=39%  Similarity=0.683  Sum_probs=141.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|+|||||++++.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~   82 (170)
T 1z08_A            3 RAYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGA   82 (170)
T ss_dssp             -CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEE
Confidence            4678999999999999999999999988766 778888888877888888899999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        83 i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  160 (170)
T 1z08_A           83 ILVYDITDEDSFQKVK-NWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELF  160 (170)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHH
Confidence            9999999999999888 6777665544 3578999999999998777888888999999999999999999999999999


Q ss_pred             HHHHHHHHc
Q 028315          169 KDLLYKILE  177 (210)
Q Consensus       169 ~~i~~~~~~  177 (210)
                      ++|.+.+.+
T Consensus       161 ~~l~~~~~~  169 (170)
T 1z08_A          161 LDLCKRMIE  169 (170)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhh
Confidence            999998864

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=7.6e-34  Score=206.45  Aligned_cols=170  Identities=48%  Similarity=0.784  Sum_probs=151.7

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         6 ~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   85 (186)
T 2bme_A            6 TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAG   85 (186)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSE
T ss_pred             ccccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCE
Confidence            34788999999999999999999999998876 77888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++
T Consensus        86 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  163 (186)
T 2bme_A           86 ALLVYDITSRETYNALT-NWLTDARMLA-SQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEA  163 (186)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHH
Confidence            99999999999999988 6776665554 467899999999999877778888888999999999999999999999999


Q ss_pred             HHHHHHHHHccch
Q 028315          168 FKDLLYKILEVPS  180 (210)
Q Consensus       168 ~~~i~~~~~~~~~  180 (210)
                      |+++.+.+.+...
T Consensus       164 ~~~l~~~~~~~~~  176 (186)
T 2bme_A          164 FVQCARKILNKIE  176 (186)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999886543

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=1.4e-34  Score=209.96  Aligned_cols=169  Identities=46%  Similarity=0.787  Sum_probs=122.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         5 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   84 (183)
T 2fu5_C            5 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   84 (183)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             cCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEE
Confidence            4678999999999999999999999887765 667778788877788888899999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++..++++++++||++|.|++++|
T Consensus        85 i~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  162 (183)
T 2fu5_C           85 MLVYDITNEKSFDNIR-NWIRNIEEHA-SADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAF  162 (183)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHH
Confidence            9999999999999988 6777776554 4578999999999998877888888999999999999999999999999999


Q ss_pred             HHHHHHHHccch
Q 028315          169 KDLLYKILEVPS  180 (210)
Q Consensus       169 ~~i~~~~~~~~~  180 (210)
                      ++|.+.+.+...
T Consensus       163 ~~l~~~i~~~~~  174 (183)
T 2fu5_C          163 FTLARDIKAKMD  174 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhh
Confidence            999999876443

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=3.4e-34  Score=204.59  Aligned_cols=164  Identities=26%  Similarity=0.363  Sum_probs=121.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      .+||+++|++|||||||++++.+..+....++.+.++. ....+++..+.+.+|||||++.+...+..+++.+|++++||
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~   80 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHTYD-RSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVY   80 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC----------CEEE-EEEEETTEEEEEEEEECC---------------CCEEEEEE
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCCCCccccceE-EEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEE
Confidence            58999999999999999999987777666677776663 55678899999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++|.
T Consensus        81 d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  159 (166)
T 3q72_A           81 SVTDKGSFEKAS-ELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVV  159 (166)
T ss_dssp             ETTCHHHHHHHH-HHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHH
T ss_pred             ECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHH
Confidence            999999999998 5655555443346899999999999988888999999999999999999999999999999999999


Q ss_pred             HHHHcc
Q 028315          173 YKILEV  178 (210)
Q Consensus       173 ~~~~~~  178 (210)
                      +.+.++
T Consensus       160 ~~~~~~  165 (166)
T 3q72_A          160 RQIRLR  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHhc
Confidence            988754

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=1.8e-33  Score=201.33  Aligned_cols=165  Identities=36%  Similarity=0.604  Sum_probs=149.1

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+.++......+.+..+.+.+|||||++.+...+..+++.+|++
T Consensus         3 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~   82 (170)
T 1z0j_A            3 ALRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAA   82 (170)
T ss_dssp             SEEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEE
T ss_pred             CCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEE
Confidence            3578999999999999999999999998766 788889888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|++++.+++.+. .|+..+.... ....|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|
T Consensus        83 i~v~d~~~~~s~~~~~-~~~~~l~~~~-~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  160 (170)
T 1z0j_A           83 IIVYDITKEETFSTLK-NWVRELRQHG-PPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELF  160 (170)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHS-CTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHH
Confidence            9999999999999887 7777776654 4678999999999998777888888889999999999999999999999999


Q ss_pred             HHHHHHHH
Q 028315          169 KDLLYKIL  176 (210)
Q Consensus       169 ~~i~~~~~  176 (210)
                      ++|.+.+.
T Consensus       161 ~~i~~~i~  168 (170)
T 1z0j_A          161 IEISRRIP  168 (170)
T ss_dssp             HHHHHHCC
T ss_pred             HHHHHHHh
Confidence            99988764

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=1.4e-33  Score=206.37  Aligned_cols=170  Identities=39%  Similarity=0.691  Sum_probs=151.1

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      +..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+.+..+.+.+|||||++.+...+..+++.+|
T Consensus        20 ~~~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   99 (193)
T 2oil_A           20 EDYNFVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAV   99 (193)
T ss_dssp             CCCSEEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCC
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCC
Confidence            345678999999999999999999999998876 6778888888888888889999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++|+|+|++++.++..+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|+++
T Consensus       100 ~vi~v~D~~~~~s~~~~~-~~l~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  177 (193)
T 2oil_A          100 GALLVFDLTKHQTYAVVE-RWLKELYDHA-EATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVEL  177 (193)
T ss_dssp             EEEEEEETTCHHHHHTHH-HHHHHHHTTS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHH
T ss_pred             EEEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHH
Confidence            999999999999999888 6766665443 46789999999999987777888888899988999999999999999999


Q ss_pred             HHHHHHHHHHccc
Q 028315          167 CFKDLLYKILEVP  179 (210)
Q Consensus       167 l~~~i~~~~~~~~  179 (210)
                      +|++|.+.+.+..
T Consensus       178 l~~~l~~~i~~~~  190 (193)
T 2oil_A          178 AFETVLKEIFAKV  190 (193)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999887543

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=1.7e-33  Score=203.45  Aligned_cols=169  Identities=31%  Similarity=0.540  Sum_probs=146.5

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .....+||+++|.+|+|||||+++|.+..+.. +.++.+..+. ....+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         5 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   83 (181)
T 2fn4_A            5 PPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   83 (181)
T ss_dssp             CSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCE
Confidence            34678999999999999999999999988766 6667666655 566788888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.++..+. .|...+.......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++
T Consensus        84 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l  162 (181)
T 2fn4_A           84 FLLVFAINDRQSFNEVG-KLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEA  162 (181)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEeCCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHH
Confidence            99999999999999988 55555533333568899999999999887788888888999999999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |++|.+.+.+..
T Consensus       163 ~~~l~~~~~~~~  174 (181)
T 2fn4_A          163 FEQLVRAVRKYQ  174 (181)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhh
Confidence            999999987544

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=6.3e-34  Score=208.29  Aligned_cols=169  Identities=36%  Similarity=0.604  Sum_probs=149.1

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ...++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|
T Consensus        18 ~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   97 (192)
T 2fg5_A           18 GSAIRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSA   97 (192)
T ss_dssp             ---CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCS
T ss_pred             cccCCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCC
Confidence            344679999999999999999999999998765 8889998888888888888999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|+++
T Consensus        98 ~iilV~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  175 (192)
T 2fg5_A           98 AAVIVYDITKQDSFYTLK-KWVKELKEHG-PENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEE  175 (192)
T ss_dssp             EEEEEEETTCTHHHHHHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHH
T ss_pred             EEEEEEeCCCHHHHHHHH-HHHHHHHHhC-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHH
Confidence            999999999999999987 7777776654 46789999999999987677888889999999999999999999999999


Q ss_pred             HHHHHHHHHHcc
Q 028315          167 CFKDLLYKILEV  178 (210)
Q Consensus       167 l~~~i~~~~~~~  178 (210)
                      +|++|.+.+.+.
T Consensus       176 l~~~l~~~i~~~  187 (192)
T 2fg5_A          176 LFQGISRQIPPL  187 (192)
T ss_dssp             HHHHHHHTCC--
T ss_pred             HHHHHHHHHHhh
Confidence            999999877543

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=1.1e-33  Score=206.63  Aligned_cols=174  Identities=33%  Similarity=0.617  Sum_probs=149.9

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEE-EEEEEECCe---------EEEEEEEeCCCCcc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFK-IKLLTVGGK---------RLKLTIWDTAGQER   73 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~-~~~~~~~~~---------~~~~~l~Dt~G~~~   73 (210)
                      +.++..++.+||+++|++|+|||||+++|.+..+.. +.++.+.++. ...+.+++.         .+.+.+|||||++.
T Consensus         3 m~~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   82 (195)
T 3bc1_A            3 MSDGDYDYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLER   82 (195)
T ss_dssp             ---CCCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGG
T ss_pred             CcccccceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHH
Confidence            445566889999999999999999999999988766 6778887776 555566655         78999999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeE
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLF  153 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  153 (210)
                      +...+..+++.+|++++|+|++++.++..+. .|+..+.......+.|+++|+||+|+.+.+.+..+++..++...++++
T Consensus        83 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  161 (195)
T 3bc1_A           83 FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVR-NWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPY  161 (195)
T ss_dssp             GHHHHHHTTTTCSEEEEEEETTCHHHHHTHH-HHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCE
T ss_pred             HHHHHHHHHcCCCEEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCE
Confidence            9999999999999999999999999999988 777777666544689999999999998777788888889998899999


Q ss_pred             EEecccCCcCHHHHHHHHHHHHHccc
Q 028315          154 LECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +++||++|.|++++|++|.+.+.+..
T Consensus       162 ~~~Sa~~~~~v~~l~~~l~~~~~~~~  187 (195)
T 3bc1_A          162 FETSAANGTNISHAIEMLLDLIMKRM  187 (195)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHHHHHh
Confidence            99999999999999999999987543

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=1.2e-33  Score=202.20  Aligned_cols=163  Identities=44%  Similarity=0.719  Sum_probs=145.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|+|||||++++.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~   81 (170)
T 1ek0_A            2 TSIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALV   81 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEE
Confidence            47999999999999999999999988766 77888888888888889999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC---CccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE---RAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      |+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...   +.+..++...++...+++++++||++|.|++++
T Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  159 (170)
T 1ek0_A           82 VYDVTKPQSFIKAR-HWVKELHEQA-SKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDV  159 (170)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHH
T ss_pred             EEecCChHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999988 6776666554 468899999999999765   667788888888889999999999999999999


Q ss_pred             HHHHHHHHH
Q 028315          168 FKDLLYKIL  176 (210)
Q Consensus       168 ~~~i~~~~~  176 (210)
                      |++|.+.+.
T Consensus       160 ~~~l~~~i~  168 (170)
T 1ek0_A          160 FLGIGEKIP  168 (170)
T ss_dssp             HHHHHTTSC
T ss_pred             HHHHHHHHh
Confidence            999987654

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=8.8e-34  Score=207.55  Aligned_cols=169  Identities=43%  Similarity=0.794  Sum_probs=144.1

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      +.+.++.+||+++|.+|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+
T Consensus        20 p~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~   99 (192)
T 2il1_A           20 PRPADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSA   99 (192)
T ss_dssp             --CCSEEEEEEEECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHC
T ss_pred             CcccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCC
Confidence            3445689999999999999999999999888766 678888888888888888899999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcCH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDV  164 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i  164 (210)
                      |++++|+|++++.+++.+. .|...+.... ..+.|+++|+||+|+...+.+..++...++... +.+++++||++|.|+
T Consensus       100 d~iilV~D~~~~~s~~~~~-~~~~~i~~~~-~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  177 (192)
T 2il1_A          100 KGIILVYDITKKETFDDLP-KWMKMIDKYA-SEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNV  177 (192)
T ss_dssp             SEEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSH
T ss_pred             CEEEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCH
Confidence            9999999999999999987 7877776654 467899999999999877788888888888874 789999999999999


Q ss_pred             HHHHHHHHHHHHc
Q 028315          165 KQCFKDLLYKILE  177 (210)
Q Consensus       165 ~~l~~~i~~~~~~  177 (210)
                      +++|++|.+.+.+
T Consensus       178 ~~l~~~l~~~i~~  190 (192)
T 2il1_A          178 DEIFLKLVDDILK  190 (192)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998864

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=3.5e-33  Score=204.50  Aligned_cols=168  Identities=29%  Similarity=0.529  Sum_probs=148.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|.+|+|||||+++|.+..+.. +.++.+.++.. ...+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        20 ~~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~   98 (194)
T 3reg_A           20 GKKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFSH-VMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVV   98 (194)
T ss_dssp             -CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEEE-EEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeEE-EEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEE
Confidence            4578999999999999999999999998866 66777766653 567888999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC--CccCHHHHHHHHHHcCCe-EEEecccCCcCHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE--RAVTREEGMILAQEHKCL-FLECSAKNTEDVK  165 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~-~~~~sa~~~~~i~  165 (210)
                      ++|||++++.++..+...|...+....  .+.|+++|+||+|+...  +.+..+++..++..+++. ++++||++|.|++
T Consensus        99 i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  176 (194)
T 3reg_A           99 LLCFAVNNRTSFDNISTKWEPEIKHYI--DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLN  176 (194)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC--TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHH
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHH
Confidence            999999999999998658888887654  67899999999999753  668888999999999998 9999999999999


Q ss_pred             HHHHHHHHHHHccch
Q 028315          166 QCFKDLLYKILEVPS  180 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~  180 (210)
                      ++|++|.+.+.+.++
T Consensus       177 ~l~~~l~~~i~~~~~  191 (194)
T 3reg_A          177 EVFEKSVDCIFSNKP  191 (194)
T ss_dssp             HHHHHHHHHHHCSCC
T ss_pred             HHHHHHHHHHHhcCC
Confidence            999999999987654

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=1.6e-33  Score=201.65  Aligned_cols=165  Identities=26%  Similarity=0.349  Sum_probs=131.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc-chhhhhccccEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT-LTSSYYRGAHGIIL   90 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~-~~~~~~~~~d~~i~   90 (210)
                      .+||+++|++|+|||||+++|.+..+.. ..++.+.+.....+.+++..+.+.+|||||++.+.. .+..+++.+|++++
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~   81 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLI   81 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEE
Confidence            5899999999999999999998776655 555556677777778899999999999999998876 77778899999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|++
T Consensus        82 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  160 (169)
T 3q85_A           82 VFSVTDRRSFSKVP-ETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEG  160 (169)
T ss_dssp             EEETTCHHHHHTHH-HHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHH
T ss_pred             EEECCChHHHHHHH-HHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHH
Confidence            99999999999998 56666655543458999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHHHcc
Q 028315          171 LLYKILEV  178 (210)
Q Consensus       171 i~~~~~~~  178 (210)
                      +.+.+..+
T Consensus       161 l~~~i~~~  168 (169)
T 3q85_A          161 AVRQIRLR  168 (169)
T ss_dssp             HHHHHHHT
T ss_pred             HHHHHHhc
Confidence            99988754

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=1.2e-33  Score=206.23  Aligned_cols=170  Identities=37%  Similarity=0.635  Sum_probs=145.2

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-cchhhhhcc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-TLTSSYYRG   84 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~~~~~~~~~   84 (210)
                      .....+.+||+++|.+|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+. ..+..+++.
T Consensus        14 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   93 (189)
T 1z06_A           14 RGSRSRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRN   93 (189)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTT
T ss_pred             CCCCCceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcC
Confidence            3444578999999999999999999999988876 77888888888888889989999999999999988 888999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC---
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT---  161 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~---  161 (210)
                      +|++++|+|++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++...+++++++||++|   
T Consensus        94 ~d~iilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~  172 (189)
T 1z06_A           94 VHAVVFVYDMTNMASFHSLP-AWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDN  172 (189)
T ss_dssp             CCEEEEEEETTCHHHHHTHH-HHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGG
T ss_pred             CCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcc
Confidence            99999999999999999988 67777766654578999999999999877788888899999999999999999999   


Q ss_pred             cCHHHHHHHHHHHHHc
Q 028315          162 EDVKQCFKDLLYKILE  177 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~  177 (210)
                      .|++++|.+|.+.+.+
T Consensus       173 ~~i~~l~~~l~~~i~~  188 (189)
T 1z06_A          173 DHVEAIFMTLAHKLKS  188 (189)
T ss_dssp             SCHHHHHHHHC-----
T ss_pred             cCHHHHHHHHHHHHhh
Confidence            9999999999887753

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=2e-33  Score=201.09  Aligned_cols=165  Identities=51%  Similarity=0.788  Sum_probs=140.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         1 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i   80 (170)
T 1g16_A            1 DSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGII   80 (170)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEE
T ss_pred             CCceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEE
Confidence            357999999999999999999999988766 6777787777777778888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+ ..+.+..++...++...+++++++||++|.|++++|+
T Consensus        81 ~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  157 (170)
T 1g16_A           81 LVYDITDERTFTNIK-QWFKTVNEHA-NDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFF  157 (170)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHH
T ss_pred             EEEECCCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHH
Confidence            999999999999888 6777766554 467899999999999 4456777888888888999999999999999999999


Q ss_pred             HHHHHHHcc
Q 028315          170 DLLYKILEV  178 (210)
Q Consensus       170 ~i~~~~~~~  178 (210)
                      +|.+.+.++
T Consensus       158 ~l~~~~~~~  166 (170)
T 1g16_A          158 TLAKLIQEK  166 (170)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHH
Confidence            999988754

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=8.1e-34  Score=209.15  Aligned_cols=169  Identities=28%  Similarity=0.446  Sum_probs=141.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|.+|||||||+++|.+..+.. +.++.+..+ .....+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i  100 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYV  100 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEE
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEE
Confidence            568999999999999999999999998877 556666655 555566677889999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+++.+. .|...+.......+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|+
T Consensus       101 ~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~  179 (201)
T 3oes_A          101 LVYSVTSLHSFQVIE-SLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFT  179 (201)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHH
T ss_pred             EEEeCCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHH
Confidence            999999999999998 6777666554456789999999999988888898999999999999999999999999999999


Q ss_pred             HHHHHHHccchh
Q 028315          170 DLLYKILEVPSL  181 (210)
Q Consensus       170 ~i~~~~~~~~~~  181 (210)
                      +|.+.+.+....
T Consensus       180 ~l~~~i~~~~~~  191 (201)
T 3oes_A          180 KVIQEIARVENS  191 (201)
T ss_dssp             HHHHHHHHC---
T ss_pred             HHHHHHHhhhhh
Confidence            999999866543

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=1.2e-33  Score=207.36  Aligned_cols=171  Identities=26%  Similarity=0.348  Sum_probs=142.0

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc-chhhhhcccc
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT-LTSSYYRGAH   86 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~-~~~~~~~~~d   86 (210)
                      ...+.+||+++|++|||||||+++|.+..... ..++.+.+.....+.+++..+.+.+|||+|++.+.. ++..+++.+|
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d   98 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGD   98 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCS
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCC
Confidence            34578999999999999999999997544332 344555556666677899999999999999988765 7778899999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++++|||++++.+|+.+. .|+..+.......+.|+++|+||+|+...+.+..++++.++...+++++++||++|.|+++
T Consensus        99 ~~ilv~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~  177 (195)
T 3cbq_A           99 AFLIVFSVTDRRSFSKVP-ETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRE  177 (195)
T ss_dssp             EEEEEEETTCHHHHHTHH-HHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHH
T ss_pred             EEEEEEECCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHH
Confidence            999999999999999998 5766666554345799999999999988788888889999998999999999999999999


Q ss_pred             HHHHHHHHHHccch
Q 028315          167 CFKDLLYKILEVPS  180 (210)
Q Consensus       167 l~~~i~~~~~~~~~  180 (210)
                      +|+++++.+...+.
T Consensus       178 lf~~l~~~i~~~~~  191 (195)
T 3cbq_A          178 LFEGAVRQIRLRRG  191 (195)
T ss_dssp             HHHHHHHHHHTTC-
T ss_pred             HHHHHHHHHHHhcC
Confidence            99999999875443

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=2.2e-33  Score=200.48  Aligned_cols=164  Identities=35%  Similarity=0.565  Sum_probs=147.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         3 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   82 (168)
T 1z2a_A            3 EVAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACV   82 (168)
T ss_dssp             -CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEE
T ss_pred             ceeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEE
Confidence            568999999999999999999999988766 6788888888888888888999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++.+++.+. .|...+....  .+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++|+
T Consensus        83 ~v~d~~~~~s~~~~~-~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~  159 (168)
T 1z2a_A           83 LVFSTTDRESFEAIS-SWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFK  159 (168)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHH
T ss_pred             EEEECcCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHH
Confidence            999999999999888 5777665544  5789999999999987777888888899999999999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      +|.+.+.+
T Consensus       160 ~l~~~~~~  167 (168)
T 1z2a_A          160 YLAEKHLQ  167 (168)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhh
Confidence            99998864

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=1.3e-33  Score=208.00  Aligned_cols=169  Identities=46%  Similarity=0.746  Sum_probs=142.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        22 ~~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~  101 (200)
T 2o52_A           22 SDFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGA  101 (200)
T ss_dssp             CCEEEEEEEEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEE
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEE
Confidence            4678999999999999999999999888766 677778778778888888889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |+|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..+++..++...+++++++||++|.|++++|
T Consensus       102 i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~  179 (200)
T 2o52_A          102 LLVYDITSRETYNSLA-AWLTDARTLA-SPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAF  179 (200)
T ss_dssp             EEEEETTCHHHHHTHH-HHHHHHHHHT-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999988 6776665544 4678999999999998777788888888999999999999999999999999


Q ss_pred             HHHHHHHHccch
Q 028315          169 KDLLYKILEVPS  180 (210)
Q Consensus       169 ~~i~~~~~~~~~  180 (210)
                      ++|.+.+.+...
T Consensus       180 ~~l~~~i~~~~~  191 (200)
T 2o52_A          180 LKCARTILNKID  191 (200)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999886543

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=9.2e-34  Score=208.13  Aligned_cols=169  Identities=30%  Similarity=0.468  Sum_probs=140.7

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .....+||+++|.+|||||||+++|.+..+.. +.++.+.++. ....+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         4 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   82 (199)
T 2gf0_A            4 EQSNDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHA   82 (199)
T ss_dssp             -CCCCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSE
T ss_pred             cCCCeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCE
Confidence            34567999999999999999999999988766 5566654443 445678888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +++|||++++.+++.+. .|...+..... ..+.|+++|+||+|+.+ +.+..++...++..++++++++||++|.|+++
T Consensus        83 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  160 (199)
T 2gf0_A           83 FILVFSVTSKQSLEELG-PIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKE  160 (199)
T ss_dssp             EEEEEETTCHHHHHTTH-HHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHH
Confidence            99999999999999888 45555544332 24789999999999975 55777788888888999999999999999999


Q ss_pred             HHHHHHHHHHccch
Q 028315          167 CFKDLLYKILEVPS  180 (210)
Q Consensus       167 l~~~i~~~~~~~~~  180 (210)
                      +|++|.+.+.....
T Consensus       161 l~~~l~~~~~~~~~  174 (199)
T 2gf0_A          161 LFQELLTLETRRNM  174 (199)
T ss_dssp             HHHHHHHHCSSSCE
T ss_pred             HHHHHHHHHhhhhc
Confidence            99999998765543

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=2.4e-33  Score=202.32  Aligned_cols=166  Identities=36%  Similarity=0.605  Sum_probs=147.1

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        10 ~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   89 (179)
T 2y8e_A           10 NPLRKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTV   89 (179)
T ss_dssp             --CEEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCE
Confidence            34577999999999999999999999888776 77888888888888889999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++...+++++++||++|.|++++
T Consensus        90 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l  167 (179)
T 2y8e_A           90 AVVVYDITNTNSFHQTS-KWIDDVRTER-GSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQL  167 (179)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHH-TTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999888 6766665544 467899999999999877788888888888889999999999999999999


Q ss_pred             HHHHHHHHH
Q 028315          168 FKDLLYKIL  176 (210)
Q Consensus       168 ~~~i~~~~~  176 (210)
                      |++|.+.+.
T Consensus       168 ~~~l~~~~~  176 (179)
T 2y8e_A          168 FRRVAAALP  176 (179)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHHHh
Confidence            999988664

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=1.3e-33  Score=210.08  Aligned_cols=171  Identities=25%  Similarity=0.468  Sum_probs=143.6

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ....+||+++|++|||||||+++|.+..+.. +.++.+.++ ...+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus        24 ~~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  102 (214)
T 3q3j_B           24 VVARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAV  102 (214)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             ccceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEE
Confidence            3568999999999999999999999998877 677777666 45566778889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEE
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLE  155 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~  155 (210)
                      |+|||++++.++..+...|...+....  .+.|+++|+||+|+...            +.+..+++..++..+++ ++++
T Consensus       103 i~v~d~~~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  180 (214)
T 3q3j_B          103 LLCFDISRPETVDSALKKWRTEILDYC--PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLE  180 (214)
T ss_dssp             EEEEETTCTHHHHHHHTHHHHHHHHHC--TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEECcCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEE
Confidence            999999999999985448888887664  58899999999999753            67888999999999999 8999


Q ss_pred             ecccCCcC-HHHHHHHHHHHHHccchhhh
Q 028315          156 CSAKNTED-VKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       156 ~sa~~~~~-i~~l~~~i~~~~~~~~~~~~  183 (210)
                      |||++|.| ++++|+++.+.+.......+
T Consensus       181 ~SA~~g~g~v~~lf~~l~~~~~~~~~~~~  209 (214)
T 3q3j_B          181 GSAFTSEKSIHSIFRTASMLCLNKPSPLP  209 (214)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHC------
T ss_pred             eccCCCcccHHHHHHHHHHHHhccCcCCC
Confidence            99999998 99999999999987665443

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=4.6e-33  Score=198.68  Aligned_cols=163  Identities=34%  Similarity=0.584  Sum_probs=141.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|+|||||++++.++.+.. +.++.+..+. ....+++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   80 (167)
T 1c1y_A            2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEE
Confidence            46899999999999999999999988766 5666665543 455677888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~l~~  169 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++..+ +.+++++||++|.|++++|+
T Consensus        81 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (167)
T 1c1y_A           81 VYSITAQSTFNDLQ-DLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEETTCHHHHHTHH-HHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             EEECCCHHHHHHHH-HHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHH
Confidence            99999999999988 56666655543568999999999999887778888888888887 78999999999999999999


Q ss_pred             HHHHHHH
Q 028315          170 DLLYKIL  176 (210)
Q Consensus       170 ~i~~~~~  176 (210)
                      +|.+.+.
T Consensus       160 ~l~~~i~  166 (167)
T 1c1y_A          160 DLVRQIN  166 (167)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998774

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=4.6e-33  Score=198.62  Aligned_cols=164  Identities=28%  Similarity=0.509  Sum_probs=140.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..+||+++|++|+|||||++++.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~   81 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEE
Confidence            46999999999999999999999988766 555655544 3455778888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..+++..++...+++++++||++|.|++++|++
T Consensus        82 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (168)
T 1u8z_A           82 VFSITEMESFAATA-DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EEECCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHH
Confidence            99999999999988 67776666654568999999999999877778888899999989999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      +.+.+.+
T Consensus       161 l~~~i~~  167 (168)
T 1u8z_A          161 LMREIRA  167 (168)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998864

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=3.7e-33  Score=203.43  Aligned_cols=165  Identities=26%  Similarity=0.434  Sum_probs=139.8

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|.+|||||||+++|.+..+.. +.++.+..+ .....+++..+.+.+|||||++.+... ..+++.+|++
T Consensus        18 ~~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~   95 (187)
T 3c5c_A           18 GPLEVNLAILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAF   95 (187)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEE
Confidence            3578999999999999999999999998766 677777665 345677888999999999999988775 6789999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecc-cCCcCHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA-KNTEDVK  165 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa-~~~~~i~  165 (210)
                      ++|||++++.+|+.+. .|+..+.....  ..+.|+++|+||+|+...+.+..+++..++..++++++++|| ++|.|++
T Consensus        96 ilv~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~  174 (187)
T 3c5c_A           96 LVVYSVDSRQSFDSSS-SYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQ  174 (187)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHH
Confidence            9999999999999998 67777665431  257899999999999877888888999999999999999999 8999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|++|.+.+.+
T Consensus       175 ~lf~~l~~~i~~  186 (187)
T 3c5c_A          175 HVFHEAVREARR  186 (187)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhh
Confidence            999999998764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=4.3e-33  Score=202.34  Aligned_cols=171  Identities=27%  Similarity=0.478  Sum_probs=145.1

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      +....+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+
T Consensus        12 ~~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   90 (187)
T 2a9k_A           12 SQNSLALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSG   90 (187)
T ss_dssp             -----CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHC
T ss_pred             CCCCCCceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccC
Confidence            3334578999999999999999999999988766 555555444 44567788889999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|||++++.+++.+. .|...+.......+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++
T Consensus        91 d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  169 (187)
T 2a9k_A           91 EGFLCVFSITEMESFAATA-DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVD  169 (187)
T ss_dssp             SEEEEEEETTCHHHHHHHH-HHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHH
T ss_pred             CEEEEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHH
Confidence            9999999999999999988 676666666545689999999999998777788888899999999999999999999999


Q ss_pred             HHHHHHHHHHHccc
Q 028315          166 QCFKDLLYKILEVP  179 (210)
Q Consensus       166 ~l~~~i~~~~~~~~  179 (210)
                      ++|++|.+.+.+++
T Consensus       170 ~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          170 KVFFDLMREIRARK  183 (187)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999987543

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=1.3e-32  Score=198.25  Aligned_cols=168  Identities=36%  Similarity=0.640  Sum_probs=144.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.+||+++|++|+|||||++++.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus         3 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T 1wms_A            3 GKSSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDC   82 (177)
T ss_dssp             CCEEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSE
T ss_pred             CccceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCE
Confidence            34678999999999999999999999988766 77888888888888889988999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-HcCCeEEEecccCCcC
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSERAVTREEGMILAQ-EHKCLFLECSAKNTED  163 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~  163 (210)
                      +++|+|++++.+++.+. .|...+.....   ..+.|+++|+||+|+. .+.+..++...++. ..+++++++||++|.|
T Consensus        83 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~g  160 (177)
T 1wms_A           83 CLLTFSVDDSQSFQNLS-NWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATN  160 (177)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTT
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCC
Confidence            99999999999999887 67776655442   2678999999999997 55677778888887 5678999999999999


Q ss_pred             HHHHHHHHHHHHHcc
Q 028315          164 VKQCFKDLLYKILEV  178 (210)
Q Consensus       164 i~~l~~~i~~~~~~~  178 (210)
                      ++++|+++.+.+.+.
T Consensus       161 i~~l~~~l~~~~~~~  175 (177)
T 1wms_A          161 VAAAFEEAVRRVLAT  175 (177)
T ss_dssp             HHHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999998754

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=4.7e-33  Score=206.49  Aligned_cols=168  Identities=51%  Similarity=0.787  Sum_probs=145.8

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        16 ~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (213)
T 3cph_A           16 SYDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMG   95 (213)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCE
Confidence            34567999999999999999999999988765 77888888888888888888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+ ..+.+..++...++..++++++++||++|.|++++
T Consensus        96 ii~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  172 (213)
T 3cph_A           96 IILVYDVTDERTFTNIK-QWFKTVNEHA-NDEAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEI  172 (213)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHT-TTCSEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHH
T ss_pred             EEEEEECCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999999888 6777666554 357899999999999 45567778888888888999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |++|.+.+.+..
T Consensus       173 ~~~l~~~~~~~~  184 (213)
T 3cph_A          173 FFTLAKLIQEKI  184 (213)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999887654

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.5e-34  Score=211.38  Aligned_cols=170  Identities=44%  Similarity=0.754  Sum_probs=151.9

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ...++.+||+++|.+|+|||||+++|.+..+.. +.++.+.++....+.+.+..+.+.+|||||++.+...+..+++.+|
T Consensus        18 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d   97 (191)
T 3dz8_A           18 GNFDYMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAM   97 (191)
T ss_dssp             TEEEECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCC
T ss_pred             cccCeeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCC
Confidence            344678999999999999999999999988766 6677777888888888888899999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|+++
T Consensus        98 ~~i~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  175 (191)
T 3dz8_A           98 GFILMYDITNEESFNAVQ-DWATQIKTYS-WDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQ  175 (191)
T ss_dssp             EEEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             EEEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHH
Confidence            999999999999999988 6888776654 46899999999999988888888899999999999999999999999999


Q ss_pred             HHHHHHHHHHccc
Q 028315          167 CFKDLLYKILEVP  179 (210)
Q Consensus       167 l~~~i~~~~~~~~  179 (210)
                      +|++|.+.+.+..
T Consensus       176 l~~~l~~~i~~~~  188 (191)
T 3dz8_A          176 AFERLVDAICDKM  188 (191)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999887543

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=1.7e-33  Score=207.07  Aligned_cols=168  Identities=39%  Similarity=0.634  Sum_probs=137.4

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      ....+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|
T Consensus        23 ~~~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d  102 (199)
T 2p5s_A           23 FSSQKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKAD  102 (199)
T ss_dssp             -----CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCS
T ss_pred             cCcCCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCC
Confidence            334568999999999999999999999998765 7788888888888888999999999999999999999999999999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC------CCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD------SERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~------~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      ++|+|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+.      ..+.+..+++..++...+++++++||++
T Consensus       103 ~iilv~d~~~~~s~~~~~-~~~~~i~~~~-~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~  180 (199)
T 2p5s_A          103 GVLLLYDVTCEKSFLNIR-EWVDMIEDAA-HETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKD  180 (199)
T ss_dssp             EEEEEEETTCHHHHHTHH-HHHHHHHHHC----CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTT
T ss_pred             EEEEEEECCChHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCC
Confidence            999999999999999988 6777776554 3578999999999985      3566778888889988999999999999


Q ss_pred             CcCHHHHHHHHHHHHHc
Q 028315          161 TEDVKQCFKDLLYKILE  177 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~  177 (210)
                      |.|++++|.+|.+.+.+
T Consensus       181 g~gv~el~~~l~~~i~~  197 (199)
T 2p5s_A          181 GSNIVEAVLHLAREVKK  197 (199)
T ss_dssp             CTTHHHHHHHHHHHHTC
T ss_pred             CCCHHHHHHHHHHHHHh
Confidence            99999999999998764

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=2e-33  Score=202.76  Aligned_cols=169  Identities=32%  Similarity=0.516  Sum_probs=145.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECC-eEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGG-KRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~-~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+.+ ..+.+.+|||||++.+...+..+++.+|+
T Consensus         3 ~~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~   82 (178)
T 2hxs_A            3 HMRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQG   82 (178)
T ss_dssp             CCCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSE
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCE
Confidence            3567999999999999999999999888765 567777777777777776 67899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCc-EEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYST-NQDCV-KILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p-~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      +++|+|++++.+++.+. .|+..+..... ....| +++|+||+|+.+.+.+..++...++...+++++++||++|.|++
T Consensus        83 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  161 (178)
T 2hxs_A           83 VLLVYDITNYQSFENLE-DWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVF  161 (178)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHH
T ss_pred             EEEEEECCCHHHHHHHH-HHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHH
Confidence            99999999999999888 67777655431 12445 89999999998777788888889999899999999999999999


Q ss_pred             HHHHHHHHHHHccc
Q 028315          166 QCFKDLLYKILEVP  179 (210)
Q Consensus       166 ~l~~~i~~~~~~~~  179 (210)
                      ++|++|.+.+.+.+
T Consensus       162 ~l~~~l~~~~~~~~  175 (178)
T 2hxs_A          162 LCFQKVAAEILGIK  175 (178)
T ss_dssp             HHHHHHHHHHTTCC
T ss_pred             HHHHHHHHHHHhhh
Confidence            99999999887554

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=9.1e-33  Score=200.95  Aligned_cols=163  Identities=19%  Similarity=0.360  Sum_probs=139.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|||||||+++|.++.+.. +.++ ...+ ...+.+++..+.+.+|||+|++.+.     +++.+|++
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~   89 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEESPE-GGRF-KKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAV   89 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCCCTT-CEEE-EEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEE
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCC-cceE-EEEEEECCEEEEEEEEECCCChhhh-----eecCCCEE
Confidence            4578999999999999999999999998877 5555 3333 4677889999999999999998876     78889999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC--CCCccCHHHHHHHHHHcC-CeEEEecccCCcCHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD--SERAVTREEGMILAQEHK-CLFLECSAKNTEDVK  165 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i~  165 (210)
                      ++|||++++.+|+.+. .|...+.......+.|+++|+||+|+.  ..+.+..+++..++..++ ++++++||++|.|++
T Consensus        90 i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~  168 (184)
T 3ihw_A           90 VFVFSLEDEISFQTVY-NYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVE  168 (184)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHH
Confidence            9999999999999988 677777665433578999999999994  566788889999999887 899999999999999


Q ss_pred             HHHHHHHHHHHccch
Q 028315          166 QCFKDLLYKILEVPS  180 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~  180 (210)
                      ++|+++.+.+.+.++
T Consensus       169 ~lf~~l~~~i~~~~~  183 (184)
T 3ihw_A          169 RVFQDVAQKVVALRK  183 (184)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHhc
Confidence            999999998876543

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=5.3e-33  Score=198.13  Aligned_cols=164  Identities=32%  Similarity=0.551  Sum_probs=141.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|+|||||++++.++.+.. +.++.+. .....+.+++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~   80 (167)
T 1kao_A            2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIED-FYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCE-EEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcce-eEEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEE
Confidence            46899999999999999999999988766 5555553 345667788888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+...+.+..++...++...+++++++||++|.|++++|++
T Consensus        81 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  159 (167)
T 1kao_A           81 VYSLVNQQSFQDIK-PMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             EEeCCCHHHHHHHH-HHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHH
Confidence            99999999999888 55555554443568999999999999877788888888899889999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      |.+.+.+
T Consensus       160 l~~~~~~  166 (167)
T 1kao_A          160 IVRQMNY  166 (167)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhh
Confidence            9988753

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=1.1e-33  Score=210.74  Aligned_cols=174  Identities=33%  Similarity=0.611  Sum_probs=147.5

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCe----------EEEEEEEeCCCCccc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGK----------RLKLTIWDTAGQERF   74 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~----------~~~~~l~Dt~G~~~~   74 (210)
                      .....++.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.+++.          .+.+.+|||||++.+
T Consensus        18 ~~~~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~   97 (217)
T 2f7s_A           18 GSGDYDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERF   97 (217)
T ss_dssp             ---CCSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHH
T ss_pred             cCCCcceeEEEEEECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhH
Confidence            33445789999999999999999999999888765 6677777777666666665          789999999999999


Q ss_pred             ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEE
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFL  154 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~  154 (210)
                      ...+..+++.+|++|+|||++++.+++.+. .|+..+.......+.|+++|+||+|+...+.+..++...++...+++++
T Consensus        98 ~~~~~~~~~~~d~iilV~D~~~~~s~~~~~-~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~  176 (217)
T 2f7s_A           98 RSLTTAFFRDAMGFLLMFDLTSQQSFLNVR-NWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYF  176 (217)
T ss_dssp             HHHHHHHHTTCCEEEEEEETTCHHHHHHHH-HHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEE
T ss_pred             HhHHHHHhcCCCEEEEEEECcCHHHHHHHH-HHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEE
Confidence            999999999999999999999999999888 6766655433236789999999999987778888889999999999999


Q ss_pred             EecccCCcCHHHHHHHHHHHHHccch
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ++||++|.|++++|++|.+.+.+...
T Consensus       177 ~~Sa~~g~gi~~l~~~l~~~i~~~~~  202 (217)
T 2f7s_A          177 ETSAATGQNVEKAVETLLDLIMKRME  202 (217)
T ss_dssp             EEBTTTTBTHHHHHHHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            99999999999999999999876544

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.3e-32  Score=201.37  Aligned_cols=169  Identities=27%  Similarity=0.519  Sum_probs=144.8

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRG   84 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (210)
                      ......+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.
T Consensus        11 ~~~~~~~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   89 (194)
T 2atx_A           11 AHGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPM   89 (194)
T ss_dssp             SSCCEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTT
T ss_pred             CCCCCCceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCC
Confidence            33444688999999999999999999999988766 566666554 3455677788999999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-  151 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-  151 (210)
                      +|++++|||++++.+++.+...|...+....  .+.|+++|+||+|+.+.            +.+..+++..++..++. 
T Consensus        90 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~  167 (194)
T 2atx_A           90 TDVFLICFSVVNPASFQNVKEEWVPELKEYA--PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGAC  167 (194)
T ss_dssp             CSEEEEEEETTCHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCS
T ss_pred             CCEEEEEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCc
Confidence            9999999999999999998767877777654  47899999999999753            46778888899988887 


Q ss_pred             eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 ~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      +++++||++|.|++++|++|.+.++.
T Consensus       168 ~~~~~Sa~~g~gi~~l~~~l~~~i~~  193 (194)
T 2atx_A          168 CYVECSALTQKGLKTVFDEAIIAILT  193 (194)
T ss_dssp             CEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             EEEEeeCCCCCCHHHHHHHHHHHHhc
Confidence            89999999999999999999998763

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=2.4e-33  Score=208.17  Aligned_cols=170  Identities=29%  Similarity=0.540  Sum_probs=141.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+..++..+++.+|+++
T Consensus         7 ~~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   85 (212)
T 2j0v_A            7 SKFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFV   85 (212)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEE
Confidence            467999999999999999999999988766 667766554 345567888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc--------cCHHHHHHHHHHcCC-eEEEecccC
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA--------VTREEGMILAQEHKC-LFLECSAKN  160 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~--------~~~~~~~~~~~~~~~-~~~~~sa~~  160 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+...+.        +..+++..++..++. +++++||++
T Consensus        86 lv~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~  163 (212)
T 2j0v_A           86 LAFSLISKASYENVLKKWMPELRRFA--PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKT  163 (212)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCC
Confidence            99999999999998767888887654  4789999999999866543        367788888888886 899999999


Q ss_pred             CcCHHHHHHHHHHHHHccchhhh
Q 028315          161 TEDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      |.|++++|++|.+.+.+.....+
T Consensus       164 g~gi~~l~~~l~~~~~~~~~~~~  186 (212)
T 2j0v_A          164 QQNVKAVFDTAIKVVLQPPRRKE  186 (212)
T ss_dssp             CTTHHHHHHHHHHHHHCC-----
T ss_pred             CCCHHHHHHHHHHHHhhhhhhcc
Confidence            99999999999999987655433

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.8e-33  Score=206.90  Aligned_cols=168  Identities=26%  Similarity=0.356  Sum_probs=137.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCC--CCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc-cccchhhhhccc
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNS--VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER-FGTLTSSYYRGA   85 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~~   85 (210)
                      ...+.+||+++|.+|||||||+++|.+..  +....++++.++....+.+++..+.+.+|||+|.+. +..+...+++.+
T Consensus        33 ~~~~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a  112 (211)
T 2g3y_A           33 SGNTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVG  112 (211)
T ss_dssp             --CCEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCC
T ss_pred             cCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhC
Confidence            44568999999999999999999998644  344445566677777778899999999999999876 445566678899


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++|||++++.+|+.+. .|...+.......+.|+++|+||+|+...+.+..++++.++..+++++++|||++|.||+
T Consensus       113 ~~~ilVydvt~~~sf~~~~-~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~  191 (211)
T 2g3y_A          113 DAYLIVYSITDRASFEKAS-ELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVK  191 (211)
T ss_dssp             SEEEEEEETTCHHHHHHHH-HHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHH
T ss_pred             CEEEEEEECCCHHHHHHHH-HHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHH
Confidence            9999999999999999988 566655443223578999999999998777788888888888889999999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|++|.+.+..
T Consensus       192 elf~~l~~~i~~  203 (211)
T 2g3y_A          192 ELFEGIVRQVRL  203 (211)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999998753

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=2.4e-32  Score=197.27  Aligned_cols=163  Identities=20%  Similarity=0.311  Sum_probs=137.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|||||||+++|.++.+..+.++.+..+ ...+.+++..+.+.+|||||++.     ..+++++|++++
T Consensus         5 ~~~~ki~~vG~~~vGKTsli~~l~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~il   78 (178)
T 2iwr_A            5 IPELRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIF   78 (178)
T ss_dssp             CCEEEEEEECCGGGCHHHHHHHHHHSCCCCCSSCSSSEE-EEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhCCCCCcCCCcceeE-EEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEE
Confidence            467999999999999999999999999887777777554 56667888899999999999876     467889999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCC--CCCccCHHHHHHHHHHc-CCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRD--SERAVTREEGMILAQEH-KCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~  165 (210)
                      |||++++.+++.+. .|...+.....  ..+.|+++|+||+|+.  ..+.+..+++..++... +++++++||++|.|++
T Consensus        79 v~D~~~~~s~~~~~-~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~  157 (178)
T 2iwr_A           79 VFSLEDENSFQAVS-RLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVD  157 (178)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHH
T ss_pred             EEECcCHHHHHHHH-HHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHH
Confidence            99999999999988 66555544432  2578999999999994  45678888888888776 6889999999999999


Q ss_pred             HHHHHHHHHHHccch
Q 028315          166 QCFKDLLYKILEVPS  180 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~  180 (210)
                      ++|+++.+.+.+...
T Consensus       158 ~lf~~l~~~~~~~~~  172 (178)
T 2iwr_A          158 RVFQEVAQKVVTLRK  172 (178)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHh
Confidence            999999999876544

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.2e-32  Score=201.97  Aligned_cols=167  Identities=31%  Similarity=0.475  Sum_probs=143.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++. ...+..+++.+|++
T Consensus        25 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~i  102 (196)
T 2atv_A           25 KSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGF  102 (196)
T ss_dssp             --CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEE
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEE
Confidence            3567999999999999999999999988776 556666544 45567788899999999999988 77888899999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc-CHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE-DVKQC  167 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~l  167 (210)
                      ++|||++++.+++.+. .|...+.......+.|+++|+||+|+...+.+..+++..++..++++++++||++|. |++++
T Consensus       103 ilv~D~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l  181 (196)
T 2atv_A          103 VLVYDITDRGSFEEVL-PLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEI  181 (196)
T ss_dssp             EEEEETTCHHHHHTHH-HHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHH
T ss_pred             EEEEECcCHHHHHHHH-HHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHH
Confidence            9999999999999988 677766665545689999999999998777888888999999899999999999999 99999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |++|.+.+.+.+
T Consensus       182 ~~~l~~~i~~~~  193 (196)
T 2atv_A          182 FYELCREVRRRR  193 (196)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHhhc
Confidence            999999987543

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B*

Probab=100.00  E-value=1.3e-32  Score=200.00  Aligned_cols=165  Identities=22%  Similarity=0.500  Sum_probs=141.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus         4 ~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~   82 (184)
T 1m7b_A            4 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYT-ASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV   82 (184)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             CceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEE
Confidence            4678999999999999999999999988866 6677766653 4556778889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcC-CeEEE
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHK-CLFLE  155 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~  155 (210)
                      ++|||++++.+++.+...|...+....  .+.|+++|+||+|+.+.            +.+..+++..++..++ .++++
T Consensus        83 i~v~d~~~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  160 (184)
T 1m7b_A           83 LICFDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  160 (184)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC--CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEE
Confidence            999999999999998557888776654  57899999999999642            5678888889998887 68999


Q ss_pred             eccc-CCcCHHHHHHHHHHHHHc
Q 028315          156 CSAK-NTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       156 ~sa~-~~~~i~~l~~~i~~~~~~  177 (210)
                      +||+ ++.|++++|+++.+.+++
T Consensus       161 ~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          161 CSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             CBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             eeecCCCcCHHHHHHHHHHHHhc
Confidence            9999 689999999999998874

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=1.7e-32  Score=201.92  Aligned_cols=168  Identities=29%  Similarity=0.498  Sum_probs=137.5

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.+||+++|++|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+..++..+++++|+
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDI   94 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSE
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcE
Confidence            34678999999999999999999999888766 556665444 4556778888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEE
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFL  154 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~  154 (210)
                      +++|||++++.++..+...|...+....  .+.|+++|+||+|+..            .+.+..+++..++..++. +++
T Consensus        95 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~  172 (201)
T 2q3h_A           95 FLLCFSVVSPSSFQNVSEKWVPEIRCHC--PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYI  172 (201)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHC--SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEE
T ss_pred             EEEEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEE
Confidence            9999999999999998767887777654  4899999999999965            356778888888888887 899


Q ss_pred             EecccCCcCHHHHHHHHHHHHHccc
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ++||++|.|++++|++|.+.+.+.+
T Consensus       173 ~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          173 ECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             EEecCCCCCHHHHHHHHHHHHhccc
Confidence            9999999999999999999887543

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ...

Probab=100.00  E-value=3e-32  Score=197.80  Aligned_cols=166  Identities=29%  Similarity=0.518  Sum_probs=143.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...+||+++|++|+|||||+++|.+..+.. +.++.+..+ .....+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         3 ~~~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   81 (186)
T 1mh1_A            3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (186)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             CcEEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEE
Confidence            467999999999999999999999888766 556665444 455677888999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+.+.            +.+..++...++...+. +++++
T Consensus        82 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  159 (186)
T 1mh1_A           82 ICFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (186)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEECCChhhHHHHHHHHHHHHHHhC--CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEe
Confidence            99999999999988766877776654  48899999999998653            46777888888888887 89999


Q ss_pred             cccCCcCHHHHHHHHHHHHHccc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ||++|.|++++|+++.+.+.+.+
T Consensus       160 Sa~~g~gi~~l~~~l~~~~~~~~  182 (186)
T 1mh1_A          160 SALTQRGLKTVFDEAIRAVLCPP  182 (186)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSCCC
T ss_pred             cCCCccCHHHHHHHHHHHHhccc
Confidence            99999999999999999987554

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi}

Probab=100.00  E-value=6.4e-33  Score=206.69  Aligned_cols=177  Identities=29%  Similarity=0.465  Sum_probs=146.3

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhcc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRG   84 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (210)
                      +......+||+++|.+|||||||+++|++..+.. +.++.+.+......... +..+.+.+|||||++.+...+..+++.
T Consensus         5 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~   84 (218)
T 4djt_A            5 MERRELTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIG   84 (218)
T ss_dssp             -----CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTT
T ss_pred             cccccCccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhc
Confidence            3455678999999999999999999999888766 56777776666665554 344899999999999999999999999


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|++++|+|++++.+++.+. .|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||++|.|+
T Consensus        85 ~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv  162 (218)
T 4djt_A           85 ASGAILFFDVTSRITCQNLA-RWVKEFQAVV-GNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNF  162 (218)
T ss_dssp             CSEEEEEEETTCHHHHHTHH-HHHHHHHHHH-CSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTT
T ss_pred             CCEEEEEEeCCCHHHHHHHH-HHHHHHHHhc-CCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCH
Confidence            99999999999999999998 7777776655 456899999999999887788888888888889999999999999999


Q ss_pred             HHHHHHHHHHHHccchhhhcc
Q 028315          165 KQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       165 ~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      +++|++|.+.+.+........
T Consensus       163 ~~l~~~l~~~~~~~~~~~~~~  183 (218)
T 4djt_A          163 GLPFLHLARIFTGRPDLIFVS  183 (218)
T ss_dssp             THHHHHHHHHHHCCTTCCBCS
T ss_pred             HHHHHHHHHHHhccccccccc
Confidence            999999999998877655443

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens}

Probab=100.00  E-value=2.7e-32  Score=202.93  Aligned_cols=167  Identities=32%  Similarity=0.560  Sum_probs=124.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|.+|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        32 ~~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i  110 (214)
T 2j1l_A           32 VRSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLL  110 (214)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEE
Confidence            467999999999999999999999888766 555554443 455678888999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+...+            .+..+++..++...++ +++++
T Consensus       111 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  188 (214)
T 2j1l_A          111 LCFDVTSPNSFDNIFNRWYPEVNHFC--KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLEC  188 (214)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC--SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEECcCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEe
Confidence            99999999999998767888776654  578999999999997642            5677788889988887 89999


Q ss_pred             cccCCcCHHHHHHHHHHHHHccch
Q 028315          157 SAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ||++|.|++++|++|.+.+.+.+.
T Consensus       189 SA~~g~gi~el~~~l~~~~~~~~~  212 (214)
T 2j1l_A          189 SARLHDNVHAVFQEAAEVALSSRG  212 (214)
T ss_dssp             BTTTTBSHHHHHHHHHHHHHHC--
T ss_pred             cCCCCCCHHHHHHHHHHHHHHhhc
Confidence            999999999999999999886543

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A*

Probab=100.00  E-value=1.1e-31  Score=195.77  Aligned_cols=167  Identities=29%  Similarity=0.504  Sum_probs=132.6

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +....+||+++|.+|||||||+++|.+..+.. +.++.+.. ....+.+++..+.+.+|||||++.+...+..+++.+|+
T Consensus        17 ~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   95 (190)
T 3con_A           17 QGMTEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEG   95 (190)
T ss_dssp             --CEEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCC-----------CTTCSE
T ss_pred             cccceeEEEEECcCCCCHHHHHHHHHcCCCccccCCccceE-EEEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCE
Confidence            34578999999999999999999999988766 44555443 34556778888999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|++++.+++.+. .|...+.......+.|+++|+||+|+.. +.+..++...++...+++++++||++|.|++++
T Consensus        96 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  173 (190)
T 3con_A           96 FLCVFAINNSKSFADIN-LYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDA  173 (190)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            99999999999999887 7777776665456799999999999976 567778888899989999999999999999999


Q ss_pred             HHHHHHHHHcc
Q 028315          168 FKDLLYKILEV  178 (210)
Q Consensus       168 ~~~i~~~~~~~  178 (210)
                      |++|.+.+.+.
T Consensus       174 ~~~l~~~~~~~  184 (190)
T 3con_A          174 FYTLVREIRQY  184 (190)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988754

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=1.5e-32  Score=198.62  Aligned_cols=168  Identities=33%  Similarity=0.579  Sum_probs=129.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..+.+||+++|++|+|||||+++|.+..+.. +.++.+.++....+.++ +..+.+.+|||||++.+...+..+++.+|+
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   84 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADC   84 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCE
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCE
Confidence            4578999999999999999999999988766 67777777777776666 556899999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCC-CCccCHHHHHHHHH-HcCCeEEEecccCCc
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDS-ERAVTREEGMILAQ-EHKCLFLECSAKNTE  162 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~  162 (210)
                      +++|+|++++.+++.+. .|...+.....   ..+.|+++|+||+|+.. .+.+..++...++. ..+.+++++||++|.
T Consensus        85 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~  163 (182)
T 1ky3_A           85 CVLVYDVTNASSFENIK-SWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAI  163 (182)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTB
T ss_pred             EEEEEECCChHHHHHHH-HHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCC
Confidence            99999999999999988 67666655432   26789999999999953 34567778888877 567889999999999


Q ss_pred             CHHHHHHHHHHHHHcc
Q 028315          163 DVKQCFKDLLYKILEV  178 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~  178 (210)
                      |++++|++|.+.+.+.
T Consensus       164 gi~~l~~~l~~~~~~~  179 (182)
T 1ky3_A          164 NVDTAFEEIARSALQQ  179 (182)
T ss_dssp             SHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHh
Confidence            9999999999988754

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=8.1e-32  Score=198.25  Aligned_cols=162  Identities=36%  Similarity=0.624  Sum_probs=141.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeE-----------------------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKR-----------------------------   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~-----------------------------   60 (210)
                      .+.+||+++|++|+|||||+++|++..+.. +.++.+.++....+.+++..                             
T Consensus         5 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (208)
T 3clv_A            5 KSSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHN   84 (208)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccc
Confidence            467999999999999999999999998776 77888877777776666554                             


Q ss_pred             --------EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           61 --------LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        61 --------~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                              +.+.+|||||++.+...+..+++.+|++++|+|++++.+++.+. .|+..+....   +.|+++|+||+| .
T Consensus        85 ~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~-~~~~~i~~~~---~~piilv~NK~D-~  159 (208)
T 3clv_A           85 NYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAK-TWVNQLKISS---NYIIILVANKID-K  159 (208)
T ss_dssp             CCCTTTCEEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHH-HHHHHHHHHS---CCEEEEEEECTT-C
T ss_pred             cccCccceeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHH-HHHHHHHhhC---CCcEEEEEECCC-c
Confidence                    89999999999999999999999999999999999999999888 6777766544   389999999999 5


Q ss_pred             CCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..+.+..+++..++...+++++++||++|.|++++|++|.+.+.+
T Consensus       160 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  204 (208)
T 3clv_A          160 NKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYK  204 (208)
T ss_dssp             C-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            556778888999999999999999999999999999999998864

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8

Probab=100.00  E-value=3e-32  Score=201.49  Aligned_cols=165  Identities=22%  Similarity=0.497  Sum_probs=141.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      ..+.+||+++|++|||||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~  103 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAV  103 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEE
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEE
Confidence            3578999999999999999999999998876 567776665 34556778889999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcC-CeEEE
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHK-CLFLE  155 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~~  155 (210)
                      ++|||++++.+|+.+...|...+....  .+.|+++|+||+|+.+            .+.+..+++..++..++ .++++
T Consensus       104 ilv~D~~~~~s~~~~~~~~~~~i~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e  181 (205)
T 1gwn_A          104 LICFDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIE  181 (205)
T ss_dssp             EEEEETTCHHHHHHHHHTHHHHHHHHC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEE
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHHHC--CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEE
Confidence            999999999999998547888776654  5789999999999964            25677888889998887 68999


Q ss_pred             eccc-CCcCHHHHHHHHHHHHHc
Q 028315          156 CSAK-NTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       156 ~sa~-~~~~i~~l~~~i~~~~~~  177 (210)
                      |||+ ++.|++++|++|.+.++.
T Consensus       182 ~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          182 CSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             CCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             eeeccCCcCHHHHHHHHHHHHhh
Confidence            9999 689999999999998874

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ...

Probab=100.00  E-value=2e-31  Score=189.67  Aligned_cols=162  Identities=30%  Similarity=0.519  Sum_probs=139.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|+|||||++++.+..+.. +.++.+.. ....+.+++..+.+.+|||||++.+...+..+++.+|++++|
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIEDS-YRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEE
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccceE-EEEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEE
Confidence            5899999999999999999999988766 44555443 345567788889999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +|++++.+++.+. .|...+.......+.|+++|+||+|+.+ +....++...+....+++++++||++|.|++++|++|
T Consensus        82 ~d~~~~~~~~~~~-~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  159 (166)
T 2ce2_X           82 FAINNTKSFEDIH-QYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTL  159 (166)
T ss_dssp             EETTCHHHHHHHH-HHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHH
T ss_pred             EECCCHHHHHHHH-HHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHH
Confidence            9999999999887 6777776665455899999999999876 4567778888888899999999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      .+.+.+
T Consensus       160 ~~~~~~  165 (166)
T 2ce2_X          160 VREIRQ  165 (166)
T ss_dssp             HHHHHT
T ss_pred             HHHHHh
Confidence            998764

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ...

Probab=100.00  E-value=1.2e-31  Score=197.61  Aligned_cols=164  Identities=29%  Similarity=0.533  Sum_probs=142.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...+||+++|.+|+|||||+++|.+..+.. +.++.+.++. ..+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (201)
T 2gco_A           23 AIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (201)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEE
Confidence            568999999999999999999999988766 5666666554 34577888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+...            +.+..+++..++...+. +++++
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (201)
T 2gco_A          102 MCFSIDSPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLEC  179 (201)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEe
Confidence            99999999999998557888877654  57899999999999765            45777888888888888 89999


Q ss_pred             cccCCcCHHHHHHHHHHHHHc
Q 028315          157 SAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ||++|.|++++|++|.+.+.+
T Consensus       180 SA~~g~gi~~l~~~i~~~~l~  200 (201)
T 2gco_A          180 SAKTKEGVREVFEMATRAGLQ  200 (201)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHC
T ss_pred             eCCCCCCHHHHHHHHHHHHhc
Confidence            999999999999999998764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.1e-32  Score=194.00  Aligned_cols=164  Identities=29%  Similarity=0.480  Sum_probs=137.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..+||+++|++|+|||||++++.+..+.. +.++.+.++. .....++..+.+.+|||||++.+...+..+++.+|++++
T Consensus         2 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~   80 (172)
T 2erx_A            2 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   80 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEE
Confidence            46999999999999999999999988765 5566554443 445678888999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      |+|++++.+++.+. .|...+.... ...+.|+++|+||+|+...+.+..++...++..++++++++||++|.|++++|+
T Consensus        81 v~d~~~~~~~~~~~-~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  159 (172)
T 2erx_A           81 VYSITSRQSLEELK-PIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQ  159 (172)
T ss_dssp             EEETTCHHHHHTTH-HHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHH
T ss_pred             EEECcCHHHHHHHH-HHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHH
Confidence            99999999998888 4555444432 235789999999999987777888888888888899999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      +|.+.+..
T Consensus       160 ~l~~~~~~  167 (172)
T 2erx_A          160 ELLNLEKR  167 (172)
T ss_dssp             HHHHTCCS
T ss_pred             HHHHHHhh
Confidence            99886643

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} SCOP: c.37.1.8 PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 4gmx_A* 4gpt_A* 4hat_A* 4hau_A* 4hav_A* 4haw_A* ...

Probab=100.00  E-value=9.6e-33  Score=206.25  Aligned_cols=175  Identities=27%  Similarity=0.507  Sum_probs=150.8

Q ss_pred             CCCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            5 VGNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         5 ~~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      .......+.+||+++|.+|||||||+++|+.+.+.. +.++.+.++......+++..+.+.+|||||++.+...+..+++
T Consensus         7 ~~~~~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   86 (221)
T 3gj0_A            7 AAQGEPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYI   86 (221)
T ss_dssp             CSTTCCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHT
T ss_pred             ccCCCcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHh
Confidence            444556788999999999999999999977776655 7888899999888899999999999999999999999999999


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|||++++.+++.+. .|+..+....  .+.|+++|+||+|+.+... .. +...++...+++++++||++|.|
T Consensus        87 ~~~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~-~~-~~~~~~~~~~~~~~~~Sa~~~~g  161 (221)
T 3gj0_A           87 QAQCAIIMFDVTSRVTYKNVP-NWHRDLVRVC--ENIPIVLCGNKVDIKDRKV-KA-KSIVFHRKKNLQYYDISAKSNYN  161 (221)
T ss_dssp             TCCEEEEEEETTCHHHHHTHH-HHHHHHHHHS--TTCCEEEEEECTTSSSCSS-CG-GGCCHHHHHTCEEEECBGGGTBT
T ss_pred             cCCEEEEEEECCCHHHHHHHH-HHHHHHHHhC--CCCCEEEEEECCccccccc-cH-HHHHHHHHcCCEEEEEeCCCCCC
Confidence            999999999999999999998 6777776654  5789999999999975432 22 45567777889999999999999


Q ss_pred             HHHHHHHHHHHHHccchhhhc
Q 028315          164 VKQCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       164 i~~l~~~i~~~~~~~~~~~~~  184 (210)
                      ++++|++|.+.+...+.....
T Consensus       162 i~~l~~~l~~~l~~~~~~~~~  182 (221)
T 3gj0_A          162 FEKPFLWLARKLIGDPNLEFV  182 (221)
T ss_dssp             TTHHHHHHHHHHHTCTTCCEE
T ss_pred             HHHHHHHHHHHHHhCcccccc
Confidence            999999999999987765433

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=2e-31  Score=197.20  Aligned_cols=165  Identities=28%  Similarity=0.525  Sum_probs=139.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ...+||+++|.+|+|||||+++|.+..+.. +.++.+..+.. .+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        23 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i  101 (207)
T 2fv8_A           23 MIRKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVA-DIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVIL  101 (207)
T ss_dssp             SEEEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEEEE-EEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEE
T ss_pred             ccCcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceEEE-EEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEE
Confidence            467999999999999999999999988876 55666655543 3577888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+...            +.+..+++..++...+. +++++
T Consensus       102 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  179 (207)
T 2fv8_A          102 MCFSVDSPDSLENIPEKWVPEVKHFC--PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLEC  179 (207)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEe
Confidence            99999999999998557888776644  57899999999999654            45677788888888888 89999


Q ss_pred             cccCCcCHHHHHHHHHHHHHcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ||++|.|++++|++|.+.+.+.
T Consensus       180 SA~~g~gi~el~~~l~~~i~~~  201 (207)
T 2fv8_A          180 SAKTKEGVREVFETATRAALQK  201 (207)
T ss_dssp             CTTTCTTHHHHHHHHHHHHHSC
T ss_pred             eCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999999999998754

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=100.00  E-value=1.4e-31  Score=195.96  Aligned_cols=167  Identities=25%  Similarity=0.335  Sum_probs=135.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc-cccchhhhhccccE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER-FGTLTSSYYRGAHG   87 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~~d~   87 (210)
                      .+.+||+++|++|||||||+++|.+..  +....++++.++....+.+++..+.+.+|||+|.+. +..+...+++.+|+
T Consensus         4 ~~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~   83 (192)
T 2cjw_A            4 MTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDA   83 (192)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCE
Confidence            457999999999999999999998643  344445566676667778899999999999999776 55667778899999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.+|+.+. .|...+.......+.|+++|+||+|+...+.+..+++..++..+++++++|||++|.||+++
T Consensus        84 ~i~v~dv~~~~s~~~~~-~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~l  162 (192)
T 2cjw_A           84 YLIVYSITDRASFEKAS-ELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKEL  162 (192)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             EEEEEECCCHHHHHHHH-HHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHH
Confidence            99999999999999988 56665554432457899999999999877778888888888888999999999999999999


Q ss_pred             HHHHHHHHHcc
Q 028315          168 FKDLLYKILEV  178 (210)
Q Consensus       168 ~~~i~~~~~~~  178 (210)
                      |+++.+.+...
T Consensus       163 f~~l~~~~~~~  173 (192)
T 2cjw_A          163 FEGIVRQVRLR  173 (192)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999988643

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A*

Probab=100.00  E-value=1.4e-32  Score=201.27  Aligned_cols=169  Identities=22%  Similarity=0.234  Sum_probs=134.6

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCC-----------CCceeeEEEEEEE-EECCeEEEEEEEeCCCCcc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDP-----------SPTIGVDFKIKLL-TVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~l~Dt~G~~~   73 (210)
                      .....++.+||+++|++|||||||++.+.+.....+           .++.+.++....+ .+++..+.+.+|||||++.
T Consensus         7 ~~~~~~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~   86 (198)
T 3t1o_A            7 NFANREINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVF   86 (198)
T ss_dssp             ETTTTEEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCS
T ss_pred             chhccccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHH
Confidence            344567899999999999999999976655443332           2344444444434 5567789999999999999


Q ss_pred             cccchhhhhccccEEEEEEeCC------CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH
Q 028315           74 FGTLTSSYYRGAHGIILVYDVT------RRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ  147 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~------~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~  147 (210)
                      +...+..+++.+|++++|||++      +..++..+. .|+..+..  ...+.|+++|+||+|+.+.  +..+++..++.
T Consensus        87 ~~~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~-~~l~~~~~--~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~  161 (198)
T 3t1o_A           87 YNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMR-ENLAEYGL--TLDDVPIVIQVNKRDLPDA--LPVEMVRAVVD  161 (198)
T ss_dssp             CSHHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHH-HHHHHTTC--CTTSSCEEEEEECTTSTTC--CCHHHHHHHHC
T ss_pred             HHHHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHH-HHHHhhcc--ccCCCCEEEEEEchhcccc--cCHHHHHHHHH
Confidence            9999999999999999999999      455666665 45555421  2368899999999999653  77888889999


Q ss_pred             HcCC-eEEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          148 EHKC-LFLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       148 ~~~~-~~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ..++ +++++||++|.|++++|++|.+.+.+..
T Consensus       162 ~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~  194 (198)
T 3t1o_A          162 PEGKFPVLEAVATEGKGVFETLKEVSRLVLARV  194 (198)
T ss_dssp             TTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHH
T ss_pred             hcCCceEEEEecCCCcCHHHHHHHHHHHHHHHh
Confidence            8999 9999999999999999999999988654

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=1.3e-32  Score=203.25  Aligned_cols=169  Identities=23%  Similarity=0.340  Sum_probs=111.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--CCCC-CCCceeeEEEEEEEEECCe--EEEEEEEeCCCCcccccchhhhhccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--SVHD-PSPTIGVDFKIKLLTVGGK--RLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~-~~~~~~~~~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      .+.+||+++|++|+|||||+++|.+.  .+.. +.++.+.++....+.+++.  .+.+.+|||||++.+...+..+++.+
T Consensus        18 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   97 (208)
T 2yc2_C           18 TLRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGV   97 (208)
T ss_dssp             EEEEEEEEC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCC
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhC
Confidence            46899999999999999999999988  6654 6677777777777777776  89999999999999999999999999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCCC-CCccCHHHHHHHHHHcCCeEEEecccC-C
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRDS-ERAVTREEGMILAQEHKCLFLECSAKN-T  161 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~sa~~-~  161 (210)
                      |++++|||++++.+++.+. .|+..+.....  ..+.|+++|+||+|+.. .+.+..+++..++..++++++++||++ |
T Consensus        98 d~~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~  176 (208)
T 2yc2_C           98 YYAILVFDVSSMESFESCK-AWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPG  176 (208)
T ss_dssp             CEEEEEEETTCHHHHHHHH-HHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC----
T ss_pred             cEEEEEEECCCHHHHHHHH-HHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCC
Confidence            9999999999999999998 78887776652  15889999999999987 677888899999999999999999999 9


Q ss_pred             cCHHHHHHHHHHHHHccch
Q 028315          162 EDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~  180 (210)
                      .|++++|++|.+.+.+...
T Consensus       177 ~gi~~l~~~i~~~~~~~~~  195 (208)
T 2yc2_C          177 KDADAPFLSIATTFYRNYE  195 (208)
T ss_dssp             ---CHHHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHHHHHHH
Confidence            9999999999998876544

>4gzl_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTP binding, membrane, hydrolase; HET: GNP; 2.00A {Homo sapiens} PDB: 3th5_A* 4gzm_A*

Probab=100.00  E-value=1.1e-31  Score=198.28  Aligned_cols=162  Identities=28%  Similarity=0.511  Sum_probs=137.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|.+|||||||+++|.+..+.. +.++.+ +.....+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        28 ~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i  106 (204)
T 4gzl_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFL  106 (204)
T ss_dssp             --CEEEEEEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEE
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEE
Confidence            567999999999999999999999888876 555554 444556677888899999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|||++++.+++.+...|...+....  .+.|+++|+||+|+...+            .+..+++..++...+. +++++
T Consensus       107 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~  184 (204)
T 4gzl_A          107 ICFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  184 (204)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC--SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEe
Confidence            99999999999998767888877654  678999999999987543            2777788888888886 59999


Q ss_pred             cccCCcCHHHHHHHHHHHH
Q 028315          157 SAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~  175 (210)
                      ||++|.|++++|++|.+.+
T Consensus       185 SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          185 SALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             CTTTCTTHHHHHHHHHHTT
T ss_pred             eCCCCCCHHHHHHHHHHHh
Confidence            9999999999999998754

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C

Probab=100.00  E-value=1.4e-32  Score=198.93  Aligned_cols=164  Identities=32%  Similarity=0.569  Sum_probs=127.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|++|+|||||++++.+..+.. +.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus         6 ~~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i   84 (182)
T 3bwd_D            6 SRFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFI   84 (182)
T ss_dssp             -CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEE
Confidence            457999999999999999999999888765 5555554332 22345566788899999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc----------cCHHHHHHHHHHcCC-eEEEecc
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA----------VTREEGMILAQEHKC-LFLECSA  158 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~----------~~~~~~~~~~~~~~~-~~~~~sa  158 (210)
                      +|+|++++.+++.+...|...+....  .+.|+++|+||+|+.+.+.          +..+++..++..++. +++++||
T Consensus        85 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa  162 (182)
T 3bwd_D           85 LAFSLISKASYENVSKKWIPELKHYA--PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSS  162 (182)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCT
T ss_pred             EEEECCCHHHHHHHHHHHHHHHHHhC--CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEEC
Confidence            99999999999998767888877654  4789999999999866544          467788888888886 8999999


Q ss_pred             cCCcCHHHHHHHHHHHHHc
Q 028315          159 KNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~  177 (210)
                      ++|.|++++|++|.+.+.+
T Consensus       163 ~~~~gi~~l~~~l~~~i~~  181 (182)
T 3bwd_D          163 KSQENVKGVFDAAIRVVLQ  181 (182)
T ss_dssp             TTCTTHHHHHHHHHHHHSC
T ss_pred             CCCCCHHHHHHHHHHHHhc
Confidence            9999999999999988753

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=100.00  E-value=5.5e-34  Score=209.73  Aligned_cols=167  Identities=50%  Similarity=0.830  Sum_probs=138.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|.+|||||||+++|.+..+.. +.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++
T Consensus        30 ~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~  109 (199)
T 3l0i_B           30 YDYLFKLLLIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGI  109 (199)
T ss_dssp             CSEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEE
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEE
Confidence            4678999999999999999999999888776 667777788888888899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|||++++.+++.+. .|+..+.... ..+.|+++|+||+|+.+.+.+..++...++..++++++++||++|.|++++|
T Consensus       110 i~v~d~~~~~s~~~~~-~~~~~i~~~~-~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~  187 (199)
T 3l0i_B          110 IVVYDVTDQESFNNVK-QWLQEIDRYA-SENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSF  187 (199)
T ss_dssp             EECC-CCCSHHHHHHH-HHHHHHHSCC--CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHH
T ss_pred             EEEEECCCHHHHHHHH-HHHHHHHHhc-cCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHH
Confidence            9999999999999998 6777775544 3578999999999998777777777888899999999999999999999999


Q ss_pred             HHHHHHHHcc
Q 028315          169 KDLLYKILEV  178 (210)
Q Consensus       169 ~~i~~~~~~~  178 (210)
                      ++|.+.+.++
T Consensus       188 ~~l~~~l~~~  197 (199)
T 3l0i_B          188 MTMAAEIKKR  197 (199)
T ss_dssp             HHHTTTTTTT
T ss_pred             HHHHHHHHHh
Confidence            9998876543

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A*

Probab=99.98  E-value=1.4e-31  Score=191.77  Aligned_cols=161  Identities=23%  Similarity=0.354  Sum_probs=127.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|+|||||++++.++.+..+.++.+....  .+.+.  ...+.+|||||++.+...+..+++.+|++++
T Consensus         5 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~~--~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   80 (171)
T 1upt_A            5 TREMRILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVE--TVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIY   80 (171)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHHSSCCCCCCCSSEEEE--EEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCcCCcCccceE--EEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEEE
Confidence            3569999999999999999999999988777777765443  33444  5789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH-H----HHHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI-L----AQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.++.....++...+.. ....+.|+++|+||+|+.+...  .++... +    ....+++++++||++|.|++
T Consensus        81 v~d~~~~~s~~~~~~~~~~~~~~-~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  157 (171)
T 1upt_A           81 VVDSCDRDRIGISKSELVAMLEE-EELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLD  157 (171)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHTC-GGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHH
T ss_pred             EEECCCHHHHHHHHHHHHHHHhc-hhhCCCEEEEEEECCCCcCCCC--HHHHHHHhCchhccCCceEEEECcCCCCcCHH
Confidence            99999999998888444444432 2136789999999999976432  222222 1    12345689999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ++|++|.+.+.+.
T Consensus       158 ~l~~~l~~~i~~~  170 (171)
T 1upt_A          158 EAMEWLVETLKSR  170 (171)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHhhc
Confidence            9999999988754

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=1.7e-31  Score=196.00  Aligned_cols=168  Identities=17%  Similarity=0.264  Sum_probs=126.0

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR   83 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~   83 (210)
                      ..++..+..||+++|.+|||||||+++|.+..+..  +.++.+.....    ++...+.+.+|||||++.+...+..+++
T Consensus        10 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~----~~~~~~~~~i~Dt~G~~~~~~~~~~~~~   85 (199)
T 4bas_A           10 HMGQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVET----FEKGRVAFTVFDMGGAKKFRGLWETYYD   85 (199)
T ss_dssp             ------CEEEEEEECCTTSCHHHHHHHHSCCC----CCCCCSSEEEEE----EEETTEEEEEEEECCSGGGGGGGGGGCT
T ss_pred             cccCCCCCcEEEEECCCCCCHHHHHHHHhcCCCcccccccccceeEEE----EEeCCEEEEEEECCCCHhHHHHHHHHHh
Confidence            34455789999999999999999999999988766  36777744442    3345678999999999999999999999


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc------CCCCcEEEEEeCCCCCCCCccCHHHHH-HH-----HHHcCC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYST------NQDCVKILVGNKVDRDSERAVTREEGM-IL-----AQEHKC  151 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~------~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~-----~~~~~~  151 (210)
                      .+|++|+|||++++.+|..+..++...+.....      ..+.|+++|+||+|+.....  .++.. .+     ....++
T Consensus        86 ~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~  163 (199)
T 4bas_A           86 NIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPF  163 (199)
T ss_dssp             TCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCE
T ss_pred             cCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCee
Confidence            999999999999999999998555444432110      13789999999999976532  11111 11     134677


Q ss_pred             eEEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          152 LFLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       152 ~~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      +++++||++|.|++++|++|.+.+.+..
T Consensus       164 ~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          164 VIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             EEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             EEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            8999999999999999999999887553

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=8.1e-30  Score=187.46  Aligned_cols=167  Identities=43%  Similarity=0.738  Sum_probs=145.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++.++|+++|++|||||||++++.+..+.. +.++.+.++....+.+++..+.+.+|||+|++.+...+..+++.+++++
T Consensus         3 ~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i   82 (199)
T 2f9l_A            3 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   82 (199)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEE
Confidence            568999999999999999999999988766 6688888888888889999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|+.+..+++.+. .|...+.... ..+.|+++++||+|+...+.+..+++..++...++.++++||+++.|++++|+
T Consensus        83 ~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~  160 (199)
T 2f9l_A           83 LVYDIAKHLTYENVE-RWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFK  160 (199)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEECcCHHHHHHHH-HHHHHHHHhc-CCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHH
Confidence            999999999998887 5666554433 35789999999999987777778888899999999999999999999999999


Q ss_pred             HHHHHHHccc
Q 028315          170 DLLYKILEVP  179 (210)
Q Consensus       170 ~i~~~~~~~~  179 (210)
                      +|.+.+.+..
T Consensus       161 ~l~~~~~~~~  170 (199)
T 2f9l_A          161 NILTEIYRIV  170 (199)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHH
Confidence            9999987643

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ...

Probab=99.97  E-value=5.1e-32  Score=192.89  Aligned_cols=157  Identities=22%  Similarity=0.342  Sum_probs=120.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|++|+|||||++++.++.+..+.|+.+...  ..  +....+.+.+|||||++.+...+..+++++|++++|+|
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~--~~--~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   76 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNV--ET--VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCE--EE--EECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCcccCcCceeE--EE--EEECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEE
Confidence            589999999999999999999888877777766332  22  23345789999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++++.++..+. .|...+.......+.|+++|+||+|+.+..  ..++.....     ...+++++++||++|.|++++|
T Consensus        77 ~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~  153 (164)
T 1r8s_A           77 SNDRERVNEAR-EELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGL  153 (164)
T ss_dssp             TTCGGGHHHHH-HHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHH
T ss_pred             CCCHHHHHHHH-HHHHHHHhchhhcCCeEEEEEECcCCcCCC--CHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHH
Confidence            99999999888 444444332224578999999999996542  222222211     1134579999999999999999


Q ss_pred             HHHHHHHHc
Q 028315          169 KDLLYKILE  177 (210)
Q Consensus       169 ~~i~~~~~~  177 (210)
                      ++|.+.+.+
T Consensus       154 ~~l~~~i~~  162 (164)
T 1r8s_A          154 DWLSNQLRN  162 (164)
T ss_dssp             HHHHHHC--
T ss_pred             HHHHHHHhh
Confidence            999987753

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B*

Probab=99.97  E-value=1.5e-30  Score=190.09  Aligned_cols=157  Identities=22%  Similarity=0.297  Sum_probs=125.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|||||||++++.+..+..+.++.+.+.  ..+.+++  +.+.+|||||++.+...+..+++.+|++++
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~~~~t~~~~~--~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~   96 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLATLQPTWHPTS--EELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVF   96 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCCCCCCCSCEE--EEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCccccCCCCCe--EEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEE
Confidence            356899999999999999999999998877777777653  3445555  789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH------------cCCeEEEecc
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE------------HKCLFLECSA  158 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~------------~~~~~~~~sa  158 (210)
                      |+|++++.+|+.+. .|...+.......+.|+++|+||+|+.+  .+..++.......            .+++++++||
T Consensus        97 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  173 (190)
T 1m2o_B           97 LVDAADPERFDEAR-VELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSV  173 (190)
T ss_dssp             EEETTCGGGHHHHH-HHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBT
T ss_pred             EEECCChHHHHHHH-HHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeEC
Confidence            99999999999988 4554443332246789999999999965  4555555554432            3457999999


Q ss_pred             cCCcCHHHHHHHHHHH
Q 028315          159 KNTEDVKQCFKDLLYK  174 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~  174 (210)
                      ++|.|++++|++|.+.
T Consensus       174 ~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          174 VMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TTTBSHHHHHHHHHTT
T ss_pred             CcCCCHHHHHHHHHhh
Confidence            9999999999998753

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A*

Probab=99.97  E-value=6.8e-31  Score=193.15  Aligned_cols=157  Identities=19%  Similarity=0.280  Sum_probs=119.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.++|+++|++|||||||++++.++.+..+.++.+.+.  ..+.+++  +.+.+|||||++.+...+..+++.+|++++
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~t~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~   98 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   98 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCCccCCCCCcee--EEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEE
Confidence            346899999999999999999999888776777776653  3445555  789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-----------------cCCeE
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-----------------HKCLF  153 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~  153 (210)
                      |+|++++.+|+.+. .|...+.......+.|+++|+||+|+.+  .+..++...+...                 .++++
T Consensus        99 v~D~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  175 (198)
T 1f6b_A           99 LVDCADHERLLESK-EELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  175 (198)
T ss_dssp             EEETTCGGGHHHHH-HHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             EEECCCHHHHHHHH-HHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEE
Confidence            99999999999988 4555443332246799999999999965  4566666665542                 24579


Q ss_pred             EEecccCCcCHHHHHHHHHHH
Q 028315          154 LECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      ++|||++|.|++++|++|.+.
T Consensus       176 ~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          176 FMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             EECBTTTTBSHHHHHHHHHTT
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            999999999999999998764

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A*

Probab=99.97  E-value=2.8e-31  Score=193.56  Aligned_cols=160  Identities=18%  Similarity=0.321  Sum_probs=125.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|.+|+|||||+++|.+..+.. +.++.+.++..    +....+.+.+|||||++.+...+..+++.+|+++
T Consensus        20 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii   95 (188)
T 1zd9_A           20 KEEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIV   95 (188)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE----EEETTEEEEEEEECCSHHHHTTHHHHHTTCSEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE----EEeCCEEEEEEECCCCHhHHHHHHHHHccCCEEE
Confidence            458999999999999999999999988875 77787776653    2233578999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDV  164 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i  164 (210)
                      +|+|++++.+++.+..++...+.. ....+.|+++|+||+|+....  ..++......     ..+++++++||++|.|+
T Consensus        96 ~v~D~~~~~s~~~~~~~~~~~~~~-~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv  172 (188)
T 1zd9_A           96 YMVDAADQEKIEASKNELHNLLDK-PQLQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNI  172 (188)
T ss_dssp             EEEETTCGGGHHHHHHHHHHHHTC-GGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhC-cccCCCCEEEEEECCCCccCC--CHHHHHHHhChhhhccCCeeEEEEECCCCCCH
Confidence            999999999999888444444432 213678999999999996542  2222222111     23457999999999999


Q ss_pred             HHHHHHHHHHHHc
Q 028315          165 KQCFKDLLYKILE  177 (210)
Q Consensus       165 ~~l~~~i~~~~~~  177 (210)
                      +++|++|.+.+.+
T Consensus       173 ~~l~~~l~~~~~~  185 (188)
T 1zd9_A          173 DITLQWLIQHSKS  185 (188)
T ss_dssp             HHHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999987654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.97  E-value=1e-31  Score=195.83  Aligned_cols=161  Identities=20%  Similarity=0.323  Sum_probs=124.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|+|||||++++.++.+..+.|+.+....  .+...  .+.+.+|||||++.+...+..+++.+|++++
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~t~~~~~~--~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   95 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVTTVPTVGVNLE--TLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVIY   95 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEEECSSTTCCEE--EEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCCcCCCCceEEE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEEE
Confidence            4679999999999999999999988877666666664333  33344  5789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.++.....++...+. .....+.|+++|+||+|+.+...  .++.....     ...+++++++||++|.|++
T Consensus        96 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  172 (189)
T 2x77_A           96 VVDSTDRDRMGVAKHELYALLD-EDELRKSLLLIFANKQDLPDAAS--EAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLV  172 (189)
T ss_dssp             EEETTCCTTHHHHHHHHHHHHT-CSTTTTCEEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEeCCCHHHHHHHHHHHHHHHh-hhhcCCCeEEEEEECCCCcCCCC--HHHHHHHhChhhccCCceEEEEccCCCccCHH
Confidence            9999999999988844444433 22235789999999999965432  22222211     2234579999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ++|++|.+.+.+.
T Consensus       173 ~l~~~l~~~i~~~  185 (189)
T 2x77_A          173 EGMDWLVERLREQ  185 (189)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988654

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A*

Probab=99.97  E-value=1.6e-31  Score=195.61  Aligned_cols=160  Identities=21%  Similarity=0.330  Sum_probs=117.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|||||||++++.++.+..+.|+.+..  ...+..  ..+.+.+|||||++.+...+..+++.+|++++
T Consensus        27 ~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~~~~t~~~~--~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iil  102 (192)
T 2b6h_A           27 KKQMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFN--VETVEY--KNICFTVWDVGGQDKIRPLWRHYFQNTQGLIF  102 (192)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHCSSCCEEEEEETTEE--EEEEEE--TTEEEEEEECC-----CTTHHHHHHTCCEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHHhCCccccCCcCcee--EEEEEE--CCEEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            46799999999999999999999888776555555532  223333  34789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH-H----HHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL-A----QEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-~----~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.+. .|+..+.......+.|+++|+||+|+.+..  ..++.... .    ...+++++++||++|.|++
T Consensus       103 v~D~~~~~s~~~~~-~~l~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~  179 (192)
T 2b6h_A          103 VVDSNDRERVQESA-DELQKMLQEDELRDAVLLVFANKQDMPNAM--PVSELTDKLGLQHLRSRTWYVQATCATQGTGLY  179 (192)
T ss_dssp             EEETTCGGGHHHHH-HHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHH
T ss_pred             EEECCCHHHHHHHH-HHHHHHhcccccCCCeEEEEEECCCCCCCC--CHHHHHHHhCcccccCCceEEEECcCCCcCCHH
Confidence            99999999999888 444444332223578999999999996542  22222221 1    1234579999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|++|.+.+.+
T Consensus       180 ~l~~~l~~~i~~  191 (192)
T 2b6h_A          180 DGLDWLSHELSK  191 (192)
T ss_dssp             HHHHHHHHHTTT
T ss_pred             HHHHHHHHHHhc
Confidence            999999987753

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A*

Probab=99.97  E-value=8.1e-30  Score=185.26  Aligned_cols=161  Identities=24%  Similarity=0.351  Sum_probs=126.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|+|||||++++.+.....+.++.+....  .+.++  .+.+.+|||||++.+...+..+++.+|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~~--~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIK--TLEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLIW   91 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCCCSSCCCCSSEEEE--EEEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEEE
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCCCCcccccCccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            4679999999999999999999998885457777775443  33444  4789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.+..++...+. .....+.|+++|+||+|+....  ..++......     ..+++++++||++|.|++
T Consensus        92 v~d~~~~~s~~~~~~~~~~~~~-~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (186)
T 1ksh_A           92 VVDSADRQRMQDCQRELQSLLV-EERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLL  168 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHT-CGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEECcCHHHHHHHHHHHHHHHh-ChhcCCCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHH
Confidence            9999999999988844444433 2223678999999999996643  2333322221     235679999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ++|++|.+.+.++
T Consensus       169 ~l~~~l~~~i~~~  181 (186)
T 1ksh_A          169 PGIDWLLDDISSR  181 (186)
T ss_dssp             HHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988765

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A*

Probab=99.97  E-value=4.1e-31  Score=191.65  Aligned_cols=161  Identities=23%  Similarity=0.303  Sum_probs=123.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.++|+++|++|||||||++++.+..+..+.++.+.+.  ..+.++  .+.+.+|||||++.+...+..+++.+|++++
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~~~~t~g~~~--~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~   89 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNI--KSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILIY   89 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEEE--EEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEEE
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCcccCcCCeEE--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEE
Confidence            567999999999999999999998886655666666443  333444  4789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+.+...  .++.....     ...+++++++||++|.|++
T Consensus        90 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (181)
T 1fzq_A           90 VIDSADRKRFEETG-QELTELLEEEKLSCVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQ  166 (181)
T ss_dssp             EEETTCGGGHHHHH-HHHHHHTTCGGGTTCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             EEECcCHHHHHHHH-HHHHHHHhChhhcCCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHH
Confidence            99999999999888 4444443222236789999999999975432  22222221     1234579999999999999


Q ss_pred             HHHHHHHHHHHcc
Q 028315          166 QCFKDLLYKILEV  178 (210)
Q Consensus       166 ~l~~~i~~~~~~~  178 (210)
                      ++|++|.+.+.+.
T Consensus       167 ~l~~~l~~~~~~~  179 (181)
T 1fzq_A          167 DGMNWVCKNVNAK  179 (181)
T ss_dssp             HHHHHHHHTC---
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999877543

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=5.4e-30  Score=186.49  Aligned_cols=164  Identities=22%  Similarity=0.316  Sum_probs=122.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|.+|||||||+++|.++.+..+.++.+.+..  .+.++  ++.+.+|||||++.+...+..+++.+|++++
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   89 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE--EIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   89 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEECCSCSSCE--EEEET--TEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCcCcCCCccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEE
Confidence            3579999999999999999999998877666666664433  33444  3789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|++
T Consensus        90 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  166 (187)
T 1zj6_A           90 VVDSTDRERISVTR-EELYKMLAHEDLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLC  166 (187)
T ss_dssp             EEETTCTTTHHHHH-HHHHHHHTSGGGTTCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             EEeCCCHHHHHHHH-HHHHHHHhchhhCCCeEEEEEECCCCcCC--CCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHH
Confidence            99999999999988 45554443322367899999999999653  33444433322     235689999999999999


Q ss_pred             HHHHHHHHHHHccchh
Q 028315          166 QCFKDLLYKILEVPSL  181 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~~  181 (210)
                      ++|++|.+.+...+..
T Consensus       167 ~l~~~l~~~~~~~~~~  182 (187)
T 1zj6_A          167 QGLEWMMSRLKIRLEH  182 (187)
T ss_dssp             HHHHHHHHHHCC----
T ss_pred             HHHHHHHHHHHHHhhh
Confidence            9999999988765543

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B*

Probab=99.97  E-value=2.4e-28  Score=178.56  Aligned_cols=165  Identities=43%  Similarity=0.737  Sum_probs=145.4

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ..++.++|+++|++|||||||++++.+..+.. +.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.+++
T Consensus        25 ~~~~~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~  104 (191)
T 1oix_A           25 EYDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVG  104 (191)
T ss_dssp             CCSEEEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCE
T ss_pred             ccCcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCE
Confidence            34678999999999999999999999988766 77888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|+|..+..+++.+. .|...+.... ....|+++++||+|+.+.+....+++..++...++.++++||+++.+++++
T Consensus       105 ~i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l  182 (191)
T 1oix_A          105 ALLVYDIAKHLTYENVE-RWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAA  182 (191)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECcCHHHHHHHH-HHHHHHHHhc-CCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            99999999999998877 5666554433 357899999999999876777788888999999999999999999999999


Q ss_pred             HHHHHHHH
Q 028315          168 FKDLLYKI  175 (210)
Q Consensus       168 ~~~i~~~~  175 (210)
                      |++|.+.+
T Consensus       183 ~~~l~~~i  190 (191)
T 1oix_A          183 FQTILTEI  190 (191)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998865

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A*

Probab=99.97  E-value=3.7e-30  Score=186.47  Aligned_cols=158  Identities=23%  Similarity=0.351  Sum_probs=122.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ..+.+||+++|.+|+|||||+++|.+..+..+.++.+.+..  .+.+.+  +.+.+|||||++.+...+..+++.+|+++
T Consensus        18 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~t~~~~~~--~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii   93 (181)
T 2h17_A           18 GSQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE--EIVINN--TRFLMWDIGGQESLRSSWNTYYTNTEFVI   93 (181)
T ss_dssp             ---CEEEEEEEETTSSHHHHHHHHHTTSCEEEECCSSSSCE--EEEETT--EEEEEEEESSSGGGTCGGGGGGTTCCEEE
T ss_pred             CCceeEEEEECCCCCCHHHHHHHHhcCCCCccCCcCceeeE--EEEECC--EEEEEEECCCCHhHHHHHHHHhccCCEEE
Confidence            35689999999999999999999999888556677665443  333443  78999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i  164 (210)
                      +|+|++++.+++.+..++...+... ...+.|+++|+||+|+...  ...++.....     ...+++++++||++|.|+
T Consensus        94 ~v~D~~~~~s~~~~~~~~~~~~~~~-~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi  170 (181)
T 2h17_A           94 VVVDSTDRERISVTREELYKMLAHE-DLRKAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGL  170 (181)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHHTCG-GGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTH
T ss_pred             EEEECCCHHHHHHHHHHHHHHHhCh-hhCCCeEEEEEECCCcccC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCH
Confidence            9999999999998884444444322 1367899999999999653  3333333332     123557999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          165 KQCFKDLLYK  174 (210)
Q Consensus       165 ~~l~~~i~~~  174 (210)
                      +++|++|.+.
T Consensus       171 ~~l~~~l~~~  180 (181)
T 2h17_A          171 CQGLEWMMSR  180 (181)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHHhh
Confidence            9999998764

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens}

Probab=99.97  E-value=2.9e-29  Score=183.08  Aligned_cols=160  Identities=22%  Similarity=0.274  Sum_probs=123.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC-CCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS-VHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~-~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .+.+||+++|.+|+|||||+++|.+.. +.. +.++.+..  ...+.++  ++.+.+|||||++.+...+..+++.+|++
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~~--~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~i   94 (190)
T 2h57_A           19 SKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNILPTIGFS--IEKFKSS--SLSFTVFDMSGQGRYRNLWEHYYKEGQAI   94 (190)
T ss_dssp             --CEEEEEEECTTSSHHHHHHHTSCGGGCCSSCCCCSSEE--EEEEECS--SCEEEEEEECCSTTTGGGGGGGGGGCSEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCCCCcCCcccee--EEEEEEC--CEEEEEEECCCCHHHHHHHHHHHhcCCEE
Confidence            468999999999999999999998887 333 66666633  3334444  37899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccC--CCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCC
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTN--QDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNT  161 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~--~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~  161 (210)
                      ++|+|++++.+++.+.. |...+......  .+.|+++|+||+|+.+.  ...++......     ..+++++++||++|
T Consensus        95 i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  171 (190)
T 2h57_A           95 IFVIDSSDRLRMVVAKE-ELDTLLNHPDIKHRRIPILFFANKMDLRDA--VTSVKVSQLLCLENIKDKPWHICASDAIKG  171 (190)
T ss_dssp             EEEEETTCHHHHHHHHH-HHHHHHHSTTTTTSCCCEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTT
T ss_pred             EEEEECCCHHHHHHHHH-HHHHHHhChhhccCCCeEEEEEeCcCcccC--CCHHHHHHHhChhhccCCceEEEEccCCCC
Confidence            99999999999998884 44444333212  57899999999999653  34445544442     23568999999999


Q ss_pred             cCHHHHHHHHHHHHHc
Q 028315          162 EDVKQCFKDLLYKILE  177 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~  177 (210)
                      .|++++|++|.+.+.+
T Consensus       172 ~gi~~l~~~l~~~i~~  187 (190)
T 2h57_A          172 EGLQEGVDWLQDQIQT  187 (190)
T ss_dssp             BTHHHHHHHHHHHC--
T ss_pred             cCHHHHHHHHHHHHHH
Confidence            9999999999987643

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A*

Probab=99.97  E-value=8.2e-29  Score=195.28  Aligned_cols=164  Identities=27%  Similarity=0.493  Sum_probs=141.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      ..++|+++|.+|+|||||++++.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++++
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~  232 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLI  232 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEE
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEE
Confidence            45899999999999999999999888766 556665444 4556778889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcCC-eEEEec
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHKC-LFLECS  157 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~~-~~~~~s  157 (210)
                      |||++++.+++.+...|...+....  .+.|+++|+||+|+...            +.+..+++..++...++ +++++|
T Consensus       233 v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~S  310 (332)
T 2wkq_A          233 CFSLVSPASFHHVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECS  310 (332)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECC
T ss_pred             EEeCCCHHHHHHHHHHHHHHHHhhC--CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEec
Confidence            9999999999998767877776654  48899999999998653            56778888899999987 899999


Q ss_pred             ccCCcCHHHHHHHHHHHHHcc
Q 028315          158 AKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |++|.|++++|++|.+.+...
T Consensus       311 a~~~~gi~~l~~~l~~~~~~~  331 (332)
T 2wkq_A          311 ALTQRGLKTVFDEAIRAVLCP  331 (332)
T ss_dssp             TTTCTTHHHHHHHHHHHHHC-
T ss_pred             CCCCcCHHHHHHHHHHHHhcC
Confidence            999999999999999988743

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A*

Probab=99.97  E-value=4.2e-30  Score=188.56  Aligned_cols=164  Identities=24%  Similarity=0.255  Sum_probs=118.6

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCcccccch---hhhhc
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQERFGTLT---SSYYR   83 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~---~~~~~   83 (210)
                      ....+.+||+++|.+|||||||++++.+............+.......+. +..+.+.+|||||++.|....   ..+++
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~   94 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFR   94 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHSCCCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHH
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHhcCCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccc
Confidence            34467899999999999999999988664333222222222222222333 566899999999999987766   89999


Q ss_pred             cccEEEEEEeCCCH--hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC-------CCccCHHHHHHHHH----HcC
Q 028315           84 GAHGIILVYDVTRR--ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS-------ERAVTREEGMILAQ----EHK  150 (210)
Q Consensus        84 ~~d~~i~v~d~~~~--~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~-------~~~~~~~~~~~~~~----~~~  150 (210)
                      ++|++|+|||++++  +++..+. .|+..+...  ..+.|+++|+||+|+..       .+.+..++...++.    ..+
T Consensus        95 ~~~~~i~v~d~~~~~~~~~~~~~-~~l~~~~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~  171 (196)
T 3llu_A           95 GTGALIYVIDAQDDYMEALTRLH-ITVSKAYKV--NPDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLH  171 (196)
T ss_dssp             TCSEEEEEEETTSCCHHHHHHHH-HHHHHHHHH--CTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSC
T ss_pred             cCCEEEEEEECCCchHHHHHHHH-HHHHHHHhc--CCCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCC
Confidence            99999999999997  5555555 444443222  46899999999999754       23455556667777    668


Q ss_pred             CeEEEecccCCcCHHHHHHHHHHHH
Q 028315          151 CLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      +++++|||++ .|++++|..+++.+
T Consensus       172 ~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          172 LSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             EEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             cceEEEEech-hhHHHHHHHHHHHh
Confidence            8999999999 99999999999865

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.96  E-value=2.2e-30  Score=187.63  Aligned_cols=160  Identities=26%  Similarity=0.371  Sum_probs=121.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+.+||+++|++|||||||++++.++.+..+.++.+....  .+.++  +..+.+|||||++.+...+..+++.+|++++
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~   91 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVE--TLSYK--NLKLNVWDLGGQTSIRPYWRCYYADTAAVIF   91 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEEEEECSSTTCCEE--EEEET--TEEEEEEEEC----CCTTGGGTTTTEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCcCccCCcCccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhccCCEEEE
Confidence            4679999999999999999999998877556677764433  33444  3789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~  165 (210)
                      |+|++++.+++.+. .|...+.......+.|+++|+||+|+.+.  ...++......     ..+++++++||++|.|++
T Consensus        92 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  168 (183)
T 1moz_A           92 VVDSTDKDRMSTAS-KELHLMLQEEELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGIT  168 (183)
T ss_dssp             EEETTCTTTHHHHH-HHHHHHTTSSTTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHH
T ss_pred             EEECCCHHHHHHHH-HHHHHHHcChhhCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHH
Confidence            99999999999888 45444443322467899999999999653  33333333321     123479999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|++|.+.+.+
T Consensus       169 ~l~~~l~~~~~~  180 (183)
T 1moz_A          169 EGLDWLIDVIKE  180 (183)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998864

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.96  E-value=7.3e-30  Score=185.46  Aligned_cols=164  Identities=21%  Similarity=0.383  Sum_probs=121.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC--CCCC-CCCceeeEEEEEEEEE---CCeEEEEEEEeCCCCcccccchhhhhcccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN--SVHD-PSPTIGVDFKIKLLTV---GGKRLKLTIWDTAGQERFGTLTSSYYRGAH   86 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~--~~~~-~~~~~~~~~~~~~~~~---~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   86 (210)
                      .+||+++|++|||||||+++|.+.  .+.. +.++.+.++....+.+   ++..+.+.+|||+|++.+..++..+++.+|
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   81 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRA   81 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSE
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCc
Confidence            579999999999999999999885  3433 6677777766555443   335678999999999999999999999999


Q ss_pred             EEEEEEeCCCH-hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC---HHHHHHHHHHcCCe----EEEecc
Q 028315           87 GIILVYDVTRR-ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT---REEGMILAQEHKCL----FLECSA  158 (210)
Q Consensus        87 ~~i~v~d~~~~-~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~~~----~~~~sa  158 (210)
                      ++++|||++++ .++..+. .|+..+....  .+.|+++|+||+|+...+.+.   .+....++..++++    ++++||
T Consensus        82 ~~i~v~d~~~~~~s~~~~~-~~~~~~~~~~--~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  158 (184)
T 2zej_A           82 LYLAVYDLSKGQAEVDAMK-PWLFNIKARA--SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNA  158 (184)
T ss_dssp             EEEEEEEGGGCHHHHHTHH-HHHHHHHHHC--TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCT
T ss_pred             EEEEEEeCCcchhHHHHHH-HHHHHHHhhC--CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEec
Confidence            99999999997 4788887 6777665443  478999999999986544332   23344555556776    999999


Q ss_pred             cCCc-CHHHHHHHHHHHHHccc
Q 028315          159 KNTE-DVKQCFKDLLYKILEVP  179 (210)
Q Consensus       159 ~~~~-~i~~l~~~i~~~~~~~~  179 (210)
                      ++|. +++++++.|.+.+.+.+
T Consensus       159 ~~~~~~~~~l~~~i~~~~~~~~  180 (184)
T 2zej_A          159 TEESDALAKLRKTIINESLNFK  180 (184)
T ss_dssp             TSCCHHHHHHHHHHHHHHHCC-
T ss_pred             ccCchhHHHHHHHHHHHHhccc
Confidence            9996 99999999998887543

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens}

Probab=99.93  E-value=8.2e-32  Score=198.79  Aligned_cols=162  Identities=28%  Similarity=0.530  Sum_probs=134.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|.+|+|||||+++|.+..+.. +.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|+++
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii  106 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFL  106 (204)
Confidence            467999999999999999999999887765 445554333 344456677788999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC------------ccCHHHHHHHHHHcCC-eEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER------------AVTREEGMILAQEHKC-LFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~------------~~~~~~~~~~~~~~~~-~~~~~  156 (210)
                      +|+|++++.+++.+...|...+....  .+.|+++|+||+|+.+.+            .+..++...++...++ +++++
T Consensus       107 lv~D~~~~~s~~~~~~~~~~~l~~~~--~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~v  184 (204)
T 3th5_A          107 ICFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  184 (204)
Confidence            99999999999988756777776543  378999999999997543            4555667777777887 89999


Q ss_pred             cccCCcCHHHHHHHHHHHH
Q 028315          157 SAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~  175 (210)
                      ||++|.|++++|++|.+.+
T Consensus       185 SA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          185 SALTQRGLKTVFDEAIRAV  203 (204)
Confidence            9999999999999998765

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2

Probab=99.96  E-value=2.5e-29  Score=186.68  Aligned_cols=161  Identities=20%  Similarity=0.241  Sum_probs=118.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCe-EEEEEEEeCCCCccccc-chhhhhccccEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK-RLKLTIWDTAGQERFGT-LTSSYYRGAHGI   88 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~Dt~G~~~~~~-~~~~~~~~~d~~   88 (210)
                      .+.+||+++|++|+|||||+++|.+..+....++....+..  +.+++. .+.+.+|||||++.+.. ++..+++.+|++
T Consensus         5 ~~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~   82 (214)
T 2fh5_B            5 SSQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAI--YKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAV   82 (214)
T ss_dssp             ---CEEEEECSTTSSHHHHHHHHHHSCCCCBCCCCSCEEEE--EECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCcceeeEE--EEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEE
Confidence            46799999999999999999999999887755555544443  455543 68899999999999987 788889999999


Q ss_pred             EEEEeCCCHh-hHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCCccCHHHHHHHH--------------------
Q 028315           89 ILVYDVTRRE-TFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSERAVTREEGMILA--------------------  146 (210)
Q Consensus        89 i~v~d~~~~~-~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~--------------------  146 (210)
                      ++|+|+++.. ++.....+|...+.... ...+.|+++|+||+|+........ ....+.                    
T Consensus        83 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~-~~~~l~~~l~~~~~~~~~~~s~~~~~  161 (214)
T 2fh5_B           83 VFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKL-IQQQLEKELNTLRVTRSAAPSTLDSS  161 (214)
T ss_dssp             EEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHH-HHHHHHHHHHHHHHHCC---------
T ss_pred             EEEEECCCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHH-HHHHHHHHHHHHhccchhccccccCC
Confidence            9999999854 46666656776665432 235789999999999976543211 111111                    


Q ss_pred             ---------------H-Hc--CCeEEEecccCC------cCHHHHHHHHHHH
Q 028315          147 ---------------Q-EH--KCLFLECSAKNT------EDVKQCFKDLLYK  174 (210)
Q Consensus       147 ---------------~-~~--~~~~~~~sa~~~------~~i~~l~~~i~~~  174 (210)
                                     . .+  +++|++|||++|      .||+++|++|.+.
T Consensus       162 ~~~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          162 STAPAQLGKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             ---CCCSSCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             ccccccccCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                           0 11  567999999999      9999999999875

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.96  E-value=1.2e-29  Score=199.98  Aligned_cols=160  Identities=23%  Similarity=0.344  Sum_probs=120.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +.+||+|+|.+|+|||||+++|.+..+....+|.+..+.    .+....+.+.||||||++.+...+..+++.+|++|+|
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~pT~~~~~~----~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV  239 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFV  239 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEEEEETTEEEE----EEEETTEEEEEEECC-----CCSHHHHHTTEEEEEEE
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCcccccceEEE----EEecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEE
Confidence            468999999999999999999988887655455554433    2333457899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-----HcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-----EHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-----~~~~~~~~~sa~~~~~i~~  166 (210)
                      ||++++.+|..+..+|...+.... ..+.|+++|+||+|+.+...  .++......     ..+++++++||++|.||++
T Consensus       240 ~D~~~~~s~~~~~~~~~~~~~~~~-~~~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~e  316 (329)
T 3o47_A          240 VDSNDRERVNEAREELMRMLAEDE-LRDAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYE  316 (329)
T ss_dssp             EETTCSSSHHHHHHHHHHHHTCGG-GTTCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHH
T ss_pred             EECCchHHHHHHHHHHHHHHhhhc-cCCCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHH
Confidence            999999999998866666655432 46889999999999975432  222222221     1245799999999999999


Q ss_pred             HHHHHHHHHHcc
Q 028315          167 CFKDLLYKILEV  178 (210)
Q Consensus       167 l~~~i~~~~~~~  178 (210)
                      +|++|.+.+.+.
T Consensus       317 l~~~l~~~l~~~  328 (329)
T 3o47_A          317 GLDWLSNQLRNQ  328 (329)
T ss_dssp             HHHHHHHHHTC-
T ss_pred             HHHHHHHHHHhc
Confidence            999999988653

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.95  E-value=7.4e-28  Score=171.90  Aligned_cols=152  Identities=20%  Similarity=0.202  Sum_probs=111.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc------chhhhhc--
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT------LTSSYYR--   83 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~------~~~~~~~--   83 (210)
                      .++|+++|++|+|||||+++|.+..+.. ..++.+.+.....+.+++  ..+.+|||||++.+..      ....+++  
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~   80 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINE   80 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcC
Confidence            5899999999999999999998876543 334333334444444554  5789999999887752      3355554  


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|+|+++....   . .|...+..    .+.|+++|+||+|+...+.+.. +...++..++++++++||++|.|
T Consensus        81 ~~~~~i~v~D~~~~~~~---~-~~~~~~~~----~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~  151 (165)
T 2wji_A           81 KPDLVVNIVDATALERN---L-YLTLQLME----MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMG  151 (165)
T ss_dssp             CCSEEEEEEETTCHHHH---H-HHHHHHHH----TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBS
T ss_pred             CCCEEEEEecCCchhHh---H-HHHHHHHh----cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCC
Confidence            89999999999986543   2 34444432    4689999999999865444443 35677778889999999999999


Q ss_pred             HHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKI  175 (210)
Q Consensus       164 i~~l~~~i~~~~  175 (210)
                      ++++|+++.+.+
T Consensus       152 v~~l~~~l~~~~  163 (165)
T 2wji_A          152 IEELKKAISIAV  163 (165)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999998765

>3iev_A GTP-binding protein ERA; ERA, GTPase, KH domain, anti-SD, 16S rRNA, 30S ribosome ASSE GTP-binding, nucleotide-binding; HET: GNP; 1.90A {Aquifex aeolicus} PDB: 3r9w_A* 3r9x_A*

Probab=99.95  E-value=1.1e-27  Score=187.27  Aligned_cols=173  Identities=18%  Similarity=0.142  Sum_probs=135.0

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCe-EEEEEEEeCCCCcccc----------c
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGK-RLKLTIWDTAGQERFG----------T   76 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~Dt~G~~~~~----------~   76 (210)
                      ++.++.-.|+++|.+|||||||+|+|++..+....+.++++........... ..++.||||||+..+.          .
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~~~~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~   84 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISPKAGTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVE   84 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCCCCCceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHH
Confidence            4456788999999999999999999999988766666655555444334333 5789999999986544          4


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--CeEE
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--CLFL  154 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~  154 (210)
                      .+..+++.+|++++|+|++++.++.... .|...+..    .+.|+++|+||+|+........+....+...++  .+++
T Consensus        85 ~~~~~l~~aD~il~VvD~~~~~~~~~~~-~~~~~l~~----~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~  159 (308)
T 3iev_A           85 IAKQSLEEADVILFMIDATEGWRPRDEE-IYQNFIKP----LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIV  159 (308)
T ss_dssp             HHHHHHHHCSEEEEEEETTTBSCHHHHH-HHHHHTGG----GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEE
T ss_pred             HHHHHhhcCCEEEEEEeCCCCCCchhHH-HHHHHHHh----cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEE
Confidence            5567788999999999999988777766 55666553    468999999999997444555566667777765  6799


Q ss_pred             EecccCCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      ++||++|.|++++|+++.+.+.+.+..++.+
T Consensus       160 ~vSA~~g~gv~~L~~~l~~~l~~~~~~~~~~  190 (308)
T 3iev_A          160 PISALKGANLDELVKTILKYLPEGEPLFPED  190 (308)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHSCBCCCSSCTT
T ss_pred             EEeCCCCCCHHHHHHHHHHhCccCCCCCCcc
Confidence            9999999999999999999998877666554

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens}

Probab=99.95  E-value=6.5e-29  Score=189.37  Aligned_cols=167  Identities=20%  Similarity=0.271  Sum_probs=120.3

Q ss_pred             CCCCceEEEEEEEcCC---------CCcHHHHHHHHhhC---CCCC-CCCce-eeEEEEEE--------------EEECC
Q 028315            7 NNSYDYSFKILLIGDS---------GVGKSSILLSLISN---SVHD-PSPTI-GVDFKIKL--------------LTVGG   58 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~---------~~GKSsli~~l~~~---~~~~-~~~~~-~~~~~~~~--------------~~~~~   58 (210)
                      .....+.+||+++|.+         |||||||+++|.+.   .+.. +.+++ +.++....              ..+++
T Consensus        13 ~~~~~~~~ki~lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~   92 (255)
T 3c5h_A           13 NLYFQGTYNISVVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDC   92 (255)
T ss_dssp             TSSCCSCEEEEEEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC------
T ss_pred             CCCCCceeEEEEECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCC
Confidence            3444678999999999         99999999999984   3433 44443 22221111              12456


Q ss_pred             eEEEEEEEe-----------------------CCCCcccccchhhhhc---------------------cccEEEEEEeC
Q 028315           59 KRLKLTIWD-----------------------TAGQERFGTLTSSYYR---------------------GAHGIILVYDV   94 (210)
Q Consensus        59 ~~~~~~l~D-----------------------t~G~~~~~~~~~~~~~---------------------~~d~~i~v~d~   94 (210)
                      ..+.+.+||                       ++|++.|..++..+++                     ++|++|+|||+
T Consensus        93 ~~~~l~i~D~~~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~  172 (255)
T 3c5h_A           93 VECKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDV  172 (255)
T ss_dssp             ---CEEEEEECCCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEEC
T ss_pred             cEEEEEEEEccccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEEC
Confidence            778999999                       6667777777777776                     79999999999


Q ss_pred             CCH--hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-cCCeEEEecccCCcCHHHHHHHH
Q 028315           95 TRR--ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        95 ~~~--~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +++  .+|+.+. .|+..+.......+.|+++|+||+|+...+.+  ++...++.. .+++++++||++|.|++++|++|
T Consensus       173 t~~~~~s~~~~~-~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l  249 (255)
T 3c5h_A          173 SRGMNRNFDDQL-KFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTL  249 (255)
T ss_dssp             BC----CHHHHH-HHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHH
T ss_pred             CCCchhhHHHHH-HHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHH
Confidence            998  8999988 67766655422357899999999999655444  466667665 47899999999999999999999


Q ss_pred             HHHHH
Q 028315          172 LYKIL  176 (210)
Q Consensus       172 ~~~~~  176 (210)
                      .+.+.
T Consensus       250 ~~~l~  254 (255)
T 3c5h_A          250 VQLID  254 (255)
T ss_dssp             HHHHH
T ss_pred             HHHhc
Confidence            98764

>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria, structural genomics, structural genomics consortium, SGC, unknown function; HET: GDP; 2.01A {Plasmodium falciparum}

Probab=99.95  E-value=9.3e-28  Score=180.06  Aligned_cols=168  Identities=15%  Similarity=0.040  Sum_probs=115.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc---------ccchhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF---------GTLTSS   80 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~---------~~~~~~   80 (210)
                      +..++|+++|.+|||||||+++|++..+.. ..+....+.........  ...+.+|||||....         ...+..
T Consensus        27 ~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~  104 (228)
T 2qu8_A           27 PHKKTIILSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDHK--LNKYQIIDTPGLLDRAFENRNTIEMTTITA  104 (228)
T ss_dssp             TTSEEEEEECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEET--TEEEEEEECTTTTTSCGGGCCHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeecC--CCeEEEEECCCCcCcccchhhhHHHHHHHH
Confidence            467999999999999999999999887642 22222222222222223  367999999998321         112234


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHH-HHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHH---HHHHHHHHcC--CeEE
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLS-SVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTRE---EGMILAQEHK--CLFL  154 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~-~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~---~~~~~~~~~~--~~~~  154 (210)
                      ++..+|++++|+|++++.++.... ..|...+...  ..+.|+++|+||+|+.+.+.+..+   ....+....+  ++++
T Consensus       105 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~--~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~  182 (228)
T 2qu8_A          105 LAHINGVILFIIDISEQCGLTIKEQINLFYSIKSV--FSNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFS  182 (228)
T ss_dssp             HHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTC--C-CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEE
T ss_pred             hhccccEEEEEEecccccCcchHHHHHHHHHHHHh--hcCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEE
Confidence            577889999999999987765221 1344443321  247899999999999877666654   3455566666  7899


Q ss_pred             EecccCCcCHHHHHHHHHHHHHccchhh
Q 028315          155 ECSAKNTEDVKQCFKDLLYKILEVPSLL  182 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~~~~~~~  182 (210)
                      ++||++|.|++++|++|.+.+.+.+...
T Consensus       183 ~~SA~~g~gi~~l~~~l~~~i~~~~~~~  210 (228)
T 2qu8_A          183 SFSTLTGVGVEQAKITACELLKNDQAES  210 (228)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             EEecccCCCHHHHHHHHHHHHHHHHHHH
Confidence            9999999999999999999988665543

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.95  E-value=2.2e-27  Score=170.95  Aligned_cols=160  Identities=20%  Similarity=0.215  Sum_probs=117.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      ...+.++|+++|++|+|||||+++|.+..+.. ..++.+.+.....+.+++.  .+.+|||||++.+...+..++..+|+
T Consensus         4 ~~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~d~   81 (178)
T 2lkc_A            4 MVERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVNDK--KITFLDTPGHEAFTTMRARGAQVTDI   81 (178)
T ss_dssp             TCCCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETTE--EEEESCCCSSSSSSCSCCSSCCCCCE
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCCc--eEEEEECCCCHHHHHHHHHHHhhCCE
Confidence            34567999999999999999999999888766 4455554444445555654  57799999999999999899999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-------cC--CeEEEecc
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-------HK--CLFLECSA  158 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-------~~--~~~~~~sa  158 (210)
                      +++|+|++++...+... .+ ..+.    ..+.|+++|+||+|+...   ..++.......       ++  ++++++||
T Consensus        82 ~i~v~d~~~~~~~~~~~-~l-~~~~----~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  152 (178)
T 2lkc_A           82 VILVVAADDGVMPQTVE-AI-NHAK----AANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSA  152 (178)
T ss_dssp             EEEEEETTCCCCHHHHH-HH-HHHG----GGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCS
T ss_pred             EEEEEECCCCCcHHHHH-HH-HHHH----hCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEec
Confidence            99999999843222221 11 1111    257899999999999653   22222222222       12  47999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccc
Q 028315          159 KNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ++|.|++++|++|.+.+...+
T Consensus       153 ~~~~gv~~l~~~l~~~~~~~~  173 (178)
T 2lkc_A          153 KTKEGLDHLLEMILLVSEMEE  173 (178)
T ss_dssp             SSSHHHHHHHHHHHHHHHHTT
T ss_pred             CCCCCHHHHHHHHHHhhhhhc
Confidence            999999999999998876543

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.95  E-value=1.2e-27  Score=187.00  Aligned_cols=167  Identities=23%  Similarity=0.332  Sum_probs=131.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-----ccchhhhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-----GTLTSSYY   82 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-----~~~~~~~~   82 (210)
                      ..+||+++|++|||||||+++++++....    +.+|.+..+..  ..+++ .+.+.+|||||++.+     ...+..++
T Consensus         2 ~~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~~--~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~   78 (307)
T 3r7w_A            2 LGSKLLLMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHSH--LRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIF   78 (307)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEEE--EEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEEE--EEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHh
Confidence            46899999999999999999998874322    45555555443  33444 688999999999988     78888999


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCC--CCc----cCHHHHHHHHHHcC---Ce
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDS--ERA----VTREEGMILAQEHK---CL  152 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~--~~~----~~~~~~~~~~~~~~---~~  152 (210)
                      +++|++++|||++++.+++.+. .|...+.... ...+.|+++|+||+|+..  .+.    +..+++..++..+|   ++
T Consensus        79 ~~ad~vi~V~D~t~~~s~~~l~-~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~  157 (307)
T 3r7w_A           79 QMVQVLIHVFDVESTEVLKDIE-IFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLI  157 (307)
T ss_dssp             TTCSEEEEEEETTCSCHHHHHH-HHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCE
T ss_pred             ccCCEEEEEEECCChhhHHHHH-HHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeE
Confidence            9999999999999999999887 5655443321 146799999999999976  343    55567788888887   68


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHHccchhhh
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      ++++||++ .++.++|..+++.+.......+
T Consensus       158 ~~~tSa~~-~~i~e~~~~iv~~li~~~~~le  187 (307)
T 3r7w_A          158 GFPTSIWD-ESLYKAWSQIVCSLIPNMSNHQ  187 (307)
T ss_dssp             EEECCTTS-SHHHHHHHHHHHTTCSCHHHHH
T ss_pred             EEEeeecC-ChHHHHHHHHHHHHcCCHHHHH
Confidence            99999999 8999999999988776555433

>1svi_A GTP-binding protein YSXC; ENGB, GTPase, GDP, hydrolase; HET: GDP; 1.95A {Bacillus subtilis} SCOP: c.37.1.8 PDB: 1sul_A* 1svw_A*

Probab=99.95  E-value=2.4e-27  Score=173.32  Aligned_cols=158  Identities=17%  Similarity=0.216  Sum_probs=110.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCC----------Ccccccch
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAG----------QERFGTLT   78 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G----------~~~~~~~~   78 (210)
                      ....++|+++|.+|+|||||+++|.+..+.. +.++.+.+........+.   .+.+|||||          .+.+...+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   96 (195)
T 1svi_A           20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMI   96 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHH
Confidence            3567999999999999999999999887544 667776666655555544   589999999          56666677


Q ss_pred             hhhhccc---cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HHHHH-HHHHcCCe
Q 028315           79 SSYYRGA---HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EEGMI-LAQEHKCL  152 (210)
Q Consensus        79 ~~~~~~~---d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~-~~~~~~~~  152 (210)
                      ..+++.+   |++++|+|++++.++....  +...+.    ..+.|+++|+||+|+.+.+.+..  ++... +....+.+
T Consensus        97 ~~~~~~~~~~~~~i~v~d~~~~~~~~~~~--~~~~~~----~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~  170 (195)
T 1svi_A           97 ETYITTREELKAVVQIVDLRHAPSNDDVQ--MYEFLK----YYGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDE  170 (195)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHH--HHHHHH----HTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSE
T ss_pred             HHHHhhhhcCCEEEEEEECCCCCCHHHHH--HHHHHH----HcCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCc
Confidence            7777776   9999999999887766543  223332    25789999999999976554432  22222 22234678


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHH
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ++++||++|.|++++|++|.+.+.
T Consensus       171 ~~~~Sa~~~~gv~~l~~~l~~~l~  194 (195)
T 1svi_A          171 LILFSSETKKGKDEAWGAIKKMIN  194 (195)
T ss_dssp             EEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             eEEEEccCCCCHHHHHHHHHHHhc
Confidence            999999999999999999988764

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.94  E-value=1.3e-26  Score=168.49  Aligned_cols=158  Identities=19%  Similarity=0.179  Sum_probs=119.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc------cchhhhhc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG------TLTSSYYR   83 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~------~~~~~~~~   83 (210)
                      .+.++|+++|++|||||||+++|.+..+.. ..++.+.+.....+...+  ..+.+|||||++.+.      ..+..+++
T Consensus         5 ~~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   82 (188)
T 2wjg_A            5 MKSYEIALIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYII   82 (188)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEETT--EEEEEEECCCCSCCSSSSHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeCC--cEEEEEECCCcCccccccHHHHHHHHHHh
Confidence            367999999999999999999998866433 445545455555555554  678999999998774      34555664


Q ss_pred             --cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           84 --GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        84 --~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                        .+|++++|+|.++.   +... .|...+.    ..+.|+++|+||+|+...+.+. ++...++..++++++++||+++
T Consensus        83 ~~~~~~~i~v~d~~~~---~~~~-~~~~~~~----~~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~  153 (188)
T 2wjg_A           83 NEKPDLVVNIVDATAL---ERNL-YLTLQLM----EMGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKK  153 (188)
T ss_dssp             HHCCSEEEEEEEGGGH---HHHH-HHHHHHH----TTTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGT
T ss_pred             ccCCCEEEEEecchhH---HHHH-HHHHHHH----hcCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCC
Confidence              49999999998864   3444 4555443    2578999999999986554444 3566777888899999999999


Q ss_pred             cCHHHHHHHHHHHHHccc
Q 028315          162 EDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~  179 (210)
                      .|++++|+++.+.+.+..
T Consensus       154 ~~v~~l~~~i~~~~~~~~  171 (188)
T 2wjg_A          154 MGIEELKKAISIAVKDKK  171 (188)
T ss_dssp             BSHHHHHHHHHHHHTTC-
T ss_pred             CCHHHHHHHHHHHHHhcc
Confidence            999999999999887665

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.94  E-value=2.7e-28  Score=189.54  Aligned_cols=163  Identities=21%  Similarity=0.238  Sum_probs=123.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc---chhhhhccccE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT---LTSSYYRGAHG   87 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~---~~~~~~~~~d~   87 (210)
                      ||+++|+.|||||||++++.+..+..    ..+|.+.++..    +. ..+.+++|||+|+++|..   .+..+++++++
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~   75 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGA   75 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSE
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCE
Confidence            68999999999999999887654433    45677766653    22 348899999999999964   35889999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhh-ccCCCCcEEEEEeCCCCCCC-------CccCHHHHHHHHHH----cCCeEEE
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELY-STNQDCVKILVGNKVDRDSE-------RAVTREEGMILAQE----HKCLFLE  155 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~~p~ivv~nK~Dl~~~-------~~~~~~~~~~~~~~----~~~~~~~  155 (210)
                      +|+|||++++  +.....+|...+... ...++.|+++++||+|+..+       +.+..+++..+++.    .++++++
T Consensus        76 ~IlV~Ditd~--~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~e  153 (331)
T 3r7w_B           76 LVYVIDSQDE--YINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYL  153 (331)
T ss_dssp             EEEECCCSSC--TTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEEC
T ss_pred             EEEEEECCch--HHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEE
Confidence            9999999998  333332554444321 11468999999999999754       34666666677764    5788999


Q ss_pred             ecccCCcCHHHHHHHHHHHHHccchhhhcc
Q 028315          156 CSAKNTEDVKQCFKDLLYKILEVPSLLEQG  185 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~~~~~~~~~~~  185 (210)
                      |||++ .+|.++|..+++.+....+..+..
T Consensus       154 TSAkd-~nV~eAFs~iv~~li~~~~~le~~  182 (331)
T 3r7w_B          154 TSIFD-HSIYEAFSRIVQKLIPELSFLENM  182 (331)
T ss_dssp             CCSSS-SHHHHHHHHHHTTSSTTHHHHHHH
T ss_pred             eccCC-CcHHHHHHHHHHHHHhhHHHHHHH
Confidence            99998 599999999999988777666654

>2cxx_A Probable GTP-binding protein ENGB; structural genomics, NPPSFA, national P protein structural and functional analyses; HET: GDP; 1.70A {Pyrococcus horikoshii} SCOP: c.37.1.8

Probab=99.94  E-value=1.6e-27  Score=173.51  Aligned_cols=158  Identities=23%  Similarity=0.291  Sum_probs=115.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCC-----------Ccccccchhhh
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAG-----------QERFGTLTSSY   81 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G-----------~~~~~~~~~~~   81 (210)
                      +||+++|++|+|||||+++|.+..+.. +.++.  +.....+...    .+.+|||||           ++.+...+..+
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~--t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~   75 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGV--TRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   75 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCSSSSSTTC--TTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCccCCCCCc--cceeEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHH
Confidence            689999999999999999999887655 33433  2333333333    688999999           55666667777


Q ss_pred             hcc-ccEEEEEEeCCCHhhHHHHHHHHHHH--------HhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCe
Q 028315           82 YRG-AHGIILVYDVTRRETFTNLSSVWAKE--------VELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCL  152 (210)
Q Consensus        82 ~~~-~d~~i~v~d~~~~~~~~~~~~~~~~~--------~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~  152 (210)
                      ++. ++++++|+++.+..++..+...|...        +.......+.|+++|+||+|+...+   .++...++..++.+
T Consensus        76 ~~~~~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~  152 (190)
T 2cxx_A           76 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVP  152 (190)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCC
T ss_pred             HHhhhccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhh
Confidence            776 77777777777777777764466542        2122213578999999999997654   55677777777764


Q ss_pred             -------EEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          153 -------FLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       153 -------~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                             ++++||++|.|++++|++|.+.+.+.+.
T Consensus       153 ~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  187 (190)
T 2cxx_A          153 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRERQG  187 (190)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC--
T ss_pred             hhccCCcEEEEecCCCCCHHHHHHHHHHhcchhhc
Confidence                   7999999999999999999998876544

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.94  E-value=3.6e-27  Score=167.13  Aligned_cols=149  Identities=17%  Similarity=0.161  Sum_probs=105.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc-------ccchhhhhcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF-------GTLTSSYYRG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~-------~~~~~~~~~~   84 (210)
                      .||+++|++|+|||||++++.+..+..  ..+....+.........+.  .+.+|||||.+.+       ...+..+++.
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   79 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDRG--RFLLVDTGGLWSGDKWEKKIQEKVDRALED   79 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETTE--EEEEEECGGGCSSSSCCHHHHHHHHHHTTT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCCc--eEEEEECCCCCCccchHHHHHHHHHHHHHh
Confidence            589999999999999999999887543  2333333344444445543  7889999998763       3445567889


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcC
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTED  163 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~  163 (210)
                      +|++++|+|++++.+...  ..+...+..    .+.|+++|+||+|+.+..    ++...+. .+++ +++++||++|.|
T Consensus        80 ~~~~i~v~d~~~~~~~~~--~~~~~~~~~----~~~p~ilv~nK~Dl~~~~----~~~~~~~-~~~~~~~~~~Sa~~~~g  148 (161)
T 2dyk_A           80 AEVVLFAVDGRAELTQAD--YEVAEYLRR----KGKPVILVATKVDDPKHE----LYLGPLY-GLGFGDPIPTSSEHARG  148 (161)
T ss_dssp             CSEEEEEEESSSCCCHHH--HHHHHHHHH----HTCCEEEEEECCCSGGGG----GGCGGGG-GGSSCSCEECBTTTTBS
T ss_pred             CCEEEEEEECCCcccHhH--HHHHHHHHh----cCCCEEEEEECcccccch----HhHHHHH-hCCCCCeEEEecccCCC
Confidence            999999999998644332  123333332    468999999999996542    2233344 5677 799999999999


Q ss_pred             HHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKI  175 (210)
Q Consensus       164 i~~l~~~i~~~~  175 (210)
                      ++++|+++.+.+
T Consensus       149 v~~l~~~l~~~l  160 (161)
T 2dyk_A          149 LEELLEAIWERL  160 (161)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             hHHHHHHHHHhC
Confidence            999999998764

>3a1s_A Iron(II) transport protein B; FEOB, iron transporter, small GTPase, G protein, GDI; HET: GDP; 1.50A {Thermotoga maritima} PDB: 3a1t_A* 3a1u_A* 3a1v_A* 3a1w_A

Probab=99.94  E-value=1.3e-26  Score=176.67  Aligned_cols=155  Identities=18%  Similarity=0.144  Sum_probs=116.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc------hhhhh-
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL------TSSYY-   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~------~~~~~-   82 (210)
                      .+.++|+++|++|+|||||+++|.+..+.. ..+..  +.......+...+..+.+|||||...+...      ...++ 
T Consensus         3 ~~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~~pg~--tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~   80 (258)
T 3a1s_A            3 LHMVKVALAGCPNVGKTSLFNALTGTKQYVANWPGV--TVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLL   80 (258)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHTTCEEEEECTTS--CCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHCCCCcccCCCCc--eEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHh
Confidence            467999999999999999999998877543 33333  333333333333468999999998877653      24555 


Q ss_pred             -ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           83 -RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        83 -~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                       ..+|++++|+|+++..+..    +|...+.    ..+.|+++|+||+|+...+.+.. +...+...++++++++||++|
T Consensus        81 ~~~~d~ii~V~D~t~~~~~~----~~~~~l~----~~~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g  151 (258)
T 3a1s_A           81 KGDADLVILVADSVNPEQSL----YLLLEIL----EMEKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTG  151 (258)
T ss_dssp             HSCCSEEEEEEETTSCHHHH----HHHHHHH----TTTCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTC
T ss_pred             hcCCCEEEEEeCCCchhhHH----HHHHHHH----hcCCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCC
Confidence             5899999999999875432    2333333    24789999999999865555543 367788888999999999999


Q ss_pred             cCHHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKIL  176 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~  176 (210)
                      .|++++|+++.+.+.
T Consensus       152 ~gi~el~~~i~~~~~  166 (258)
T 3a1s_A          152 EGLEELKEKIVEYAQ  166 (258)
T ss_dssp             TTHHHHHHHHHHHHH
T ss_pred             cCHHHHHHHHHHHhh
Confidence            999999999999875

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.94  E-value=4.4e-27  Score=196.53  Aligned_cols=165  Identities=25%  Similarity=0.309  Sum_probs=126.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEE------EEE--CCeEEEEEEEeCCCCcccccchhh
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKL------LTV--GGKRLKLTIWDTAGQERFGTLTSS   80 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~------~~~--~~~~~~~~l~Dt~G~~~~~~~~~~   80 (210)
                      ..+.+||+++|.+|||||||++++.+..+.. +.++.+.++....      +.+  .+..+.+.+|||||++.+...+..
T Consensus        38 ~~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~  117 (535)
T 3dpu_A           38 HLQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQF  117 (535)
T ss_dssp             CCCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHH
T ss_pred             cccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHH
Confidence            4678999999999999999999999988766 6677777666442      111  233578999999999999999999


Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      +++++|++++|+|+++.+   ... +|...+....  .+.|+++|+||+|+...+.+..++...+....+.+++++||++
T Consensus       118 ~l~~~d~ii~V~D~s~~~---~~~-~~~~~l~~~~--~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~  191 (535)
T 3dpu_A          118 FMTRSSVYMLLLDSRTDS---NKH-YWLRHIEKYG--GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKN  191 (535)
T ss_dssp             HHHSSEEEEEEECGGGGG---GHH-HHHHHHHHHS--SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC--
T ss_pred             HccCCcEEEEEEeCCCch---hHH-HHHHHHHHhC--CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCc
Confidence            999999999999998764   344 6777776654  4789999999999988788888888888888899999999999


Q ss_pred             CcCHHHHHHHHHHHHHccch
Q 028315          161 TEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~  180 (210)
                      |.|++++++++.+.+.+.+.
T Consensus       192 g~gi~eL~~~l~~~~~~~~~  211 (535)
T 3dpu_A          192 GDGVESIAKSLKSAVLHPDS  211 (535)
T ss_dssp             ---CTTHHHHHHHHHTCTTS
T ss_pred             ccCHHHHHHHHHHHHhcccc
Confidence            99999999999999887655

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.94  E-value=3.9e-26  Score=166.65  Aligned_cols=162  Identities=19%  Similarity=0.192  Sum_probs=117.4

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC----------Cccccc
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG----------QERFGT   76 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G----------~~~~~~   76 (210)
                      ..+....+||+++|.+|+|||||+++|++..+....++.+.+..........   .+.+|||||          .+.+..
T Consensus        17 ~~~~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~t~~~~~~~~~~---~~~i~Dt~G~~~~~~~~~~~~~~~~   93 (195)
T 3pqc_A           17 DYPPPLKGEVAFVGRSNVGKSSLLNALFNRKIAFVSKTPGKTRSINFYLVNS---KYYFVDLPGYGYAKVSKKERMLWKR   93 (195)
T ss_dssp             CCCCCTTCEEEEEEBTTSSHHHHHHHHHTSCCSCCCSSCCCCCCEEEEEETT---TEEEEECCCBSSSCCCHHHHHHHHH
T ss_pred             hCCCCCCeEEEEECCCCCCHHHHHHHHHcCccccccCCCCCccCeEEEEECC---cEEEEECCCCccccCChhhHHHHHH
Confidence            3444567899999999999999999999988766777777666655444443   478999999          555666


Q ss_pred             chhhhhccc---cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc--cCHHHHHHHHHHc-C
Q 028315           77 LTSSYYRGA---HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA--VTREEGMILAQEH-K  150 (210)
Q Consensus        77 ~~~~~~~~~---d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~-~  150 (210)
                      .+..+++.+   |++++|+|+++..+.....  +...+.    ..+.|+++|+||+|+.+...  ...++...+.... +
T Consensus        94 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~--~~~~~~----~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  167 (195)
T 3pqc_A           94 LVEDYFKNRWSLQMVFLLVDGRIPPQDSDLM--MVEWMK----SLNIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGE  167 (195)
T ss_dssp             HHHHHHHHCTTEEEEEEEEETTSCCCHHHHH--HHHHHH----HTTCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCC
T ss_pred             HHHHHHhcCcCceEEEEEecCCCCCCHHHHH--HHHHHH----HcCCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCC
Confidence            667777665   9999999998764433221  222222    13689999999999865432  2233444445543 4


Q ss_pred             CeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          151 CLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ++++++||++|.|++++|++|.+.+.+
T Consensus       168 ~~~~~~Sa~~~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          168 YTIIPTSSVTGEGISELLDLISTLLKE  194 (195)
T ss_dssp             SCEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CceEEEecCCCCCHHHHHHHHHHHhhc
Confidence            689999999999999999999988753

>3b1v_A Ferrous iron uptake transporter protein B; G protein, iron transport, GTPase, transmembrane, potassium; HET: GGM; 1.85A {Streptococcus thermophilus} PDB: 3b1w_A* 3lx5_A* 3lx8_A* 3ss8_A* 3b1z_A 3b1y_A* 3b1x_A* 3tah_A*

Probab=99.94  E-value=1.5e-26  Score=177.48  Aligned_cols=154  Identities=19%  Similarity=0.118  Sum_probs=117.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc------cchhhhhc--
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG------TLTSSYYR--   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~------~~~~~~~~--   83 (210)
                      +.++|+++|++|||||||+++|.+.... ....++.++......+.. +..+.+|||||...+.      .....++.  
T Consensus         2 ~~~kI~lvG~~nvGKSTL~n~L~g~~~~-v~~~pg~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~   79 (272)
T 3b1v_A            2 SMTEIALIGNPNSGKTSLFNLITGHNQR-VGNWPGVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQ   79 (272)
T ss_dssp             -CEEEEEECCTTSSHHHHHHHHHCCCCC-CCSSSCCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCc-ccCCCCCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcC
Confidence            4589999999999999999999887532 223345555555555665 6789999999998775      34556665  


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTED  163 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~  163 (210)
                      .+|++++|+|+++.++..    +|...+..    .+.|+++|+||+|+...+.+. .+...+...++++++++||++|.|
T Consensus        80 ~~d~vi~V~D~t~~e~~~----~~~~~l~~----~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~g  150 (272)
T 3b1v_A           80 RADSILNVVDATNLERNL----YLTTQLIE----TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTG  150 (272)
T ss_dssp             CCSEEEEEEEGGGHHHHH----HHHHHHHH----TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBS
T ss_pred             CCCEEEEEecCCchHhHH----HHHHHHHh----cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCC
Confidence            699999999999865432    34443332    578999999999986544444 345677888899999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKIL  176 (210)
Q Consensus       164 i~~l~~~i~~~~~  176 (210)
                      ++++|+++.+.+.
T Consensus       151 i~el~~~i~~~~~  163 (272)
T 3b1v_A          151 VDQVVKKAAHTTT  163 (272)
T ss_dssp             HHHHHHHHHHSCT
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999988654

>2gj8_A MNME, tRNA modification GTPase TRME; G-domain dimer, alpha-beta-sandwich, hydrolase; HET: GDP; 1.70A {Escherichia coli BL21} SCOP: c.37.1.8 PDB: 2gj9_A* 2gja_A* 1rfl_A

Probab=99.93  E-value=5.9e-27  Score=168.39  Aligned_cols=153  Identities=20%  Similarity=0.152  Sum_probs=109.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch--------hhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT--------SSY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~~   81 (210)
                      ..++|+++|++|+|||||+++|.+..+..  ..+..+.++....+.+++.  .+.+|||||.+.+....        ..+
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~   80 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGM--PLHIIDTAGLREASDEVERIGIERAWQE   80 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTE--EEEEEECCCCSCCSSHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECCe--EEEEEECCCcccchhHHHHHHHHHHHHH
Confidence            34799999999999999999998876533  2333333444555566654  57899999986543211        135


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ++.+|++++|+|++++.+++..  .|...+.... ..+.|+++|+||+|+.....       .++...+.+++++||++|
T Consensus        81 ~~~ad~~i~v~D~~~~~s~~~~--~~~~~~~~~~-~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g  150 (172)
T 2gj8_A           81 IEQADRVLFMVDGTTTDAVDPA--EIWPEFIARL-PAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTG  150 (172)
T ss_dssp             HHTCSEEEEEEETTTCCCCSHH--HHCHHHHHHS-CTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTC
T ss_pred             HHhCCEEEEEEECCCCCCHHHH--HHHHHHHHhc-ccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCC
Confidence            7899999999999998877633  4555554433 35789999999999854311       111224668999999999


Q ss_pred             cCHHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKIL  176 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~  176 (210)
                      .|++++|++|.+.+.
T Consensus       151 ~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          151 EGVDVLRNHLKQSMG  165 (172)
T ss_dssp             TTHHHHHHHHHHHC-
T ss_pred             CCHHHHHHHHHHHhh
Confidence            999999999988764

>1wf3_A GTP-binding protein; GTPase, riken structural genomics/prote initiative, RSGI, structural genomics, hydrolase; HET: GNP; 1.88A {Thermus thermophilus} SCOP: c.37.1.8 d.52.3.1

Probab=99.93  E-value=7.2e-26  Score=176.11  Aligned_cols=167  Identities=22%  Similarity=0.195  Sum_probs=116.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc--------cccchhhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER--------FGTLTSSYY   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~--------~~~~~~~~~   82 (210)
                      -+..+|+++|.+|+|||||+|+|++..+....+.++++.......+.....+++||||||...        +......++
T Consensus         5 ~~~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l   84 (301)
T 1wf3_A            5 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL   84 (301)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHhCCceeeecCCCCceeEEEEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHH
Confidence            456789999999999999999999988765444333333322222223357899999999766        334455678


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc-cCHHHHHHHHHHcCCeEEEecccCC
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA-VTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      +.+|++++|+|++++.+...  .++...+....  .+.|+++|+||+|+..... + .+....+  ....+++++||++|
T Consensus        85 ~~ad~il~VvD~~~~~~~~~--~~i~~~l~~~~--~~~p~ilV~NK~Dl~~~~~~~-~~~~~~~--~~~~~~~~iSA~~g  157 (301)
T 1wf3_A           85 ADVNAVVWVVDLRHPPTPED--ELVARALKPLV--GKVPILLVGNKLDAAKYPEEA-MKAYHEL--LPEAEPRMLSALDE  157 (301)
T ss_dssp             SSCSEEEEEEETTSCCCHHH--HHHHHHHGGGT--TTSCEEEEEECGGGCSSHHHH-HHHHHHT--STTSEEEECCTTCH
T ss_pred             hcCCEEEEEEECCCCCChHH--HHHHHHHHhhc--CCCCEEEEEECcccCCchHHH-HHHHHHh--cCcCcEEEEeCCCC
Confidence            99999999999998754432  23334444322  4789999999999865433 2 1112222  11346999999999


Q ss_pred             cCHHHHHHHHHHHHHccchhhhc
Q 028315          162 EDVKQCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~~~~  184 (210)
                      .|+++++++|.+.+.+.+..+++
T Consensus       158 ~gv~~l~~~l~~~l~~~~~~y~~  180 (301)
T 1wf3_A          158 RQVAELKADLLALMPEGPFFYPE  180 (301)
T ss_dssp             HHHHHHHHHHHTTCCBCCCSSCT
T ss_pred             CCHHHHHHHHHHhcccCCCCCCc
Confidence            99999999999988776655544

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.93  E-value=6.8e-26  Score=169.08  Aligned_cols=164  Identities=19%  Similarity=0.111  Sum_probs=113.1

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCC-CCCCCceeeEEEEEEEEEC-CeEEEEEEEeCCCCc----------ccccc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVG-GKRLKLTIWDTAGQE----------RFGTL   77 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~----------~~~~~   77 (210)
                      ....++|+++|.+|+|||||+++|++..+ ....++.+.+.......+. .....+.+|||||..          .+...
T Consensus        26 ~~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~  105 (223)
T 4dhe_A           26 PTVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQL  105 (223)
T ss_dssp             CCCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHH
T ss_pred             CCCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHH
Confidence            34678999999999999999999998873 3445555555554444444 445689999999943          33445


Q ss_pred             hhhhhcc---ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HHH-HHHHHH---
Q 028315           78 TSSYYRG---AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EEG-MILAQE---  148 (210)
Q Consensus        78 ~~~~~~~---~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~-~~~~~~---  148 (210)
                      ...+++.   +|++++|+|++++.+..  ...|...+..    .+.|+++|+||+|+........  ++. ..+...   
T Consensus       106 ~~~~~~~~~~~d~vi~v~d~~~~~~~~--~~~~~~~l~~----~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~  179 (223)
T 4dhe_A          106 LSSYLQTRPQLCGMILMMDARRPLTEL--DRRMIEWFAP----TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDA  179 (223)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHH--HHHHHHHHGG----GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHhcCcCcCEEEEEEeCCCCCCHH--HHHHHHHHHh----cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhc
Confidence            5556655   88899999999864422  2234454442    5689999999999875433211  111 222222   


Q ss_pred             ---cCCeEEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          149 ---HKCLFLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       149 ---~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                         .+.+++++||++|.|++++|++|.+.+....
T Consensus       180 ~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~~  213 (223)
T 4dhe_A          180 GYAGKLTVQLFSALKRTGLDDAHALIESWLRPAA  213 (223)
T ss_dssp             TCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC---
T ss_pred             ccCCCCeEEEeecCCCcCHHHHHHHHHHhcCccC
Confidence               4568999999999999999999999886543

>3iby_A Ferrous iron transport protein B; G protein, G domain, iron uptake, cell inner membrane, cell GTP-binding, ION transport, membrane; 2.50A {Legionella pneumophila}

Probab=99.93  E-value=3e-25  Score=168.95  Aligned_cols=149  Identities=19%  Similarity=0.203  Sum_probs=113.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc----------chhhhh-
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT----------LTSSYY-   82 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~----------~~~~~~-   82 (210)
                      +|+++|++|+|||||+++|.+..... ..+..+.+.....+.+.+.  .+.+|||||...+..          ....++ 
T Consensus         3 kI~lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~~--~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~   80 (256)
T 3iby_A            3 HALLIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGEH--LIEITDLPGVYSLVANAEGISQDEQIAAQSVI   80 (256)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETTE--EEEEEECCCCSSCC------CHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECCe--EEEEEeCCCcccccccccCCCHHHHHHHHHHh
Confidence            79999999999999999998876433 4455554555555555554  789999999877753          445566 


Q ss_pred             -ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           83 -RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        83 -~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                       +.+|++++|+|+++..++..+.    ..+.    ..+.|+++|+||+|+...+.+.. ....+...++++++++||++|
T Consensus        81 ~~~~d~vi~VvDas~~~~~~~l~----~~l~----~~~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g  151 (256)
T 3iby_A           81 DLEYDCIINVIDACHLERHLYLT----SQLF----ELGKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKN  151 (256)
T ss_dssp             HSCCSEEEEEEEGGGHHHHHHHH----HHHT----TSCSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGT
T ss_pred             hCCCCEEEEEeeCCCchhHHHHH----HHHH----HcCCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCC
Confidence             8899999999999875544322    2222    34789999999999865443332 245577788999999999999


Q ss_pred             cCHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYK  174 (210)
Q Consensus       162 ~~i~~l~~~i~~~  174 (210)
                      .|++++|+++.+.
T Consensus       152 ~gi~el~~~i~~~  164 (256)
T 3iby_A          152 IGIPALQQSLLHC  164 (256)
T ss_dssp             BSHHHHHHHHHTC
T ss_pred             CCHHHHHHHHHhh
Confidence            9999999999887

>3k53_A Ferrous iron transport protein B; GTPase fold, helical bundle, G-protein, prokaryote, GTP-BIND nucleotide-binding, metal transport; 2.70A {Pyrococcus furiosus}

Probab=99.92  E-value=1.3e-24  Score=167.00  Aligned_cols=158  Identities=19%  Similarity=0.142  Sum_probs=118.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc------chhhhh--
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT------LTSSYY--   82 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~------~~~~~~--   82 (210)
                      +.++|+++|++|+|||||+++|.+..+.. ..+..+.+.........+.  .+.+|||||...+..      .+..++  
T Consensus         2 ~~~~i~lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~~--~~~l~DtpG~~~~~~~~~~~~~~~~~~~~   79 (271)
T 3k53_A            2 VLKTVALVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYREK--EFLVVDLPGIYSLTAHSIDELIARNFILD   79 (271)
T ss_dssp             CCEEEEEEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETTE--EEEEEECCCCSCCCSSCHHHHHHHHHHHT
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECCc--eEEEEeCCCccccccCCHHHHHHHHhhhc
Confidence            35899999999999999999999887633 4455555555555555543  589999999887765      455555  


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE  162 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~  162 (210)
                      ..+|++++|+|+++...   ....+.....    ....|+++|+||+|+...+.+..+ ...+...++++++++||++|.
T Consensus        80 ~~~d~vi~v~D~~~~~~---~~~~~~~~~~----~~~~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~  151 (271)
T 3k53_A           80 GNADVIVDIVDSTCLMR---NLFLTLELFE----MEVKNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGE  151 (271)
T ss_dssp             TCCSEEEEEEEGGGHHH---HHHHHHHHHH----TTCCSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTB
T ss_pred             cCCcEEEEEecCCcchh---hHHHHHHHHh----cCCCCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCC
Confidence            68999999999998642   2213333332    223899999999998654444332 567778889999999999999


Q ss_pred             CHHHHHHHHHHHHHccc
Q 028315          163 DVKQCFKDLLYKILEVP  179 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~~~  179 (210)
                      |++++|+++.+.+....
T Consensus       152 gi~~l~~~i~~~~~~~~  168 (271)
T 3k53_A          152 GVEELKRMIALMAEGKV  168 (271)
T ss_dssp             THHHHHHHHHHHHHTCC
T ss_pred             CHHHHHHHHHHHHhccc
Confidence            99999999999876543

>3i8s_A Ferrous iron transport protein B; GTPase, GPCR, iron uptake, FEO, cell inner membrane, cell ME GTP-binding, ION transport, membrane; 1.80A {Escherichia coli} PDB: 3i8x_A* 3i92_A* 3hyr_A 3hyt_A* 2wic_A* 2wib_A* 2wia_A*

Probab=99.92  E-value=1.3e-25  Score=172.66  Aligned_cols=155  Identities=16%  Similarity=0.130  Sum_probs=112.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc----------chhhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT----------LTSSY   81 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~----------~~~~~   81 (210)
                      .++|+++|.+|+|||||+|+|++..+.. ..+..+.+.....+...+  ..+.+|||||+..+..          ....+
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~   80 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFSTTD--HQVTLVDLPGTYSLTTISSQTSLDEQIACHY   80 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEECSS--CEEEEEECCCCSCSCC----CCHHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEEeCC--CceEEEECcCCCccccccccCCHHHHHHHHH
Confidence            5899999999999999999998887533 334444444444444443  4678899999877662          12233


Q ss_pred             h--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           82 Y--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        82 ~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      +  +.+|++++|+|+++..+...    |...+..    .+.|+++|+||+|+...+.+.. ....+...++++++++||+
T Consensus        81 ~~~~~~d~ii~VvD~~~~~~~~~----~~~~l~~----~~~p~ivv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~i~~SA~  151 (274)
T 3i8s_A           81 ILSGDADLLINVVDASNLERNLY----LTLQLLE----LGIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVST  151 (274)
T ss_dssp             HHHTCCSEEEEEEEGGGHHHHHH----HHHHHHH----HTCCEEEEEECHHHHHHTTEEE-CHHHHHHHHTSCEEECCCG
T ss_pred             HhhcCCCEEEEEecCCChHHHHH----HHHHHHh----cCCCEEEEEECccchhhhhHHH-HHHHHHHhcCCCEEEEEcC
Confidence            2  78999999999998655443    3333322    2689999999999865444322 3456777889999999999


Q ss_pred             CCcCHHHHHHHHHHHHHcc
Q 028315          160 NTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~  178 (210)
                      +|.|+++++++|.+.+...
T Consensus       152 ~g~gi~el~~~i~~~~~~~  170 (274)
T 3i8s_A          152 RGRGIEALKLAIDRYKANE  170 (274)
T ss_dssp             GGHHHHHHHHHHHTCCCCC
T ss_pred             CCCCHHHHHHHHHHHHhcC
Confidence            9999999999998876544

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.92  E-value=1e-25  Score=167.68  Aligned_cols=149  Identities=21%  Similarity=0.271  Sum_probs=104.1

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhh
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY   81 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~   81 (210)
                      .+....+.++|+++|++|+|||||+++|.+..+..    +.++.+..         .....+.+|||||++.+...+..+
T Consensus         5 ~~~~~~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~~---------~~~~~~~l~Dt~G~~~~~~~~~~~   75 (218)
T 1nrj_B            5 GIKQKSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAAD---------YDGSGVTLVDFPGHVKLRYKLSDY   75 (218)
T ss_dssp             -----CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEETT---------GGGSSCEEEECCCCGGGTHHHHHH
T ss_pred             CCCccCCCCEEEEECCCCCCHHHHHHHHhcCCCCCeeeecCceEEEE---------eeCceEEEEECCCcHHHHHHHHHH
Confidence            33444677999999999999999999999988654    22222221         144678999999999998888888


Q ss_pred             hcc----ccEEEEEEeCC-CHhhHHHHHHHHHHHHhhhc--cCCCCcEEEEEeCCCCCCCCccC------HHHHHHHHHH
Q 028315           82 YRG----AHGIILVYDVT-RRETFTNLSSVWAKEVELYS--TNQDCVKILVGNKVDRDSERAVT------REEGMILAQE  148 (210)
Q Consensus        82 ~~~----~d~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~--~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~~  148 (210)
                      ++.    +|++++|+|++ ++.++.....++...+....  ...+.|+++|+||+|+...+.+.      .++...+...
T Consensus        76 ~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~  155 (218)
T 1nrj_B           76 LKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIER  155 (218)
T ss_dssp             HHHHGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHH
T ss_pred             HHhccccCCEEEEEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHH
Confidence            877    89999999999 88888888844444443321  24689999999999998765544      3445566666


Q ss_pred             cCCeEEEecccCCcC
Q 028315          149 HKCLFLECSAKNTED  163 (210)
Q Consensus       149 ~~~~~~~~sa~~~~~  163 (210)
                      .++.++++||++|.+
T Consensus       156 ~~~~~~~~Sa~~~~~  170 (218)
T 1nrj_B          156 RKKSLNEVERKINEE  170 (218)
T ss_dssp             HHHHHHC--------
T ss_pred             Hhccccccccccccc
Confidence            677899999998875

>3gee_A MNME, tRNA modification GTPase MNME; G protein, cytoplasm, GTP- binding, hydrolase, magnesium, metal-binding, nucleotide- binding, potassium; HET: GDP FON; 2.95A {Chlorobium tepidum} PDB: 3gei_A*

Probab=99.92  E-value=6.2e-25  Score=180.12  Aligned_cols=156  Identities=17%  Similarity=0.119  Sum_probs=97.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEE--EEEEECCeEEEEEEEeCCCCcccccch--------hhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKI--KLLTVGGKRLKLTIWDTAGQERFGTLT--------SSY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~~   81 (210)
                      ..++|+++|.+|+|||||+|+|.+.......+.++++...  ..+.+++  +.+.+|||||...+...+        ..+
T Consensus       232 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~  309 (476)
T 3gee_A          232 EGVSTVIAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMK  309 (476)
T ss_dssp             HCEEEEEECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhh
Confidence            3589999999999999999999887654444444444443  3444444  579999999987765443        235


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ++.+|++++|+|++++.+++... .+...+...   .+.|+++|+||+|+.+.....   ...+......+++++||++|
T Consensus       310 ~~~aD~vl~VvD~s~~~s~~~~~-~~~~~l~~l---~~~piIvV~NK~Dl~~~~~~~---~~~l~~~~~~~~i~vSAktg  382 (476)
T 3gee_A          310 MAEADLILYLLDLGTERLDDELT-EIRELKAAH---PAAKFLTVANKLDRAANADAL---IRAIADGTGTEVIGISALNG  382 (476)
T ss_dssp             CSSCSEEEEEEETTTCSSGGGHH-HHHHHHHHC---TTSEEEEEEECTTSCTTTHHH---HHHHHHHHTSCEEECBTTTT
T ss_pred             cccCCEEEEEEECCCCcchhhhH-HHHHHHHhc---CCCCEEEEEECcCCCCccchh---HHHHHhcCCCceEEEEECCC
Confidence            78999999999999988775433 333333322   278999999999997655432   23333332368999999999


Q ss_pred             cCHHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKIL  176 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~  176 (210)
                      .|+++++++|.+.+.
T Consensus       383 ~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          383 DGIDTLKQHMGDLVK  397 (476)
T ss_dssp             BSHHHHHHHHTHHHH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999999887

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.91  E-value=3.2e-25  Score=180.96  Aligned_cols=161  Identities=19%  Similarity=0.150  Sum_probs=113.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCCC----------cccccch
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQ----------ERFGTLT   78 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~----------~~~~~~~   78 (210)
                      +..+||+++|.+|||||||+++|++..+....+..+++..  ...+..++.  .+.+|||||+          +.|...+
T Consensus       173 ~~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  250 (436)
T 2hjg_A          173 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  250 (436)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETTE--EEEETTHHHHTCBTTBCCCCSHHHHHH
T ss_pred             ccCcEEEEEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECCe--EEEEEECCCcCcCccccchHHHHHHHH
Confidence            3569999999999999999999998876433333333333  334444544  5899999997          3333333


Q ss_pred             h-hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HHHH----HcCCe
Q 028315           79 S-SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-ILAQ----EHKCL  152 (210)
Q Consensus        79 ~-~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~~  152 (210)
                      . .+++.+|++++|+|++++.+++...  |...+.    ..+.|+++|+||+|+.+.+....++.. .+..    ..+++
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~~--~~~~~~----~~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~  324 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDKR--IAGYAH----EAGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAP  324 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHHH--HHHHHH----HTTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHHH--HHHHHH----HcCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCC
Confidence            3 4678899999999999988877653  544443    257899999999999765544333322 2222    23678


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHHccc
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ++++||++|.|++++|+.+.+.+....
T Consensus       325 ~~~~SA~tg~~v~~l~~~i~~~~~~~~  351 (436)
T 2hjg_A          325 ILFMSALTKKRIHTLMPAIIKASENHS  351 (436)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHHT
T ss_pred             EEEEecccCCCHHHHHHHHHHHHHHhh
Confidence            999999999999999999998876543

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.91  E-value=8.6e-25  Score=179.35  Aligned_cols=162  Identities=19%  Similarity=0.147  Sum_probs=116.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEE--EEEEEECCeEEEEEEEeCCC----------Ccccccch
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFK--IKLLTVGGKRLKLTIWDTAG----------QERFGTLT   78 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G----------~~~~~~~~   78 (210)
                      ...+||+++|.+|+|||||+++|.+.......+..+++..  ...+..++.  .+.+|||||          ++.|....
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~e~~~~~~  270 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQQ--EFVIVDTAGMRKKGKVYETTEKYSVLR  270 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETTE--EEEETTGGGTTTBTTBCCCCSHHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECCc--eEEEEECCCCCcCcccchHHHHHHHHH
Confidence            4579999999999999999999997764333333333332  233444544  789999999          55555554


Q ss_pred             h-hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-----CCe
Q 028315           79 S-SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-----KCL  152 (210)
Q Consensus        79 ~-~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-----~~~  152 (210)
                      . .+++.+|++++|+|++++...+..  .|...+..    .++|+++|+||+|+.+.+....++........     +++
T Consensus       271 ~~~~~~~ad~~llviD~~~~~~~~~~--~~~~~~~~----~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~  344 (456)
T 4dcu_A          271 ALKAIDRSEVVAVVLDGEEGIIEQDK--RIAGYAHE----AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAP  344 (456)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHH--HHHHHHHH----TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSC
T ss_pred             HHHHHhhCCEEEEEEeCCCCcCHHHH--HHHHHHHH----cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCC
Confidence            4 367899999999999986443322  44444442    56899999999999876666656655555443     578


Q ss_pred             EEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          153 FLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ++++||++|.|++++|+++.+.+.....
T Consensus       345 ~~~~SA~~g~gv~~l~~~i~~~~~~~~~  372 (456)
T 4dcu_A          345 ILFMSALTKKRIHTLMPAIIKASENHSL  372 (456)
T ss_dssp             EEECCTTTCTTGGGHHHHHHHHHHHHTC
T ss_pred             EEEEcCCCCcCHHHHHHHHHHHHHHhcc
Confidence            9999999999999999999998765543

>1ega_A Protein (GTP-binding protein ERA); GTPase, RNA-binding, RAS-like, hydrolase; 2.40A {Escherichia coli} SCOP: c.37.1.8 d.52.3.1 PDB: 1x1l_X 3ieu_A* 1x18_X

Probab=99.91  E-value=3.7e-24  Score=166.64  Aligned_cols=167  Identities=20%  Similarity=0.138  Sum_probs=114.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc---------ccccchhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE---------RFGTLTSSY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~---------~~~~~~~~~   81 (210)
                      .+..+|+++|++|+|||||++++++..+....+.++++.......+......+.+|||||+.         .+......+
T Consensus         6 ~r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~~~~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~   85 (301)
T 1ega_A            6 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSS   85 (301)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSC
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHCCCccccCCCCCcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHH
Confidence            35668999999999999999999988765433333333222222222234678999999987         234445567


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKN  160 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~  160 (210)
                      ++.+|++++|+|+++ -+  .....+...+.    ..+.|+++++||+|+........+....+...+++ .++.+||++
T Consensus        86 l~~~D~vl~Vvd~~~-~~--~~~~~i~~~l~----~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~  158 (301)
T 1ega_A           86 IGDVELVIFVVEGTR-WT--PDDEMVLNKLR----EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAET  158 (301)
T ss_dssp             CCCEEEEEEEEETTC-CC--HHHHHHHHHHH----SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTT
T ss_pred             HhcCCEEEEEEeCCC-CC--HHHHHHHHHHH----hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCC
Confidence            889999999999977 22  22212222222    35789999999999865222223344455555665 699999999


Q ss_pred             CcCHHHHHHHHHHHHHccchhhhc
Q 028315          161 TEDVKQCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~~~~~  184 (210)
                      |.|++++++++.+.+.+.+..+++
T Consensus       159 g~~v~~l~~~i~~~l~~~~~~~~~  182 (301)
T 1ega_A          159 GLNVDTIAAIVRKHLPEATHHFPE  182 (301)
T ss_dssp             TTTHHHHHHHHHTTCCBCCCSSCT
T ss_pred             CCCHHHHHHHHHHhCCcCCCCCCc
Confidence            999999999999887766554443

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.90  E-value=2.3e-25  Score=179.92  Aligned_cols=159  Identities=22%  Similarity=0.155  Sum_probs=113.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCcee--eEEEEEEEEECCeEEEEEEEeCCCCcccccc-------hh
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIG--VDFKIKLLTVGGKRLKLTIWDTAGQERFGTL-------TS   79 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~-------~~   79 (210)
                      +..+.++|+++|++|+|||||+++|++..+....+..+  .+.....+.+.+. ..+.+|||||++.+...       ..
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~  108 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKAR  108 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHH
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHH
Confidence            44568999999999999999999999887654333333  3333344444443 27899999999877654       34


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .+++.+|++++|+|+......   . .|...+..    .+.|+++|+||+|+...+..  +....+...++++++++||+
T Consensus       109 ~~l~~aD~vllVvD~~~~~~~---~-~~l~~l~~----~~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAk  178 (423)
T 3qq5_A          109 RVFYRADCGILVTDSAPTPYE---D-DVVNLFKE----MEIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSAL  178 (423)
T ss_dssp             HHHTSCSEEEEECSSSCCHHH---H-HHHHHHHH----TTCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSC
T ss_pred             HHHhcCCEEEEEEeCCChHHH---H-HHHHHHHh----cCCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECC
Confidence            578899999999999433222   2 45555543    37899999999999766544  55666677778999999999


Q ss_pred             CCcCHHHHHHHHHHHHHcc
Q 028315          160 NTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~~  178 (210)
                      +|.|++++|++|.+.+.+.
T Consensus       179 tg~gI~eL~~~L~~~l~~~  197 (423)
T 3qq5_A          179 QKKGFDDIGKTISEILPGD  197 (423)
T ss_dssp             CTTSTTTHHHHHHHHSCCC
T ss_pred             CCCCHHHHHHHHHHhhhhh
Confidence            9999999999999988654

>1xzp_A Probable tRNA modification GTPase TRME; GTP-binding, THF-binding, hydrolase; 2.30A {Thermotoga maritima} SCOP: a.24.25.1 c.37.1.8 d.250.1.2 PDB: 1xzq_A* 1xzp_B 1xzq_B*

Probab=99.90  E-value=7.8e-24  Score=173.75  Aligned_cols=151  Identities=19%  Similarity=0.225  Sum_probs=111.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCc-cccc--------chhhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE-RFGT--------LTSSY   81 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~-~~~~--------~~~~~   81 (210)
                      .++|+++|.+|+|||||+|+|.+..+..  ..+.++.+.....+.+++  ..+.+|||||.. .+..        ....+
T Consensus       243 ~~kV~ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~  320 (482)
T 1xzp_A          243 GLRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQE  320 (482)
T ss_dssp             CEEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHH
T ss_pred             CCEEEEECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHH
Confidence            4899999999999999999999887544  333333334444455554  568999999987 5532        22456


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ++.+|++|+|+|++++.+++... .| ..+      .+.|+++|+||+|+.+.  +..++...+. ..+.+++++||++|
T Consensus       321 ~~~aD~vl~VvD~s~~~s~~~~~-il-~~l------~~~piivV~NK~DL~~~--~~~~~~~~~~-~~~~~~i~iSAktg  389 (482)
T 1xzp_A          321 IEKADIVLFVLDASSPLDEEDRK-IL-ERI------KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKG  389 (482)
T ss_dssp             HHHCSEEEEEEETTSCCCHHHHH-HH-HHH------TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGT
T ss_pred             hhcccEEEEEecCCCCCCHHHHH-HH-HHh------cCCCEEEEEECcccccc--cCHHHHHHHh-cCCCcEEEEECCCC
Confidence            88999999999999987776543 22 222      36799999999999643  3444444332 24468999999999


Q ss_pred             cCHHHHHHHHHHHHH
Q 028315          162 EDVKQCFKDLLYKIL  176 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~  176 (210)
                      .|+++++++|.+.+.
T Consensus       390 ~Gi~eL~~~l~~~~~  404 (482)
T 1xzp_A          390 EGLEKLEESIYRETQ  404 (482)
T ss_dssp             CCHHHHHHHHHHHTH
T ss_pred             CCHHHHHHHHHHHHh
Confidence            999999999999766

>1lnz_A SPO0B-associated GTP-binding protein; GTPase, OBG, stringent factor, stress response, sporulation, large G-protein, structural genomics, PSI; HET: G4P; 2.60A {Bacillus subtilis} SCOP: b.117.1.1 c.37.1.8

Probab=99.90  E-value=9.1e-24  Score=166.56  Aligned_cols=160  Identities=18%  Similarity=0.215  Sum_probs=115.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCc----ccccchhhhhc---ccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE----RFGTLTSSYYR---GAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~----~~~~~~~~~~~---~~d   86 (210)
                      +|+++|.++||||||+++|++..... ..+.+........+.+++ ...+.+|||||..    .+..+...+++   .+|
T Consensus       160 ~V~lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d  238 (342)
T 1lnz_A          160 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR  238 (342)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eeeeeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhcc
Confidence            47899999999999999998775422 222111112222233433 2478999999953    34445566655   499


Q ss_pred             EEEEEEeCCC---HhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--CeEEEecccC
Q 028315           87 GIILVYDVTR---RETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--CLFLECSAKN  160 (210)
Q Consensus        87 ~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~  160 (210)
                      ++|+|+|+++   +.+++.+. .|...+..+.. ..++|+++|+||+|+...+    +....+...+.  .+++++||++
T Consensus       239 ~ll~VvD~s~~~~~~~~~~~~-~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~~~----e~~~~l~~~l~~~~~v~~iSA~t  313 (342)
T 1lnz_A          239 VIVHVIDMSGLEGRDPYDDYL-TINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVT  313 (342)
T ss_dssp             EEEEEEESSCSSCCCHHHHHH-HHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCC
T ss_pred             EEEEEEECCcccccChHHHHH-HHHHHHHHhhhhhcCCCEEEEEECccCCCCH----HHHHHHHHHhhcCCCEEEEECCC
Confidence            9999999998   77788887 67777766532 2578999999999986432    34455666665  6899999999


Q ss_pred             CcCHHHHHHHHHHHHHccch
Q 028315          161 TEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       161 ~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +.|+++++.+|.+.+.+.+.
T Consensus       314 g~gi~eL~~~l~~~l~~~~~  333 (342)
T 1lnz_A          314 REGLRELLFEVANQLENTPE  333 (342)
T ss_dssp             SSTTHHHHHHHHHHHTSCCC
T ss_pred             CcCHHHHHHHHHHHHhhCcc
Confidence            99999999999999876654

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.90  E-value=1.2e-23  Score=171.77  Aligned_cols=152  Identities=22%  Similarity=0.203  Sum_probs=100.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEE--EEEEEEECCeEEEEEEEeCCCCccc---------ccchhhhhc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDF--KIKLLTVGGKRLKLTIWDTAGQERF---------GTLTSSYYR   83 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~Dt~G~~~~---------~~~~~~~~~   83 (210)
                      +|+++|.+|||||||+|+|.+.......++++.+.  ....+...+.  .+.+|||||.+..         ...+..+++
T Consensus         3 ~v~ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~~--~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~   80 (439)
T 1mky_A            3 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGK--TFKLVDTCGVFDNPQDIISQKMKEVTLNMIR   80 (439)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTE--EEEEEECTTTTSSGGGCCCHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECCe--EEEEEECCCccccccchHHHHHHHHHHHHHH
Confidence            79999999999999999999887654445555543  3344445554  5789999997642         234556789


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHH-HHHHHHcCC-eEEEecccCC
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEG-MILAQEHKC-LFLECSAKNT  161 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~-~~~~~~~~~-~~~~~sa~~~  161 (210)
                      ++|++++|+|+.++.+....  .+...+..    .++|+++|+||+|+...  . ..+. ..+. .+++ +++++||++|
T Consensus        81 ~ad~il~V~D~~~~~~~~d~--~i~~~l~~----~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g  150 (439)
T 1mky_A           81 EADLVLFVVDGKRGITKEDE--SLADFLRK----STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHN  150 (439)
T ss_dssp             TCSEEEEEEETTTCCCHHHH--HHHHHHHH----HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTT
T ss_pred             hCCEEEEEEECCCCCCHHHH--HHHHHHHH----cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCC
Confidence            99999999999886554331  22233322    36899999999998432  1 1222 3333 4566 6999999999


Q ss_pred             cCHHHHHHHHHHHHHcc
Q 028315          162 EDVKQCFKDLLYKILEV  178 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~  178 (210)
                      .|++++++++.+.+.+.
T Consensus       151 ~gv~~L~~~i~~~l~~~  167 (439)
T 1mky_A          151 INLDTMLETIIKKLEEK  167 (439)
T ss_dssp             BSHHHHHHHHHHHHHHT
T ss_pred             CCHHHHHHHHHHhcccc
Confidence            99999999999988743

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.89  E-value=1.4e-22  Score=161.43  Aligned_cols=163  Identities=17%  Similarity=0.142  Sum_probs=115.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc---------chhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT---------LTSS   80 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~---------~~~~   80 (210)
                      ...++|+++|.+|||||||+++|.+..... ..+..............  ...+.+|||||...+..         ....
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  242 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILA  242 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHG
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHH
Confidence            356899999999999999999998876422 22222222222222222  45789999999754321         1123


Q ss_pred             hhccccEEEEEEeCCCHh--hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315           81 YYRGAHGIILVYDVTRRE--TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      +...+|++++|+|++++.  +++... .|...+....  .+.|+++|+||+|+.....+  ++...++...+++++++||
T Consensus       243 ~~~~ad~illV~D~s~~~~~~~~~~~-~~~~~i~~~~--~~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA  317 (357)
T 2e87_A          243 LRYLGNLIIYIFDPSEHCGFPLEEQI-HLFEEVHGEF--KDLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISA  317 (357)
T ss_dssp             GGGTCSEEEEEECTTCTTSSCHHHHH-HHHHHHHHHT--TTSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBT
T ss_pred             HHhcCCEEEEEEeCCccccCCHHHHH-HHHHHHHHhc--CCCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeC
Confidence            345699999999999876  566665 5666655443  27899999999999654433  3455566677889999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccch
Q 028315          159 KNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ++|.|+++++++|.+.+.....
T Consensus       318 ~~g~gi~~l~~~i~~~l~~~~~  339 (357)
T 2e87_A          318 LKGTGIDLVKEEIIKTLRPLAE  339 (357)
T ss_dssp             TTTBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCcCHHHHHHHHHHHHHHHHh
Confidence            9999999999999998865433

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.89  E-value=6.2e-23  Score=172.08  Aligned_cols=159  Identities=21%  Similarity=0.235  Sum_probs=112.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCC------------CCCceeeEEEEEEEEE-----CCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHD------------PSPTIGVDFKIKLLTV-----GGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~------------~~~~~~~~~~~~~~~~-----~~~~~~~~l~Dt~G~   71 (210)
                      ++..||+++|+.++|||||+++|+...  ...            .....+.+.......+     ++..+.++||||||+
T Consensus         2 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh   81 (599)
T 3cb4_D            2 KNIRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGH   81 (599)
T ss_dssp             TTEEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCC
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCc
Confidence            356799999999999999999997632  110            1112334443322222     455789999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  151 (210)
                      ..|...+...++.+|++|+|+|++++.+++... .|.....     .++|+++++||+|+...+  ..+....+...++.
T Consensus        82 ~dF~~ev~~~l~~aD~aILVVDa~~gv~~qt~~-~~~~~~~-----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~  153 (599)
T 3cb4_D           82 VDFSYEVSRSLAACEGALLVVDAGQGVEAQTLA-NCYTAME-----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGI  153 (599)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCCCTHHHH-HHHHHHH-----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCC
T ss_pred             hHHHHHHHHHHHHCCEEEEEEECCCCCCHHHHH-HHHHHHH-----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCC
Confidence            999999999999999999999999987777666 5655443     478999999999997543  22334455666666


Q ss_pred             e---EEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 L---FLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 ~---~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .   ++++||++|.|+++++++|.+.+..
T Consensus       154 ~~~~vi~vSAktg~GI~~Ll~~I~~~lp~  182 (599)
T 3cb4_D          154 DATDAVRCSAKTGVGVQDVLERLVRDIPP  182 (599)
T ss_dssp             CCTTCEEECTTTCTTHHHHHHHHHHHSCC
T ss_pred             CcceEEEeecccCCCchhHHHHHhhcCCC
Confidence            3   9999999999999999999988764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.89  E-value=8.9e-24  Score=172.44  Aligned_cols=154  Identities=16%  Similarity=0.101  Sum_probs=104.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc--------ccccchhhhhccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE--------RFGTLTSSYYRGA   85 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~--------~~~~~~~~~~~~~   85 (210)
                      .+|+++|.+|||||||+++|.+..+....++++.+.......+...+..+.+|||||.+        .+...+..+++.+
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~a   83 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEA   83 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC-----------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeecCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhC
Confidence            58999999999999999999988877777788887776666666566789999999985        4455667788999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCcCH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTEDV  164 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~~i  164 (210)
                      |++++|+|+.++.++...  .+...+.    ..++|+++|+||+|+...+...    ..+. .++. +++++||++|.|+
T Consensus        84 d~il~vvD~~~~~~~~d~--~~~~~l~----~~~~pvilv~NK~D~~~~~~~~----~~~~-~lg~~~~~~iSA~~g~gv  152 (436)
T 2hjg_A           84 DVIIFMVNGREGVTAADE--EVAKILY----RTKKPVVLAVNKLDNTEMRANI----YDFY-SLGFGEPYPISGTHGLGL  152 (436)
T ss_dssp             SEEEEEEETTTCSCHHHH--HHHHHHT----TCCSCEEEEEECCCC-----CC----CSSG-GGSSCCCEECBTTTTBTH
T ss_pred             CEEEEEEeCCCCCCHHHH--HHHHHHH----HcCCCEEEEEECccCccchhhH----HHHH-HcCCCCeEEEeCcCCCCh
Confidence            999999999987665432  3444443    3678999999999986532111    1122 3454 6999999999999


Q ss_pred             HHHHHHHHHHHHcc
Q 028315          165 KQCFKDLLYKILEV  178 (210)
Q Consensus       165 ~~l~~~i~~~~~~~  178 (210)
                      +++++++.+.+.+.
T Consensus       153 ~~L~~~i~~~l~~~  166 (436)
T 2hjg_A          153 GDLLDAVAEHFKNI  166 (436)
T ss_dssp             HHHHHHHHHTGGGC
T ss_pred             HHHHHHHHHhcCcc
Confidence            99999999887643

>3sjy_A Translation initiation factor 2 subunit gamma; zinc finger, initiate translation, tRNA binding, mRNA bindin binding; HET: GCP GDP; 2.00A {Sulfolobus solfataricus P2} PDB: 3pen_A* 3sjz_A* 2qn6_A* 2aho_A 2qmu_A* 2plf_A* 3v11_A* 3i1f_A* 3cw2_A 2pmd_A* 3p3m_A* 3qsy_A*

Probab=99.89  E-value=7.8e-23  Score=165.30  Aligned_cols=165  Identities=13%  Similarity=0.053  Sum_probs=113.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEE-------EE------------ECCeEEEEEEEeCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKL-------LT------------VGGKRLKLTIWDTA   69 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~-------~~------------~~~~~~~~~l~Dt~   69 (210)
                      ...+.+||+++|++++|||||+++|++............+.....       +.            .......+.+||||
T Consensus         4 ~~~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtP   83 (403)
T 3sjy_A            4 KVQPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAP   83 (403)
T ss_dssp             CCCCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECC
T ss_pred             ccCCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECC
Confidence            345679999999999999999999987554332111111111000       00            01123789999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC--HHHHHHHHH
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT--REEGMILAQ  147 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~--~~~~~~~~~  147 (210)
                      |++.|...+...+..+|++++|+|++++.++.... .|...+...   ...|+++++||+|+.+.....  .++...+..
T Consensus        84 Gh~~~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~-~~~~~~~~~---~~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~  159 (403)
T 3sjy_A           84 GHEVLMATMLSGAALMDGAILVVAANEPFPQPQTR-EHFVALGII---GVKNLIIVQNKVDVVSKEEALSQYRQIKQFTK  159 (403)
T ss_dssp             CCGGGHHHHHHHHTTCSEEEEEEETTSCSSCHHHH-HHHHHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHHHHHHHT
T ss_pred             CcHHHHHHHHHHHhhCCEEEEEEECCCCCCcHHHH-HHHHHHHHc---CCCCEEEEEECccccchHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999876555555 344444432   235899999999996543221  112222222


Q ss_pred             Hc---CCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          148 EH---KCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       148 ~~---~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..   +++++++||++|.|+++++++|.+.+..
T Consensus       160 ~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l~~  192 (403)
T 3sjy_A          160 GTWAENVPIIPVSALHKINIDSLIEGIEEYIKT  192 (403)
T ss_dssp             TSTTTTCCEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             hhCCCCCEEEEEECCCCcChHHHHHHHHHhCCC
Confidence            22   5689999999999999999999887653

>2ywe_A GTP-binding protein LEPA; G domain, beta-barrel, ferredoxin-like domain, structural GE NPPSFA; 2.05A {Aquifex aeolicus} PDB: 2ywf_A* 2ywg_A* 2ywh_A*

Probab=99.89  E-value=1.6e-22  Score=169.42  Aligned_cols=159  Identities=21%  Similarity=0.242  Sum_probs=114.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC--CCC------CC------CceeeEEE----EEEEEE-CCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS--VHD------PS------PTIGVDFK----IKLLTV-GGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~------~~------~~~~~~~~----~~~~~~-~~~~~~~~l~Dt~G~   71 (210)
                      ++..||+++|+.++|||||+++|+...  ...      ..      ...+.+..    ...+.. ++..+.++||||||+
T Consensus         4 ~~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh   83 (600)
T 2ywe_A            4 KNVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGH   83 (600)
T ss_dssp             GGEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCS
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCc
Confidence            567899999999999999999997631  111      00      11222221    111111 455789999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC  151 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~  151 (210)
                      ..|...+...++.+|++++|+|++++.+++... .|.....     .+.|+++++||+|+...+  ..+...++...++.
T Consensus        84 ~dF~~ev~r~l~~aD~aILVVDa~~gv~~qt~~-~~~~a~~-----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~  155 (600)
T 2ywe_A           84 VDFSYEVSRALAACEGALLLIDASQGIEAQTVA-NFWKAVE-----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGL  155 (600)
T ss_dssp             GGGHHHHHHHHHTCSEEEEEEETTTBCCHHHHH-HHHHHHH-----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCC
T ss_pred             HhHHHHHHHHHHhCCEEEEEEECCCCccHHHHH-HHHHHHH-----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCC
Confidence            999988999999999999999999987777766 5655443     578999999999996543  12234455566666


Q ss_pred             ---eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 ---LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 ---~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                         +++++||++|.|++++|++|.+.+..
T Consensus       156 ~~~~vi~vSAktg~GI~~Lle~I~~~lp~  184 (600)
T 2ywe_A          156 DPEEAILASAKEGIGIEEILEAIVNRIPP  184 (600)
T ss_dssp             CGGGCEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             CcccEEEEEeecCCCchHHHHHHHHhccc
Confidence               39999999999999999999988764

>2xtp_A GTPase IMAP family member 2; immune system, G protein; HET: MSE; 1.50A {Homo sapiens} PDB: 2xto_A* 2xtm_A* 2xtn_A* 3p1j_A

Probab=99.88  E-value=1.1e-22  Score=155.42  Aligned_cols=165  Identities=16%  Similarity=0.154  Sum_probs=105.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCc-eeeEEEEEEEEECCeEEEEEEEeCCCCcccccch-------
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPT-IGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT-------   78 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~-~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~-------   78 (210)
                      +....++|+++|++|||||||+++|++.....  ..++ .............+  ..+.+|||||+..+....       
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~iiDTpG~~~~~~~~~~~~~~i   95 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGN--REIVIIDTPDMFSWKDHCEALYKEV   95 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEETT--EEEEEEECCGGGGSSCCCHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeCC--CEEEEEECcCCCCCCCCHHHHHHHH
Confidence            34567999999999999999999999877333  2232 22223333333443  568999999976654322       


Q ss_pred             ----hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEe-CCCCCCCCccCH-------HHHHHH
Q 028315           79 ----SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGN-KVDRDSERAVTR-------EEGMIL  145 (210)
Q Consensus        79 ----~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~n-K~Dl~~~~~~~~-------~~~~~~  145 (210)
                          ..+++.+|++++|+|+++...   ....+...+.... .....|.++++| |+|+... .+..       ++...+
T Consensus        96 ~~~~~~~~~~~d~il~V~d~~~~~~---~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~  171 (260)
T 2xtp_A           96 QRCYLLSAPGPHVLLLVTQLGRYTS---QDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNGG-SLMDYMHDSDNKALSKL  171 (260)
T ss_dssp             HHHHHHHTTCCSEEEEEEETTCCCH---HHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTTC-CHHHHHHHCCCHHHHHH
T ss_pred             HHHHHhcCCCCcEEEEEEeCCCCCH---HHHHHHHHHHHHhCchhhccEEEEEEcccccCCc-cHHHHHHhcchHHHHHH
Confidence                225688999999999986221   1112223333221 112456676666 9999743 2222       223345


Q ss_pred             HHHcCCe---E--EEecccCCcCHHHHHHHHHHHHHccc
Q 028315          146 AQEHKCL---F--LECSAKNTEDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       146 ~~~~~~~---~--~~~sa~~~~~i~~l~~~i~~~~~~~~  179 (210)
                      ....+..   +  +++||++|.|++++|++|.+.+....
T Consensus       172 ~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~~~  210 (260)
T 2xtp_A          172 VAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLMEKN  210 (260)
T ss_dssp             HHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHhCC
Confidence            5555432   2  78999999999999999999988765

>3lxx_A GTPase IMAP family member 4; structural genomics consortium, SGC, coiled coil, GTP- binding, nucleotide-binding, immune system; HET: GDP; 2.15A {Homo sapiens}

Probab=99.88  E-value=1.5e-22  Score=152.66  Aligned_cols=164  Identities=18%  Similarity=0.142  Sum_probs=104.4

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCC--ceeeEEEEEEEEECCeEEEEEEEeCCCCcc-----------cc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSP--TIGVDFKIKLLTVGGKRLKLTIWDTAGQER-----------FG   75 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~--~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-----------~~   75 (210)
                      ....+||+++|.+|+|||||+++|++..+.. ..+  +.............+  ..+.+|||||...           +.
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~i~liDTpG~~~~~~~~~~~~~~~~  103 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKE--TELVVVDTPGIFDTEVPNAETSKEII  103 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEETT--EEEEEEECCSCC-----CHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeCC--ceEEEEECCCccCCCCCHHHHHHHHH
Confidence            3568999999999999999999999887754 333  223333333344444  4789999999432           23


Q ss_pred             cchhhhhccccEEEEEEeCCCHhh--HHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC------HHHHHHHHH
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRET--FTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT------REEGMILAQ  147 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~--~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~------~~~~~~~~~  147 (210)
                      ..+...++.+|++|+|+|+++...  ...+. .+...+..   ....|+++|+||+|+.....+.      .+..+.+..
T Consensus       104 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~l~-~~~~~~~~---~~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~  179 (239)
T 3lxx_A          104 RCILLTSPGPHALLLVVPLGRYTEEEHKATE-KILKMFGE---RARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMD  179 (239)
T ss_dssp             HHHHHTTTCCSEEEEEEETTCCSSHHHHHHH-HHHHHHHH---HHGGGEEEEEECGGGC------------CHHHHHHHH
T ss_pred             HHHHhcCCCCcEEEEEeeCCCCCHHHHHHHH-HHHHHhhh---hccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHH
Confidence            333444567899999999875433  12222 22222222   1346999999999986554443      235667777


Q ss_pred             HcCCeEEEecccCC-----cCHHHHHHHHHHHHHccc
Q 028315          148 EHKCLFLECSAKNT-----EDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       148 ~~~~~~~~~sa~~~-----~~i~~l~~~i~~~~~~~~  179 (210)
                      .++..++.+++..+     .++.++|..+.+.+.+..
T Consensus       180 ~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~~~  216 (239)
T 3lxx_A          180 IFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRENK  216 (239)
T ss_dssp             HHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHHCT
T ss_pred             HcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHHcC
Confidence            88888888877644     689999998888776543

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.88  E-value=9.6e-22  Score=160.30  Aligned_cols=157  Identities=17%  Similarity=0.166  Sum_probs=105.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~   60 (210)
                      ...+||+++|++++|||||+++|+......                              .....+.+.......+...+
T Consensus        15 k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~~   94 (439)
T 3j2k_7           15 KEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEK   94 (439)
T ss_pred             CceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecCC
Confidence            467999999999999999999996542111                              11123445555555555556


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhh---HHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCC-
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET---FTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSER-  135 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~---~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~-  135 (210)
                      ..+.||||||++.|...+...++.+|++++|+|++++..   |+... .....+.... ..+.| +++++||+|+.... 
T Consensus        95 ~~~~iiDTPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~-qt~e~l~~~~-~~~v~~iIvviNK~Dl~~~~~  172 (439)
T 3j2k_7           95 KHFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGG-QTREHAMLAK-TAGVKHLIVLINKMDDPTVNW  172 (439)
T ss_pred             eEEEEEECCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCc-hHHHHHHHHH-HcCCCeEEEEeecCCCcccch
Confidence            789999999999999999889999999999999998632   11000 1111111111 23566 89999999985321 


Q ss_pred             -----ccCHHHHHHHHHHcC------CeEEEecccCCcCHHHHHH
Q 028315          136 -----AVTREEGMILAQEHK------CLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus       136 -----~~~~~~~~~~~~~~~------~~~~~~sa~~~~~i~~l~~  169 (210)
                           ....++...+....+      ++++++||++|.|+.++++
T Consensus       173 ~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          173 SNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence                 111122333443433      4799999999999999665

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.88  E-value=1.3e-22  Score=160.51  Aligned_cols=118  Identities=19%  Similarity=0.190  Sum_probs=94.9

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCC----------HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTR----------RETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                      .+.+.+|||+|++.++..|..++++++++|+|+|+++          ..++.+...+|...+.. ....+.|+++++||+
T Consensus       192 ~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~-~~~~~~piiLv~NK~  270 (353)
T 1cip_A          192 DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNN-KWFTDTSIILFLNKK  270 (353)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTC-GGGTTSEEEEEEECH
T ss_pred             CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcC-ccccCCcEEEEEECc
Confidence            5789999999999999999999999999999999999          45688877444444332 223679999999999


Q ss_pred             CCCCCC---------------ccCHHHHHHHHH-----------HcCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          130 DRDSER---------------AVTREEGMILAQ-----------EHKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       130 Dl~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |+...+               .++.+++..++.           ..++.+++|||+++.||+++|+++.+.+...
T Consensus       271 DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~~~i~~~  345 (353)
T 1cip_A          271 DLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  345 (353)
T ss_dssp             HHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             CchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHHHHHHHH
Confidence            984322               356677777765           3466799999999999999999999988743

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.87  E-value=2.9e-22  Score=163.66  Aligned_cols=160  Identities=19%  Similarity=0.203  Sum_probs=108.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEE--EEEEEEECCeEEEEEEEeCCCCcccccc-----------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDF--KIKLLTVGGKRLKLTIWDTAGQERFGTL-----------   77 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~Dt~G~~~~~~~-----------   77 (210)
                      +..++|+++|++|||||||++++.+.......+.++++.  ....+.+++.  .+.+|||||...+...           
T Consensus       178 ~~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~  255 (439)
T 1mky_A          178 TDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNY  255 (439)
T ss_dssp             CSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCH
T ss_pred             ccCceEEEECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHH
Confidence            356999999999999999999999887644334444333  3334455655  5789999997433211           


Q ss_pred             -hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HHHH----HcCC
Q 028315           78 -TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-ILAQ----EHKC  151 (210)
Q Consensus        78 -~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~~~----~~~~  151 (210)
                       ...+++.+|++++|+|++++.+.+..  .+...+.    ..+.|+++|+||+|+...+....++.. .+..    ..++
T Consensus       256 ~~~~~i~~ad~vllv~d~~~~~~~~~~--~i~~~l~----~~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~  329 (439)
T 1mky_A          256 RVVDSIEKADVVVIVLDATQGITRQDQ--RMAGLME----RRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYS  329 (439)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHH--HHHHHHH----HTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTS
T ss_pred             HHHHHHhhCCEEEEEEeCCCCCCHHHH--HHHHHHH----HcCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCC
Confidence             12357789999999999987665542  2333332    257899999999999765443333332 2222    2357


Q ss_pred             eEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          152 LFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       152 ~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      +++++||++|.|++++|+.+.+.+...
T Consensus       330 ~~~~~SA~~g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          330 PLIFTSADKGWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             CEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            899999999999999999999877554

>1s0u_A EIF-2-gamma, translation initiation factor 2 gamma subunit; GTPase, EF-1A, tRNA; 2.40A {Methanocaldococcus jannaschii} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.87  E-value=1.2e-21  Score=158.55  Aligned_cols=160  Identities=18%  Similarity=0.136  Sum_probs=104.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC----CCC--ceeeEEEEEEEEE-------------C--C----eEEEEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD----PSP--TIGVDFKIKLLTV-------------G--G----KRLKLT   64 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~----~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~   64 (210)
                      +...+||+++|+.++|||||+++|.+.....    ..+  |....+.......             +  +    ....+.
T Consensus         5 r~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~   84 (408)
T 1s0u_A            5 SQAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVS   84 (408)
T ss_dssp             CCCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEE
T ss_pred             cCCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEE
Confidence            3467999999999999999999998543221    222  3333333222211             1  1    137899


Q ss_pred             EEeCCCCcccccchhhhhccccEEEEEEeCCCH----hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--C
Q 028315           65 IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--T  138 (210)
Q Consensus        65 l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~  138 (210)
                      ||||||++.|...+...+..+|++++|+|++++    ++++.+.     .+..   ....|+++++||+|+.+....  .
T Consensus        85 iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~-----~~~~---l~~~~iivv~NK~Dl~~~~~~~~~  156 (408)
T 1s0u_A           85 FVDSPGHETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLM-----ALEI---LGIDKIIIVQNKIDLVDEKQAEEN  156 (408)
T ss_dssp             EEECSSHHHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHH-----HHHH---TTCCCEEEEEECTTSSCTTTTTTH
T ss_pred             EEECCCHHHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHH-----HHHH---cCCCeEEEEEEccCCCCHHHHHHH
Confidence            999999999887777777889999999999954    3433332     1221   123589999999999765432  2


Q ss_pred             HHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          139 REEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       139 ~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .++...+...   .+++++++||++|.|+++++++|.+.+..
T Consensus       157 ~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~~  198 (408)
T 1s0u_A          157 YEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFIPT  198 (408)
T ss_dssp             HHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHSCC
T ss_pred             HHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhCCC
Confidence            3444555543   35789999999999999999999886653

>3p26_A Elongation factor 1 alpha-like protein; GTP/GDP binding domain, beta-barrel, translational GTPase, D structural genomics; 2.50A {Saccharomyces cerevisiae} PDB: 3p27_A*

Probab=99.87  E-value=8.7e-23  Score=168.49  Aligned_cols=152  Identities=18%  Similarity=0.099  Sum_probs=99.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~   61 (210)
                      ..+||+++|++++|||||+++|++.....                              .....+.+.......++...+
T Consensus        32 ~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~  111 (483)
T 3p26_A           32 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRA  111 (483)
T ss_dssp             CEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSSC
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCCc
Confidence            46999999999999999999997651100                              112224444444444555567


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHH-----HHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNL-----SSVWAKEVELYSTNQDCVKILVGNKVDRDSERA  136 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~-----~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~  136 (210)
                      .+.||||||++.|...+...++.+|++|+|+|++++..+..+     .......+..   ....|++||+||+|+.+.+.
T Consensus       112 ~~~iiDTPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~---~~~~~iIvviNK~Dl~~~~~  188 (483)
T 3p26_A          112 NFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS---LGIHNLIIAMNKMDNVDWSQ  188 (483)
T ss_dssp             EEEEECCCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH---TTCCCEEEEEECGGGGTTCH
T ss_pred             eEEEEECCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH---cCCCcEEEEEECcCcccchH
Confidence            899999999999999999999999999999999987543211     1011111111   23357999999999975333


Q ss_pred             cCHHHH----HHHHHHc-----CCeEEEecccCCcCHHH
Q 028315          137 VTREEG----MILAQEH-----KCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       137 ~~~~~~----~~~~~~~-----~~~~~~~sa~~~~~i~~  166 (210)
                      ...++.    ..+....     +++++++||++|.|+++
T Consensus       189 ~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~e  227 (483)
T 3p26_A          189 QRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYK  227 (483)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSS
T ss_pred             HHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCccc
Confidence            322222    2222222     45799999999999985

>3geh_A MNME, tRNA modification GTPase MNME; G protein, U34, GTP-binding, HYDR magnesium, metal-binding, nucleotide-binding, potassium, TR processing; HET: GDP FON; 3.20A {Nostoc SP}

Probab=99.87  E-value=3.8e-23  Score=169.00  Aligned_cols=154  Identities=21%  Similarity=0.192  Sum_probs=102.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchh--------hh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTS--------SY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~--------~~   81 (210)
                      ..++|+++|.+|+|||||+|+|.+..+..  ..+.++.+.....+.+++  ..+.+|||||...+...+.        .+
T Consensus       223 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~  300 (462)
T 3geh_A          223 TGLKVAIVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQA  300 (462)
T ss_dssp             HCEEEEEEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CC
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhh
Confidence            46899999999999999999999876543  333333333333445555  4679999999766543332        25


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCC
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNT  161 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~  161 (210)
                      ++.+|++++|+|++++.+....  .|...+.      ..|+++|+||+|+.+...+..  ...+.  .+.+++++||++|
T Consensus       301 ~~~aD~vl~VvD~s~~~~~~~~--~i~~~l~------~~piivV~NK~Dl~~~~~~~~--~~~~~--~~~~~i~iSAktg  368 (462)
T 3geh_A          301 ANTADLVLLTIDAATGWTTGDQ--EIYEQVK------HRPLILVMNKIDLVEKQLITS--LEYPE--NITQIVHTAAAQK  368 (462)
T ss_dssp             CCSCSEEEEEEETTTCSCHHHH--HHHHHHT------TSCEEEEEECTTSSCGGGSTT--CCCCT--TCCCEEEEBTTTT
T ss_pred             hhcCCEEEEEeccCCCCCHHHH--HHHHhcc------CCcEEEEEECCCCCcchhhHH--HHHhc--cCCcEEEEECCCC
Confidence            7889999999999987665542  3444432      369999999999976544321  11111  3567999999999


Q ss_pred             cCHHHHHHHHHHHHHccc
Q 028315          162 EDVKQCFKDLLYKILEVP  179 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~  179 (210)
                      .|+++++++|.+.+....
T Consensus       369 ~Gi~eL~~~i~~~~~~~~  386 (462)
T 3geh_A          369 QGIDSLETAILEIVQTGK  386 (462)
T ss_dssp             BSHHHHHHHHHHHHTTSS
T ss_pred             CCHHHHHHHHHHHHhccC
Confidence            999999999999886543

>1wb1_A Translation elongation factor SELB; selenocysteine, protein synthesis, selenium, ribosome; HET: GDP DXC; 3.0A {Methanococcus maripaludis} SCOP: b.43.3.1 b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1wb2_A* 1wb3_A*

Probab=99.87  E-value=3.8e-22  Score=164.30  Aligned_cols=155  Identities=15%  Similarity=0.129  Sum_probs=108.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC----CCC--CCCceeeEEE--EEEEEECCeEEEEEEEeCCCCcccccchhhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS----VHD--PSPTIGVDFK--IKLLTVGGKRLKLTIWDTAGQERFGTLTSSYY   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~----~~~--~~~~~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~   82 (210)
                      .+.++|+++|++++|||||+++|.+..    ...  .....+.+..  .....++  +..+.+|||||++.|...+...+
T Consensus        17 m~~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--~~~i~iiDtPGh~~~~~~~~~~~   94 (482)
T 1wb1_A           17 FKNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIRAVVSAA   94 (482)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHHHHHHHT
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEEC--CEEEEEEECCChHHHHHHHHHHH
Confidence            468999999999999999999998766    211  1111122221  1122333  36899999999999988888899


Q ss_pred             ccccEEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHHHHHHHHHHc----CCeE
Q 028315           83 RGAHGIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TREEGMILAQEH----KCLF  153 (210)
Q Consensus        83 ~~~d~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~----~~~~  153 (210)
                      ..+|++++|+|+++   +++.+.+.     .+.    ..++|.++++||+|+.+....  ..++...+....    +.++
T Consensus        95 ~~aD~~ilVvda~~g~~~qt~e~l~-----~~~----~~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~i  165 (482)
T 1wb1_A           95 DIIDLALIVVDAKEGPKTQTGEHML-----ILD----HFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSI  165 (482)
T ss_dssp             TSCCEEEEEEETTTCSCHHHHHHHH-----HHH----HTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCE
T ss_pred             hhCCEEEEEEecCCCccHHHHHHHH-----HHH----HcCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceE
Confidence            99999999999998   44433222     222    246788999999999753221  122333444443    5689


Q ss_pred             EEecccCCcCHHHHHHHHHHHHH
Q 028315          154 LECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      +++||++|.|+++++++|.+.+.
T Consensus       166 i~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          166 IPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             EECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEECcCCCCHHHHHHHHHHhhc
Confidence            99999999999999999999875

>1kk1_A EIF2gamma; initiation of translation; HET: GNP; 1.80A {Pyrococcus abyssi} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1kjz_A* 1kk2_A* 1kk3_A* 1kk0_A* 2d74_A 2dcu_A*

Probab=99.86  E-value=1.7e-21  Score=157.78  Aligned_cols=160  Identities=17%  Similarity=0.139  Sum_probs=109.3

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC----CCC--ceeeEEEEEEEEE-------------C--C----eEEEE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD----PSP--TIGVDFKIKLLTV-------------G--G----KRLKL   63 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~----~~~--~~~~~~~~~~~~~-------------~--~----~~~~~   63 (210)
                      .+...+||+++|+.++|||||+++|.+.....    ..+  |....+....+..             .  +    ....+
T Consensus         6 ~~~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i   85 (410)
T 1kk1_A            6 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   85 (410)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             cCCCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEE
Confidence            34678999999999999999999998543221    112  3333333222211             0  1    13789


Q ss_pred             EEEeCCCCcccccchhhhhccccEEEEEEeCCCH----hhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--
Q 028315           64 TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRR----ETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--  137 (210)
Q Consensus        64 ~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--  137 (210)
                      .||||||++.|...+...+..+|++++|+|++++    ++.+.+. .+    ...   ...|+++++||+|+.+....  
T Consensus        86 ~iiDtPGh~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~-~~----~~~---~~~~iivviNK~Dl~~~~~~~~  157 (410)
T 1kk1_A           86 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLM-AL----QII---GQKNIIIAQNKIELVDKEKALE  157 (410)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHH-HH----HHH---TCCCEEEEEECGGGSCHHHHHH
T ss_pred             EEEECCChHHHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHH-HH----HHc---CCCcEEEEEECccCCCHHHHHH
Confidence            9999999999887777778889999999999964    3333332 12    211   23589999999998754321  


Q ss_pred             CHHHHHHHHHH---cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          138 TREEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       138 ~~~~~~~~~~~---~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ..++...+...   .+++++++||++|.|+++++++|.+.+.
T Consensus       158 ~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          158 NYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             HHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            12233344433   3568999999999999999999988665

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.86  E-value=2.4e-22  Score=166.73  Aligned_cols=117  Identities=16%  Similarity=0.193  Sum_probs=84.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCC------------------CC---CCCceeeEEEEEEEEECCeEEEEEEEeCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSV------------------HD---PSPTIGVDFKIKLLTVGGKRLKLTIWDTA   69 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~------------------~~---~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~   69 (210)
                      .+..+|+|+|++|+|||||+++|+....                  ..   .....+.+.......+...++.++|||||
T Consensus        11 ~~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTP   90 (528)
T 3tr5_A           11 AMRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTP   90 (528)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCC
T ss_pred             hcCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECC
Confidence            4678999999999999999999962110                  00   00011222222222333335789999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      |+..|...+..+++.+|++|+|+|++++.+.+... .|....     ..++|+++|+||+|+..
T Consensus        91 G~~df~~~~~~~l~~aD~allVvDa~~g~~~~t~~-~~~~~~-----~~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           91 GHADFTEDTYRTLTAVDSALMVIDAAKGVEPRTIK-LMEVCR-----LRHTPIMTFINKMDRDT  148 (528)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHH-HHHHHH-----TTTCCEEEEEECTTSCC
T ss_pred             CchhHHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHH-----HcCCCEEEEEeCCCCcc
Confidence            99999999999999999999999999987766655 554332     35789999999999854

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.86  E-value=4.4e-22  Score=153.12  Aligned_cols=160  Identities=22%  Similarity=0.312  Sum_probs=91.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--C-------CCceeeEEEEEEEEECCeEEEEEEEeCCCCccc------
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD--P-------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF------   74 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~-------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~------   74 (210)
                      +...+||+++|.+|+|||||+|++++.....  +       .++.+.+.....+..++..+.+.+|||||....      
T Consensus         5 ~g~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~   84 (274)
T 3t5d_A            5 SGFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNC   84 (274)
T ss_dssp             --CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTT
T ss_pred             CccEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhh
Confidence            3567999999999999999999987765433  2       344554554444444455579999999997322      


Q ss_pred             -ccch-------hhhhc-------------cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           75 -GTLT-------SSYYR-------------GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        75 -~~~~-------~~~~~-------------~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                       ..+.       ..++.             .+|+++++++.+... +......+...+.     .++|+++|+||+|+..
T Consensus        85 ~~~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~-~~~~d~~~l~~l~-----~~~pvi~V~nK~D~~~  158 (274)
T 3t5d_A           85 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHG-LKPLDIEFMKRLH-----EKVNIIPLIAKADTLT  158 (274)
T ss_dssp             THHHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSS-CCHHHHHHHHHHT-----TTSCEEEEESSGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCC-CCHHHHHHHHHHh-----ccCCEEEEEeccCCCC
Confidence             2222       33333             278999999776522 1112213444443     2789999999999864


Q ss_pred             CCccCH--HHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          134 ERAVTR--EEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       134 ~~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ..+...  +.........+++++.+||+++.|+++++.+|.+.+
T Consensus       159 ~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~~  202 (274)
T 3t5d_A          159 PEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  202 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcCC
Confidence            333221  223344456788999999999999999999887754

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.86  E-value=8.4e-24  Score=174.99  Aligned_cols=159  Identities=16%  Similarity=0.153  Sum_probs=111.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++..+|+++|++++|||||+++|.+..+.. ..++++.++....+... .+..+.||||||++.|..++..+++.+|+++
T Consensus         2 ~r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vI   80 (537)
T 3izy_P            2 PRSPVVTIMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVI   80 (537)
T ss_dssp             CCCCBCEEEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEE
Confidence            345789999999999999999998765433 33333322222222221 2346899999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHH---HHHc--CCeEEEecccCCcC
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMIL---AQEH--KCLFLECSAKNTED  163 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~---~~~~--~~~~~~~sa~~~~~  163 (210)
                      +|+|++++...+... .|....     ..++|+++++||+|+...+... ..+...+   ...+  .++++++||++|.|
T Consensus        81 LVVDa~dg~~~qt~e-~l~~~~-----~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~G  154 (537)
T 3izy_P           81 LVVAADDGVMKQTVE-SIQHAK-----DAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGEN  154 (537)
T ss_dssp             EECBSSSCCCHHHHH-HHHHHH-----TTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCS
T ss_pred             EEEECCCCccHHHHH-HHHHHH-----HcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCC
Confidence            999999876555443 332222     3578999999999986432211 1112111   1112  24799999999999


Q ss_pred             HHHHHHHHHHHHH
Q 028315          164 VKQCFKDLLYKIL  176 (210)
Q Consensus       164 i~~l~~~i~~~~~  176 (210)
                      ++++++++...+.
T Consensus       155 I~eLle~I~~l~~  167 (537)
T 3izy_P          155 MMALAEATIALAE  167 (537)
T ss_dssp             SHHHHHHHHHHHT
T ss_pred             chhHHHHHHHhhh
Confidence            9999999988764

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.86  E-value=5.7e-22  Score=154.78  Aligned_cols=119  Identities=14%  Similarity=0.159  Sum_probs=94.4

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCC----------CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVT----------RRETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      ..+.+++|||+|++.++..|..++++++++|+|+|++          +..++.+....|...+.... ..+.|+++++||
T Consensus       165 ~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~-~~~~~iiL~~NK  243 (327)
T 3ohm_A          165 QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPW-FQNSSVILFLNK  243 (327)
T ss_dssp             TTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGG-GTTCEEEEEEEC
T ss_pred             eceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhc-cCCceEEEEEEC
Confidence            3578999999999999999999999999999999665          66778777744544443322 467999999999


Q ss_pred             CCCCCCC----------------ccCHHHHHHHH----------HHcCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          129 VDRDSER----------------AVTREEGMILA----------QEHKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       129 ~Dl~~~~----------------~~~~~~~~~~~----------~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      +|+...+                ..+.+++..+.          ...++.+++|||+++.||+++|..+.+.+.+.
T Consensus       244 ~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~  319 (327)
T 3ohm_A          244 KDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQL  319 (327)
T ss_dssp             HHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHT
T ss_pred             chhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHHHHHHHH
Confidence            9985432                35667777663          23456789999999999999999999998854

>2qag_A Septin-2, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.86  E-value=2.3e-22  Score=160.10  Aligned_cols=163  Identities=20%  Similarity=0.305  Sum_probs=93.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--C--------CCceeeEEEEEEEEECCeEEEEEEEeCCCC-------cc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD--P--------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ-------ER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~--------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~-------~~   73 (210)
                      ...++|+++|++|+|||||+++|++.....  +        .++.+...........+..+.+.+|||||.       +.
T Consensus        35 ~~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~  114 (361)
T 2qag_A           35 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC  114 (361)
T ss_dssp             CCEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC-------------
T ss_pred             CCCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHH
Confidence            357999999999999999999986654322  1        134444433333344556678999999998       66


Q ss_pred             cccchh-------hhhccc-------------cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           74 FGTLTS-------SYYRGA-------------HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        74 ~~~~~~-------~~~~~~-------------d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      +..++.       .+++.+             |+++++++.. ..++..+...|...+     ..++|+++|+||+|+..
T Consensus       115 ~~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l-----~~~~piIlV~NK~Dl~~  188 (361)
T 2qag_A          115 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI-----HNKVNIVPVIAKADTLT  188 (361)
T ss_dssp             -CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT-----CS-SCEEEEEECCSSSC
T ss_pred             HHHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh-----ccCCCEEEEEECCCCCC
Confidence            766665       555543             3455555532 233444442343333     25789999999999976


Q ss_pred             CCccCH--HHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          134 ERAVTR--EEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       134 ~~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      .+++..  +++..++..++++++++||+++.+ ++.|.++.+.+.+..+
T Consensus       189 ~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip  236 (361)
T 2qag_A          189 LKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIP  236 (361)
T ss_dssp             HHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTCS
T ss_pred             HHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCC
Confidence            555443  455666667789999999999999 8889999888876544

>1zun_B Sulfate adenylate transferase, subunit 1/adenylylsulfate kinase; beta barrel, switch domain, heterodimer, pyrophosphate, G protein; HET: GDP AGS; 2.70A {Pseudomonas syringae PV} SCOP: b.43.3.1 b.44.1.1 c.37.1.8

Probab=99.86  E-value=4.1e-21  Score=156.61  Aligned_cols=154  Identities=18%  Similarity=0.139  Sum_probs=104.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC---C----------CCc-------------------eeeEEEEEEEEEC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD---P----------SPT-------------------IGVDFKIKLLTVG   57 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~---~----------~~~-------------------~~~~~~~~~~~~~   57 (210)
                      ....+||+++|++++|||||+++|++.....   .          ..+                   .+.+.......+.
T Consensus        21 ~~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~  100 (434)
T 1zun_B           21 RKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS  100 (434)
T ss_dssp             SCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE
T ss_pred             cCCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee
Confidence            3467999999999999999999998654111   0          011                   1122222222333


Q ss_pred             CeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc-
Q 028315           58 GKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA-  136 (210)
Q Consensus        58 ~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~-  136 (210)
                      .....+.+|||||++.|...+...+..+|++|+|+|++++...+...  +...+..   ..-.|+++|+||+|+.+... 
T Consensus       101 ~~~~~~~iiDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~--~l~~~~~---~~~~~iIvviNK~Dl~~~~~~  175 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRR--HSYIASL---LGIKHIVVAINKMDLNGFDER  175 (434)
T ss_dssp             CSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHH--HHHHHHH---TTCCEEEEEEECTTTTTSCHH
T ss_pred             cCCceEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCCcHHHHH--HHHHHHH---cCCCeEEEEEEcCcCCcccHH
Confidence            44568999999999999888888899999999999999865333222  3333322   12236999999999975321 


Q ss_pred             -c--CHHHHHHHHHHcC-----CeEEEecccCCcCHHHHH
Q 028315          137 -V--TREEGMILAQEHK-----CLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       137 -~--~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~l~  168 (210)
                       +  ..++...+...++     ++++++||++|.|+++++
T Consensus       176 ~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~  215 (434)
T 1zun_B          176 VFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKS  215 (434)
T ss_dssp             HHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCC
T ss_pred             HHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccc
Confidence             1  1234455556666     679999999999998853

>4dcu_A GTP-binding protein ENGA; GTPase, GDP, protein binding, hydrolase; HET: GDP; 2.00A {Bacillus subtilis} PDB: 4dct_A* 4dcs_A* 4dcv_A* 2hjg_A*

Probab=99.86  E-value=1.9e-22  Score=165.47  Aligned_cols=155  Identities=16%  Similarity=0.086  Sum_probs=104.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCC--------Ccccccchhhhhc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG--------QERFGTLTSSYYR   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G--------~~~~~~~~~~~~~   83 (210)
                      ...+|+++|.+|||||||+|+|.+..+....++++.+.......+...+..+.+|||||        ++.+...+..+++
T Consensus        22 ~~~~V~lvG~~nvGKSTL~n~l~~~~~~~v~~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~  101 (456)
T 4dcu_A           22 GKPVVAIVGRPNVGKSTIFNRIAGERISIVEDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMD  101 (456)
T ss_dssp             -CCEEEEECSSSSSHHHHHHHHEEEEEC-----------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCcccCCCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHh
Confidence            45789999999999999999999988777777888888877777777777899999999        5555667777889


Q ss_pred             cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCC-eEEEecccCCc
Q 028315           84 GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKC-LFLECSAKNTE  162 (210)
Q Consensus        84 ~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~-~~~~~sa~~~~  162 (210)
                      .+|++|+|+|..+..+...  ..+...+.    ..++|+++|+||+|+.....    ....+ ...+. .++.+||++|.
T Consensus       102 ~ad~il~VvD~~~~~~~~d--~~l~~~l~----~~~~pvilV~NK~D~~~~~~----~~~e~-~~lg~~~~~~iSA~~g~  170 (456)
T 4dcu_A          102 EADVIIFMVNGREGVTAAD--EEVAKILY----RTKKPVVLAVNKLDNTEMRA----NIYDF-YSLGFGEPYPISGTHGL  170 (456)
T ss_dssp             HCSEEEEEEESSSCSCHHH--HHHHHHHT----TCCSCEEEEEECC-------------CCS-GGGSSSSEEECCTTTCT
T ss_pred             hCCEEEEEEeCCCCCChHH--HHHHHHHH----HcCCCEEEEEECccchhhhh----hHHHH-HHcCCCceEEeeccccc
Confidence            9999999999887543332  23344443    36889999999999864321    11111 12233 47899999999


Q ss_pred             CHHHHHHHHHHHHHc
Q 028315          163 DVKQCFKDLLYKILE  177 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~  177 (210)
                      |+.++++++.+.+..
T Consensus       171 gv~~L~~~i~~~l~~  185 (456)
T 4dcu_A          171 GLGDLLDAVAEHFKN  185 (456)
T ss_dssp             THHHHHHHHHTTGGG
T ss_pred             chHHHHHHHHhhccc
Confidence            999999999877653

>1d2e_A Elongation factor TU (EF-TU); G-protein, beta-barrel, RNA binding protein; HET: GDP; 1.94A {Bos taurus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1xb2_A* 2hcj_A* 2hdn_A*

Probab=99.86  E-value=7.9e-22  Score=159.10  Aligned_cols=159  Identities=13%  Similarity=0.045  Sum_probs=111.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCC-------CCCC--------CCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNS-------VHDP--------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~-------~~~~--------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      ..+||+++|++++|||||+++|.+..       +...        ....+.+.......+......+.+|||||++.|..
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~   81 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHH
Confidence            36899999999999999999998641       1110        01223344433444544557899999999999988


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCcc---CHHHHHHHHHHcC--
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAV---TREEGMILAQEHK--  150 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~--  150 (210)
                      .+...++.+|++|+|+|+++....+... .| ..+.    ..++| +++++||+|+......   ..++...+...++  
T Consensus        82 ~~~~~~~~aD~~ilVvda~~g~~~qt~e-~l-~~~~----~~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~  155 (397)
T 1d2e_A           82 NMITGTAPLDGCILVVAANDGPMPQTRE-HL-LLAR----QIGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYK  155 (397)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHHH-HH-HHHH----HTTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSC
T ss_pred             HHHhhHhhCCEEEEEEECCCCCCHHHHH-HH-HHHH----HcCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCC
Confidence            8888899999999999999865443333 33 2222    24678 6899999998642211   1234455555555  


Q ss_pred             ---CeEEEecccCCcC----------HHHHHHHHHHHHH
Q 028315          151 ---CLFLECSAKNTED----------VKQCFKDLLYKIL  176 (210)
Q Consensus       151 ---~~~~~~sa~~~~~----------i~~l~~~i~~~~~  176 (210)
                         ++++++||++|.|          +.++++.|.+.+.
T Consensus       156 ~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~p  194 (397)
T 1d2e_A          156 GEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYIP  194 (397)
T ss_dssp             TTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHSC
T ss_pred             cccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhCC
Confidence               5899999999764          8888888877664

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.86  E-value=1.2e-20  Score=150.16  Aligned_cols=163  Identities=18%  Similarity=0.106  Sum_probs=106.2

Q ss_pred             EEE-EEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc---------cccchhhh
Q 028315           13 SFK-ILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER---------FGTLTSSY   81 (210)
Q Consensus        13 ~~~-i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~---------~~~~~~~~   81 (210)
                      .++ |+++|.+|+|||||+++|.+..+.. ..+....+.....+.+++  ..+.+|||+|.-.         |...+ ..
T Consensus       178 ~~~~V~lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~tl-~~  254 (364)
T 2qtf_A          178 NIPSIGIVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVTL-SE  254 (364)
T ss_dssp             -CCEEEEECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHHH-HG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHHH-HH
Confidence            344 9999999999999999998876522 222222234445556666  4678999999622         22222 24


Q ss_pred             hccccEEEEEEeCCCHh--hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHHHHHc---CCeEEE
Q 028315           82 YRGAHGIILVYDVTRRE--TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMILAQEH---KCLFLE  155 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~--~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~---~~~~~~  155 (210)
                      +..+|++++|+|++++.  ..+... .|...+.... ..+.|+++|+||+|+....... .+.+..+...+   +.++++
T Consensus       255 ~~~aD~il~VvD~s~~~~~~~~~~~-~~~~~L~~l~-~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~  332 (364)
T 2qtf_A          255 AKYSDALILVIDSTFSENLLIETLQ-SSFEILREIG-VSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIP  332 (364)
T ss_dssp             GGGSSEEEEEEETTSCHHHHHHHHH-HHHHHHHHHT-CCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEE
T ss_pred             HHhCCEEEEEEECCCCcchHHHHHH-HHHHHHHHhC-cCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEE
Confidence            67899999999999876  444444 5555555443 3578999999999986533100 11222233444   336899


Q ss_pred             ecccCCcCHHHHHHHHHHHHHccch
Q 028315          156 CSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +||+++.|+++++++|.+.+.....
T Consensus       333 ~SA~~g~gi~~L~~~I~~~l~~~~~  357 (364)
T 2qtf_A          333 ISALKRTNLELLRDKIYQLATQLSL  357 (364)
T ss_dssp             CBTTTTBSHHHHHHHHHHHHHHHC-
T ss_pred             EECCCCcCHHHHHHHHHHHhcccCC
Confidence            9999999999999999987765443

>2c78_A Elongation factor TU-A; hydrolase, GTPase, translation elongation factor, protein synthesis, antibiotic, GTP-binding, nucleotide-binding; HET: GNP PUL; 1.4A {Thermus thermophilus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 2y0u_Z* 2y0w_Z* 2y0y_Z* 2y10_Z* 2y12_Z* 2y14_Z* 2y16_Z* 2y18_Z* 2wrn_Z* 2wrq_Z* 2c77_A* 1aip_A 1exm_A* 1ha3_A* 2xqd_Z* 3fic_Z* 4abr_Z* 1b23_P* 1ob5_A* 1ttt_A* ...

Probab=99.85  E-value=7.4e-22  Score=159.69  Aligned_cols=160  Identities=14%  Similarity=0.066  Sum_probs=111.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--------CCCCC--------CCceeeEEEEEEEEECCeEEEEEEEeCCCCccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--------SVHDP--------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF   74 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--------~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   74 (210)
                      ...+||+++|++++|||||+++|.+.        .+..+        ..+.+.+.......+......+.+|||||++.|
T Consensus         9 ~~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A            9 KPHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHH
Confidence            45799999999999999999999873        11111        012333444344445445578899999999999


Q ss_pred             ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCcc---CHHHHHHHHHHcC
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAV---TREEGMILAQEHK  150 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~  150 (210)
                      ...+...++.+|++|+|+|++++...+..  .|...+..    .+.| +++++||+|+......   ..++...+...++
T Consensus        89 ~~~~~~~~~~aD~~ilVvda~~g~~~qt~--~~l~~~~~----~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~  162 (405)
T 2c78_A           89 IKNMITGAAQMDGAILVVSAADGPMPQTR--EHILLARQ----VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYE  162 (405)
T ss_dssp             HHHHHHHHTTCSSEEEEEETTTCCCHHHH--HHHHHHHH----TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHHHHCCEEEEEEECCCCCcHHHH--HHHHHHHH----cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhc
Confidence            88888889999999999999987544332  23333332    4677 8899999998642211   1223445555554


Q ss_pred             -----CeEEEecccCCcC------------------HHHHHHHHHHHHH
Q 028315          151 -----CLFLECSAKNTED------------------VKQCFKDLLYKIL  176 (210)
Q Consensus       151 -----~~~~~~sa~~~~~------------------i~~l~~~i~~~~~  176 (210)
                           ++++++||++|.|                  +.++++.|.+.+.
T Consensus       163 ~~~~~~~~i~~SA~~g~~v~~~~~~~~~~~~~~~~~i~~Ll~~l~~~lp  211 (405)
T 2c78_A          163 FPGDEVPVIRGSALLALEQMHRNPKTRRGENEWVDKIWELLDAIDEYIP  211 (405)
T ss_dssp             SCTTTSCEEECCHHHHHHHHHHCTTCCTTSCHHHHHHHHHHHHHHHHSC
T ss_pred             ccccCCCEEEccHHHhhhhhccccccccCCCcccccHHHHHHHHHhhcC
Confidence                 6799999999987                  6777777666554

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.85  E-value=5.2e-21  Score=151.32  Aligned_cols=118  Identities=14%  Similarity=0.157  Sum_probs=89.2

Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCC----------CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVT----------RRETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      ..+.+++|||+|++.++..|..++++++++|+|||++          +..++++...+|...... ....+.|+++|+||
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~-~~~~~~piiLvgNK  259 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQ-PCFEKTSFMLFLNK  259 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTC-GGGSSCEEEEEEEC
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhc-cccCCCeEEEEEEC
Confidence            5789999999999999999999999999999999998          778898888444444432 22367899999999


Q ss_pred             CCCCCCCc--c-------------------CHHHHHHHHHH----------------cCCeEEEecccCCcCHHHHHHHH
Q 028315          129 VDRDSERA--V-------------------TREEGMILAQE----------------HKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus       129 ~Dl~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      +|+..++.  +                   +.+++..++..                ..+.+++|||+++.||+++|+++
T Consensus       260 ~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v  339 (354)
T 2xtz_A          260 FDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLV  339 (354)
T ss_dssp             HHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHH
T ss_pred             cchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHH
Confidence            99843211  1                   13455555322                12346999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      .+.+.+
T Consensus       340 ~~~I~~  345 (354)
T 2xtz_A          340 DETLRR  345 (354)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            998864

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.85  E-value=2e-21  Score=141.59  Aligned_cols=123  Identities=19%  Similarity=0.226  Sum_probs=88.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhcc----c
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRG----A   85 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~----~   85 (210)
                      ..+.++|+++|++|||||||+++|.+..+.........+.     ..+.....+.+|||||++.+...+..++..    +
T Consensus        45 ~~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~-----~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~  119 (193)
T 2ged_A           45 GSYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLS-----AADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFV  119 (193)
T ss_dssp             -CCCCEEEEECCTTSSHHHHHHHHHHSSCC-----------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGGGE
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHHhcCCCCcccccCCCce-----eeeecCCeEEEEECCCCchHHHHHHHHHHhhcccC
Confidence            3567899999999999999999999887644211111111     112245678999999999998888888776    8


Q ss_pred             cEEEEEEeCC-CHhhHHHHHHHHHHHHhhhc--cCCCCcEEEEEeCCCCCCCCcc
Q 028315           86 HGIILVYDVT-RRETFTNLSSVWAKEVELYS--TNQDCVKILVGNKVDRDSERAV  137 (210)
Q Consensus        86 d~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~--~~~~~p~ivv~nK~Dl~~~~~~  137 (210)
                      |++++|+|++ +..++..+..++...+....  ...+.|+++|+||+|+.+.+.+
T Consensus       120 ~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~  174 (193)
T 2ged_A          120 KGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPP  174 (193)
T ss_dssp             EEEEEEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCH
T ss_pred             CEEEEEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCCCH
Confidence            9999999999 89999888844444443322  2357999999999999765543

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.85  E-value=1.8e-21  Score=155.24  Aligned_cols=146  Identities=10%  Similarity=0.044  Sum_probs=104.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      +|+++|++++|||||+++|+         ..+.+.......+......+.+|||||++.|...+...++.+|++++|+| 
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~---------~~giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-   92 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG---------KKGTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-   92 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS---------EEEEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-
T ss_pred             EEEEECCCCCCHHHHHHHHH---------hCCEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-
Confidence            99999999999999999997         22333333333455555679999999999998888888899999999999 


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEe-CCCCCCCCccCH--HHHHHHHHHc---CCeEEE--ecccC---Cc
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGN-KVDRDSERAVTR--EEGMILAQEH---KCLFLE--CSAKN---TE  162 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~n-K~Dl~~~~~~~~--~~~~~~~~~~---~~~~~~--~sa~~---~~  162 (210)
                      .... +.... .+...+..    .+.|. ++++| |+|+ +.+.+..  ++...+....   .+++++  +||++   +.
T Consensus        93 ~~g~-~~qt~-e~~~~~~~----~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~  165 (370)
T 2elf_A           93 PQGL-DAHTG-ECIIALDL----LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFE  165 (370)
T ss_dssp             TTCC-CHHHH-HHHHHHHH----TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTT
T ss_pred             CCCC-cHHHH-HHHHHHHH----cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCC
Confidence            5432 33333 23333332    35676 88899 9998 4332221  3344444433   368999  99999   99


Q ss_pred             CHHHHHHHHHHHHHc
Q 028315          163 DVKQCFKDLLYKILE  177 (210)
Q Consensus       163 ~i~~l~~~i~~~~~~  177 (210)
                      |++++++.|.+.+..
T Consensus       166 gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          166 GVDELKARINEVAEK  180 (370)
T ss_dssp             THHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHhhccc
Confidence            999999999988754

>1jny_A EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-1; GTPase, alpha/beta structure, protein biosynthesis, translation; HET: GDP; 1.80A {Sulfolobus solfataricus} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1skq_A* 3agj_A*

Probab=99.85  E-value=8.6e-22  Score=160.58  Aligned_cols=156  Identities=15%  Similarity=0.185  Sum_probs=102.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC--CCCCC----------------------------CCceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN--SVHDP----------------------------SPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~--~~~~~----------------------------~~~~~~~~~~~~~~~~~~~~   61 (210)
                      ..+||+++|++++|||||+++|+..  .+...                            ....+.+.......+.....
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~~   84 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKY   84 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSC
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCCe
Confidence            5699999999999999999999864  22210                            01123333333334444557


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhh---ccCCC-CcEEEEEeCCCCCCCC--
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY---STNQD-CVKILVGNKVDRDSER--  135 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~---~~~~~-~p~ivv~nK~Dl~~~~--  135 (210)
                      .+.+|||||++.|...+...++.+|++|+|+|+++ .+|+... .|.......   ....+ .|+++++||+|+.+..  
T Consensus        85 ~~~iiDtpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~-~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~  162 (435)
T 1jny_A           85 FFTIIDAPGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGM-SVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYD  162 (435)
T ss_dssp             EEEECCCSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHH-STTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTC
T ss_pred             EEEEEECCCcHHHHHHHHhhhhhcCEEEEEEECCC-Ccccccc-ccchHHHHHHHHHHHcCCCeEEEEEEcccCCCcccc
Confidence            89999999999999888899999999999999998 5566433 111111111   00123 4689999999997521  


Q ss_pred             ----ccCHHHHHHHHHHcC-----CeEEEecccCCcCHHHHHH
Q 028315          136 ----AVTREEGMILAQEHK-----CLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus       136 ----~~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~l~~  169 (210)
                          ....++...+....+     ++++++||++|.|+.++++
T Consensus       163 ~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          163 EKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             HHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence                111234555555555     6799999999999986543

>1g7s_A Translation initiation factor IF2/EIF5B; translational GTPase; HET: GDP; 2.00A {Methanothermobacterthermautotrophicus} SCOP: b.43.3.1 b.43.3.1 c.20.1.1 c.37.1.8 PDB: 1g7r_A* 1g7t_A*

Probab=99.85  E-value=1.1e-20  Score=158.63  Aligned_cols=157  Identities=22%  Similarity=0.164  Sum_probs=106.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC-----CceeeEEEEEEE------------EECCeEEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPS-----PTIGVDFKIKLL------------TVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~-----~~~~~~~~~~~~------------~~~~~~~~~~l~Dt~G~~~   73 (210)
                      .+..+|+++|++++|||||+++|++..+....     ++.+..+.....            .++.....++||||||++.
T Consensus         3 ~r~~~V~IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~   82 (594)
T 1g7s_A            3 IRSPIVSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEA   82 (594)
T ss_dssp             ECCCEEEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSC
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHH
Confidence            35679999999999999999999876554322     233322221000            0001112589999999999


Q ss_pred             cccchhhhhccccEEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC------------
Q 028315           74 FGTLTSSYYRGAHGIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT------------  138 (210)
Q Consensus        74 ~~~~~~~~~~~~d~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~------------  138 (210)
                      |..++...++.+|++|+|+|+++   +++++.+.    . +.    ..++|+++++||+|+.+.....            
T Consensus        83 F~~~~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~----~-l~----~~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~  153 (594)
T 1g7s_A           83 FTTLRKRGGALADLAILIVDINEGFKPQTQEALN----I-LR----MYRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQ  153 (594)
T ss_dssp             CTTSBCSSSBSCSEEEEEEETTTCCCHHHHHHHH----H-HH----HTTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTS
T ss_pred             HHHHHHHHHhhCCEEEEEEECCCCccHhHHHHHH----H-HH----HcCCeEEEEecccccccccccccCCchHHHHHHh
Confidence            99999888999999999999999   55555333    1 22    2578999999999986421100            


Q ss_pred             -HH----------HH-HHHHHH--------------cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          139 -RE----------EG-MILAQE--------------HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       139 -~~----------~~-~~~~~~--------------~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                       ..          +. ..+...              ..++++.+||++|.|+++++++|...+.
T Consensus       154 ~~~v~~~~~e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          154 DIQVQQKLDTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhcc
Confidence             00          00 111110              1237999999999999999999998775

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.84  E-value=4.7e-21  Score=152.11  Aligned_cols=118  Identities=17%  Similarity=0.175  Sum_probs=87.4

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCC----------HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTR----------RETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                      .+.+.+|||+|++.++..|..++++++++|+|+|+++          ..++.+....|...+.... ..+.|+++++||+
T Consensus       200 ~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~-~~~~piILv~NK~  278 (362)
T 1zcb_A          200 NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRV-FSNVSIILFLNKT  278 (362)
T ss_dssp             TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGG-GTTSEEEEEEECH
T ss_pred             CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchh-hCCCCEEEEEECh
Confidence            4789999999999999999999999999999999999          6788888855555544322 3678999999999


Q ss_pred             CCCCCC----------------ccCHHHHHHHH--------H---HcCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          130 DRDSER----------------AVTREEGMILA--------Q---EHKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       130 Dl~~~~----------------~~~~~~~~~~~--------~---~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |+...+                .++.+++..++        .   ..++.+++|||+++.||+++|+++.+.+.+.
T Consensus       279 DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~  354 (362)
T 1zcb_A          279 DLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHD  354 (362)
T ss_dssp             HHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHHHHHHHHH
Confidence            985321                25566666654        1   3456799999999999999999999988743

>1r5b_A Eukaryotic peptide chain release factor GTP-bindi subunit; translation termination, peptide release, GTPase, translatio; 2.35A {Schizosaccharomyces pombe} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1r5n_A* 1r5o_A* 3e20_A

Probab=99.84  E-value=1e-21  Score=161.31  Aligned_cols=156  Identities=18%  Similarity=0.166  Sum_probs=89.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--CCCC----------------------CC------CceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--SVHD----------------------PS------PTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~----------------------~~------~~~~~~~~~~~~~~~~~~   60 (210)
                      ...+||+++|++++|||||+++|+..  .+..                      ..      ...+.+.......+...+
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~  120 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEH  120 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCC
Confidence            35799999999999999999999742  1110                      00      011222222222232234


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCC-
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSER-  135 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~-  135 (210)
                      ..+.||||||++.|...+...+..+|++|+|+|++++.   +|+... +++..+.... ..++| ++|++||+|+.... 
T Consensus       121 ~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~-qt~e~l~~~~-~~~vp~iivviNK~Dl~~~~~  198 (467)
T 1r5b_A          121 RRFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGG-QTREHAVLAR-TQGINHLVVVINKMDEPSVQW  198 (467)
T ss_dssp             EEEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTC-CHHHHHHHHH-HTTCSSEEEEEECTTSTTCSS
T ss_pred             eEEEEEECCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCC-cHHHHHHHHH-HcCCCEEEEEEECccCCCccc
Confidence            68999999999999988888899999999999999863   222111 1222222111 24666 99999999995421 


Q ss_pred             -----ccCHHHHHHHHHHc-------CCeEEEecccCCcCHHHHH
Q 028315          136 -----AVTREEGMILAQEH-------KCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus       136 -----~~~~~~~~~~~~~~-------~~~~~~~sa~~~~~i~~l~  168 (210)
                           ....++...+....       +++++++||++|.|+.+++
T Consensus       199 ~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          199 SEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             cHHHHHHHHHHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence                 01122344455444       3569999999999998765

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.84  E-value=8.3e-22  Score=166.20  Aligned_cols=155  Identities=18%  Similarity=0.105  Sum_probs=101.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCC------------------------------ceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSP------------------------------TIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~   61 (210)
                      ..+||+++|++++|||||+++|++........                              ..|.+.......+.....
T Consensus       166 ~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~~  245 (611)
T 3izq_1          166 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRA  245 (611)
T ss_dssp             CCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSSC
T ss_pred             CceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCCc
Confidence            46899999999999999999998664322110                              123333333334444557


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhh---HHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET---FTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~---~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                      .+.||||||++.|...+...++.+|++|+|+|++++..   +.... .+...+.........|++||+||+|+.+.+...
T Consensus       246 ~~~iiDTPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~-qt~e~l~~~~~lgi~~iIVVvNKiDl~~~~~~~  324 (611)
T 3izq_1          246 NFTIVDAPGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDG-QTKEHMLLASSLGIHNLIIAMNKMDNVDWSQQR  324 (611)
T ss_dssp             EEEEEECCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTS-HHHHHHHHHHTTTCCEEEEEEECTTTTTTCHHH
T ss_pred             eEEEEECCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhh-HHHHHHHHHHHcCCCeEEEEEecccccchhHHH
Confidence            89999999999999888889999999999999997521   00001 111111111112234599999999997532222


Q ss_pred             H----HHHHHHHHHc-----CCeEEEecccCCcCHHHH
Q 028315          139 R----EEGMILAQEH-----KCLFLECSAKNTEDVKQC  167 (210)
Q Consensus       139 ~----~~~~~~~~~~-----~~~~~~~sa~~~~~i~~l  167 (210)
                      .    ++...+....     +++++++||++|.|+.++
T Consensus       325 ~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          325 FEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            2    2223333333     358999999999999876

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.83  E-value=5e-21  Score=150.01  Aligned_cols=121  Identities=18%  Similarity=0.170  Sum_probs=94.0

Q ss_pred             ECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCC----------CHhhHHHHHHHHHHHHhhhccCCCCcEEEE
Q 028315           56 VGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVT----------RRETFTNLSSVWAKEVELYSTNQDCVKILV  125 (210)
Q Consensus        56 ~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv  125 (210)
                      +....+.+++|||+|++.++..|..++++++++|+|+|++          +..++.+....|...+.... ..+.|++++
T Consensus       156 ~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~-~~~~piiLv  234 (340)
T 4fid_A          156 FVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEF-LKGAVKLIF  234 (340)
T ss_dssp             EESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGG-GTTSEEEEE
T ss_pred             EEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhc-cCCCeEEEE
Confidence            3334578999999999999999999999999999999998          67788888755555554332 467899999


Q ss_pred             EeCCCCCCCC---------------ccCHHHHHHHHH-Hc--------------------------CCeEEEecccCCcC
Q 028315          126 GNKVDRDSER---------------AVTREEGMILAQ-EH--------------------------KCLFLECSAKNTED  163 (210)
Q Consensus       126 ~nK~Dl~~~~---------------~~~~~~~~~~~~-~~--------------------------~~~~~~~sa~~~~~  163 (210)
                      +||+|+...+               ..+.+++..+.. .+                          .+.+++|||+++.|
T Consensus       235 ~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~n  314 (340)
T 4fid_A          235 LNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPTNATDGSN  314 (340)
T ss_dssp             EECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEECTTCHHH
T ss_pred             EECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEEEeeCcHH
Confidence            9999984311               123445544332 22                          35689999999999


Q ss_pred             HHHHHHHHHHHHHc
Q 028315          164 VKQCFKDLLYKILE  177 (210)
Q Consensus       164 i~~l~~~i~~~~~~  177 (210)
                      |+.+|..+.+.+++
T Consensus       315 v~~vF~~v~~~Il~  328 (340)
T 4fid_A          315 IKRVFMLAVDVIMK  328 (340)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999999987

>1zo1_I IF2, translation initiation factor 2; E. coli, ribosome, initiation of protein synthesis, cryo-eletron microscopy, translation/RNA complex; 13.80A {Escherichia coli}

Probab=99.83  E-value=2.5e-22  Score=164.96  Aligned_cols=155  Identities=19%  Similarity=0.225  Sum_probs=103.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++..+|+++|++++|||||+++|....+.. ..+.+..+...  ..+...+..+.||||||++.|..++...+..+|+++
T Consensus         2 ~R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~--~~v~~~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aI   79 (501)
T 1zo1_I            2 PRAPVVTIMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGA--YHVETENGMITFLDTPGHAAFTSMRARGAQATDIVV   79 (501)
T ss_dssp             CCCCCEEEEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSC--CCCCTTSSCCCEECCCTTTCCTTSBCSSSBSCSSEE
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEE--EEEEECCEEEEEEECCCcHHHHHHHHHHHhhCCEEE
Confidence            456789999999999999999998754432 11111111111  122222347899999999999999988899999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC--ccCHHH--HHHHHHHcC--CeEEEecccCCcC
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER--AVTREE--GMILAQEHK--CLFLECSAKNTED  163 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~--~~~~~~--~~~~~~~~~--~~~~~~sa~~~~~  163 (210)
                      +|+|++++...+... .|.. +.    ..+.|+++++||+|+....  .+..+.  ...+...++  ++++++||++|.|
T Consensus        80 LVVda~~g~~~qT~e-~l~~-~~----~~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~g  153 (501)
T 1zo1_I           80 LVVAADDGVMPQTIE-AIQH-AK----AAQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTG  153 (501)
T ss_dssp             EEEETTTBSCTTTHH-HHHH-HH----HTTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTT
T ss_pred             EEeecccCccHHHHH-HHHH-HH----hcCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccC
Confidence            999999843222222 2221 11    2578999999999996421  111110  001112232  6899999999999


Q ss_pred             HHHHHHHHHH
Q 028315          164 VKQCFKDLLY  173 (210)
Q Consensus       164 i~~l~~~i~~  173 (210)
                      ++++|+++..
T Consensus       154 I~eLle~I~~  163 (501)
T 1zo1_I          154 IDELLDAILL  163 (501)
T ss_dssp             CTTHHHHTTT
T ss_pred             cchhhhhhhh
Confidence            9999999875

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.82  E-value=7e-21  Score=147.99  Aligned_cols=160  Identities=21%  Similarity=0.128  Sum_probs=101.8

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CCCceee----------------------EEE-----------
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-----PSPTIGV----------------------DFK-----------   50 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~~~~~~----------------------~~~-----------   50 (210)
                      .....++|+++|.+|||||||+++|++..+..     ..+.++.                      ++.           
T Consensus        22 ~~~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~  101 (299)
T 2aka_B           22 ADLDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETD  101 (299)
T ss_dssp             TTCCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHH
T ss_pred             CCCCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHH
Confidence            33456899999999999999999999888642     1111210                      000           


Q ss_pred             ------------EEEEEEC-CeEEEEEEEeCCCCc-------------ccccchhhhhccccEEE-EEEeCCCHhhHHHH
Q 028315           51 ------------IKLLTVG-GKRLKLTIWDTAGQE-------------RFGTLTSSYYRGAHGII-LVYDVTRRETFTNL  103 (210)
Q Consensus        51 ------------~~~~~~~-~~~~~~~l~Dt~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~~~~~~  103 (210)
                                  ...+.+. .....+.||||||..             .+......+++.++.++ +|+|+++..+....
T Consensus       102 ~i~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~  181 (299)
T 2aka_B          102 RVTGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDA  181 (299)
T ss_dssp             HHCSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHH
T ss_pred             HhcccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHH
Confidence                        0000000 012579999999964             23345566788888766 79999876544332


Q ss_pred             HHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH--cC-CeEEEecccCCcCHHHHHHHHHH
Q 028315          104 SSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE--HK-CLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       104 ~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~--~~-~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      . .+...+.    ..+.|+++|+||+|+.+......+........  .+ .+++++||++|.|++++++++.+
T Consensus       182 ~-~~~~~~~----~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~  249 (299)
T 2aka_B          182 L-KIAKEVD----PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  249 (299)
T ss_dssp             H-HHHHHHC----TTCSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHH
T ss_pred             H-HHHHHhC----CCCCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHH
Confidence            2 2333332    35789999999999976544222222110001  12 36899999999999999999887

>3avx_A Elongation factor TS, elongation factor TU, linke replicase; RNA polymerase, translation, transferase-RNA complex; HET: GH3; 2.41A {Escherichia coli O157} PDB: 3agq_A 3agp_A* 3avu_A 3avv_A 3avt_A* 3avw_A* 3avy_A* 3mmp_A* 3mmp_G* 1efu_B

Probab=99.82  E-value=1.1e-20  Score=165.85  Aligned_cols=160  Identities=14%  Similarity=0.036  Sum_probs=109.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC-------CCC--------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS-------VHD--------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~-------~~~--------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ...+||+++|++++|||||+++|.+..       +..        ...+.+.+.....+.++.....+.||||||++.|.
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~  373 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYV  373 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHH
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHH
Confidence            457999999999999999999997631       100        12334444443334455556789999999999998


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCcc---CHHHHHHHHHHcC-
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAV---TREEGMILAQEHK-  150 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~---~~~~~~~~~~~~~-  150 (210)
                      ..+...++.+|++|+|+|++++...+... .| ..+..    .++| ++|++||+|+.+....   ..++...+....+ 
T Consensus       374 ~~mi~gas~AD~aILVVDAtdGv~~QTrE-hL-~ll~~----lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~  447 (1289)
T 3avx_A          374 KNMITGAAQMDGAILVVAATDGPMPQTRE-HI-LLGRQ----VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDF  447 (1289)
T ss_dssp             HHHHHTSCCCSEEEEEEETTTCSCTTHHH-HH-HHHHH----HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHhhCCEEEEEEcCCccCcHHHHH-HH-HHHHH----cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccc
Confidence            88888899999999999999864333322 33 33322    3577 7899999999753221   1234455555554 


Q ss_pred             ----CeEEEecccCC--------cCHHHHHHHHHHHHH
Q 028315          151 ----CLFLECSAKNT--------EDVKQCFKDLLYKIL  176 (210)
Q Consensus       151 ----~~~~~~sa~~~--------~~i~~l~~~i~~~~~  176 (210)
                          ++++++||++|        .|+.++++.|.+.+.
T Consensus       448 ~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~Ip  485 (1289)
T 3avx_A          448 PGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYIP  485 (1289)
T ss_dssp             CTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTSC
T ss_pred             cccceeEEEEEeccCCCCCccccccchhhHhHHhhhcC
Confidence                58999999999        468888888877554

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.82  E-value=7.3e-20  Score=139.85  Aligned_cols=127  Identities=20%  Similarity=0.220  Sum_probs=86.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhc--------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYR--------   83 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~--------   83 (210)
                      ..+||+++|.+|+|||||+++|++.......+..+++.......+...+..+.+|||||++.+......+++        
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~  114 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTMGGFTINIIDTPGLVEAGYVNHQALELIKGFLVN  114 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEECCeeEEEEECCCCCCcccchHHHHHHHHHHHhc
Confidence            579999999999999999999998876443333333333222223223458999999999888766555543        


Q ss_pred             -cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCH
Q 028315           84 -GAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        84 -~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                       .+|++++|++++... +......|...+..... ....|+++|+||+|+.+.+....
T Consensus       115 ~~~~~il~V~~~d~~~-~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~  171 (262)
T 3def_A          115 RTIDVLLYVDRLDVYA-VDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSY  171 (262)
T ss_dssp             CEECEEEEEEESSCSC-CCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCH
T ss_pred             CCCCEEEEEEcCCCCC-CCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccH
Confidence             789999999987654 43333355555554431 12359999999999965544443

>1f60_A Elongation factor EEF1A; protein-protein complex, translation; 1.67A {Saccharomyces cerevisiae} SCOP: b.43.3.1 b.44.1.1 c.37.1.8 PDB: 1g7c_A* 1ije_A* 1ijf_A* 2b7b_A* 2b7c_A

Probab=99.82  E-value=7e-21  Score=156.01  Aligned_cols=152  Identities=17%  Similarity=0.149  Sum_probs=100.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC--CCCCC----------------------------CCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN--SVHDP----------------------------SPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~~----------------------------~~~~~~~~~~~~~~~~~~~   60 (210)
                      ...++|+++|++++|||||+++|++.  .+...                            ....+.+.......+....
T Consensus         5 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~   84 (458)
T 1f60_A            5 KSHINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPK   84 (458)
T ss_dssp             CEEEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSS
T ss_pred             CceeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCC
Confidence            35799999999999999999999764  11100                            0001222222222344445


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hHH---HHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TFT---NLSSVWAKEVELYSTNQDCV-KILVGNKVDRDS  133 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~~---~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~  133 (210)
                      ..+.||||||++.|...+...+..+|++|+|+|++++.   +|+   .....+. .+.    ..+.| +++++||+|+.+
T Consensus        85 ~~~~iiDtPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~-~~~----~~~v~~iivviNK~Dl~~  159 (458)
T 1f60_A           85 YQVTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHAL-LAF----TLGVRQLIVAVNKMDSVK  159 (458)
T ss_dssp             EEEEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHH-HHH----HTTCCEEEEEEECGGGGT
T ss_pred             ceEEEEECCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHH-HHH----HcCCCeEEEEEEcccccc
Confidence            68999999999999988888899999999999999763   221   1221222 222    13455 899999999863


Q ss_pred             CCc----cCHHHHHHHHHHcC-----CeEEEecccCCcCHHHH
Q 028315          134 ERA----VTREEGMILAQEHK-----CLFLECSAKNTEDVKQC  167 (210)
Q Consensus       134 ~~~----~~~~~~~~~~~~~~-----~~~~~~sa~~~~~i~~l  167 (210)
                      ...    ...++...+...++     ++++++||++|.|+.++
T Consensus       160 ~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          160 WDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             TCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             CCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            111    11223444445554     68999999999999754

>2h5e_A Peptide chain release factor RF-3; beta barrel, translation; HET: GDP; 2.80A {Escherichia coli} PDB: 2o0f_A 3sfs_W* 3zvo_Y* 3uoq_W*

Probab=99.81  E-value=2.2e-19  Score=149.17  Aligned_cols=117  Identities=16%  Similarity=0.166  Sum_probs=80.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC---------------------CCCceeeEEEEEEEEECCeEEEEEEEeCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD---------------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTA   69 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~   69 (210)
                      .+..||+++|++|+|||||+++|+......                     ...+.+.+.......+...++.+.+||||
T Consensus        11 ~~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTP   90 (529)
T 2h5e_A           11 AKRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTP   90 (529)
T ss_dssp             HTEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCC
T ss_pred             cCCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECC
Confidence            467999999999999999999998632110                     01122222222222333345789999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      |++.|...+..+++.+|++|+|+|++++...+... .| ..+    ...++|+++++||+|+..
T Consensus        91 G~~df~~~~~~~l~~aD~~IlVvDa~~g~~~~t~~-~~-~~~----~~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           91 GHEDFSEDTYRTLTAVDCCLMVIDAAKGVEDRTRK-LM-EVT----RLRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             CSTTCCHHHHHGGGGCSEEEEEEETTTCSCHHHHH-HH-HHH----TTTTCCEEEEEECTTSCC
T ss_pred             CChhHHHHHHHHHHHCCEEEEEEeCCccchHHHHH-HH-HHH----HHcCCCEEEEEcCcCCcc
Confidence            99999988888999999999999999864322211 22 222    245789999999999864

>1pui_A ENGB, probable GTP-binding protein ENGB; structural genomics, nysgxrc T16, GTPase, PSI, protein structure initiative; 2.00A {Escherichia coli} SCOP: c.37.1.8

Probab=99.81  E-value=1.3e-19  Score=133.77  Aligned_cols=159  Identities=17%  Similarity=0.147  Sum_probs=100.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCC-CCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----------cccch
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVH-DPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----------FGTLT   78 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----------~~~~~   78 (210)
                      .....+|+++|++|+|||||++++.+..+. .+.++.+.+.....+.+.+   .+.+|||||...          +....
T Consensus        23 ~~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~   99 (210)
T 1pui_A           23 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRAL   99 (210)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHH
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHH
Confidence            455689999999999999999999887643 3566777665544444433   578899999742          22222


Q ss_pred             hhhh---ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc--cCHHHHHHHHHHcC--C
Q 028315           79 SSYY---RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA--VTREEGMILAQEHK--C  151 (210)
Q Consensus        79 ~~~~---~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~--~~~~~~~~~~~~~~--~  151 (210)
                      ..++   +.++++++++|+.++.++...  .+...+.    ..+.|+++++||+|+....+  ...+.+..+....+  +
T Consensus       100 ~~~~~~~~~~~~~~~v~d~~~~~~~~~~--~~~~~~~----~~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~  173 (210)
T 1pui_A          100 GEYLEKRQSLQGLVVLMDIRHPLKDLDQ--QMIEWAV----DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDV  173 (210)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHH----HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCE
T ss_pred             HHHHHhhhcccEEEEEEECCCCCchhHH--HHHHHHH----HcCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCC
Confidence            2333   468999999999987554321  1222222    24689999999999754321  11233444444443  4


Q ss_pred             eEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          152 LFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       152 ~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .++++||+++.|+++++++|.+.+.+
T Consensus       174 ~~~~~Sal~~~~~~~l~~~l~~~~~~  199 (210)
T 1pui_A          174 QVETFSSLKKQGVDKLRQKLDTWFSE  199 (210)
T ss_dssp             EEEECBTTTTBSHHHHHHHHHHHHC-
T ss_pred             ceEEEeecCCCCHHHHHHHHHHHHhh
Confidence            68999999999999999999887654

>2dy1_A Elongation factor G; translocation, GTP complex, structural genomics, NPPSFA; HET: GTP; 1.60A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1wdt_A*

Probab=99.81  E-value=2.4e-19  Score=152.88  Aligned_cols=118  Identities=13%  Similarity=0.175  Sum_probs=83.2

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CC----------C------ceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PS----------P------TIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~----------~------~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ..++..+|+++|+.|+|||||+++|++..... ..          .      ..+.++......+...++.+++|||||+
T Consensus         5 ~~~~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~   84 (665)
T 2dy1_A            5 GGAMIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGY   84 (665)
T ss_dssp             -CCCEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCS
T ss_pred             ccCCCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCc
Confidence            34567899999999999999999998533221 00          0      1122232233333334678999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +.|...+..+++.+|++++|+|+.+....+... .|... .    ..+.|+++++||+|+.
T Consensus        85 ~~f~~~~~~~l~~ad~~ilVvD~~~g~~~qt~~-~~~~~-~----~~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           85 GDFVGEIRGALEAADAALVAVSAEAGVQVGTER-AWTVA-E----RLGLPRMVVVTKLDKG  139 (665)
T ss_dssp             GGGHHHHHHHHHHCSEEEEEEETTTCSCHHHHH-HHHHH-H----HTTCCEEEEEECGGGC
T ss_pred             cchHHHHHHHHhhcCcEEEEEcCCcccchhHHH-HHHHH-H----HccCCEEEEecCCchh
Confidence            999888889999999999999998765544332 33322 2    2478999999999986

>1dar_A EF-G, elongation factor G; ribosomal translocase, translational GTPase; HET: GDP; 2.40A {Thermus thermophilus} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 PDB: 1elo_A 1ktv_A 2om7_L* 2wri_Y* 2wrk_Y* 2xsy_Y* 2xuy_Y* 2j7k_A* 2efg_A* 1jqm_B 1efg_A* 1fnm_A* 1pn6_A 2bm1_A* 2bm0_A* 2bv3_A* 3izp_E 1zn0_B 1jqs_C 2bcw_C ...

Probab=99.81  E-value=3.4e-19  Score=152.42  Aligned_cols=119  Identities=19%  Similarity=0.265  Sum_probs=84.4

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhC--CCCC---------CC------CceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISN--SVHD---------PS------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~--~~~~---------~~------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...+..||+++|++|+|||||+++|+..  .+..         ..      ...+.+.......+....+.+++|||||+
T Consensus         8 ~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~   87 (691)
T 1dar_A            8 DLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGH   87 (691)
T ss_dssp             CGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSS
T ss_pred             ccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCc
Confidence            3467899999999999999999999842  1110         00      01122222222222223578999999999


Q ss_pred             cccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           72 ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        72 ~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ..|...+..+++.+|++|+|+|+++..+++... .|.....     .+.|+++++||+|+..
T Consensus        88 ~df~~~~~~~l~~aD~~ilVvDa~~g~~~~t~~-~~~~~~~-----~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           88 VDFTIEVERSMRVLDGAIVVFDSSQGVEPQSET-VWRQAEK-----YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             TTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHH-HHHHHHH-----TTCCEEEEEECTTSTT
T ss_pred             cchHHHHHHHHHHCCEEEEEEECCCCcchhhHH-HHHHHHH-----cCCCEEEEEECCCccc
Confidence            999999999999999999999999987777665 5554332     4789999999999864

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.81  E-value=1.1e-21  Score=165.10  Aligned_cols=150  Identities=17%  Similarity=0.100  Sum_probs=80.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~   60 (210)
                      ...+||+++|++++|||||+++|+......                              .....+++.......+...+
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~~  254 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESDK  254 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeCC
Confidence            357899999999999999999996421100                              01123444444444555556


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh---hH---HHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE---TF---TNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDS  133 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---~~---~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~  133 (210)
                      ..+.||||||++.|...+...++.+|++|+|+|++++.   .+   .... .....+.    ..++| ++||+||+|+.+
T Consensus       255 ~~i~iiDTPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~-e~l~~~~----~lgip~iIvviNKiDl~~  329 (592)
T 3mca_A          255 KIYEIGDAPGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTR-EHAYLLR----ALGISEIVVSVNKLDLMS  329 (592)
T ss_dssp             ----CCEEESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHH-HHHHHHH----HSSCCCEEEEEECGGGGT
T ss_pred             eEEEEEECCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHH-HHHHHHH----HcCCCeEEEEEecccccc
Confidence            78999999999999988888899999999999998642   11   0011 1111121    13455 899999999865


Q ss_pred             CCccC----HHHHHHHH-HHcCC-----eEEEecccCCcCHH
Q 028315          134 ERAVT----REEGMILA-QEHKC-----LFLECSAKNTEDVK  165 (210)
Q Consensus       134 ~~~~~----~~~~~~~~-~~~~~-----~~~~~sa~~~~~i~  165 (210)
                      .....    .++...+. ...++     +++++||++|.|+.
T Consensus       330 ~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          330 WSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             TCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             ccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            22111    12233333 33344     69999999999998

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.80  E-value=3.4e-19  Score=136.68  Aligned_cols=127  Identities=21%  Similarity=0.208  Sum_probs=85.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhh-------h--h
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSS-------Y--Y   82 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~-------~--~   82 (210)
                      ..++|+++|.+|+|||||+++|++..+....++.+.+.......+...+..+.+|||||...+......       +  .
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~  117 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLD  117 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccCCCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhc
Confidence            579999999999999999999998876554444444443333344444568999999998776543321       1  2


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCH
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      +.+|++++|+|++.. ++......|...+..... ....|+++|+||+|+.+.+....
T Consensus       118 ~~~d~il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~  174 (270)
T 1h65_A          118 KTIDVLLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  174 (270)
T ss_dssp             CEECEEEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             CCCCEEEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCH
Confidence            479999999998653 343333355555554431 12269999999999976554333

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.79  E-value=8.9e-19  Score=149.94  Aligned_cols=164  Identities=18%  Similarity=0.223  Sum_probs=108.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCC--CCceee------------EEEE--------------------------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDP--SPTIGV------------DFKI--------------------------   51 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~--~~~~~~------------~~~~--------------------------   51 (210)
                      ..++|+|+|.+|+|||||+|+|++......  .|++..            +...                          
T Consensus        68 ~~~~V~VvG~~naGKSSLlNaLlg~~~~~v~~~p~T~~~~~i~~g~~~~~t~~~~~g~~~~~~~~~~i~~~~~i~~~~~~  147 (695)
T 2j69_A           68 GVFRLLVLGDMKRGKSTFLNALIGENLLPSDVNPCTAVLTVLRYGPEKKVTIHFNDGKSPQQLDFQNFKYKYTIDPAEAK  147 (695)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHTSSCSCCCCCTTTCCCEEEEECSSCEEEEEESSSCCCCEEEHHHHHHHSCCCHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCCCCCCccceEEEEeCCCCeEEEEEcCCCcccccChhhhhhhhcCCHHHHH
Confidence            579999999999999999999998875442  222210            1100                          


Q ss_pred             ---------------EEEEECCeE--EEEEEEeCCCCcc---cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHH
Q 028315           52 ---------------KLLTVGGKR--LKLTIWDTAGQER---FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEV  111 (210)
Q Consensus        52 ---------------~~~~~~~~~--~~~~l~Dt~G~~~---~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~  111 (210)
                                     ..+..+...  ..+.+|||||...   .......+++.+|++|+|+|++++.+..... .|...+
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~-~l~~~l  226 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERR-YLENYI  226 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHH-HHHHHT
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHH-HHHHHH
Confidence                           000000000  3589999999544   3345557789999999999999887766655 454443


Q ss_pred             hhhccCCCCcEEEEEeCCCCCCCCccCHHH----------HH-----HHHHHc--------CCeEEEeccc---------
Q 028315          112 ELYSTNQDCVKILVGNKVDRDSERAVTREE----------GM-----ILAQEH--------KCLFLECSAK---------  159 (210)
Q Consensus       112 ~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~----------~~-----~~~~~~--------~~~~~~~sa~---------  159 (210)
                      .    ..+.|+++|+||+|+.....++.++          ..     .+....        ..+++.+||+         
T Consensus       227 ~----~~~~~iiiVlNK~Dl~~~~~~~~ee~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~  302 (695)
T 2j69_A          227 K----GRGLTVFFLVNAWDQVRESLIDPDDVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKN  302 (695)
T ss_dssp             T----TSCCCEEEEEECGGGGGGGCSSTTCHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHC
T ss_pred             H----hhCCCEEEEEECcccccccccChhhHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccC
Confidence            3    2467899999999986543222111          11     111111        2369999999         


Q ss_pred             -----CCcCHHHHHHHHHHHHHccch
Q 028315          160 -----NTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       160 -----~~~~i~~l~~~i~~~~~~~~~  180 (210)
                           ++.|++++++.|.+.+...+.
T Consensus       303 ~~~~~~~~Gi~~L~~~L~~~l~~~~~  328 (695)
T 2j69_A          303 PQADLDGTGFPKFMDSLNTFLTRERA  328 (695)
T ss_dssp             TTCCCTTSSHHHHHHHHHHHHHHTHH
T ss_pred             chhhhhccCHHHHHHHHHHHHHHhHH
Confidence                 999999999999987765443

>2rdo_7 EF-G, elongation factor G; elongation factor G, EF-G, RRF, GDPNP, 50S subunit, cryo-EM, REAL-space refinement, ribonucleoprotein; 9.10A {Escherichia coli} PDB: 3j0e_H

Probab=99.78  E-value=7.5e-18  Score=144.35  Aligned_cols=119  Identities=18%  Similarity=0.197  Sum_probs=84.8

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCC--CCCC---------C------CceeeEEEEEEEEE-------CCeEEEEE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNS--VHDP---------S------PTIGVDFKIKLLTV-------GGKRLKLT   64 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~--~~~~---------~------~~~~~~~~~~~~~~-------~~~~~~~~   64 (210)
                      ..++..||+|+|+.|+|||||+++|+...  +...         .      ...+.+.......+       ++..+.++
T Consensus         6 ~~~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~   85 (704)
T 2rdo_7            6 PIARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRIN   85 (704)
T ss_pred             CcccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEE
Confidence            34677999999999999999999997531  1110         0      01222222222222       12348899


Q ss_pred             EEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           65 IWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        65 l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ||||||+..|...+...++.+|++|+|+|+++....+... .|....     ..+.|+++++||+|+..
T Consensus        86 liDTPG~~df~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~-~~~~~~-----~~~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           86 IIDTPGHVDFTIEVERSMRVLDGAVMVYCAVGGVQPQSET-VWRQAN-----KYKVPRIAFVNKMDRMG  148 (704)
T ss_pred             EEeCCCccchHHHHHHHHHHCCEEEEEEeCCCCCcHHHHH-HHHHHH-----HcCCCEEEEEeCCCccc
Confidence            9999999999888999999999999999999876655544 454332     35789999999999854

>1udx_A The GTP-binding protein OBG; TGS domain, riken structural genomics/proteomics initiative, RSGI, structural genomics; 2.07A {Thermus thermophilus} SCOP: b.117.1.1 c.37.1.8 d.242.1.1

Probab=99.77  E-value=2.3e-18  Score=138.80  Aligned_cols=161  Identities=20%  Similarity=0.184  Sum_probs=106.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----cccchhhh---hcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----FGTLTSSY---YRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----~~~~~~~~---~~~~d   86 (210)
                      .|+++|++|||||||++++++..... ..+..........+..++ ...+.+||+||...    +..+...+   +..++
T Consensus       159 ~VgLVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~  237 (416)
T 1udx_A          159 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTR  237 (416)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHH
Confidence            37899999999999999998764321 111111111222233332 24688999999632    22233333   45699


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      .+++++|++ ...+..+. .|...+.... .....|.++++||+|+...  ...++........+.+++.+||+++.|++
T Consensus       238 ~lL~vvDls-~~~~~~ls-~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~  313 (416)
T 1udx_A          238 VLLYVLDAA-DEPLKTLE-TLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLP  313 (416)
T ss_dssp             EEEEEEETT-SCHHHHHH-HHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHH
T ss_pred             hhhEEeCCc-cCCHHHHH-HHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHH
Confidence            999999997 44566665 4444443322 1135789999999998653  22233334444557889999999999999


Q ss_pred             HHHHHHHHHHHccch
Q 028315          166 QCFKDLLYKILEVPS  180 (210)
Q Consensus       166 ~l~~~i~~~~~~~~~  180 (210)
                      +++++|.+.+.+.+.
T Consensus       314 eL~~~i~~~l~~~~~  328 (416)
T 1udx_A          314 ALKEALHALVRSTPP  328 (416)
T ss_dssp             HHHHHHHHHHHTSCC
T ss_pred             HHHHHHHHHHHhccc
Confidence            999999999987654

>1jwy_B Dynamin A GTPase domain; dynamin, GTPase, GDP, myosin, fusion-protein, hydrolase; HET: BGC ADP GDP; 2.30A {Dictyostelium discoideum} SCOP: c.37.1.8 PDB: 1jx2_B*

Probab=99.77  E-value=1.5e-18  Score=135.84  Aligned_cols=165  Identities=17%  Similarity=0.164  Sum_probs=99.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CCCceeeEEEEEE--------------------------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-----PSPTIGVDFKIKL--------------------------------   53 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~~~~~~~~~~~~--------------------------------   53 (210)
                      ....+|+|+|.+|+|||||+++|++..+..     .+..++.......                                
T Consensus        22 ~~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  101 (315)
T 1jwy_B           22 LDLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREE  101 (315)
T ss_dssp             TCCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHH
T ss_pred             CCCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHH
Confidence            345789999999999999999999887622     1122211011100                                


Q ss_pred             ---------------------EE-ECCeEEEEEEEeCCCCcc-------------cccchhhhhccccEEEEEEeCCCHh
Q 028315           54 ---------------------LT-VGGKRLKLTIWDTAGQER-------------FGTLTSSYYRGAHGIILVYDVTRRE   98 (210)
Q Consensus        54 ---------------------~~-~~~~~~~~~l~Dt~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~   98 (210)
                                           +. .......+.||||||...             +......+++.+|++++|+|..+..
T Consensus       102 i~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~  181 (315)
T 1jwy_B          102 IIRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTD  181 (315)
T ss_dssp             HHHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSC
T ss_pred             HHHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcc
Confidence                                 00 011124689999999753             3345566788999999999974332


Q ss_pred             -hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEeccc---C---CcCHHHHHHHH
Q 028315           99 -TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAK---N---TEDVKQCFKDL  171 (210)
Q Consensus        99 -~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~---~---~~~i~~l~~~i  171 (210)
                       ...... .+...+.    ..+.|+++|+||+|+........+........++..++.+++.   +   +.|+.++++.+
T Consensus       182 ~~~~~~~-~i~~~~~----~~~~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~  256 (315)
T 1jwy_B          182 LANSDAL-QLAKEVD----PEGKRTIGVITKLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSE  256 (315)
T ss_dssp             STTCSHH-HHHHHHC----SSCSSEEEEEECTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHH
T ss_pred             hhhhHHH-HHHHHhC----CCCCcEEEEEcCcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHH
Confidence             111111 2223332    3578999999999997654322222221001122456665554   4   78999999999


Q ss_pred             HHHHHccch
Q 028315          172 LYKILEVPS  180 (210)
Q Consensus       172 ~~~~~~~~~  180 (210)
                      .+.+...+.
T Consensus       257 ~~~~~~~~~  265 (315)
T 1jwy_B          257 ILYFKNHPI  265 (315)
T ss_dssp             HHHHHTCTT
T ss_pred             HHHHhCCCc
Confidence            888876554

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.77  E-value=4e-18  Score=145.87  Aligned_cols=118  Identities=18%  Similarity=0.247  Sum_probs=83.5

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhh--CCCCC---------CCC------ceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLIS--NSVHD---------PSP------TIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~--~~~~~---------~~~------~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      ..+..+|+++|++|+|||||+++|+.  +.+..         ...      ..+.+.......+...++.++||||||+.
T Consensus         7 ~~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~   86 (693)
T 2xex_A            7 LEKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHV   86 (693)
T ss_dssp             STTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCS
T ss_pred             cccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCc
Confidence            45689999999999999999999985  22211         000      11112211112222224689999999999


Q ss_pred             ccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           73 RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        73 ~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .|...+..+++.+|++|+|+|++++.+.+... .|.....     .+.|+++|+||+|+..
T Consensus        87 df~~~~~~~l~~aD~~llVvDa~~g~~~~~~~-~~~~~~~-----~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           87 DFTVEVERSLRVLDGAVTVLDAQSGVEPQTET-VWRQATT-----YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             SCCHHHHHHHHHCSEEEEEEETTTBSCHHHHH-HHHHHHH-----TTCCEEEEEECTTSTT
T ss_pred             chHHHHHHHHHHCCEEEEEECCCCCCcHHHHH-HHHHHHH-----cCCCEEEEEECCCccc
Confidence            99988999999999999999999987776655 5544322     4789999999999864

>1wxq_A GTP-binding protein; structural genomics, riken structural genomics/proteomics initiative, RSGI, NPPSFA; 2.60A {Pyrococcus horikoshii} SCOP: c.37.1.8 d.15.10.2

Probab=99.75  E-value=1.3e-19  Score=145.60  Aligned_cols=83  Identities=20%  Similarity=0.187  Sum_probs=47.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeE----EEEEEE-------------------EECC-eEEEEEEEeCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVD----FKIKLL-------------------TVGG-KRLKLTIWDTA   69 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~----~~~~~~-------------------~~~~-~~~~~~l~Dt~   69 (210)
                      ++|+++|.+|||||||+|+|++.. ....+.++++    .....+                   .+++ ..+.+.|||||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~-~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtp   79 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVD-VEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVA   79 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC---------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCC-CcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECC
Confidence            489999999999999999998876 3322222111    111111                   1122 25789999999


Q ss_pred             CCcc----cccchh---hhhccccEEEEEEeCCCH
Q 028315           70 GQER----FGTLTS---SYYRGAHGIILVYDVTRR   97 (210)
Q Consensus        70 G~~~----~~~~~~---~~~~~~d~~i~v~d~~~~   97 (210)
                      |...    ...+..   .+++.+|++++|+|+++.
T Consensus        80 G~~~~a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           80 GLVPGAHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             ---------------CCCSSTTCSEEEEEEETTCC
T ss_pred             CcccchhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence            9753    222333   346899999999999875

>2qnr_A Septin-2, protein NEDD5; structural genomics consortium, SGC, mitosis, GDP, C cycle, cell division, GTP-binding, nucleotide-binding; HET: GDP; 2.60A {Homo sapiens} PDB: 2qa5_A* 3ftq_A*

Probab=99.75  E-value=9.1e-19  Score=136.15  Aligned_cols=163  Identities=19%  Similarity=0.263  Sum_probs=87.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC-CCCCCC---------CceeeEEEEEEEEECCeEEEEEEEeCCCC-------cc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN-SVHDPS---------PTIGVDFKIKLLTVGGKRLKLTIWDTAGQ-------ER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~-~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~-------~~   73 (210)
                      ...++|+++|++|+|||||++++++. .+....         ++.............+....+.+|||+|.       +.
T Consensus        16 ~~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~   95 (301)
T 2qnr_A           16 GFEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDC   95 (301)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHH
Confidence            34689999999999999999998765 332211         11111111111112333568999999997       55


Q ss_pred             cccchh-------hhhcc-------------ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           74 FGTLTS-------SYYRG-------------AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        74 ~~~~~~-------~~~~~-------------~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      +..+..       .+++.             +++++++.+.+.. ++.....   ..+....  ...|+++|+||.|+..
T Consensus        96 ~~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~~---~~l~~l~--~~~~iilV~~K~Dl~~  169 (301)
T 2qnr_A           96 FKTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLDV---AFMKAIH--NKVNIVPVIAKADTLT  169 (301)
T ss_dssp             CTTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHHH---HHHHHHT--TTSCEEEEECCGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHHH---HHHHHHH--hcCCEEEEEEeCCCCC
Confidence            555544       34432             3446666554321 1222221   2222222  4679999999999875


Q ss_pred             CCcc--CHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          134 ERAV--TREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       134 ~~~~--~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      .+++  ..+++..++..++++++++||+++ |++++|.++.+.+.+..+
T Consensus       170 ~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          170 LKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            4433  235667778888999999999999 999999999998875443

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.75  E-value=1.4e-18  Score=138.56  Aligned_cols=108  Identities=16%  Similarity=0.094  Sum_probs=75.4

Q ss_pred             EEEEEEeCCCCccc-------------ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEe
Q 028315           61 LKLTIWDTAGQERF-------------GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN  127 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~n  127 (210)
                      ..+.+|||||...+             ......+++++|++|+|+|..+......   .|..++.... ..+.|+++|+|
T Consensus       136 ~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~~---~~~~l~~~~~-~~~~~~i~V~n  211 (360)
T 3t34_A          136 VNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLATS---DAIKISREVD-PSGDRTFGVLT  211 (360)
T ss_dssp             CSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGGC---HHHHHHHHSC-TTCTTEEEEEE
T ss_pred             CCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCCH---HHHHHHHHhc-ccCCCEEEEEe
Confidence            35899999997765             4456678899999999998765432221   3334443332 45779999999


Q ss_pred             CCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315          128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus       128 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |+|+.+......+....+...++.+|+.++++.+.++++.+..+.
T Consensus       212 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~  256 (360)
T 3t34_A          212 KIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIA  256 (360)
T ss_dssp             CGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHH
T ss_pred             CCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHH
Confidence            999976655544444444445677899999999999887665543

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.73  E-value=2.7e-17  Score=137.16  Aligned_cols=117  Identities=14%  Similarity=0.160  Sum_probs=85.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC---------------------CCCCCCceeeEEEEEEEEECCeEEEEEEEeCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS---------------------VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA   69 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~   69 (210)
                      .+.=||+|+|+.++|||||..+|+...                     +.+.....+++.......+...++.++|+|||
T Consensus        29 ~r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTP  108 (548)
T 3vqt_A           29 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFPYRDRVVNLLDTP  108 (548)
T ss_dssp             HTEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEEETTEEEEEECCC
T ss_pred             cccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEEECCEEEEEEeCC
Confidence            357799999999999999999986211                     11112223333333334444456789999999


Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ||..|.......++-+|++|+|+|+..+-..+... .|.....     .++|.++++||+|...
T Consensus       109 GHvDF~~Ev~raL~~~DgAvlVvda~~GV~~qT~~-v~~~a~~-----~~lp~i~fINK~Dr~~  166 (548)
T 3vqt_A          109 GHQDFSEDTYRVLTAVDSALVVIDAAKGVEAQTRK-LMDVCRM-----RATPVMTFVNKMDREA  166 (548)
T ss_dssp             CGGGCSHHHHHHHHSCSEEEEEEETTTBSCHHHHH-HHHHHHH-----TTCCEEEEEECTTSCC
T ss_pred             CcHHHHHHHHHHHHhcCceEEEeecCCCcccccHH-HHHHHHH-----hCCceEEEEecccchh
Confidence            99999999999999999999999999987666665 6655544     6889999999999753

>2qag_C Septin-7; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=99.72  E-value=6.8e-18  Score=136.12  Aligned_cols=159  Identities=21%  Similarity=0.292  Sum_probs=80.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-C--------CCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-P--------SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG------   75 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~--------~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~------   75 (210)
                      ...++|+++|++|+|||||++.|++..+.. .        .++.............+....+.+||++|...+.      
T Consensus        29 ~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~  108 (418)
T 2qag_C           29 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCW  108 (418)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------C
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhH
Confidence            346889999999999999999998876532 1        1122211111111112333578999999975431      


Q ss_pred             -c------------------chhhhhccccE--EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           76 -T------------------LTSSYYRGAHG--IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        76 -~------------------~~~~~~~~~d~--~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                       .                  +...++.++++  ++|+.+.+. .++......|...+.     .+.|+++|+||+|+...
T Consensus       109 ~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L~-----~~v~iIlVinK~Dll~~  182 (418)
T 2qag_C          109 QPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRLH-----EKVNIIPLIAKADTLTP  182 (418)
T ss_dssp             HHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHHT-----TTSEEEEEEESTTSSCH
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcc-cCCCHHHHHHHHHHh-----ccCcEEEEEEcccCccH
Confidence             1                  11223444554  444444331 223333323544443     37899999999998765


Q ss_pred             CccCH--HHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          135 RAVTR--EEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       135 ~~~~~--~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      +++..  +++...+...+++++++|++++.++.++|..+...+
T Consensus       183 ~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          183 EECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             HHHHHHHHHHHHHHHHHTCCCCCCC-----------------C
T ss_pred             HHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            55544  556667777899999999999999998877766543

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.72  E-value=1.9e-18  Score=134.39  Aligned_cols=132  Identities=17%  Similarity=0.093  Sum_probs=104.1

Q ss_pred             HHHHHHhhCCCC-C-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHh-hHHHHH
Q 028315           28 SILLSLISNSVH-D-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRE-TFTNLS  104 (210)
Q Consensus        28 sli~~l~~~~~~-~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~  104 (210)
                      +|+.++..+.|. . +.||.+..+. ..  +.... .+++||+  ++++..++..+++++|++|+|||++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~--~~~~~-~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YT--PDETG-SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EE--CCCSS-SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EE--EcCCC-eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            688888888886 4 7788885544 22  22222 6899999  8999999999999999999999999987 677666


Q ss_pred             HHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC--CeEEEecccCCcCHHHHHHHHH
Q 028315          105 SVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK--CLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus       105 ~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~--~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                       .|+..+..    .++|+++|+||+|+.+.+.+  ++...++..++  .++++|||++|.|++++|.++.
T Consensus       106 -~~l~~~~~----~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~  168 (301)
T 1u0l_A          106 -KFLVLAEK----NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLK  168 (301)
T ss_dssp             -HHHHHHHH----TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHS
T ss_pred             -HHHHHHHH----CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhc
Confidence             77776643    57899999999999754433  34556666666  8999999999999999998764

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.71  E-value=3.6e-17  Score=130.93  Aligned_cols=118  Identities=18%  Similarity=0.168  Sum_probs=91.4

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCC----------HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTR----------RETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                      .+.+++|||+|++.++..|..++++++++|+|||+++          ..+|+... .|...+.......+.|++||+||+
T Consensus       216 ~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~-~~~~~i~~~~~~~~~piiLvgNK~  294 (402)
T 1azs_C          216 KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEAL-NLFKSIWNNRWLRTISVILFLNKQ  294 (402)
T ss_dssp             TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHH-HHHHHHHTCTTCSSCCEEEEEECH
T ss_pred             CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHH-HHHHHHHhcccCCCCeEEEEEECh
Confidence            3789999999999999999999999999999999999          88999888 454444433224678999999999


Q ss_pred             CCCCCCc---c---------------------------CHHHHHHHH-----HH--------cCCeEEEecccCCcCHHH
Q 028315          130 DRDSERA---V---------------------------TREEGMILA-----QE--------HKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       130 Dl~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~sa~~~~~i~~  166 (210)
                      |+...+.   +                           ..+++..++     ..        ..+.+++|||+++.||++
T Consensus       295 DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d~~nV~~  374 (402)
T 1azs_C          295 DLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRR  374 (402)
T ss_dssp             HHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTCHHHHHH
T ss_pred             hhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeecCcCHHH
Confidence            9843221   1                           124444442     11        245688999999999999


Q ss_pred             HHHHHHHHHHcc
Q 028315          167 CFKDLLYKILEV  178 (210)
Q Consensus       167 l~~~i~~~~~~~  178 (210)
                      +|.++.+.+...
T Consensus       375 vF~~v~~~I~~~  386 (402)
T 1azs_C          375 VFNDCRDIIQRM  386 (402)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999998887644

>3p32_A Probable GTPase RV1496/MT1543; structural genomics, seattle structural genomics center for infectious disease, ssgcid, MEAB, MMAA; HET: GDP PGE; 1.90A {Mycobacterium tuberculosis} PDB: 3md0_A* 4gt1_A* 3nxs_A* 3tk1_A*

Probab=99.68  E-value=3.2e-17  Score=130.31  Aligned_cols=104  Identities=13%  Similarity=0.114  Sum_probs=70.8

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ++.+.||||||...   .....+..+|++++|+|....+.++.+.    .      ...+.|+++|+||+|+........
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~----~------~~~~~p~ivVlNK~Dl~~~~~~~~  237 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIK----K------GVLELADIVVVNKADGEHHKEARL  237 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCC----T------TSGGGCSEEEEECCCGGGHHHHHH
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHH----H------hHhhcCCEEEEECCCCcChhHHHH
Confidence            36789999999432   2334468899999999987665432221    0      012468999999999854322211


Q ss_pred             HHHHHHHH----------HcCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          140 EEGMILAQ----------EHKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       140 ~~~~~~~~----------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                       ....+..          .++.+++.+||++|.|+++++++|.+.+..
T Consensus       238 -~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          238 -AARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             -HHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             -HHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence             1112221          125789999999999999999999988764

>2x2e_A Dynamin-1; nitration, hydrolase, membrane fission, nucleotide-binding, endocytosis, motor protein; HET: GDP; 2.00A {Homo sapiens} PDB: 2x2f_A* 3zyc_A* 3zys_A

Probab=99.67  E-value=3.1e-18  Score=136.09  Aligned_cols=158  Identities=21%  Similarity=0.096  Sum_probs=93.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----CCCceeeEEE-----------------------------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-----PSPTIGVDFK-----------------------------------   50 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----~~~~~~~~~~-----------------------------------   50 (210)
                      ....+|+|+|.+|||||||+++|.+..+.+     ....++....                                   
T Consensus        29 ~~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i  108 (353)
T 2x2e_A           29 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  108 (353)
T ss_dssp             CCCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHh
Confidence            345799999999999999999999887642     1111221000                                   


Q ss_pred             ----------EEEEEEC-CeEEEEEEEeCCCCcc-------------cccchhhhhcccc-EEEEEEeCCCHhhHHHHHH
Q 028315           51 ----------IKLLTVG-GKRLKLTIWDTAGQER-------------FGTLTSSYYRGAH-GIILVYDVTRRETFTNLSS  105 (210)
Q Consensus        51 ----------~~~~~~~-~~~~~~~l~Dt~G~~~-------------~~~~~~~~~~~~d-~~i~v~d~~~~~~~~~~~~  105 (210)
                                ...+.+. .....+.||||||...             +......+++.++ ++++|+|++....-.... 
T Consensus       109 ~g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~-  187 (353)
T 2x2e_A          109 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL-  187 (353)
T ss_dssp             HTTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHH-
T ss_pred             cccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHH-
Confidence                      0001111 1135799999999532             2344555665555 555566766532211111 


Q ss_pred             HHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH--HHHHcC-CeEEEecccCCcCHHHHHHHHHH
Q 028315          106 VWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI--LAQEHK-CLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       106 ~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~--~~~~~~-~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      .+...+   . ..+.|+++|+||+|+.+......+....  +....+ .+++.+||+++.|++++++++.+
T Consensus       188 ~i~~~~---~-~~~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          188 KVAKEV---D-PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             HHHHHH---C-TTCTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             HHHHHh---C-cCCCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            122222   2 4678999999999997543321211110  001123 25788999999999999999876

>1n0u_A EF-2, elongation factor 2; G-protein, CIS-proline, translation; HET: SO1; 2.12A {Saccharomyces cerevisiae} SCOP: b.43.3.1 c.37.1.8 d.14.1.1 d.58.11.1 d.58.11.1 PDB: 1n0v_C 1s1h_T 2e1r_A* 2npf_A* 2p8w_T* 3dny_T 3b82_A* 1zm2_A* 1zm3_A* 1zm4_A* 1zm9_A* 2p8x_T* 2p8y_T* 2p8z_T* 2zit_A* 1u2r_A* 3b78_A* 3b8h_A*

Probab=99.66  E-value=2.8e-16  Score=137.01  Aligned_cols=117  Identities=20%  Similarity=0.210  Sum_probs=87.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-------------------CCCceeeEEEEEEEE------------ECC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-------------------PSPTIGVDFKIKLLT------------VGG   58 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-------------------~~~~~~~~~~~~~~~------------~~~   58 (210)
                      .++..||+|+|++++|||||+++|+......                   ...|+........+.            .++
T Consensus        16 ~~~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~   95 (842)
T 1n0u_A           16 VTNVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDG   95 (842)
T ss_dssp             GGGEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCS
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccC
Confidence            3567899999999999999999998642110                   011221111222222            234


Q ss_pred             eEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           59 KRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        59 ~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ..+.++||||||+..|...+..+++.+|++|+|+|++++.+++... .|.....     .+.|+++++||+|+.
T Consensus        96 ~~~~i~liDTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~-~~~~~~~-----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A           96 NSFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTET-VLRQALG-----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             SEEEEEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHH-HHHHHHH-----TTCEEEEEEECHHHH
T ss_pred             CCceEEEEECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHH-HHHHHHH-----cCCCeEEEEECCCcc
Confidence            4789999999999999999999999999999999999988877765 5654432     478999999999985

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.66  E-value=5.7e-17  Score=120.48  Aligned_cols=154  Identities=14%  Similarity=0.102  Sum_probs=94.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC-----CceeeEE--------EEEEEEECC------------------eE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPS-----PTIGVDF--------KIKLLTVGG------------------KR   60 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~-----~~~~~~~--------~~~~~~~~~------------------~~   60 (210)
                      +..+|+++|.+|+|||||+++|.........     ...+.+.        ......++.                  ..
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  108 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSD  108 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTT
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCC
Confidence            3578999999999999999999765321100     0000000        000011111                  23


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHH
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTRE  140 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  140 (210)
                      ..+.+|||+|.....   ..+....+.+++|+|+.+....  .. .+...       .+.|+++|+||+|+.+......+
T Consensus       109 ~d~iiidt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~--~~-~~~~~-------~~~~~iiv~NK~Dl~~~~~~~~~  175 (221)
T 2wsm_A          109 CDLLLIENVGNLICP---VDFDLGENYRVVMVSVTEGDDV--VE-KHPEI-------FRVADLIVINKVALAEAVGADVE  175 (221)
T ss_dssp             CSEEEEEEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTH--HH-HCHHH-------HHTCSEEEEECGGGHHHHTCCHH
T ss_pred             CCEEEEeCCCCCCCC---chhccccCcEEEEEeCCCcchh--hh-hhhhh-------hhcCCEEEEecccCCcchhhHHH
Confidence            567899999851111   0111256889999998865321  11 11111       24688999999998643334455


Q ss_pred             HHHHHHHHc--CCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          141 EGMILAQEH--KCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       141 ~~~~~~~~~--~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      +........  +++++++||++|.|+++++++|.+.+...
T Consensus       176 ~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          176 KMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            555555443  46899999999999999999999877543

>1jal_A YCHF protein; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; 2.40A {Haemophilus influenzae} SCOP: c.37.1.8 d.15.10.2

Probab=99.64  E-value=5.6e-15  Score=116.76  Aligned_cols=81  Identities=22%  Similarity=0.230  Sum_probs=54.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCC--ceeeEEEEEEEEECCe---------------EEEEEEEeCCCCcccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSP--TIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQERFG   75 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~--~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~~~   75 (210)
                      ++|+++|.+|||||||+++|++..+.. ..|  |...+..  .+.+.+.               ...+.+|||||...+.
T Consensus         3 ~kI~IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g--~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a   80 (363)
T 1jal_A            3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            689999999999999999999876322 222  2222221  2233332               1579999999987642


Q ss_pred             ----cc---hhhhhccccEEEEEEeCCC
Q 028315           76 ----TL---TSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        76 ----~~---~~~~~~~~d~~i~v~d~~~   96 (210)
                          .+   ...+++.+|++++|+|+++
T Consensus        81 ~~~~gl~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           81 SKGEGLGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHHGGGTCCHHHHHHTCSEEEEEEECSC
T ss_pred             cccchHHHHHHHHHHhcCeEEEEEecCC
Confidence                22   2335789999999999986

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.63  E-value=3.6e-18  Score=127.44  Aligned_cols=153  Identities=18%  Similarity=0.191  Sum_probs=91.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEE------------EEEEEEC-Ce------------------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFK------------IKLLTVG-GK------------------   59 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~------------~~~~~~~-~~------------------   59 (210)
                      +.++|+++|.+|||||||+++|....+.. ..++.+.++.            ...+.++ +.                  
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~l~~  116 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDNLKDKYKIACIAGDVIAKFDAERMEKHGAKVVPLNTGKECHLDAHLVGHALEDLNL  116 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHHHTTTCCEEEEEEETTTHHHHHHHHTTTCEEEEEECTTCSSCCHHHHHHHHTTSCG
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHhccCCeEEEEECCCCCCccHHHHHhcCCcEEEecCCceEeccHHHHHHHHHHHhc
Confidence            45899999999999999999998775544 2233332221            1111111 10                  


Q ss_pred             -EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC
Q 028315           60 -RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT  138 (210)
Q Consensus        60 -~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~  138 (210)
                       ...+.++|++|.-..   ...+-...+.++.++|.........   .+...       ...|.++|+||+|+.+.+...
T Consensus       117 ~~~d~~~id~~g~i~~---~~s~~~~~~~~~~v~~~~~~~~~~~---~~~~~-------~~~~~iiv~NK~Dl~~~~~~~  183 (226)
T 2hf9_A          117 DEIDLLFIENVGNLIC---PADFDLGTHKRIVVISTTEGDDTIE---KHPGI-------MKTADLIVINKIDLADAVGAD  183 (226)
T ss_dssp             GGCSEEEEECCSCSSG---GGGCCCSCSEEEEEEEGGGCTTTTT---TCHHH-------HTTCSEEEEECGGGHHHHTCC
T ss_pred             CCCCEEEEeCCCCccC---cchhhhccCcEEEEEecCcchhhHh---hhhhH-------hhcCCEEEEeccccCchhHHH
Confidence             114555566663111   0111123455666777532211100   01111       136789999999986544445


Q ss_pred             HHHHHHHHHHc--CCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          139 REEGMILAQEH--KCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       139 ~~~~~~~~~~~--~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      .++...+....  +++++++||++|.|++++|+++.+.+..
T Consensus       184 ~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          184 IKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             HHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            55666655543  5789999999999999999999887754

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.63  E-value=7.4e-16  Score=128.66  Aligned_cols=122  Identities=21%  Similarity=0.259  Sum_probs=80.1

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCC--CCCCceeeEEEEEEEEEC------Ce----------------E----
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVH--DPSPTIGVDFKIKLLTVG------GK----------------R----   60 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~--~~~~~~~~~~~~~~~~~~------~~----------------~----   60 (210)
                      ......+|+|+|.+|+|||||+|+|++..+.  ...+.+.++.......-.      +.                +    
T Consensus        61 ~~~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~  140 (550)
T 2qpt_A           61 DFDGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFL  140 (550)
T ss_dssp             TTSSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCC
T ss_pred             cccCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccc
Confidence            3456789999999999999999999998764  222222221111100000      00                0    


Q ss_pred             -------------EEEEEEeCCCCcc-----------cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc
Q 028315           61 -------------LKLTIWDTAGQER-----------FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST  116 (210)
Q Consensus        61 -------------~~~~l~Dt~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~  116 (210)
                                   ..+.||||||...           +...+..++..+|++++|+|+++........ .|...+.    
T Consensus       141 ~~~~~~~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~-~~l~~l~----  215 (550)
T 2qpt_A          141 NRFMCAQLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFS-EAIGALR----  215 (550)
T ss_dssp             TTEEEEECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHH-HHHHHTT----
T ss_pred             ccceEEeccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHH-HHHHHHH----
Confidence                         2589999999764           3345566788999999999998753333333 4444443    


Q ss_pred             CCCCcEEEEEeCCCCCCCC
Q 028315          117 NQDCVKILVGNKVDRDSER  135 (210)
Q Consensus       117 ~~~~p~ivv~nK~Dl~~~~  135 (210)
                      ..+.|+++|+||+|+....
T Consensus       216 ~~~~pvilVlNK~Dl~~~~  234 (550)
T 2qpt_A          216 GHEDKIRVVLNKADMVETQ  234 (550)
T ss_dssp             TCGGGEEEEEECGGGSCHH
T ss_pred             hcCCCEEEEEECCCccCHH
Confidence            3467999999999987543

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.59  E-value=1.1e-16  Score=135.84  Aligned_cols=114  Identities=18%  Similarity=0.230  Sum_probs=84.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC--CCCC---------CCC------ceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISN--SVHD---------PSP------TIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~--~~~~---------~~~------~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      -||+|+|+.++|||||..+|+..  ....         +.+      ..|.+.......+...++.++|+|||||..|..
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~   82 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLA   82 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHH
Confidence            37899999999999999998632  1111         011      113344444444555667899999999999999


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .....++-+|++|+|+|+..+-..+... .|.....     .++|.++++||+|...
T Consensus        83 Ev~raL~~~DgavlVVDa~~GV~~qT~~-v~~~a~~-----~~lp~i~~INKmDr~~  133 (638)
T 3j25_A           83 EVYRSLSVLDGAILLISAKDGVQAQTRI-LFHALRK-----MGIPTIFFINKIDQNG  133 (638)
T ss_dssp             HHHHHHTTCSEEECCEESSCTTCSHHHH-HHHHHHH-----HTCSCEECCEECCSSS
T ss_pred             HHHHHHHHhCEEEEEEeCCCCCcHHHHH-HHHHHHH-----cCCCeEEEEecccccc
Confidence            9999999999999999999876555554 5655544     4678899999999753

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.59  E-value=1.8e-14  Score=123.83  Aligned_cols=117  Identities=20%  Similarity=0.261  Sum_probs=83.8

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCC--------CCC---------CCCceeeEEEEEEEEE-------CCeEEEEEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNS--------VHD---------PSPTIGVDFKIKLLTV-------GGKRLKLTI   65 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~--------~~~---------~~~~~~~~~~~~~~~~-------~~~~~~~~l   65 (210)
                      .++.-||+|+|+.++|||||..+|+...        ...         .....+++.....+.+       ...++.++|
T Consensus        10 ~~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNl   89 (709)
T 4fn5_A           10 INRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNV   89 (709)
T ss_dssp             GGGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEE
T ss_pred             hHHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEE
Confidence            4677899999999999999999986321        100         1122233333322222       123689999


Q ss_pred             EeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           66 WDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        66 ~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +|||||..|.......++-+|++|+|+|+..+-..+... .|+....     .++|.++++||+|..
T Consensus        90 IDTPGHvDF~~Ev~~aLr~~DgavlvVDaveGV~~qT~~-v~~~a~~-----~~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           90 IDTPGHVDFTIEVERSLRVLDGAVVVFCGTSGVEPQSET-VWRQANK-----YGVPRIVYVNKMDRQ  150 (709)
T ss_dssp             ECCCSCTTCHHHHHHHHHHCSEEEEEEETTTCSCHHHHH-HHHHHHH-----HTCCEEEEEECSSST
T ss_pred             EeCCCCcccHHHHHHHHHHhCeEEEEEECCCCCchhHHH-HHHHHHH-----cCCCeEEEEcccccc
Confidence            999999999999999999999999999999886666555 6666654     478999999999974

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.58  E-value=1.2e-14  Score=115.48  Aligned_cols=152  Identities=14%  Similarity=0.105  Sum_probs=93.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc----cc---hhhhhcc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG----TL---TSSYYRG   84 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~----~~---~~~~~~~   84 (210)
                      ..+|+++|.||||||||+|+|++..... .+|..+.+.....+.+.+  .+++|+||||.-.-.    ..   .-..++.
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~~--~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~  149 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYKG--AKIQMLDLPGIIDGAKDGRGRGKQVIAVART  149 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEETT--EEEEEEECGGGCCC-----CHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeCC--cEEEEEeCCCccCCchhhhHHHHHHHHHHHh
Confidence            4789999999999999999998866332 333333333444445554  568888999953221    11   1234678


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCC--------CCccCHHHHHHHHHHcCCeEEE
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDS--------ERAVTREEGMILAQEHKCLFLE  155 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~--------~~~~~~~~~~~~~~~~~~~~~~  155 (210)
                      +|++++|+|++++..-  .. .+...+.... .....|.++++||.|...        ....+.++...+...+.+..-.
T Consensus       150 ad~il~vvD~~~p~~~--~~-~i~~EL~~~~~~l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kp  226 (376)
T 4a9a_A          150 CNLLFIILDVNKPLHH--KQ-IIEKELEGVGIRLNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAE  226 (376)
T ss_dssp             CSEEEEEEETTSHHHH--HH-HHHHHHHHTTEEETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEE
T ss_pred             cCccccccccCccHHH--HH-HHHHHHHHhhHhhccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCC
Confidence            9999999999998432  22 2223333221 124678889999999632        2345666666666665553333


Q ss_pred             ecccCCcCHHHHHH
Q 028315          156 CSAKNTEDVKQCFK  169 (210)
Q Consensus       156 ~sa~~~~~i~~l~~  169 (210)
                      +-...+...+++.+
T Consensus       227 v~~~~nv~eddl~d  240 (376)
T 4a9a_A          227 IAFRCDATVDDLID  240 (376)
T ss_dssp             EEECSCCCHHHHHH
T ss_pred             eeecccCCHHHHHH
Confidence            33334455555443

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.57  E-value=1e-14  Score=115.48  Aligned_cols=103  Identities=10%  Similarity=0.079  Sum_probs=63.1

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ++.+.++||||....   .......+|.+++|+|++.+...+.+.    ..+      ...|.++|+||+|+.+..... 
T Consensus       166 ~~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~----~~i------l~~~~ivVlNK~Dl~~~~~~~-  231 (349)
T 2www_A          166 GYDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIK----RGI------IEMADLVAVTKSDGDLIVPAR-  231 (349)
T ss_dssp             TCSEEEEECCCC--C---HHHHHTTCSEEEEEECCC----------------------CCSCSEEEECCCSGGGHHHHH-
T ss_pred             CCCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhH----HHH------HhcCCEEEEeeecCCCchhHH-
Confidence            356789999995321   234567899999999998764322221    111      245789999999985321110 


Q ss_pred             HHHHHHHH----------HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 EEGMILAQ----------EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 ~~~~~~~~----------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      .....+..          .++.+++.+||++|.|+++++++|.+.+.
T Consensus       232 ~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~  278 (349)
T 2www_A          232 RIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQD  278 (349)
T ss_dssp             HHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHH
Confidence            01112211          12457899999999999999999988764

>2dby_A GTP-binding protein; GDP, structural genomics, NPPSFA, natio project on protein structural and functional analyses; HET: GDP; 1.76A {Thermus thermophilus} PDB: 2dwq_A

Probab=99.56  E-value=9.5e-15  Score=116.05  Aligned_cols=153  Identities=18%  Similarity=0.153  Sum_probs=91.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCC--ceeeEEEEEEEEECC-------------------eEEEEEEEeCCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSP--TIGVDFKIKLLTVGG-------------------KRLKLTIWDTAGQ   71 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~--~~~~~~~~~~~~~~~-------------------~~~~~~l~Dt~G~   71 (210)
                      ++|+++|.+|+|||||++++.+..... ..+  |...+...  ..+.+                   ....+.+|||||.
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~--~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl   79 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGV--VPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGL   79 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEE--EECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCcccCCCCceeccceee--EecChHHHHHHHHHhcccccccccCCceEEEEECCCc
Confidence            578999999999999999998764211 111  12111111  12221                   2357999999997


Q ss_pred             cccc----cchh---hhhccccEEEEEEeCCCH----------hhHHHHHHHHHHH------------------------
Q 028315           72 ERFG----TLTS---SYYRGAHGIILVYDVTRR----------ETFTNLSSVWAKE------------------------  110 (210)
Q Consensus        72 ~~~~----~~~~---~~~~~~d~~i~v~d~~~~----------~~~~~~~~~~~~~------------------------  110 (210)
                      ....    .+..   ..++.+|++++|+|+++.          +.++++. .+...                        
T Consensus        80 ~~~a~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~-~i~~EL~~~d~~~l~k~~~~~~~~~~~~~  158 (368)
T 2dby_A           80 VKGAHKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAE-VVETELLLADLATLERRLERLRKEARADR  158 (368)
T ss_dssp             CCCCCSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHH-HHHHHHHHHHHHHHHHHHHHHHHHHHHCG
T ss_pred             cccccccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHH-HHhhHHHHccHHHHHHHHHHHHhhhccch
Confidence            6542    2222   347899999999999851          1222221 11010                        


Q ss_pred             ---------------Hhh-------------------hccCCCCcEEEEEeCCCCC--CC-CccCHHHHHHHHHHcCCeE
Q 028315          111 ---------------VEL-------------------YSTNQDCVKILVGNKVDRD--SE-RAVTREEGMILAQEHKCLF  153 (210)
Q Consensus       111 ---------------~~~-------------------~~~~~~~p~ivv~nK~Dl~--~~-~~~~~~~~~~~~~~~~~~~  153 (210)
                                     +..                   ......+|+++++||.|..  +. +....+....++...++++
T Consensus       159 ~~~~~~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~v  238 (368)
T 2dby_A          159 ERLPLLEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEV  238 (368)
T ss_dssp             GGHHHHHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEE
T ss_pred             hHHHHHHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeE
Confidence                           000                   0001237999999999742  22 1223445666777778999


Q ss_pred             EEecccCCcCHHHHHH
Q 028315          154 LECSAKNTEDVKQCFK  169 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~  169 (210)
                      +.+||+.+.++.++.+
T Consensus       239 v~iSAk~E~el~eL~~  254 (368)
T 2dby_A          239 VVVSARLEAELAELSG  254 (368)
T ss_dssp             EEECHHHHHHHHTSCH
T ss_pred             EEeechhHHHHHHhch
Confidence            9999998666555443

>2p67_A LAO/AO transport system kinase; ARGK, structural GEN PSI-2, protein structure initiative, NEW YORK SGX research for structural genomics; 1.80A {Escherichia coli} SCOP: c.37.1.10

Probab=99.56  E-value=2.3e-15  Score=118.95  Aligned_cols=104  Identities=15%  Similarity=0.128  Sum_probs=65.6

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      ++.+.||||||.....   ......+|++++|+|++....++.+.    ..      ..+.|.++|+||+|+.+...+..
T Consensus       148 ~~~i~liDTpG~~~~~---~~~~~~aD~vl~Vvd~~~~~~~~~l~----~~------~~~~p~ivv~NK~Dl~~~~~~~~  214 (341)
T 2p67_A          148 GYDVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIK----KG------LMEVADLIVINKDDGDNHTNVAI  214 (341)
T ss_dssp             TCSEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCC----HH------HHHHCSEEEECCCCTTCHHHHHH
T ss_pred             CCCEEEEeCCCccchH---HHHHHhCCEEEEEEeCCccHHHHHHH----Hh------hhcccCEEEEECCCCCChHHHHH
Confidence            3578999999965433   23468899999999997654322111    00      01457899999999864322211


Q ss_pred             --HHHHHHHHH-------cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 --EEGMILAQE-------HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 --~~~~~~~~~-------~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                        ++.......       +..+++.+||++|.|+++++++|.+.+.
T Consensus       215 ~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          215 ARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence              011111111       1457899999999999999999998765

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.54  E-value=3.7e-15  Score=113.47  Aligned_cols=115  Identities=17%  Similarity=-0.023  Sum_probs=68.9

Q ss_pred             EEEEEEeCCCCcccccchh------hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTS------SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~------~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      +.+.+|||||.........      ..+.. +++++++|+............+........ ..+.|+++|+||+|+...
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~-~~~~p~~iv~NK~D~~~~  186 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDL-RLGATTIPALNKVDLLSE  186 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHH-HHTSCEEEEECCGGGCCH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhc-ccCCCeEEEEeccccccc
Confidence            5789999999865532211      23456 888999987643322222211111111111 246799999999998653


Q ss_pred             CccC--------HHHH-HHH-----------------HHHcC--CeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          135 RAVT--------REEG-MIL-----------------AQEHK--CLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       135 ~~~~--------~~~~-~~~-----------------~~~~~--~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..+.        .+.. ..+                 ...++  .+++++||+++.|+++++++|.+.+..
T Consensus       187 ~~~~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~~  257 (262)
T 1yrb_A          187 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYCT  257 (262)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccHHHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhcc
Confidence            3210        0000 010                 12333  479999999999999999999887753

>3zvr_A Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mitochondrial fission, GT stalk, PH, BSE, membrane fission; HET: 1PE; 3.10A {Rattus norvegicus} PDB: 3snh_A

Probab=99.49  E-value=6.4e-14  Score=119.85  Aligned_cols=159  Identities=20%  Similarity=0.122  Sum_probs=96.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEE---------------------------------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDF---------------------------------------   49 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~---------------------------------------   49 (210)
                      ....+|+|+|.+++|||||+|+|++..+.+  ...++....                                       
T Consensus        49 i~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~  128 (772)
T 3zvr_A           49 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  128 (772)
T ss_dssp             GCCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhh
Confidence            345689999999999999999999977632  111110000                                       


Q ss_pred             ---------EEEEEEEC-CeEEEEEEEeCCCCcc-------------cccchhhhh-ccccEEEEEEeCCCHhhHHHHHH
Q 028315           50 ---------KIKLLTVG-GKRLKLTIWDTAGQER-------------FGTLTSSYY-RGAHGIILVYDVTRRETFTNLSS  105 (210)
Q Consensus        50 ---------~~~~~~~~-~~~~~~~l~Dt~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~~~~~~~~  105 (210)
                               ....+.+. .....+.|+||||...             +......++ ..+|++++|+|++......... 
T Consensus       129 ~g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l-  207 (772)
T 3zvr_A          129 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL-  207 (772)
T ss_dssp             HCSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHH-
T ss_pred             cCCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHH-
Confidence                     00011110 0112578999999533             112333344 5789999999998753322221 


Q ss_pred             HHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH-H-HHHcC-CeEEEecccCCcCHHHHHHHHHHH
Q 028315          106 VWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI-L-AQEHK-CLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       106 ~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~-~~~~~-~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      .+...+.    ..+.|+++|+||+|+............. + ....+ .+++.+||++|.|++++++.+.+.
T Consensus       208 ~ll~~L~----~~g~pvIlVlNKiDlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          208 KIAKEVD----PQGQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             HHHHHHC----TTCSSEEEEEECTTSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             HHHHHHH----hcCCCEEEEEeCcccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            2333333    4578999999999997654432211110 0 00112 357889999999999999998874

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.44  E-value=2.4e-13  Score=105.67  Aligned_cols=97  Identities=21%  Similarity=0.132  Sum_probs=76.8

Q ss_pred             CcccccchhhhhccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHHHHH
Q 028315           71 QERFGTLTSSYYRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMILAQE  148 (210)
Q Consensus        71 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~  148 (210)
                      ++++..+.+.+++++|++++|+|++++. ++..+. .|+..+..    .++|+++|+||+|+.+.+.+. .++...+...
T Consensus        66 ~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~-~~l~~~~~----~~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~  140 (302)
T 2yv5_A           66 EERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLD-NMLVVYEY----FKVEPVIVFNKIDLLNEEEKKELERWISIYRD  140 (302)
T ss_dssp             CCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHH-HHHHHHHH----TTCEEEEEECCGGGCCHHHHHHHHHHHHHHHH
T ss_pred             CChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHH-HHHHHHHh----CCCCEEEEEEcccCCCccccHHHHHHHHHHHH
Confidence            6777888888999999999999999986 777666 67766553    578999999999996543222 3344555666


Q ss_pred             cCCeEEEecccCCcCHHHHHHHHH
Q 028315          149 HKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus       149 ~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      .+.+++++||++|.|++++++.+.
T Consensus       141 ~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          141 AGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             TTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHhhcc
Confidence            788999999999999999987653

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.43  E-value=6.3e-14  Score=110.46  Aligned_cols=104  Identities=7%  Similarity=0.046  Sum_probs=64.0

Q ss_pred             EEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           60 RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      +..+.|+||||.....   ......+|.+++++|....+..+.+.    ..+      ...|.++++||+|+........
T Consensus       147 ~~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~----~~i------~~~~~ivvlNK~Dl~~~~~~s~  213 (337)
T 2qm8_A          147 GFDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIK----KGI------FELADMIAVNKADDGDGERRAS  213 (337)
T ss_dssp             TCCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CC----TTH------HHHCSEEEEECCSTTCCHHHHH
T ss_pred             CCCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHH----HHH------hccccEEEEEchhccCchhHHH
Confidence            4578899999964321   23457899999999987543221111    001      1235677889999754322222


Q ss_pred             HHHHHHHHH----------cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 EEGMILAQE----------HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 ~~~~~~~~~----------~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ...+.+...          +..+++.+||+++.|++++++.|.+.+.
T Consensus       214 ~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          214 AAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            222233221          2457899999999999999999988654

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.33  E-value=1.2e-12  Score=94.76  Aligned_cols=174  Identities=12%  Similarity=0.051  Sum_probs=97.0

Q ss_pred             CCCCCCCCCceEEEEEEEcCC-CCcHHHHHHHHhhCC-CCC-------CCCce--eeE--------EEEEEEE-------
Q 028315            2 GSKVGNNSYDYSFKILLIGDS-GVGKSSILLSLISNS-VHD-------PSPTI--GVD--------FKIKLLT-------   55 (210)
Q Consensus         2 ~~~~~~~~~~~~~~i~i~G~~-~~GKSsli~~l~~~~-~~~-------~~~~~--~~~--------~~~~~~~-------   55 (210)
                      .+++.+--...+.|+++.|+. ..=..+|+.+++..+ ..+       ...-+  |..        +...+..       
T Consensus         5 ~~~~~s~~~~~~pr~amfgpgle~~~~~lv~~~m~~~~~~p~~g~~~~~~~gigsgv~~~~~~~~~fni~tlys~~~~er   84 (227)
T 3l82_B            5 TSFLHSLIIQNEPRFAMFGPGLEELNTSLVLSLMSSEELCPTAGLPQRQIDGIGSGVNFQLNNQHKFNILILYSTTRKER   84 (227)
T ss_dssp             CCSSSCCCCCCCCEEEEECGGGTSSSSCHHHHHHTCCSSCCEECCGGGCCTTSCCCEEEESSSSCEEEEEECSCC-----
T ss_pred             HHHHHHhccCCCceEEEecCCcccccHHHHHHHhcCCCcccccCCCCCCcCccccceEEEECCeeEEEEEEeccCcHHHh
Confidence            456666666778999999953 123558999987754 211       00111  110        1100000       


Q ss_pred             ----ECCe--EEEEEEEeCC------CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHH---HHHhhhccCCCC
Q 028315           56 ----VGGK--RLKLTIWDTA------GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWA---KEVELYSTNQDC  120 (210)
Q Consensus        56 ----~~~~--~~~~~l~Dt~------G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~---~~~~~~~~~~~~  120 (210)
                          ..+.  .-++-...+|      |++.++.+|+.|+.++|++|||+|.+|...++ ....+.   .++.......+.
T Consensus        85 ~~~~~~~~~~~~k~~~~~~~~~~~~GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~ga  163 (227)
T 3l82_B           85 DRAREEHTSAVNKMFSRHNEGDDQQGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGR  163 (227)
T ss_dssp             --------------------------------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCS
T ss_pred             hhhhhhhhhhhhhcccccCCCccccCcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCC
Confidence                0000  0122233344      78888999999999999999999999986554 332332   222211112578


Q ss_pred             cEEEEEeCC-CCCCCCccCHHHHHHHHH----HcCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          121 VKILVGNKV-DRDSERAVTREEGMILAQ----EHKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       121 p~ivv~nK~-Dl~~~~~~~~~~~~~~~~----~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |++|++||. |+..  ..+..+..+...    ...+.+..|||.+|.|+.+-++||.+.+..+
T Consensus       164 pLLVlANKqqDlp~--Ams~~EI~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~~k  224 (227)
T 3l82_B          164 PLLVLSCISQGDVK--RMPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  224 (227)
T ss_dssp             CEEEEEEESSTTSC--BCCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTTTC
T ss_pred             eEEEEeCCCcCccC--CCCHHHHHHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHHhh
Confidence            999999995 6743  345444332221    1244699999999999999999998776544

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.28  E-value=2.3e-12  Score=102.80  Aligned_cols=88  Identities=22%  Similarity=0.198  Sum_probs=51.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCe---------------EEEEEEEeCCCCccc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQERF   74 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~~   74 (210)
                      ...++|+++|.+|+|||||++++.+..+.. ..|..+.+.....+.+.+.               ...+.+|||||....
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~   99 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKG   99 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC----
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccc
Confidence            346899999999999999999998876522 2333333333333444332               235899999997654


Q ss_pred             cc-------chhhhhccccEEEEEEeCCCHh
Q 028315           75 GT-------LTSSYYRGAHGIILVYDVTRRE   98 (210)
Q Consensus        75 ~~-------~~~~~~~~~d~~i~v~d~~~~~   98 (210)
                      ..       .+..+++.+|++++|+|+.+..
T Consensus       100 as~~~glg~~~l~~ir~aD~Il~VvD~~~~~  130 (396)
T 2ohf_A          100 AHNGQGLGNAFLSHISACDGIFHLTRAFEDD  130 (396)
T ss_dssp             -------CCHHHHHHHTSSSEEEEEEC----
T ss_pred             cchhhHHHHHHHHHHHhcCeEEEEEecCCCc
Confidence            32       4456789999999999998643

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.25  E-value=2.2e-10  Score=91.61  Aligned_cols=86  Identities=22%  Similarity=0.281  Sum_probs=58.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCe---------------EEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~   73 (210)
                      ....+++++|++|||||||+|.|.+.....  ..|....+.....+.+.+.               ...+.+||+||...
T Consensus        18 ~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~   97 (392)
T 1ni3_A           18 GNNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   97 (392)
T ss_dssp             SSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccccc
Confidence            446799999999999999999999876533  3333333333334444431               13588999999432


Q ss_pred             -------cccchhhhhccccEEEEEEeCCC
Q 028315           74 -------FGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        74 -------~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                             +...+...++.+|++++|+|+.+
T Consensus        98 ~~s~~e~L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           98 GASTGVGLGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             CCcHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence                   22234455789999999999874

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.20  E-value=2e-11  Score=92.68  Aligned_cols=108  Identities=6%  Similarity=-0.040  Sum_probs=74.5

Q ss_pred             CCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHH---HHHhhhccCCCCcEEEEEeC-CCCCCCCccCHHHHH
Q 028315           68 TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWA---KEVELYSTNQDCVKILVGNK-VDRDSERAVTREEGM  143 (210)
Q Consensus        68 t~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~---~~~~~~~~~~~~p~ivv~nK-~Dl~~~~~~~~~~~~  143 (210)
                      .+|++..+..|+.|+.++|++|+|+|.+|.+.++ ....+.   .++.......+.|++|++|| .|+..  .++..+..
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRle-ak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp~--Ams~~EI~  270 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDVK--RMPCFYLA  270 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCC-HHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTSC--BCCHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHH-HHHHHHHHHHHhcchhhcCCCeEEEEeCCcccccC--CCCHHHHH
Confidence            3567888999999999999999999999987654 222222   23322211368899999996 58753  34444433


Q ss_pred             HHHH----HcCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          144 ILAQ----EHKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       144 ~~~~----~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      +...    .....+..|||.+|.|+.+-++||.+.+..+
T Consensus       271 e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~~k  309 (312)
T 3l2o_B          271 HELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVESK  309 (312)
T ss_dssp             HHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSCC-
T ss_pred             HHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHHhh
Confidence            2211    1234599999999999999999999887544

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=99.08  E-value=2.3e-11  Score=97.00  Aligned_cols=140  Identities=14%  Similarity=0.130  Sum_probs=84.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC-----CCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc--------cchhh
Q 028315           14 FKILLIGDSGVGKSSILLSLISN-----SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG--------TLTSS   80 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~--------~~~~~   80 (210)
                      .+|+++|.+|+|||||+|++++.     ......+.++++.....+.+...   +.++||||.....        .....
T Consensus       163 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~  239 (369)
T 3ec1_A          163 GDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSYFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLKI  239 (369)
T ss_dssp             SCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHHH
T ss_pred             CcEEEEcCCCCchHHHHHHHHhhccCCccceeecCCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHHH
Confidence            47999999999999999999876     22223344444555544454432   6888999953221        11122


Q ss_pred             hh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315           81 YY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus        81 ~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ++  ...|.++++++......+..+. .    +.... ..+.|+++++||.|....... ......+.+..+..+...++
T Consensus       240 ~~~~~~i~~~~~~l~~~~~~~~g~l~-~----l~~l~-~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~  312 (369)
T 3ec1_A          240 ITPKREIHPRVYQLNEGQTLFFGGLA-R----LDYIK-GGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSK  312 (369)
T ss_dssp             HSCSSCCCCEEEEECTTEEEEETTTE-E----EEEEE-SSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCG
T ss_pred             HhcccccCceEEEEcCCceEEECCEE-E----EEEcc-CCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCc
Confidence            22  6689999999984321111111 0    11111 356899999999998654433 23344556667766666666


Q ss_pred             cCCcC
Q 028315          159 KNTED  163 (210)
Q Consensus       159 ~~~~~  163 (210)
                      .+..+
T Consensus       313 ~~~~~  317 (369)
T 3ec1_A          313 RYAAE  317 (369)
T ss_dssp             GGTTT
T ss_pred             hhhhh
Confidence            54433

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.02  E-value=5.3e-10  Score=89.04  Aligned_cols=97  Identities=14%  Similarity=0.169  Sum_probs=73.5

Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH----HH
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM----IL  145 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~  145 (210)
                      ..+.|...+..+++.+|++++|+|+.++..      .|...+....  .+.|+++|+||+|+.+.. ...++..    .+
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~~------~~~~~l~~~~--~~~p~ilV~NK~DL~~~~-~~~~~~~~~l~~~  125 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFNG------SWLPGLHRFV--GNNKVLLVGNKADLIPKS-VKHDKVKHWMRYS  125 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHHH------HCCTTHHHHS--SSSCEEEEEECGGGSCTT-SCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCcc------cHHHHHHHHh--CCCcEEEEEEChhcCCcc-cCHHHHHHHHHHH
Confidence            457888889999999999999999998642      5555555554  478999999999996543 3333333    33


Q ss_pred             HHHcCC---eEEEecccCCcCHHHHHHHHHHHH
Q 028315          146 AQEHKC---LFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       146 ~~~~~~---~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ....+.   +++.+||++|.|++++++.+.+..
T Consensus       126 ~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~~  158 (368)
T 3h2y_A          126 AKQLGLKPEDVFLISAAKGQGIAELADAIEYYR  158 (368)
T ss_dssp             HHHTTCCCSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHcCCCcccEEEEeCCCCcCHHHHHhhhhhhc
Confidence            455676   799999999999999999987654

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.98  E-value=7.9e-10  Score=91.06  Aligned_cols=151  Identities=14%  Similarity=0.093  Sum_probs=84.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHh------hCCCCC-----CCCce-----------eeEEEEEEEE-------------
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLI------SNSVHD-----PSPTI-----------GVDFKIKLLT-------------   55 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~------~~~~~~-----~~~~~-----------~~~~~~~~~~-------------   55 (210)
                      .....|+++|.+||||||++++|.      +.....     +.+..           +..+......             
T Consensus        99 ~~~~vI~ivG~~GvGKTTl~~kLA~~l~~~G~kVllVd~D~~r~aa~~qL~~~~~~~~i~v~~~~~~~dp~~i~~~al~~  178 (504)
T 2j37_W           99 GKQNVIMFVGLQGSGKTTTCSKLAYYYQRKGWKTCLICADTFRAGAFDQLKQNATKARIPFYGSYTEMDPVIIASEGVEK  178 (504)
T ss_dssp             S--EEEEEECSTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSSHHHHHHHHHHHHHTCCEEECCCCSCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhCCCeEEEEeccccchhHHHHHHHHhhccCceEEccCCCCCHHHHHHHHHHH
Confidence            346789999999999999999997      322111     00000           0111110000             


Q ss_pred             ECCeEEEEEEEeCCCCcccc-cchhh---h--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeC
Q 028315           56 VGGKRLKLTIWDTAGQERFG-TLTSS---Y--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNK  128 (210)
Q Consensus        56 ~~~~~~~~~l~Dt~G~~~~~-~~~~~---~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK  128 (210)
                      ....++.+.|+||||..... .++..   .  +..+|.+++|+|+........    ....+..     ..|+ .+|+||
T Consensus       179 ~~~~~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~----~a~~~~~-----~~~i~gvVlNK  249 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA----QAKAFKD-----KVDVASVIVTK  249 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH----HHHHHHH-----HHCCCCEEEEC
T ss_pred             HHHCCCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH----HHHHHHh-----hcCceEEEEeC
Confidence            00034578999999965432 11111   1  227899999999987643211    1122221     1464 899999


Q ss_pred             CCCCCCCccCHHHHHHHHHHcCCeE------------------EEecccCCcC-HHHHHHHHHHH
Q 028315          129 VDRDSERAVTREEGMILAQEHKCLF------------------LECSAKNTED-VKQCFKDLLYK  174 (210)
Q Consensus       129 ~Dl~~~~~~~~~~~~~~~~~~~~~~------------------~~~sa~~~~~-i~~l~~~i~~~  174 (210)
                      .|......    .........+.|+                  +.+|+..|.| +.++++++.+.
T Consensus       250 ~D~~~~~g----~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          250 LDGHAKGG----GALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             TTSCCCCT----HHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             CccccchH----HHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            99853221    1222333444443                  3468889988 99988887765

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.93  E-value=1.2e-10  Score=92.82  Aligned_cols=135  Identities=11%  Similarity=0.127  Sum_probs=78.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC------CCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc----chhh---
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS------VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT----LTSS---   80 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~----~~~~---   80 (210)
                      .+|+++|.+|+|||||+|++++..      .....+.++++.....+.+...   +.++||||......    +...   
T Consensus       161 ~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~  237 (368)
T 3h2y_A          161 KDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLK  237 (368)
T ss_dssp             SCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHH
Confidence            478999999999999999998763      1114455666666555555443   78899999533221    1111   


Q ss_pred             -h--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEec
Q 028315           81 -Y--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus        81 -~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                       +  ....+.++++++......+..+.  .   +.. ....+.|+++++||.|....... ......+.+..|..+...+
T Consensus       238 ~~~~~~~i~~~~~~l~~~~~~~~g~l~--~---~d~-l~~~~~~~~~v~nk~d~~~~~~~-~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          238 LITPTKEIKPMVFQLNEEQTLFFSGLA--R---FDY-VSGGRRAFTCHFSNRLTIHRTKL-EKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             HHSCSSCCCCEEEEECTTEEEEETTTE--E---EEE-EESSSEEEEEEECTTSCEEEEEH-HHHHHHHHHHBTTTBCSSC
T ss_pred             HhccccccCceEEEEcCCCEEEEcceE--E---EEE-ecCCCceEEEEecCccccccccH-HHHHHHHHHHhCCccCCCc
Confidence             1  25678889999874321111111  0   111 11356899999999998654433 2333445556666555444


Q ss_pred             c
Q 028315          158 A  158 (210)
Q Consensus       158 a  158 (210)
                      +
T Consensus       311 ~  311 (368)
T 3h2y_A          311 P  311 (368)
T ss_dssp             H
T ss_pred             h
Confidence            4

>1tq4_A IIGP1, interferon-inducible GTPase; interferon gamma, dimer, immunology, signaling protein; HET: GDP; 1.95A {Mus musculus} SCOP: c.37.1.8 PDB: 1tqd_A* 1tq6_A* 1tpz_A* 1tq2_A*

Probab=98.92  E-value=1.2e-08  Score=82.09  Aligned_cols=159  Identities=17%  Similarity=0.182  Sum_probs=88.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeE--EEEEEEEECCeEEEEEEEeCCCCcccccchhhh-----hc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVD--FKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY-----YR   83 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~--~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~-----~~   83 (210)
                      ...++++|++|+|||||+|.+.+.....  .....+..  ....... ......+.+||++|..........+     +.
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q-~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~  147 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYK-HPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFY  147 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEE-CSSCTTEEEEECCCGGGSSCCHHHHHHHTTGG
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEecc-ccccCCeeehHhhcccchHHHHHHHHHHcCCC
Confidence            4579999999999999999998743222  11111111  1001111 1111257889999853222222222     23


Q ss_pred             cccEEEEEEeCC--CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC-------CCCccCHHHH----HHHH----
Q 028315           84 GAHGIILVYDVT--RRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD-------SERAVTREEG----MILA----  146 (210)
Q Consensus        84 ~~d~~i~v~d~~--~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~~~----~~~~----  146 (210)
                      ..+..++ ++..  ..+..     .+...+.    ..+.|+++|.||.|+.       .-.....++.    ..+.    
T Consensus       148 ~~~~~~~-lS~G~~~kqrv-----~la~aL~----~~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l  217 (413)
T 1tq4_A          148 EYDFFII-ISATRFKKNDI-----DIAKAIS----MMKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTF  217 (413)
T ss_dssp             GCSEEEE-EESSCCCHHHH-----HHHHHHH----HTTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHH
T ss_pred             ccCCeEE-eCCCCccHHHH-----HHHHHHH----hcCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHH
Confidence            4455555 7776  32221     1222222    2467999999999863       1111122222    2222    


Q ss_pred             HHcC---CeEEEecc--cCCcCHHHHHHHHHHHHHccchhh
Q 028315          147 QEHK---CLFLECSA--KNTEDVKQCFKDLLYKILEVPSLL  182 (210)
Q Consensus       147 ~~~~---~~~~~~sa--~~~~~i~~l~~~i~~~~~~~~~~~  182 (210)
                      ...+   ..++.+|+  ..+.|++++.+.+.+.+.+.+..+
T Consensus       218 ~~~g~~~~~iiliSsh~l~~~~~e~L~d~I~~~Lpeg~~~~  258 (413)
T 1tq4_A          218 RENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKRHN  258 (413)
T ss_dssp             HHTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGHHH
T ss_pred             HhcCCCCCcEEEEecCcCCccCHHHHHHHHHHhCccchhhH
Confidence            1222   35788999  566779999999999988777655

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.92  E-value=2.3e-09  Score=86.38  Aligned_cols=140  Identities=21%  Similarity=0.255  Sum_probs=70.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC---CCCceeeEEEEEEEEECCe--EEEEEEEeCCCCcccc------------
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD---PSPTIGVDFKIKLLTVGGK--RLKLTIWDTAGQERFG------------   75 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~--~~~~~l~Dt~G~~~~~------------   75 (210)
                      .++++|+|++|+|||||++.+++..+..   .....+.......+.....  ...+.++|++|.....            
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~g~~~~~~~~~~~i~~~  121 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGFGDQINKEDSYKPIVEF  121 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECCCC-CCHHHHSHHHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhhhhccccchhhhHHHHH
Confidence            4679999999999999999998875432   1111222222222222222  2478899999853221            


Q ss_pred             --cchhhhh-------------cc--ccE-EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc
Q 028315           76 --TLTSSYY-------------RG--AHG-IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV  137 (210)
Q Consensus        76 --~~~~~~~-------------~~--~d~-~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~  137 (210)
                        ..+..++             ..  +|+ ++++.|...+.+..++  .+...+     ..+.|+++|.||+|.....++
T Consensus       122 i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Di--eilk~L-----~~~~~vI~Vi~KtD~Lt~~E~  194 (427)
T 2qag_B          122 IDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDL--VTMKKL-----DSKVNIIPIIAKADAISKSEL  194 (427)
T ss_dssp             HHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHH--HHHHHT-----CSCSEEEEEESCGGGSCHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHH--HHHHHH-----hhCCCEEEEEcchhccchHHH
Confidence              0111111             11  233 5556666554333322  222222     257899999999997544332


Q ss_pred             CH--HHHHHHHHHcCCeEEEeccc
Q 028315          138 TR--EEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       138 ~~--~~~~~~~~~~~~~~~~~sa~  159 (210)
                      ..  ..+.......|++++.+|..
T Consensus       195 ~~l~~~I~~~L~~~gi~I~~is~~  218 (427)
T 2qag_B          195 TKFKIKITSELVSNGVQIYQFPTD  218 (427)
T ss_dssp             HHHHHHHHHHHBTTBCCCCCCC--
T ss_pred             HHHHHHHHHHHHHcCCcEEecCCC
Confidence            11  11111122346677777643

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.89  E-value=1.3e-09  Score=86.87  Aligned_cols=97  Identities=14%  Similarity=0.105  Sum_probs=71.8

Q ss_pred             CCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH----H
Q 028315           70 GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI----L  145 (210)
Q Consensus        70 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~----~  145 (210)
                      .++.|...+..+++.++++++|+|+.++.+      .|...+....  .+.|+++|+||+|+.+.. ...+....    +
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~------s~~~~l~~~l--~~~piilV~NK~DLl~~~-~~~~~~~~~l~~~  127 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG------SFIPGLPRFA--ADNPILLVGNKADLLPRS-VKYPKLLRWMRRM  127 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG------GCCSSHHHHC--TTSCEEEEEECGGGSCTT-CCHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC------chhhHHHHHh--CCCCEEEEEEChhcCCCc-cCHHHHHHHHHHH
Confidence            477888899888899999999999999864      3444444443  478999999999997542 22333332    3


Q ss_pred             HHHcCC---eEEEecccCCcCHHHHHHHHHHHH
Q 028315          146 AQEHKC---LFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       146 ~~~~~~---~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ....|.   .++.+||++|.|++++++.+.+.+
T Consensus       128 ~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~~  160 (369)
T 3ec1_A          128 AEELGLCPVDVCLVSAAKGIGMAKVMEAINRYR  160 (369)
T ss_dssp             HHTTTCCCSEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             HHHcCCCcccEEEEECCCCCCHHHHHHHHHhhc
Confidence            455566   689999999999999999987654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.82  E-value=3.7e-09  Score=81.19  Aligned_cols=59  Identities=25%  Similarity=0.419  Sum_probs=37.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE   72 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~   72 (210)
                      ...++|+++|.||+|||||+|++.+.......+.++++.....+.+..   .+.+|||||..
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~  176 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKVGK---ELELLDTPGIL  176 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------CCEEETT---TEEEEECCCCC
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCCCeeeeeEEEEeCC---CEEEEECcCcC
Confidence            356899999999999999999999887666666666665554444432   57899999964

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.74  E-value=1.6e-08  Score=77.11  Aligned_cols=136  Identities=19%  Similarity=0.166  Sum_probs=68.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCCCC-------CceeeE-EEEEEEEECCe--EEEEEEEeCCCCcccc---c---
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHDPS-------PTIGVD-FKIKLLTVGGK--RLKLTIWDTAGQERFG---T---   76 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~~~-------~~~~~~-~~~~~~~~~~~--~~~~~l~Dt~G~~~~~---~---   76 (210)
                      .++++++|+.|+|||||++.+++...+...       +..... .....+.....  ...+.++|++|.....   .   
T Consensus         2 ~f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~   81 (270)
T 3sop_A            2 DFNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWE   81 (270)
T ss_dssp             EEEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHH
Confidence            589999999999999999999875432210       000000 01111111111  2367899999832110   0   


Q ss_pred             chhh----------------------hhccccEEEEEEeCC-CHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           77 LTSS----------------------YYRGAHGIILVYDVT-RRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        77 ~~~~----------------------~~~~~d~~i~v~d~~-~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      ....                      .+..++++++++|.. .+..-.+.  .+...+.    .. .++++|++|+|...
T Consensus        82 ~i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD~--~~l~~L~----~~-~~vI~Vi~K~D~lt  154 (270)
T 3sop_A           82 PIEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDL--EFMKHLS----KV-VNIIPVIAKADTMT  154 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHHH--HHHHHHH----TT-SEEEEEETTGGGSC
T ss_pred             HHHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHHH--HHHHHHH----hc-CcEEEEEeccccCC
Confidence            0000                      012368899999955 22222221  2223332    23 89999999999754


Q ss_pred             CCccCH--HHHHHHHHHcCCeEEE
Q 028315          134 ERAVTR--EEGMILAQEHKCLFLE  155 (210)
Q Consensus       134 ~~~~~~--~~~~~~~~~~~~~~~~  155 (210)
                      ..+...  ..........++.++.
T Consensus       155 ~~e~~~~k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          155 LEEKSEFKQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHHHHHHHHcCccccC
Confidence            332211  1222233445666554

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.73  E-value=3.3e-09  Score=80.58  Aligned_cols=57  Identities=23%  Similarity=0.362  Sum_probs=36.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   73 (210)
                      ++++++|.+|+|||||+|++.+.......++++.+.....+.+..   .+.+|||||...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~~g~T~~~~~~~~~~---~~~l~DtpG~~~  156 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQPGITKGIQWFSLEN---GVKILDTPGILY  156 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC----------CCSCEEECTT---SCEEESSCEECC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCCCCCccceEEEEeCC---CEEEEECCCccc
Confidence            699999999999999999999877666666666655543333332   578999999654

>1puj_A YLQF, conserved hypothetical protein YLQF; structural genomics, nysgxrc T18, GTPase, PSI, protein structure initiative; HET: GNP; 2.00A {Bacillus subtilis} SCOP: c.37.1.8

Probab=98.72  E-value=1.8e-08  Score=77.32  Aligned_cols=101  Identities=12%  Similarity=-0.007  Sum_probs=68.1

Q ss_pred             eCCCCcc-cccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH
Q 028315           67 DTAGQER-FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL  145 (210)
Q Consensus        67 Dt~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~  145 (210)
                      ..|||.. ........+..+|+++.|+|+.++.+....      .+....  .++|.++|+||+|+.+...  .+....+
T Consensus         5 w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~------~l~~~l--~~kp~ilVlNK~DL~~~~~--~~~~~~~   74 (282)
T 1puj_A            5 WFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNP------MIEDIL--KNKPRIMLLNKADKADAAV--TQQWKEH   74 (282)
T ss_dssp             ----CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCH------HHHHHC--SSSCEEEEEECGGGSCHHH--HHHHHHH
T ss_pred             CCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCH------HHHHHH--CCCCEEEEEECcccCCHHH--HHHHHHH
Confidence            5788753 334555668899999999999998775421      111111  4789999999999965311  1122233


Q ss_pred             HHHcCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          146 AQEHKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       146 ~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ....+.+++.+||+++.|++++++.+.+.+..
T Consensus        75 ~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           75 FENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             HHTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             HHhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            34457889999999999999999988877654

>3dm5_A SRP54, signal recognition 54 kDa protein; protein-RNA, signal recognition particle, SRP-GTPase, protein targeting, cytoplasm, GTP-binding; HET: GDP; 2.51A {Pyrococcus furiosus}

Probab=98.60  E-value=1e-07  Score=77.14  Aligned_cols=135  Identities=18%  Similarity=0.155  Sum_probs=74.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-----------CCC-----------ceeeEEEEEEEEEC------------
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-----------PSP-----------TIGVDFKIKLLTVG------------   57 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-----------~~~-----------~~~~~~~~~~~~~~------------   57 (210)
                      ++..|+++|.+|+||||++..|.......           +.+           ..+..+.......+            
T Consensus        99 ~p~vIlivG~~G~GKTTt~~kLA~~l~~~G~kVllv~~D~~R~aa~eqL~~~~~~~gvpv~~~~~~~dp~~i~~~al~~a  178 (443)
T 3dm5_A           99 KPTILLMVGIQGSGKTTTVAKLARYFQKRGYKVGVVCSDTWRPGAYHQLRQLLDRYHIEVFGNPQEKDAIKLAKEGVDYF  178 (443)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCCSSTHHHHHHHHHHGGGTCEEECCTTCCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHHhcCCcEEecCCCCCHHHHHHHHHHHH
Confidence            35788999999999999999885311000           000           00111110000000            


Q ss_pred             -CeEEEEEEEeCCCCccccc-chh-----hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCC
Q 028315           58 -GKRLKLTIWDTAGQERFGT-LTS-----SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD  130 (210)
Q Consensus        58 -~~~~~~~l~Dt~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  130 (210)
                       ..++.+.++||||...... ...     .....+|.+++|+|+..........    ..+..    .-.+..||+||.|
T Consensus       179 ~~~~~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~~a----~~f~~----~~~i~gVIlTKlD  250 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYNQA----LAFKE----ATPIGSIIVTKLD  250 (443)
T ss_dssp             HHTTCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHH----HHHHH----SCTTEEEEEECCS
T ss_pred             HhCCCCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHHHH----HHHHh----hCCCeEEEEECCC
Confidence             0126788999999543221 111     1133579999999998765432222    22221    1235568999999


Q ss_pred             CCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315          131 RDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       131 l~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      .....    -.+.......+.|+.+++.
T Consensus       251 ~~~~g----G~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          251 GSAKG----GGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             SCSSH----HHHHHHHHTTCCCEEEEEC
T ss_pred             Ccccc----cHHHHHHHHHCCCEEEEEc
Confidence            75322    2344455567888877775

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=98.40  E-value=1.4e-07  Score=73.03  Aligned_cols=91  Identities=15%  Similarity=0.083  Sum_probs=61.9

Q ss_pred             ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--CHHHHHHHHHHcCCe
Q 028315           75 GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--TREEGMILAQEHKCL  152 (210)
Q Consensus        75 ~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~  152 (210)
                      ..+.+..+.++|.+++|+|+.+|..-....+.++...+    ..++|.++|+||+|+.+....  ..+.........|.+
T Consensus        77 ~~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~----~~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~  152 (307)
T 1t9h_A           77 NELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVE----ANDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYD  152 (307)
T ss_dssp             CEETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHH----TTTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCC
T ss_pred             hhhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHH----HCCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCe
Confidence            44555678899999999999987644334334544443    467889999999999764320  012223333456889


Q ss_pred             EEEecccCCcCHHHHHH
Q 028315          153 FLECSAKNTEDVKQCFK  169 (210)
Q Consensus       153 ~~~~sa~~~~~i~~l~~  169 (210)
                      ++.+||.++.|++++++
T Consensus       153 v~~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          153 VYLTSSKDQDSLADIIP  169 (307)
T ss_dssp             EEECCHHHHTTCTTTGG
T ss_pred             EEEEecCCCCCHHHHHh
Confidence            99999999888776554

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.35  E-value=2.1e-07  Score=70.60  Aligned_cols=93  Identities=14%  Similarity=0.056  Sum_probs=60.6

Q ss_pred             CCCCccc-ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH
Q 028315           68 TAGQERF-GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA  146 (210)
Q Consensus        68 t~G~~~~-~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~  146 (210)
                      .|||... .......+..+|+++.|+|+.++.+.....      +. .  . ++|.++|+||+|+.+...  .+....+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~------l~-l--l-~k~~iivlNK~DL~~~~~--~~~~~~~~   71 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG------VD-F--S-RKETIILLNKVDIADEKT--TKKWVEFF   71 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT------SC-C--T-TSEEEEEEECGGGSCHHH--HHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH------HH-h--c-CCCcEEEEECccCCCHHH--HHHHHHHH
Confidence            4776533 234556688999999999999987643211      11 1  1 789999999999975321  11222333


Q ss_pred             HHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315          147 QEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus       147 ~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      ...+.++ .+||+++.|++++++.+.+
T Consensus        72 ~~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           72 KKQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             HHTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             HHcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            4457788 9999999999998877644

>2v3c_C SRP54, signal recognition 54 kDa protein; nucleotide-binding, signal recognition particle, GTP-binding, RNA-binding; 2.50A {Methanocaldococcus jannaschii} PDB: 3ndb_B

Probab=98.33  E-value=2.9e-07  Score=74.65  Aligned_cols=84  Identities=21%  Similarity=0.214  Sum_probs=47.8

Q ss_pred             EEEEEEEeCCCCccccc-chh---hh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCC-c-EEEEEeCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTS---SY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC-V-KILVGNKVDR  131 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~---~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-p-~ivv~nK~Dl  131 (210)
                      .+.+.++||||...... +..   ..  +..+|.+++|+|+.....   .. .....+.     ... | ..+|+||.|.
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~-~~~~~~~-----~~~~~i~gvVlnK~D~  250 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AG-IQAKAFK-----EAVGEIGSIIVTKLDG  250 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HH-HHHHHHH-----TTSCSCEEEEEECSSS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HH-HHHHHHh-----hcccCCeEEEEeCCCC
Confidence            45788999999654321 111   11  226899999999876542   22 1112221     234 5 7899999997


Q ss_pred             CCCCccCHHHHHHHHHHcCCeEEEe
Q 028315          132 DSERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      ....    .....+....+.++..+
T Consensus       251 ~~~~----g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          251 SAKG----GGALSAVAETKAPIKFI  271 (432)
T ss_dssp             CSTT----HHHHHHHHHSSCCEEEE
T ss_pred             ccch----HHHHHHHHHHCCCEEEe
Confidence            4321    12334555666665544

>3kl4_A SRP54, signal recognition 54 kDa protein; signal recognition particle, SRP, SRP54, FFH, signal sequenc peptide; 3.50A {Sulfolobus solfataricus} PDB: 1qzx_A 1qzw_A

Probab=98.31  E-value=7.6e-07  Score=72.03  Aligned_cols=87  Identities=16%  Similarity=0.177  Sum_probs=51.7

Q ss_pred             EEEEEEEeCCCCcc--cc-cchh---hh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCC
Q 028315           60 RLKLTIWDTAGQER--FG-TLTS---SY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR  131 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~--~~-~~~~---~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl  131 (210)
                      .+.+.++||||...  .. .+..   ..  ....|.+++|+|+...+........+...        -.+..||+||.|.
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~~a~~f~~~--------~~~~gVIlTKlD~  250 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYDLASRFHQA--------SPIGSVIITKMDG  250 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHHHHHHHHHH--------CSSEEEEEECGGG
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHHHHHHHhcc--------cCCcEEEEecccc
Confidence            45678999999543  11 1111   11  12468999999998764433222122211        1356789999997


Q ss_pred             CCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315          132 DSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       132 ~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ...    .-.+.......+.|+.+++.
T Consensus       251 ~a~----~G~als~~~~~g~Pi~fig~  273 (433)
T 3kl4_A          251 TAK----GGGALSAVVATGATIKFIGT  273 (433)
T ss_dssp             CSC----HHHHHHHHHHHTCEEEEEEC
T ss_pred             ccc----chHHHHHHHHHCCCEEEEEC
Confidence            432    22345555667899887776

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.30  E-value=4.6e-07  Score=76.00  Aligned_cols=63  Identities=17%  Similarity=0.135  Sum_probs=39.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCC-CCCCce-eeEEEEEEE--EE-CCeEEEEEEEeCCCCcc
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVH-DPSPTI-GVDFKIKLL--TV-GGKRLKLTIWDTAGQER   73 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~-~~~~~~-~~~~~~~~~--~~-~~~~~~~~l~Dt~G~~~   73 (210)
                      .+.++|+|+|.||+|||||+|+|++.... ....++ +.+.....+  .+ ...+..+.++||||...
T Consensus        36 ~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~  103 (592)
T 1f5n_A           36 QPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGD  103 (592)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCc
Confidence            56789999999999999999999887642 222111 222211111  11 12335688999999643

>1j8m_F SRP54, signal recognition 54 kDa protein; signaling protein; 2.00A {Acidianus ambivalens} SCOP: a.24.13.1 c.37.1.10 PDB: 1j8y_F

Probab=98.17  E-value=2.2e-06  Score=66.14  Aligned_cols=92  Identities=15%  Similarity=0.161  Sum_probs=55.0

Q ss_pred             EEEEEEEeCCCCcc--cc-cchh-----hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCC
Q 028315           60 RLKLTIWDTAGQER--FG-TLTS-----SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVD  130 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~--~~-~~~~-----~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D  130 (210)
                      .+.+.++||||...  .. .+..     ..+..+|.+++|+|+.....   .... ...+.     ...| ..+|+||.|
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~---~~~~-~~~~~-----~~~~i~gvVlnk~D  250 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQK---AYDL-ASKFN-----QASKIGTIIITKMD  250 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGG---HHHH-HHHHH-----HTCTTEEEEEECGG
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHH---HHHH-HHHHH-----hhCCCCEEEEeCCC
Confidence            45689999999765  21 1221     12457899999999875432   2211 12222     1245 678899999


Q ss_pred             CCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       131 l~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ....    ......+....+.++..++  .|.++++
T Consensus       251 ~~~~----~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          251 GTAK----GGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             GCTT----HHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             CCcc----hHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence            6421    2334556677788887776  4555544

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=98.01  E-value=6.1e-06  Score=69.84  Aligned_cols=22  Identities=45%  Similarity=0.616  Sum_probs=20.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+++|+.|+|||||++.+.+-.
T Consensus        48 iaIvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           48 IAVIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             EECCCCTTSCHHHHHHHHHSCC
T ss_pred             EEEECCCCChHHHHHHHHhCCC
Confidence            8999999999999999998764

>3e70_C DPA, signal recognition particle receptor; FTSY, SRP-GTPase, protein-targeting, transport protein; HET: GDP; 1.97A {Pyrococcus furiosus} PDB: 3dmd_B 3dm9_B*

Probab=98.00  E-value=1.2e-05  Score=62.92  Aligned_cols=91  Identities=12%  Similarity=0.138  Sum_probs=50.8

Q ss_pred             EEEEEeCCCCcccccc-hhhh-----hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           62 KLTIWDTAGQERFGTL-TSSY-----YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~-~~~~-----~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      .+.++||+|....... ....     .-..|-.++++|+..........    ..+...   .+ ...+++||.|.... 
T Consensus       213 d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~~~~~~~----~~~~~~---~~-it~iilTKlD~~a~-  283 (328)
T 3e70_C          213 DVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGNAIVEQA----RQFNEA---VK-IDGIILTKLDADAR-  283 (328)
T ss_dssp             SEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTTHHHHHH----HHHHHH---SC-CCEEEEECGGGCSC-
T ss_pred             hhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHHHHHHHH----HHHHHh---cC-CCEEEEeCcCCccc-
Confidence            4567899996443221 1111     12478899999987664322221    222211   12 33788899996321 


Q ss_pred             ccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          136 AVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       136 ~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                         .-.+.......+.|+..++  +|.++++
T Consensus       284 ---~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          284 ---GGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             ---CHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             ---hhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence               1234556667788888777  5555543

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.87  E-value=2.2e-05  Score=61.97  Aligned_cols=85  Identities=16%  Similarity=0.147  Sum_probs=54.3

Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC-HHHHHHHHHHcCCeEEEeccc
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT-REEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .+.++|.+++|... +|..-....+.|+...+    ..++|.++|+||+|+.+..... .++........|.+++.+||.
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~----~~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~  201 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCE----TLQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSH  201 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHH----HHTCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHH----hcCCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecC
Confidence            35789999988654 56533333334444333    2467789999999997543210 111222234568899999999


Q ss_pred             CCcCHHHHHHH
Q 028315          160 NTEDVKQCFKD  170 (210)
Q Consensus       160 ~~~~i~~l~~~  170 (210)
                      ++.|++++...
T Consensus       202 ~~~gl~~L~~~  212 (358)
T 2rcn_A          202 TQDGLKPLEEA  212 (358)
T ss_dssp             TTBTHHHHHHH
T ss_pred             CCcCHHHHHHh
Confidence            99999987653

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.83  E-value=1.8e-05  Score=64.20  Aligned_cols=26  Identities=15%  Similarity=0.147  Sum_probs=22.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+..-|+|+|++++|||+|+|+|++.
T Consensus        65 ~~v~vVsV~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             SBEEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEEECCCCCcHHHHHHHHhhh
Confidence            45677899999999999999999863

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.74  E-value=6.5e-07  Score=73.53  Aligned_cols=99  Identities=14%  Similarity=0.082  Sum_probs=56.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc--ccch--------hhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF--GTLT--------SSY   81 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~--~~~~--------~~~   81 (210)
                      ...+|+++|.+|+||||+.++|.........++.............+......+||..|.+.+  ...+        ..+
T Consensus        38 ~~~~IvlvGlpGsGKSTia~~La~~l~~~~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~  117 (469)
T 1bif_A           38 CPTLIVMVGLPARGKTYISKKLTRYLNFIGVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKF  117 (469)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHHHhccCCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHH
Confidence            457899999999999999999865433222222221100000000111123457888876322  2222        445


Q ss_pred             hccccEEEEEEeCCCHhhHHHHHHHHHHHHh
Q 028315           82 YRGAHGIILVYDVTRRETFTNLSSVWAKEVE  112 (210)
Q Consensus        82 ~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~  112 (210)
                      +...++.++|+|.++.. .+... .|...+.
T Consensus       118 l~~~~G~~vV~D~tn~~-~~~R~-~~~~~~~  146 (469)
T 1bif_A          118 LSEEGGHVAVFDATNTT-RERRA-MIFNFGE  146 (469)
T ss_dssp             HHTTCCSEEEEESCCCS-HHHHH-HHHHHHH
T ss_pred             HHhCCCCEEEEeCCCCC-HHHHH-HHHHHHH
Confidence            66678889999999873 33333 5655554

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.57  E-value=0.00031  Score=56.93  Aligned_cols=84  Identities=17%  Similarity=0.084  Sum_probs=46.1

Q ss_pred             EEEEEEEeCCCCccccc-chhh-----hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTSS-----YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRD  132 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~~-----~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~  132 (210)
                      .+.+.++||||...... ....     .+..++.+++|+|+.........    ...+..     ..+ .-+|+||.|..
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~~~----~~~f~~-----~l~i~gvVlnK~D~~  253 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAANT----AKAFNE-----ALPLTGVVLTKVDGD  253 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHHHH----HHHHHH-----HSCCCCEEEECTTSS
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHHHH----HHHHhc-----cCCCeEEEEecCCCC
Confidence            45788999999644321 2211     23468999999999865432211    122221     233 24689999974


Q ss_pred             CCCccCHHHHHHHHHHcCCeEEEe
Q 028315          133 SERAVTREEGMILAQEHKCLFLEC  156 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~  156 (210)
                      ...  .  .+..+....+.|+..+
T Consensus       254 ~~~--g--~~l~i~~~~~~Pi~~i  273 (433)
T 2xxa_A          254 ARG--G--AALSIRHITGKPIKFL  273 (433)
T ss_dssp             SCC--T--HHHHHHHHHCCCEEEE
T ss_pred             ccH--H--HHHHHHHHHCCCeEEE
Confidence            322  1  3334555556654333

>1ye8_A Protein THEP1, hypothetical UPF0334 kinase-like protein AQ_1292; mixed alpha-beta protein, rossman fold, signaling protein, transferase; 1.40A {Aquifex aeolicus} SCOP: c.37.1.11

Probab=97.34  E-value=0.00013  Score=51.82  Aligned_cols=23  Identities=30%  Similarity=0.748  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +++++|++|+|||||++.+.+..
T Consensus         2 ~i~l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            2 KIIITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            68999999999999999987643

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.28  E-value=0.001  Score=53.68  Aligned_cols=86  Identities=20%  Similarity=0.171  Sum_probs=47.2

Q ss_pred             EEEEEEEeCCCCccccc-chhh-----hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTSS-----YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~~-----~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+.++||||...... ....     ..-.+|.+++|+|+........   .. ..+...   .+ ..-||+||.|...
T Consensus       180 ~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tgq~av~---~a-~~f~~~---l~-i~GVIlTKlD~~~  251 (425)
T 2ffh_A          180 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALS---VA-RAFDEK---VG-VTGLVLTKLDGDA  251 (425)
T ss_dssp             TCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTTHHHH---HH-HHHHHH---TC-CCEEEEESGGGCS
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccchHHHHH---HH-HHHHhc---CC-ceEEEEeCcCCcc
Confidence            35688999999643321 1111     1225899999999875432221   11 122211   11 2457889998642


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEec
Q 028315          134 ERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      ..    ..+.......+.++.++.
T Consensus       252 ~~----g~alsi~~~~g~PI~flg  271 (425)
T 2ffh_A          252 RG----GAALSARHVTGKPIYFAG  271 (425)
T ss_dssp             SC----HHHHHHHHHHCCCEEEEE
T ss_pred             cH----HHHHHHHHHHCCCEEEEe
Confidence            21    134445566788876665

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.22  E-value=0.00019  Score=50.97  Aligned_cols=22  Identities=36%  Similarity=0.715  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|||||||++.+.+.
T Consensus         7 ~i~i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A            7 TLVLLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5799999999999999999764

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.19  E-value=0.00015  Score=56.01  Aligned_cols=23  Identities=39%  Similarity=0.602  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||||+|.+.+..
T Consensus       175 ~~~lvG~sG~GKSTLln~L~g~~  197 (307)
T 1t9h_A          175 TTVFAGQSGVGKSSLLNAISPEL  197 (307)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC--
T ss_pred             EEEEECCCCCCHHHHHHHhcccc
Confidence            67999999999999999997654

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.17  E-value=0.00023  Score=51.38  Aligned_cols=22  Identities=41%  Similarity=0.693  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++|+|++|+|||||++.+.+.
T Consensus         6 ~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            6 PVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhh
Confidence            5799999999999999998763

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.13  E-value=0.0011  Score=51.22  Aligned_cols=22  Identities=55%  Similarity=0.679  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||||+|.+. ..
T Consensus       167 i~~l~G~sG~GKSTLln~l~-~~  188 (302)
T 2yv5_A          167 ICILAGPSGVGKSSILSRLT-GE  188 (302)
T ss_dssp             EEEEECSTTSSHHHHHHHHH-SC
T ss_pred             EEEEECCCCCCHHHHHHHHH-Hh
Confidence            57899999999999999998 44

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.07  E-value=0.00033  Score=50.51  Aligned_cols=22  Identities=27%  Similarity=0.536  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|||||||++.+.+.
T Consensus         9 ii~l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A            9 LFIISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECcCCCCHHHHHHHHHhh
Confidence            4799999999999999999765

>1zp6_A Hypothetical protein ATU3015; alpha-beta protein., structural genomics, PSI, protein struc initiative; 3.20A {Agrobacterium tumefaciens str} SCOP: c.37.1.25

Probab=97.06  E-value=0.00034  Score=49.90  Aligned_cols=23  Identities=39%  Similarity=0.472  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.++++|++|+|||||++.+.+.
T Consensus        10 ~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           10 NILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHhc
Confidence            45899999999999999999765

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.99  E-value=0.00045  Score=49.87  Aligned_cols=23  Identities=48%  Similarity=0.769  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -|+|+|++|+|||||++.|....
T Consensus        21 ~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           21 TLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            57899999999999999997643

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.98  E-value=0.00043  Score=50.23  Aligned_cols=23  Identities=35%  Similarity=0.494  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        22 i~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           22 VVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47899999999999999987654

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.96  E-value=0.00045  Score=50.66  Aligned_cols=23  Identities=30%  Similarity=0.651  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|+|||||++.+.+..
T Consensus        25 ~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           25 PLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            47999999999999999987744

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.96  E-value=0.00047  Score=50.68  Aligned_cols=23  Identities=30%  Similarity=0.517  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|||||||++.+.+..
T Consensus        18 ii~l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           18 LYIVSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccC
Confidence            57899999999999999997754

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.94  E-value=0.00039  Score=48.91  Aligned_cols=20  Identities=40%  Similarity=0.602  Sum_probs=17.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028315           15 KILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~   34 (210)
                      -++++|++|+|||||++.+.
T Consensus        11 i~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           11 LVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EEEEECCTTSCHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHc
Confidence            47899999999999999753

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.94  E-value=0.0005  Score=49.98  Aligned_cols=23  Identities=35%  Similarity=0.586  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -|+++|++|+|||||++.|....
T Consensus        10 ~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           10 LIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHST
T ss_pred             EEEEECcCCCCHHHHHHHHHhhC
Confidence            47899999999999999997764

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.92  E-value=0.00048  Score=50.04  Aligned_cols=26  Identities=27%  Similarity=0.289  Sum_probs=21.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .....|+|+|++|+|||||++.+.+.
T Consensus        20 ~~g~~v~I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           20 PGRQLVALSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             CSCEEEEEECCTTSCTHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34568999999999999999988654

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.89  E-value=0.00061  Score=48.72  Aligned_cols=21  Identities=43%  Similarity=0.743  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|+|++|||||||+++|+..
T Consensus         4 IVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            689999999999999999754

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.84  E-value=0.0007  Score=47.39  Aligned_cols=22  Identities=41%  Similarity=0.611  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|+++|++|+||||+.+.+...
T Consensus         6 ~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            6 NIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998654

>3kb2_A SPBC2 prophage-derived uncharacterized protein YORR; alpha-beta protein., structural genomics, PSI-2, protein structure initiative; HET: G3D; 2.20A {Bacillus subtilis} SCOP: c.37.1.1 PDB: 2axp_A*

Probab=96.81  E-value=0.00081  Score=46.89  Aligned_cols=22  Identities=27%  Similarity=0.246  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|++.|++||||||+.+.|...
T Consensus         3 ~i~l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            3 LIILEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998543

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.81  E-value=0.00074  Score=48.11  Aligned_cols=21  Identities=33%  Similarity=0.518  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .++++|++|+|||||++.+..
T Consensus         4 ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            4 LYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999999975

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.81  E-value=0.00074  Score=48.83  Aligned_cols=23  Identities=30%  Similarity=0.624  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -|+|+|++|||||||++.|....
T Consensus        14 ~i~l~G~sGsGKsTl~~~L~~~~   36 (204)
T 2qor_A           14 PLVVCGPSGVGKGTLIKKVLSEF   36 (204)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHHC
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            47999999999999999986543

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.80  E-value=0.00074  Score=48.68  Aligned_cols=24  Identities=33%  Similarity=0.596  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.|+++|++||||||+++.+.+..
T Consensus         7 ~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            7 LLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CEEEEECCCCCCHHHHHHHHHHhh
Confidence            368999999999999999997654

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.79  E-value=0.00081  Score=46.76  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus        35 ~v~L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           35 MVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHHHhC
Confidence            57899999999999999987754

>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG, structural genomics, midwest center for structural genomics; HET: AMP; 2.30A {Sulfolobus solfataricus} PDB: 3h0k_A

Probab=96.78  E-value=0.00077  Score=47.00  Aligned_cols=19  Identities=42%  Similarity=0.525  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 028315           15 KILLIGDSGVGKSSILLSL   33 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l   33 (210)
                      .|++.|++||||||+.+.|
T Consensus         3 ~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            3 VILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EEEEECCTTSCHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            5899999999999999999

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.77  E-value=0.00096  Score=46.90  Aligned_cols=22  Identities=41%  Similarity=0.460  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+||||||+.+.|..
T Consensus         3 ~~I~i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            3 KIILTIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEecCCCCCHHHHHHHHHh
Confidence            4689999999999999999976

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=96.77  E-value=0.0008  Score=53.07  Aligned_cols=24  Identities=42%  Similarity=0.571  Sum_probs=21.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++++|++|+|||||++.+.+...
T Consensus       217 ~~~lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          217 ISIFAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EEEEECCTTSSHHHHHHHHHCCSS
T ss_pred             EEEEECCCCccHHHHHHHHhcccc
Confidence            579999999999999999987654

>4ido_A Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HET: GDP; 2.09A {Homo sapiens} PDB: 4idn_A* 3q5d_A* 3q5e_A* 4idq_A* 4idp_A* 3qnu_A* 3qof_A*

Probab=96.77  E-value=0.0025  Score=51.72  Aligned_cols=64  Identities=17%  Similarity=0.241  Sum_probs=40.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh------------------CCCCC----CCCceeeEEEEEEEEE---CCeEEEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS------------------NSVHD----PSPTIGVDFKIKLLTV---GGKRLKLTI   65 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~------------------~~~~~----~~~~~~~~~~~~~~~~---~~~~~~~~l   65 (210)
                      .+..-|+|+|+.++|||+|+|.++.                  ..|..    ...|.|+-.......+   ++..+.+.+
T Consensus        65 ~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vll  144 (457)
T 4ido_A           65 KEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVLL  144 (457)
T ss_dssp             SBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEEE
T ss_pred             CceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEEE
Confidence            4566678999999999999995541                  12222    2234444433222111   566789999


Q ss_pred             EeCCCCccc
Q 028315           66 WDTAGQERF   74 (210)
Q Consensus        66 ~Dt~G~~~~   74 (210)
                      +||.|....
T Consensus       145 lDTEG~~d~  153 (457)
T 4ido_A          145 MDTQGTFDS  153 (457)
T ss_dssp             EEECCBTCT
T ss_pred             EeccCCCCc
Confidence            999995433

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.76  E-value=0.00076  Score=50.11  Aligned_cols=23  Identities=30%  Similarity=0.404  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~iiG~nGsGKSTLl~~l~Gl~   55 (235)
T 3tif_A           33 FVSIMGPSGSGKSTMLNIIGCLD   55 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999886543

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.76  E-value=0.00092  Score=48.46  Aligned_cols=25  Identities=24%  Similarity=0.405  Sum_probs=21.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ....|+++|+.|+|||||++.+.+.
T Consensus         5 ~~~~i~i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A            5 KPFVIGIAGGTASGKTTLAQALART   29 (211)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999988663

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.74  E-value=0.00089  Score=48.24  Aligned_cols=23  Identities=26%  Similarity=0.502  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.|+++|++|+|||||++.+.+.
T Consensus        30 ~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           30 RHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999998653

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.72  E-value=0.00086  Score=47.38  Aligned_cols=25  Identities=20%  Similarity=0.470  Sum_probs=20.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .-.++++|++|+|||||++.+.+..
T Consensus        38 g~~~~l~G~~G~GKTtL~~~i~~~~   62 (180)
T 3ec2_A           38 GKGLTFVGSPGVGKTHLAVATLKAI   62 (180)
T ss_dssp             CCEEEECCSSSSSHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHHH
Confidence            3468999999999999999886543

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.72  E-value=0.00084  Score=48.12  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++++|+.|+|||||++.+.+.
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhh
Confidence            4789999999999999988653

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.72  E-value=0.001  Score=49.61  Aligned_cols=21  Identities=19%  Similarity=0.583  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028315           14 FKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~   34 (210)
                      -.|+++|++|||||||++.+.
T Consensus        28 ~~i~l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           28 LRAVILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999987

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.70  E-value=0.0015  Score=50.62  Aligned_cols=27  Identities=30%  Similarity=0.261  Sum_probs=23.0

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .....-|+|+|++|+|||||++.+.+.
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhh
Confidence            455678999999999999999988664

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.69  E-value=0.00091  Score=49.27  Aligned_cols=23  Identities=39%  Similarity=0.465  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        32 ~~~iiG~nGsGKSTLl~~l~Gl~   54 (224)
T 2pcj_A           32 FVSIIGASGSGKSTLLYILGLLD   54 (224)
T ss_dssp             EEEEEECTTSCHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999986543

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.68  E-value=0.0012  Score=46.38  Aligned_cols=22  Identities=32%  Similarity=0.468  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -.|+++|++|+||||+.+.+..
T Consensus         9 ~~i~l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A            9 HIYVLMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHH
T ss_pred             cEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999998854

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.68  E-value=0.00092  Score=48.65  Aligned_cols=21  Identities=33%  Similarity=0.569  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+|+|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            2 NIVLMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998844

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=96.67  E-value=0.0012  Score=47.53  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -.|+++|++|+||||+.+.+..
T Consensus        26 ~~i~l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           26 VRIFLTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            3789999999999999998864

>3dl0_A Adenylate kinase; phosphotransferase, zinc coordination, ATP-binding, binding, nucleotide biosynthesis, nucleotide-binding, trans; HET: AP5; 1.58A {Bacillus subtilis} PDB: 1p3j_A* 2ori_A* 2eu8_A* 2oo7_A* 2p3s_A* 2qaj_A* 2osb_A* 3dkv_A* 1zin_A* 1zio_A* 1zip_A* 1s3g_A*

Probab=96.66  E-value=0.00095  Score=48.60  Aligned_cols=21  Identities=24%  Similarity=0.479  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+|+|++||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            2 NLVLMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999999854

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.66  E-value=0.0011  Score=49.42  Aligned_cols=23  Identities=30%  Similarity=0.424  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        26 ~~~liG~nGsGKSTLl~~l~Gl~   48 (240)
T 2onk_A           26 YCVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999987653

>1jjv_A Dephospho-COA kinase; P-loop nucleotide-binding fold, structure 2 function project, S2F, structural genomics, transferase; HET: ATP; 2.00A {Haemophilus influenzae} SCOP: c.37.1.1

Probab=96.64  E-value=0.0014  Score=47.34  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +.|+++|++||||||+.+.|..
T Consensus         3 ~~i~l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            3 YIVGLTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999965

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.64  E-value=0.0011  Score=47.68  Aligned_cols=22  Identities=36%  Similarity=0.528  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|+|+|.+|+||||+.+.|...
T Consensus        20 ~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           20 SIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             CEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999988653

>1np6_A Molybdopterin-guanine dinucleotide biosynthesis protein B; mixed alpha-beta fold, elongated beta-sheet, walker A motif, P-loop structural motif; 1.90A {Escherichia coli} SCOP: c.37.1.10 PDB: 1p9n_A

Probab=96.64  E-value=0.0012  Score=46.61  Aligned_cols=22  Identities=32%  Similarity=0.463  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|+|||||++++...
T Consensus         8 ~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            8 LLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHh
Confidence            4789999999999999999764

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.63  E-value=0.0016  Score=46.79  Aligned_cols=24  Identities=25%  Similarity=0.418  Sum_probs=20.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ....|+|.|.+||||||+.+.|..
T Consensus        14 ~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           14 QVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999998864

>2if2_A Dephospho-COA kinase; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative, northeast structural genomics consortium, NESG; 3.00A {Aquifex aeolicus}

Probab=96.62  E-value=0.0013  Score=47.33  Aligned_cols=21  Identities=33%  Similarity=0.501  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+++|.+||||||+.+.|..
T Consensus         3 ~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            3 RIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHH
Confidence            689999999999999999876

>1qhx_A CPT, protein (chloramphenicol phosphotransferase); kinase, antibiotic resistance, phosphorylation, mononucleoti binding fold; HET: ATP; 2.50A {Streptomyces venezuelae} SCOP: c.37.1.3 PDB: 1grr_A* 1grq_A 1qhs_A* 1qhn_A* 1qhy_A*

Probab=96.61  E-value=0.0012  Score=46.42  Aligned_cols=22  Identities=45%  Similarity=0.519  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|++.|++||||||+.+.|...
T Consensus         5 ~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            5 MIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999998653

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.61  E-value=0.0012  Score=49.89  Aligned_cols=23  Identities=39%  Similarity=0.544  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      =.++++|++|+|||||++.+.+.
T Consensus        26 ~~v~i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           26 GLILVTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EEEEEECSTTCSHHHHHHHHHHH
T ss_pred             CEEEEECCCCccHHHHHHHHHHh
Confidence            35899999999999999998653

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.61  E-value=0.0014  Score=46.56  Aligned_cols=21  Identities=33%  Similarity=0.477  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+|.|.+||||||+.+.|..
T Consensus         3 ~I~i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            3 IGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.61  E-value=0.0011  Score=49.97  Aligned_cols=23  Identities=39%  Similarity=0.475  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        34 ~~~liG~nGsGKSTLlk~l~Gl~   56 (262)
T 1b0u_A           34 VISIIGSSGSGKSTFLRCINFLE   56 (262)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999986653

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.60  E-value=0.0012  Score=48.28  Aligned_cols=23  Identities=22%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        37 ~~~iiG~NGsGKSTLlk~l~Gl~   59 (214)
T 1sgw_A           37 VVNFHGPNGIGKTTLLKTISTYL   59 (214)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            36899999999999999986653

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.60  E-value=0.0012  Score=50.31  Aligned_cols=23  Identities=26%  Similarity=0.465  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        36 ~~~iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           36 VTAILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHcCC
Confidence            36899999999999999986644

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.60  E-value=0.0013  Score=48.93  Aligned_cols=23  Identities=35%  Similarity=0.655  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~i~G~nGsGKSTLl~~l~Gl~   55 (237)
T 2cbz_A           33 LVAVVGQVGCGKSSLLSALLAEM   55 (237)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTCS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999986653

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.60  E-value=0.0087  Score=40.64  Aligned_cols=25  Identities=20%  Similarity=0.222  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      ..|++.|++|+|||++.+.+.....
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~~~   49 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQFGR   49 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHSST
T ss_pred             CCEEEECCCCCCHHHHHHHHHHhCC
Confidence            4589999999999999999866543

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.60  E-value=0.0013  Score=50.74  Aligned_cols=23  Identities=35%  Similarity=0.367  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|+|||||++.+.+-.
T Consensus       128 ~vaIvGpsGsGKSTLl~lL~gl~  150 (305)
T 2v9p_A          128 CLAFIGPPNTGKSMLCNSLIHFL  150 (305)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHhhhc
Confidence            68999999999999999987643

>1cke_A CK, MSSA, protein (cytidine monophosphate kinase); nucleotide monophosphate kinase,, transferase; 1.75A {Escherichia coli} SCOP: c.37.1.1 PDB: 1kdo_A* 1kdp_A* 1kdr_A* 1kdt_A* 2cmk_A* 2fem_A 2feo_A*

Probab=96.58  E-value=0.0015  Score=47.89  Aligned_cols=22  Identities=27%  Similarity=0.383  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+|+++|++|+||||+.+.+..
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999998854

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.58  E-value=0.0015  Score=46.87  Aligned_cols=21  Identities=38%  Similarity=0.597  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHH
Confidence            589999999999999998865

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.58  E-value=0.0019  Score=45.81  Aligned_cols=26  Identities=27%  Similarity=0.380  Sum_probs=21.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .....|++.|.+|+||||+.+.+...
T Consensus        11 ~~~~~i~l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           11 EKGIVVWLTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             SCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHH
Confidence            34577999999999999999988543

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.57  E-value=0.0014  Score=48.90  Aligned_cols=23  Identities=39%  Similarity=0.359  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        30 ~~~i~G~nGsGKSTLl~~l~Gl~   52 (243)
T 1mv5_A           30 IIAFAGPSGGGKSTIFSLLERFY   52 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            57899999999999999986653

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.57  E-value=0.0018  Score=45.84  Aligned_cols=23  Identities=22%  Similarity=0.447  Sum_probs=20.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|+++|.+||||||+.+.|..
T Consensus         4 g~~I~l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            4 GQAVIFLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998853

>2qt1_A Nicotinamide riboside kinase 1; non-protein kinase, NAD+, NRK1, nicotinic acid riboside kinase activity, NAD biosynthesis; HET: NNR; 1.32A {Homo sapiens} PDB: 2qsy_A* 2qsz_A* 2qt0_A* 2p0e_A* 2qg6_A* 2ql6_A*

Probab=96.57  E-value=0.0019  Score=46.72  Aligned_cols=26  Identities=23%  Similarity=0.342  Sum_probs=22.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .....|+++|.+|+||||+.+.+...
T Consensus        19 ~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           19 SKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            44577999999999999999998664

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.56  E-value=0.0014  Score=49.04  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        37 ~~~i~G~nGsGKSTLl~~l~Gl~   59 (247)
T 2ff7_A           37 VIGIVGRSGSGKSTLTKLIQRFY   59 (247)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999986653

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.55  E-value=0.0013  Score=49.53  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           35 VTLIIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999986654

>2cdn_A Adenylate kinase; phosphoryl transfer, associative mechanism, ATP-binding, nucleotide biosynthesis, nucleotide-binding, transferase; HET: ADP; 1.9A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1p4s_A

Probab=96.55  E-value=0.0013  Score=47.27  Aligned_cols=25  Identities=28%  Similarity=0.575  Sum_probs=21.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .....|+|.|.+|+||||+.+.|..
T Consensus        18 ~~~~~I~l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           18 GSHMRVLLLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             CSCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999998854

>3tlx_A Adenylate kinase 2; structural genomics, structural genomics consortium, SGC, RO fold, transferase, ATP binding, phosphorylation; HET: ADP ATP AMP; 2.75A {Plasmodium falciparum}

Probab=96.55  E-value=0.0016  Score=48.54  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...+|+++|++||||||+.++|..
T Consensus        28 ~~~~I~l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           28 PDGRYIFLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999999854

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.54  E-value=0.0013  Score=49.82  Aligned_cols=23  Identities=35%  Similarity=0.538  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        39 ~~~liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           39 MVAIIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EEEEECCTTSCHHHHHHHHTSSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            46899999999999999997653

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.53  E-value=0.0015  Score=48.21  Aligned_cols=23  Identities=26%  Similarity=0.609  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        36 ~~~i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           36 LLAVAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            46899999999999999986653

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.53  E-value=0.0016  Score=46.13  Aligned_cols=22  Identities=41%  Similarity=0.487  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+|+++|++|+||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A            6 TNIYLIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            3689999999999999998854

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=96.53  E-value=0.0016  Score=50.14  Aligned_cols=24  Identities=38%  Similarity=0.386  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++++|++|+|||||++.+.+...
T Consensus       171 iv~l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          171 ISTMAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCC
T ss_pred             eEEEECCCCCcHHHHHHHhccccc
Confidence            578999999999999999976544

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.52  E-value=0.0014  Score=49.52  Aligned_cols=23  Identities=39%  Similarity=0.514  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        52 i~~liG~NGsGKSTLlk~l~Gl~   74 (263)
T 2olj_A           52 VVVVIGPSGSGKSTFLRCLNLLE   74 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEEcCCCCcHHHHHHHHHcCC
Confidence            46899999999999999986653

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.52  E-value=0.0015  Score=46.99  Aligned_cols=24  Identities=33%  Similarity=0.372  Sum_probs=20.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .-.|+++|++|+||||+.+.+.+.
T Consensus        25 g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           25 GCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999988554

>2rhm_A Putative kinase; P-loop containing nucleoside triphosphate hydrolases fold, S genomics, joint center for structural genomics, JCSG; HET: MSE; 1.70A {Chloroflexus aurantiacus}

Probab=96.51  E-value=0.0017  Score=46.22  Aligned_cols=22  Identities=23%  Similarity=0.443  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+|+||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            6 ALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5789999999999999999854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.51  E-value=0.0012  Score=47.98  Aligned_cols=22  Identities=18%  Similarity=0.391  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        24 ~~~liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           24 IVFGLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EEEEECCTTSSTTHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhcC
Confidence            4789999999999999999775

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.51  E-value=0.0015  Score=49.21  Aligned_cols=23  Identities=30%  Similarity=0.377  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        43 i~~l~G~NGsGKSTLlk~l~Gl~   65 (256)
T 1vpl_A           43 IFGLIGPNGAGKTTTLRIISTLI   65 (256)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            47899999999999999986653

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.50  E-value=0.0015  Score=48.71  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        34 ~~~l~G~nGsGKSTLl~~l~Gl~   56 (240)
T 1ji0_A           34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999986653

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.49  E-value=0.0016  Score=47.71  Aligned_cols=22  Identities=23%  Similarity=0.336  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|+|||||++.+.+.
T Consensus        27 ~~~l~G~nGsGKSTll~~l~g~   48 (231)
T 4a74_A           27 ITEVFGEFGSGKTQLAHTLAVM   48 (231)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999999764

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.49  E-value=0.0016  Score=48.83  Aligned_cols=22  Identities=32%  Similarity=0.436  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        31 ~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           31 VHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999775

>1kht_A Adenylate kinase; phosphotransferase, signaling protein, transferase; HET: AMP; 2.50A {Methanococcus voltae} SCOP: c.37.1.1 PDB: 3h86_B* 1ki9_A

Probab=96.49  E-value=0.0017  Score=45.99  Aligned_cols=22  Identities=18%  Similarity=0.291  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+|.|.+||||||+.+.|..
T Consensus         4 ~~I~i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            4 KVVVVTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998854

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.49  E-value=0.00091  Score=49.32  Aligned_cols=22  Identities=27%  Similarity=0.495  Sum_probs=14.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHh-hC
Q 028315           15 KILLIGDSGVGKSSILLSLI-SN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~-~~   36 (210)
                      -++++|+.|||||||++.+. +.
T Consensus        29 ii~l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           29 ILVLSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EEEEECSCC----CHHHHHHC--
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58999999999999999997 54

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.49  E-value=0.0016  Score=49.04  Aligned_cols=22  Identities=36%  Similarity=0.472  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        48 ~~~i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           48 TCALVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHhcc
Confidence            5789999999999999999764

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.48  E-value=0.0019  Score=45.86  Aligned_cols=23  Identities=17%  Similarity=0.540  Sum_probs=19.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|++.|.+||||||+.+.|..
T Consensus         3 ~~~I~l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            3 PLVVFVLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999998854

>3iij_A Coilin-interacting nuclear ATPase protein; alpha and beta proteins (A/B), protein binding, transferase, phosphotransferase; HET: ADP; 1.76A {Homo sapiens} SCOP: c.37.1.1 PDB: 3iik_A 3iil_A* 3iim_A* 1rkb_A

Probab=96.48  E-value=0.0013  Score=46.37  Aligned_cols=23  Identities=43%  Similarity=0.551  Sum_probs=20.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|+++|.+|+||||+.+.+..
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHHH
Confidence            45689999999999999998853

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.48  E-value=0.0017  Score=48.59  Aligned_cols=23  Identities=30%  Similarity=0.580  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        28 ~~~liG~NGsGKSTLlk~l~Gl~   50 (249)
T 2qi9_C           28 ILHLVGPNGAGKSTLLARMAGMT   50 (249)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999986653

>3sr0_A Adenylate kinase; phosphoryl transfer analogue, ALF4, transferase (phosphotran phosphoryl transfer, nucleotide-binding; HET: ADP AMP; 1.56A {Aquifex aeolicus} PDB: 2rh5_A 2rgx_A*

Probab=96.47  E-value=0.0019  Score=46.92  Aligned_cols=21  Identities=24%  Similarity=0.476  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+|+|+|||||+|...++..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.46  E-value=0.0019  Score=48.87  Aligned_cols=22  Identities=27%  Similarity=0.471  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        48 ~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           48 VHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCC
Confidence            4789999999999999999775

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.45  E-value=0.0018  Score=49.35  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        49 ~~~liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           49 KWILYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999986654

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=96.44  E-value=0.00099  Score=46.97  Aligned_cols=23  Identities=17%  Similarity=0.437  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|+|||||++.+.+..
T Consensus         4 ~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            4 ILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             EEEEEESCHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHh
Confidence            57999999999999999986643

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.44  E-value=0.0018  Score=49.13  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        47 ~~~i~G~nGsGKSTLlk~l~Gl~   69 (271)
T 2ixe_A           47 VTALVGPNGSGKSTVAALLQNLY   69 (271)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            46899999999999999986653

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=96.43  E-value=0.002  Score=47.99  Aligned_cols=24  Identities=25%  Similarity=0.400  Sum_probs=21.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ....|+++|+.|+|||||++.+.+
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446799999999999999998866

>1e4v_A Adenylate kinase; transferase(phosphotransferase); HET: AP5; 1.85A {Escherichia coli} SCOP: c.37.1.1 g.41.2.1 PDB: 1e4y_A* 1ake_A* 1ank_A* 2eck_A* 3hpq_A* 4ake_A 3hpr_A*

Probab=96.42  E-value=0.0021  Score=46.77  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            2 RIILLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.41  E-value=0.0018  Score=48.64  Aligned_cols=23  Identities=30%  Similarity=0.544  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           33 ILAVLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EEEEECCSSSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            47899999999999999986654

>1y63_A LMAJ004144AAA protein; structural genomics, protein structure initiative, PSI, SGPP structural genomics of pathogenic protozoa consortium; HET: ADP; 1.70A {Leishmania major} SCOP: c.37.1.1

Probab=96.41  E-value=0.0021  Score=45.65  Aligned_cols=24  Identities=29%  Similarity=0.565  Sum_probs=20.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..+|+++|.+|+||||+.+.|...
T Consensus        10 ~~~I~l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           10 GINILITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             SCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            357999999999999999988654

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.39  E-value=0.0018  Score=48.96  Aligned_cols=23  Identities=30%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        35 ~~~liG~nGsGKSTLl~~i~Gl~   57 (266)
T 2yz2_A           35 CLLVAGNTGSGKSTLLQIVAGLI   57 (266)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            47899999999999999986653

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.39  E-value=0.0023  Score=44.99  Aligned_cols=23  Identities=39%  Similarity=0.640  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        44 ~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           44 NNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35799999999999999988654

>1ak2_A Adenylate kinase isoenzyme-2; nucleoside monophosphate kinase, phosphotransferase; 1.92A {Bos taurus} SCOP: c.37.1.1 g.41.2.1 PDB: 2ak2_A 2c9y_A*

Probab=96.39  E-value=0.0019  Score=47.73  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=20.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...+|+|+|.+|+||||+.+.|..
T Consensus        15 ~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           15 KGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999998854

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.38  E-value=0.0019  Score=45.35  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+++|++|+||||+.+.|..
T Consensus         6 ~i~i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.38  E-value=0.0024  Score=46.03  Aligned_cols=22  Identities=36%  Similarity=0.291  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+|.|.+||||||+.+.|..
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999865

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.36  E-value=0.0021  Score=48.87  Aligned_cols=21  Identities=29%  Similarity=0.569  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++|++|+|||+|++.+.+.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            899999999999999999764

>1lw7_A Transcriptional regulator NADR; NMN, NMN adenylyl transferase, ribosylnicotinamide KINA transferase; HET: NAD; 2.90A {Haemophilus influenzae} SCOP: c.26.1.3 c.37.1.1

Probab=96.35  E-value=0.0024  Score=50.57  Aligned_cols=25  Identities=20%  Similarity=0.317  Sum_probs=22.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .-+++|+|++|+|||||++.+.+..
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~  194 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVF  194 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHT
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHh
Confidence            5689999999999999999987653

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=96.35  E-value=0.0033  Score=48.88  Aligned_cols=25  Identities=28%  Similarity=0.335  Sum_probs=21.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..++-|+|+|++|||||||++.+.+
T Consensus        90 ~~p~iigI~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           90 KVPYIIGIAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998854

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.35  E-value=0.0023  Score=48.36  Aligned_cols=23  Identities=26%  Similarity=0.608  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        32 ~~~i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           32 KVIILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57899999999999999997654

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.34  E-value=0.0018  Score=47.55  Aligned_cols=22  Identities=18%  Similarity=0.567  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+|.|.+||||||+.+.|..
T Consensus         8 ~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            8 LRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998853

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.34  E-value=0.0025  Score=44.27  Aligned_cols=21  Identities=38%  Similarity=0.357  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            2 RIYLIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EEEEESCTTSCHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998855

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.32  E-value=0.0017  Score=44.57  Aligned_cols=23  Identities=30%  Similarity=0.585  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||+|++.+.+..
T Consensus        38 ~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           38 FIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             EEEEESSSTTTTCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHHH
Confidence            57899999999999999987643

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.30  E-value=0.0062  Score=41.29  Aligned_cols=22  Identities=14%  Similarity=0.238  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|++|+|||++.+.+..
T Consensus        28 ~~vll~G~~GtGKt~lA~~i~~   49 (143)
T 3co5_A           28 SPVFLTGEAGSPFETVARYFHK   49 (143)
T ss_dssp             SCEEEEEETTCCHHHHHGGGCC
T ss_pred             CcEEEECCCCccHHHHHHHHHH
Confidence            3589999999999999988743

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.30  E-value=0.0024  Score=48.87  Aligned_cols=24  Identities=29%  Similarity=0.432  Sum_probs=21.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ....|++.|++||||||+.+.|..
T Consensus        32 ~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           32 SPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456799999999999999999964

>1ixz_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 2.20A {Thermus thermophilus} SCOP: c.37.1.20 PDB: 1iy0_A* 1iy1_A*

Probab=96.30  E-value=0.0024  Score=47.67  Aligned_cols=22  Identities=32%  Similarity=0.690  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++++|++|+|||||++.+.+..
T Consensus        52 ~ll~G~~G~GKTtl~~~i~~~~   73 (254)
T 1ixz_A           52 VLLVGPPGVGKTHLARAVAGEA   73 (254)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCCCCHHHHHHHHHHHh
Confidence            8999999999999999997643

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.30  E-value=0.0033  Score=46.02  Aligned_cols=21  Identities=29%  Similarity=0.548  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|+++|+|||||+|...+|..
T Consensus        31 iI~llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           31 VIFVLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EEEEECCTTCCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            367789999999999988854

>1aky_A Adenylate kinase; ATP:AMP phosphotransferase, myokinase, transferase (phosphotransferase); HET: AP5; 1.63A {Saccharomyces cerevisiae} SCOP: c.37.1.1 g.41.2.1 PDB: 2aky_A* 3aky_A* 1dvr_A*

Probab=96.30  E-value=0.0028  Score=46.29  Aligned_cols=22  Identities=32%  Similarity=0.584  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+|+|+|.+||||||+.+.|..
T Consensus         5 ~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            5 IRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>3jvv_A Twitching mobility protein; hexameric P-loop ATPase, secretion ATPase, ATP-binding, FIMB nucleotide-binding, transport; HET: ACP CIT; 2.60A {Pseudomonas aeruginosa} PDB: 3jvu_A*

Probab=96.30  E-value=0.0025  Score=50.30  Aligned_cols=22  Identities=32%  Similarity=0.617  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++|+|++|+|||||++.+.+.
T Consensus       125 ~i~I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          125 LVLVTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHhc
Confidence            7899999999999999988653

>1xjc_A MOBB protein homolog; structural genomics, midwest center for structural GEN PSI, protein structure initiative, MCSG; 2.10A {Geobacillus stearothermophilus} SCOP: c.37.1.10

Probab=96.29  E-value=0.0027  Score=44.57  Aligned_cols=22  Identities=14%  Similarity=0.308  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|.+|+|||||+.++...
T Consensus         6 ~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            6 VWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5789999999999999998653

>1sq5_A Pantothenate kinase; P-loop, transferase; HET: PAU ADP; 2.20A {Escherichia coli} SCOP: c.37.1.6 PDB: 1esm_A* 1esn_A*

Probab=96.29  E-value=0.003  Score=48.78  Aligned_cols=26  Identities=27%  Similarity=0.322  Sum_probs=22.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .....|+|+|+.|+|||||++.+.+.
T Consensus        78 ~~g~iigI~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           78 RIPYIISIAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             CCCEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            34467999999999999999988663

>2f6r_A COA synthase, bifunctional coenzyme A synthase; 18044849, bifunctional coenzyme A synthase (COA synthase), S genomics; HET: ACO UNL; 1.70A {Mus musculus}

Probab=96.28  E-value=0.004  Score=47.41  Aligned_cols=24  Identities=38%  Similarity=0.368  Sum_probs=21.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      ...+.|+|.|.+||||||+.+.|.
T Consensus        73 ~~~~iI~I~G~~GSGKSTva~~La   96 (281)
T 2f6r_A           73 SGLYVLGLTGISGSGKSSVAQRLK   96 (281)
T ss_dssp             TTCEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHH
Confidence            346789999999999999999886

>1uj2_A Uridine-cytidine kinase 2; alpha/beta mononucleotide-binding HOLD, transferase; HET: C5P ADP; 1.80A {Homo sapiens} SCOP: c.37.1.6 PDB: 1uei_A* 1uej_A* 1udw_A 1ufq_A* 1xrj_A*

Probab=96.28  E-value=0.0026  Score=47.57  Aligned_cols=25  Identities=28%  Similarity=0.412  Sum_probs=21.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...+.|+|.|.+||||||+.+.|..
T Consensus        20 ~~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           20 GEPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCCCHHHHHHHHHH
Confidence            4567899999999999999998854

>3nh6_A ATP-binding cassette SUB-family B member 6, mitoc; ABC-transporter, ABCB6, nucleotide binding domain, heme BIOS transport protein; 2.00A {Homo sapiens} PDB: 3nh9_A* 3nha_A* 3nhb_A*

Probab=96.27  E-value=0.0017  Score=50.15  Aligned_cols=23  Identities=43%  Similarity=0.589  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        82 ~vaivG~sGsGKSTLl~ll~gl~  104 (306)
T 3nh6_A           82 TLALVGPSGAGKSTILRLLFRFY  104 (306)
T ss_dssp             EEEEESSSCHHHHHHHHHHTTSS
T ss_pred             EEEEECCCCchHHHHHHHHHcCC
Confidence            57999999999999999886543

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=96.26  E-value=0.003  Score=45.54  Aligned_cols=25  Identities=20%  Similarity=0.135  Sum_probs=21.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .....|+++|.+|+|||||++.+.+
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.24  E-value=0.0025  Score=46.78  Aligned_cols=21  Identities=29%  Similarity=0.406  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+|.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            2 NILIFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>1odf_A YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser2 intergenic region; yeast protein, ATP binding protein; 2.25A {Saccharomyces cerevisiae} SCOP: c.37.1.6

Probab=96.23  E-value=0.0033  Score=48.14  Aligned_cols=25  Identities=24%  Similarity=0.394  Sum_probs=21.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .....|+|.|++|+|||||.+.+..
T Consensus        29 ~~~~ii~I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           29 KCPLFIFFSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999988743

>3fvq_A Fe(3+) IONS import ATP-binding protein FBPC; nucleotide binding domain, ABC motor domain, ferric iron TRA ATP-binding, cell inner membrane; HET: ATP; 1.90A {Neisseria gonorrhoeae}

Probab=96.23  E-value=0.0025  Score=50.23  Aligned_cols=24  Identities=33%  Similarity=0.574  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      -++++|+.|+|||||++.+.+-..
T Consensus        32 ~~~llGpsGsGKSTLLr~iaGl~~   55 (359)
T 3fvq_A           32 ILFIIGASGCGKTTLLRCLAGFEQ   55 (359)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCchHHHHHHHHhcCCC
Confidence            368999999999999999976543

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.22  E-value=0.0024  Score=47.86  Aligned_cols=25  Identities=36%  Similarity=0.411  Sum_probs=21.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .....|+++|++|+||||+.+.+..
T Consensus        30 ~~~~~i~l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           30 KQPIAILLGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             SSCEEEEEESCGGGTTHHHHHHHHH
T ss_pred             cCCeEEEEECCCCCCHHHHHHHHHH
Confidence            4457899999999999999999854

>1rj9_A FTSY, signal recognition protein; SRP-GTPase domain, heterodimer, nucleotide twinning, protein complex, protein transport; HET: GCP; 1.90A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 2q9c_A* 2q9b_A* 2q9a_A* 1okk_D* 2xkv_D 2iyl_D* 2cnw_D* 2j7p_D*

Probab=96.22  E-value=0.0027  Score=48.98  Aligned_cols=85  Identities=15%  Similarity=0.114  Sum_probs=46.0

Q ss_pred             EEEEEeCCCCccccc-c-----------hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCC
Q 028315           62 KLTIWDTAGQERFGT-L-----------TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV  129 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~-~-----------~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~  129 (210)
                      .+.++||+|...... .           .+......+.+++++|+............+....       + ..++++||.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~~~~~~~~~~~~-------~-~t~iivTh~  257 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAV-------G-LTGVIVTKL  257 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHH-------C-CSEEEEECT
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHHHHHHHHHHHHc-------C-CcEEEEECC
Confidence            456789999533211 1           1112345788899999887654332221111111       2 247889999


Q ss_pred             CCCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315          130 DRDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       130 Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      |.....    -.+.......+.|+.++..
T Consensus       258 d~~a~g----g~~l~i~~~~~~pi~~ig~  282 (304)
T 1rj9_A          258 DGTAKG----GVLIPIVRTLKVPIKFVGV  282 (304)
T ss_dssp             TSSCCC----TTHHHHHHHHCCCEEEEEC
T ss_pred             cccccc----cHHHHHHHHHCCCeEEEeC
Confidence            864221    1234555667888766653

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.21  E-value=0.0025  Score=46.51  Aligned_cols=23  Identities=26%  Similarity=0.439  Sum_probs=20.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..+|+|+|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            5 KHNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999998854

>2v54_A DTMP kinase, thymidylate kinase; nucleotide biosynthesis, ATP-binding, nucleotide-binding, poxvirus, transferase; HET: TYD POP; 2.4A {Vaccinia virus copenhagen} PDB: 2w0s_A*

Probab=96.21  E-value=0.0035  Score=44.97  Aligned_cols=24  Identities=17%  Similarity=0.271  Sum_probs=21.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ..|++.|.+||||||+.+.|....
T Consensus         5 ~~I~l~G~~GsGKsT~~~~L~~~l   28 (204)
T 2v54_A            5 ALIVFEGLDKSGKTTQCMNIMESI   28 (204)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTS
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHHH
Confidence            568999999999999999996653

>1uf9_A TT1252 protein; P-loop, nucleotide binding domain, structural genomics, riken structural genomics/proteomics initiative, RSGI; HET: ATP; 2.80A {Thermus thermophilus} SCOP: c.37.1.1

Probab=96.21  E-value=0.0034  Score=44.94  Aligned_cols=25  Identities=32%  Similarity=0.319  Sum_probs=21.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +...|+|+|.+||||||+.+.|...
T Consensus         7 ~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            7 HPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHC
Confidence            3478999999999999999998765

>3tui_C Methionine import ATP-binding protein METN; ABC-transporter, type I ABC type importer, methionine uptake transporter, membrane protein; HET: ADP; 2.90A {Escherichia coli} PDB: 3tuj_C 3tuz_C* 3dhw_C

Probab=96.20  E-value=0.0028  Score=50.08  Aligned_cols=23  Identities=30%  Similarity=0.362  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        56 i~~IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           56 IYGVIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHhcCC
Confidence            36899999999999999986654

>2bbs_A Cystic fibrosis transmembrane conductance regulator; ATP binding cassette, transport protein; HET: ATP; 2.05A {Homo sapiens} PDB: 2bbt_A* 1xmi_A* 1xmj_A* 2bbo_A* 3si7_A* 1r0w_A 1q3h_A 1r0x_A* 1r0y_A* 1r0z_A* 1r10_A* 1xf9_A* 1xfa_A*

Probab=96.20  E-value=0.0029  Score=48.49  Aligned_cols=22  Identities=27%  Similarity=0.668  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        66 ~~~i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           66 LLAVAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHhcC
Confidence            4789999999999999998664

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.19  E-value=0.0029  Score=45.66  Aligned_cols=23  Identities=26%  Similarity=0.185  Sum_probs=20.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|+|.|.+||||||+.+.|..
T Consensus        10 ~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           10 GKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHH
Confidence            35799999999999999998854

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.18  E-value=0.003  Score=47.32  Aligned_cols=21  Identities=19%  Similarity=0.390  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+|+|++|+|||||...|..
T Consensus         3 li~I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHh
Confidence            478999999999999999854

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.18  E-value=0.0032  Score=44.81  Aligned_cols=22  Identities=23%  Similarity=0.457  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+||||||+.+.|..
T Consensus        10 ~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           10 NIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998853

>2ewv_A Twitching motility protein PILT; pilus retraction motor, ATPase, hexameric PILT, protein TRAN; HET: ADP; 2.80A {Aquifex aeolicus} PDB: 2eww_A* 2gsz_A*

Probab=96.16  E-value=0.0031  Score=50.06  Aligned_cols=23  Identities=39%  Similarity=0.544  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      =.++++|++|+|||||++.+.+.
T Consensus       137 ~~i~ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          137 GLILVTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHhh
Confidence            36899999999999999998653

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=96.16  E-value=0.0031  Score=48.64  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..--++++|+.|+||||+++.+.+
T Consensus        99 ~g~vi~lvG~nGsGKTTll~~Lag  122 (302)
T 3b9q_A           99 KPAVIMIVGVNGGGKTTSLGKLAH  122 (302)
T ss_dssp             SCEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHH
Confidence            345689999999999999999854

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.16  E-value=0.0036  Score=44.67  Aligned_cols=22  Identities=32%  Similarity=0.501  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+|+||||+.+.|..
T Consensus        13 ~~I~l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           13 KIIFIIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            5799999999999999998854

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.15  E-value=0.0034  Score=44.56  Aligned_cols=21  Identities=29%  Similarity=0.321  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|++.|.+||||||+.+.|..
T Consensus         2 ~I~l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            2 LIAFEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998865

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=96.15  E-value=0.0031  Score=49.74  Aligned_cols=23  Identities=35%  Similarity=0.492  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        43 ~~~llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           43 MVGLLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            36899999999999999987654

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.14  E-value=0.0036  Score=43.52  Aligned_cols=21  Identities=43%  Similarity=0.498  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|++.|.+||||||+.+.|..
T Consensus         9 ~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            9 HLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=96.13  E-value=0.0027  Score=44.52  Aligned_cols=23  Identities=39%  Similarity=0.644  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        44 ~~vll~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           44 NNPILLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             CEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHH
Confidence            35799999999999999988654

>1gtv_A TMK, thymidylate kinase; transferase, transferase (ATP:TMP phosphotransferase); HET: TYD TMP; 1.55A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1g3u_A* 1gsi_A* 1mrn_A* 1mrs_A* 1n5i_A* 1n5j_A* 1n5k_A* 1n5l_A* 1w2g_A* 1w2h_A*

Probab=96.12  E-value=0.0014  Score=47.50  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|+|.|.+||||||+++.|..
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999999854

>2yyz_A Sugar ABC transporter, ATP-binding protein; sugar transport, alpha and beta proteins (A/B) TM0421, structural genomics, NPPSFA; 2.11A {Thermotoga maritima}

Probab=96.11  E-value=0.0032  Score=49.68  Aligned_cols=23  Identities=39%  Similarity=0.548  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (359)
T 2yyz_A           31 FVALLGPSGCGKTTTLLMLAGIY   53 (359)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHCCC
Confidence            36899999999999999987654

>2pt7_A CAG-ALFA; ATPase, protein-protein complex, type IV secretion, hydrolas binding complex; 2.40A {Helicobacter pylori} SCOP: c.37.1.11 PDB: 1nly_A* 1nlz_A 1opx_A* 1g6o_A

Probab=96.11  E-value=0.0031  Score=49.23  Aligned_cols=23  Identities=22%  Similarity=0.534  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||||++.+.+-.
T Consensus       173 ~v~i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          173 NVIVCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             CEEEEESTTSCHHHHHHHGGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            68999999999999999987654

>1in4_A RUVB, holliday junction DNA helicase RUVB; AAA+-class ATPase, winged-helix domain, ATP hydrolysis, walker A, walker B, sensor 1, sensor 2; HET: ADP; 1.60A {Thermotoga maritima} SCOP: a.4.5.11 c.37.1.20 PDB: 1in5_A* 1in6_A* 1in8_A* 1in7_A* 1j7k_A*

Probab=96.11  E-value=0.0033  Score=49.12  Aligned_cols=23  Identities=30%  Similarity=0.570  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||||++.+.+..
T Consensus        53 ~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           53 HVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHHh
Confidence            47999999999999999987643

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=96.10  E-value=0.0031  Score=49.87  Aligned_cols=23  Identities=26%  Similarity=0.648  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|++|+|||||++.+.+..
T Consensus       177 ~i~ivG~sGsGKSTll~~l~~~~  199 (361)
T 2gza_A          177 VIVVAGETGSGKTTLMKALMQEI  199 (361)
T ss_dssp             CEEEEESSSSCHHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            68999999999999999997643

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=96.10  E-value=0.0034  Score=49.64  Aligned_cols=23  Identities=35%  Similarity=0.551  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           31 FMALLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCchHHHHHHHHhcCC
Confidence            36899999999999999987654

>3rlf_A Maltose/maltodextrin import ATP-binding protein M; integral membrane protein, ATPase, ABC transporter, membrane transmembrane; HET: UMQ MAL PGV ANP; 2.20A {Escherichia coli} PDB: 1q1e_A 1q12_A* 2awo_A* 3fh6_A 3puv_A* 3puw_A* 3pux_A* 3puy_A* 3puz_A* 3pv0_A* 2awn_A* 2r6g_A* 1q1b_A

Probab=96.10  E-value=0.0034  Score=49.93  Aligned_cols=23  Identities=30%  Similarity=0.547  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        31 ~~~llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           31 FVVFVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEEcCCCchHHHHHHHHHcCC
Confidence            36899999999999999997654

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.09  E-value=0.0035  Score=45.79  Aligned_cols=22  Identities=18%  Similarity=0.363  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+|+|++||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            6 LKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             CCEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999998854

>1e6c_A Shikimate kinase; phosphoryl transfer, ADP, shikimate pathway, P-loop protein, transferase; 1.8A {Erwinia chrysanthemi} SCOP: c.37.1.2 PDB: 1shk_A 2shk_A*

Probab=96.09  E-value=0.0036  Score=43.64  Aligned_cols=21  Identities=24%  Similarity=0.507  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|++.|.+||||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            4 PIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CEEEESCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>1vht_A Dephospho-COA kinase; structural genomics, transferase; HET: BA3; 1.59A {Escherichia coli} SCOP: c.37.1.1 PDB: 1vhl_A* 1viy_A 1t3h_A 1n3b_A

Probab=96.09  E-value=0.0039  Score=45.40  Aligned_cols=23  Identities=26%  Similarity=0.491  Sum_probs=20.5

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+.|+|.|.+||||||+.+.|..
T Consensus         4 ~~~I~i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            4 RYIVALTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            36799999999999999999865

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.08  E-value=0.0036  Score=47.44  Aligned_cols=22  Identities=32%  Similarity=0.690  Sum_probs=19.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++++|++|+|||||++.+.+..
T Consensus        76 vll~Gp~GtGKTtl~~~i~~~~   97 (278)
T 1iy2_A           76 VLLVGPPGVGKTHLARAVAGEA   97 (278)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEECCCcChHHHHHHHHHHHc
Confidence            8999999999999999987643

>1qf9_A UMP/CMP kinase, protein (uridylmonophosphate/cytidylmonophosphate kinase); nucleoside monophosphate kinase, NMP kinase; HET: ADP C5P; 1.70A {Dictyostelium discoideum} SCOP: c.37.1.1 PDB: 1uke_A* 2ukd_A* 3ukd_A* 4ukd_A* 5ukd_A*

Probab=96.07  E-value=0.0042  Score=43.97  Aligned_cols=22  Identities=18%  Similarity=0.475  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+||||||+.+.|..
T Consensus         7 ~~I~l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A            7 NVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998854

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.06  E-value=0.0038  Score=45.62  Aligned_cols=22  Identities=36%  Similarity=0.596  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|+|||||+..+...
T Consensus        25 ~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           25 FIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            4788999999999999998743

>1nn5_A Similar to deoxythymidylate kinase (thymidylate K; P-loop, D4TMP, transferase; HET: 2DT ANP; 1.50A {Homo sapiens} SCOP: c.37.1.1 PDB: 1e2e_A* 1e2d_A* 1e2g_A* 1e2q_A* 1e99_A* 1e9a_A* 1e9b_A* 1nmx_A* 1nmz_A* 1nn0_A* 1nn1_A* 1e2f_A* 1nn3_A* 2xx3_A* 1e9c_A* 1e9d_A* 1e9e_A* 1e98_A* 1nmy_A* 1e9f_A*

Probab=96.05  E-value=0.0039  Score=45.07  Aligned_cols=23  Identities=30%  Similarity=0.307  Sum_probs=20.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|+|.|.+||||||+.+.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A            9 GALIVLEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>1v43_A Sugar-binding transport ATP-binding protein; ATPase, active transport, sugar uptake and regulation, transport protein; 2.20A {Pyrococcus horikoshii} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 1vci_A*

Probab=96.05  E-value=0.0037  Score=49.60  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        39 ~~~llGpnGsGKSTLLr~iaGl~   61 (372)
T 1v43_A           39 FLVLLGPSGCGKTTTLRMIAGLE   61 (372)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            46899999999999999987653

>1g29_1 MALK, maltose transport protein MALK; ATPase, active transport, maltose uptake and regulation, sugar binding protein; 1.90A {Thermococcus litoralis} SCOP: b.40.6.3 b.40.6.3 c.37.1.12 PDB: 2d62_A

Probab=96.05  E-value=0.0036  Score=49.68  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        31 ~~~llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           31 FMILLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCcHHHHHHHHHHcCC
Confidence            36899999999999999987654

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=96.05  E-value=0.004  Score=46.60  Aligned_cols=21  Identities=33%  Similarity=0.401  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028315           14 FKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~   34 (210)
                      ..|+|+|++|+||||+.+.+.
T Consensus        28 ~~I~I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           28 PVITVDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             CEEEEECCTTSSHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHH
Confidence            479999999999999999886

>3a4m_A L-seryl-tRNA(SEC) kinase; P-loop motif, walker A motif, ATP binding motif, ATP- binding, nucleotide-binding, transferase; HET: ADP; 1.79A {Methanocaldococcus jannaschii} PDB: 3a4l_A* 3a4n_A 3am1_A* 3add_A* 3adc_A* 3adb_A*

Probab=96.03  E-value=0.0045  Score=46.54  Aligned_cols=22  Identities=41%  Similarity=0.564  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+||||||+.+.|..
T Consensus         5 ~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            5 MLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEEcCCCCCHHHHHHHHHH
Confidence            4689999999999999999864

>3bos_A Putative DNA replication factor; P-loop containing nucleoside triphosphate hydrolases, struct genomics; HET: MSE CDP; 1.75A {Shewanella amazonensis} PDB: 3sc3_A

Probab=96.02  E-value=0.0044  Score=45.41  Aligned_cols=23  Identities=17%  Similarity=0.299  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        53 ~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           53 QAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999988643

>2iyv_A Shikimate kinase, SK; transferase, aromatic amino acid biosynthesis, P-loop kinase, metal- binding, shikimate pathway; HET: ADP; 1.35A {Mycobacterium tuberculosis} SCOP: c.37.1.2 PDB: 2iyr_A* 2iyq_A* 2iyt_A 2iyu_A* 2iys_A* 2iyw_A* 2iyx_A* 2iyy_A* 2iyz_A* 2g1k_A* 1l4y_A* 1u8a_A* 1we2_A* 1zyu_A* 2dfn_A* 2dft_A* 2g1j_A 1l4u_A* 3baf_A*

Probab=96.02  E-value=0.0039  Score=44.03  Aligned_cols=21  Identities=43%  Similarity=0.539  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+++|.+|+||||+.+.|..
T Consensus         4 ~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            4 KAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998854

>2pez_A Bifunctional 3'-phosphoadenosine 5'- phosphosulfate synthetase 1 (PAPS synthetase...; NMP-kinase fold, protein in complex with nucleic acid; HET: GGZ DAT; 1.40A {Homo sapiens} PDB: 2pey_A* 2ax4_A*

Probab=96.01  E-value=0.0049  Score=43.37  Aligned_cols=22  Identities=32%  Similarity=0.543  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+++|.+|+||||+.+.|..
T Consensus         6 ~~i~l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A            6 CTVWLTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999998865

>1p9r_A General secretion pathway protein E; bacterial type II secretion system cytoplasmic protein - GSPE, putative ATPase/ ATP binding protein; 2.50A {Vibrio cholerae} SCOP: c.37.1.11 PDB: 1p9w_A*

Probab=96.01  E-value=0.0038  Score=50.36  Aligned_cols=23  Identities=35%  Similarity=0.515  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|+|||||++.+++..
T Consensus       169 ii~I~GpnGSGKTTlL~allg~l  191 (418)
T 1p9r_A          169 IILVTGPTGSGKSTTLYAGLQEL  191 (418)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHhhc
Confidence            48999999999999999987643

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.98  E-value=0.0049  Score=44.22  Aligned_cols=24  Identities=29%  Similarity=0.450  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.+++.|++|+|||+|+..+....
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHH
Confidence            578999999999999999886543

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.98  E-value=0.0048  Score=46.12  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+.+.
T Consensus        46 ~~vll~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           46 KGVLMVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            35899999999999999998654

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.96  E-value=0.0031  Score=44.40  Aligned_cols=22  Identities=32%  Similarity=0.326  Sum_probs=15.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+||||||+.+.|..
T Consensus         6 ~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            6 PIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CEEEEECCC----CHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999854

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.96  E-value=0.004  Score=51.53  Aligned_cols=23  Identities=17%  Similarity=0.445  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|++|||||||++.+++..
T Consensus       262 ~i~I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          262 SAIVVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             CEEEEESTTSSHHHHHHHHGGGS
T ss_pred             EEEEECCCCCCHHHHHHHHHhhC
Confidence            58999999999999999997644

>2grj_A Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosphocoenzyme kinase, structural genomics, joint center for structural GE JCSG; HET: ADP COD; 2.60A {Thermotoga maritima}

Probab=95.94  E-value=0.0061  Score=43.71  Aligned_cols=25  Identities=28%  Similarity=0.325  Sum_probs=21.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..+.|+++|.+||||||+.+.|...
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHh
Confidence            4788999999999999999988553

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.92  E-value=0.0031  Score=49.59  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        28 ~~~llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           28 YFVILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCccHHHHHHHHHcCC
Confidence            46899999999999999987654

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.90  E-value=0.0046  Score=47.30  Aligned_cols=23  Identities=26%  Similarity=0.355  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|++|+|||||+..+.+..
T Consensus        37 ~~~i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           37 VIMVTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHHH
Confidence            47899999999999999886543

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.88  E-value=0.0036  Score=46.10  Aligned_cols=25  Identities=28%  Similarity=0.487  Sum_probs=21.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ...-|+|.|+.|+|||||++.+.+.
T Consensus        19 ~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           19 QPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhc
Confidence            3467899999999999999998665

>4eaq_A DTMP kinase, thymidylate kinase; structural genomics, PSI-biology, midwest center for structu genomics, MCSG, MTBI, transferase; HET: ATM; 1.85A {Staphylococcus aureus subsp} PDB: 4dwj_A* 4f4i_A

Probab=95.88  E-value=0.0077  Score=44.40  Aligned_cols=25  Identities=24%  Similarity=0.364  Sum_probs=21.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ....|+|.|.+|+||||+++.+...
T Consensus        25 ~g~~i~i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           25 MSAFITFEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             CCEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4567999999999999999998654

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.87  E-value=0.0047  Score=49.33  Aligned_cols=22  Identities=32%  Similarity=0.644  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        49 ~~~llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           49 RVGLLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTC
T ss_pred             EEEEECCCCChHHHHHHHHhCC
Confidence            4789999999999999998764

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.87  E-value=0.005  Score=48.62  Aligned_cols=24  Identities=29%  Similarity=0.398  Sum_probs=20.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..-.++++|+.|+||||+++.+.+
T Consensus       156 ~g~vi~lvG~nGsGKTTll~~Lag  179 (359)
T 2og2_A          156 KPAVIMIVGVNGGGKTTSLGKLAH  179 (359)
T ss_dssp             SSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCChHHHHHHHHHh
Confidence            345689999999999999999864

>3uc9_A Increased recombination centers protein 6; rossmann-fold, clathrin accessory factor; 1.80A {Saccharomyces cerevisiae}

Probab=95.85  E-value=0.014  Score=42.90  Aligned_cols=27  Identities=19%  Similarity=0.095  Sum_probs=21.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .+.+-|++-|.++.|||.|++++++..
T Consensus        27 ~nkilvl~~~~~~~~~~~~~~~lf~~~   53 (233)
T 3uc9_A           27 QNKILVLSDHPHNFLKTQFLQDLFHCS   53 (233)
T ss_dssp             CCEEEEEEEGGGHHHHHHHHHHHHCCC
T ss_pred             CCceEEEecCcccccHHHHHHHHhccc
Confidence            455666666999999999999998774

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=95.80  E-value=0.0049  Score=46.14  Aligned_cols=21  Identities=24%  Similarity=0.428  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+++|++|+||||+.+.+..
T Consensus        50 ~i~l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           50 SMYLVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             CEEEECSTTSCHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>2yhs_A FTSY, cell division protein FTSY; cell cycle, protein targeting, simibi class GTPase, GTP-BIND membrane, nucleotide-binding; 1.60A {Escherichia coli} PDB: 2qy9_A 2xxa_B* 1fts_A

Probab=95.80  E-value=0.0054  Score=50.36  Aligned_cols=23  Identities=39%  Similarity=0.694  Sum_probs=19.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .-.++|+|+.|+|||||++.+.+
T Consensus       293 GeVI~LVGpNGSGKTTLl~~LAg  315 (503)
T 2yhs_A          293 PFVILMVGVNGVGKTTTIGKLAR  315 (503)
T ss_dssp             TEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCcccHHHHHHHHHH
Confidence            45689999999999999999854

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.79  E-value=0.0039  Score=48.41  Aligned_cols=23  Identities=30%  Similarity=0.531  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+..
T Consensus         6 v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            6 VTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEEEecCCCCHHHHHHHHHhhc
Confidence            46889999999999999998754

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.79  E-value=0.0059  Score=44.97  Aligned_cols=22  Identities=23%  Similarity=0.306  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|++|+|||||+..+...
T Consensus        26 ~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           26 ITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999999774

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.79  E-value=0.0059  Score=44.23  Aligned_cols=21  Identities=19%  Similarity=0.177  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -++++|++|+|||||+..+..
T Consensus        22 ~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           22 LTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            478999999999999999987

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=95.77  E-value=0.0063  Score=47.85  Aligned_cols=23  Identities=35%  Similarity=0.544  Sum_probs=20.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +++++|+.|+|||||++.+.+..
T Consensus        73 ~~gIiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           73 RIGIFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            68999999999999999998764

>1m7g_A Adenylylsulfate kinase; APS kinase, transferase, sulfate Met nucleotide 2 kinase; HET: AV2 ADX ADP; 1.43A {Penicillium chrysogenum} SCOP: c.37.1.4 PDB: 1d6j_A* 1m7h_A* 3cr7_A*

Probab=95.76  E-value=0.0062  Score=44.12  Aligned_cols=23  Identities=35%  Similarity=0.460  Sum_probs=19.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...|++.|.+|+||||+.+.+..
T Consensus        25 ~~~i~~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           25 GLTIWLTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            45689999999999999998754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=95.75  E-value=0.0073  Score=46.23  Aligned_cols=26  Identities=19%  Similarity=0.174  Sum_probs=21.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .+.-+++.|+||+|||+|.+.+....
T Consensus        35 ~p~~lLl~GppGtGKT~la~aiA~~l   60 (293)
T 3t15_A           35 VPLILGIWGGKGQGKSFQCELVFRKM   60 (293)
T ss_dssp             CCSEEEEEECTTSCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            34567888999999999999986543

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.74  E-value=0.0065  Score=42.76  Aligned_cols=21  Identities=29%  Similarity=0.414  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -.+|+|+.|+|||||+..+..
T Consensus        28 ~~~i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999854

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.73  E-value=0.0031  Score=49.74  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           33 RFGILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            36899999999999999987654

>3r20_A Cytidylate kinase; structural genomics, seattle structural genomics center for infectious disease, ssgcid, ADP, DCMP, D transferase; 2.00A {Mycobacterium smegmatis} SCOP: c.37.1.0 PDB: 3r8c_A 4die_A*

Probab=95.71  E-value=0.0056  Score=45.32  Aligned_cols=23  Identities=35%  Similarity=0.471  Sum_probs=20.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+.|++.|++|+||||+.+.+..
T Consensus         9 ~~~i~i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A            9 SLVVAVDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999998853

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.71  E-value=0.0051  Score=50.23  Aligned_cols=22  Identities=32%  Similarity=0.585  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++|+|+.|+|||||++.+.+-
T Consensus       140 ~v~IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          140 RVVIVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             CEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEECCCCCCHHHHHHHHhCc
Confidence            5899999999999999998764

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=95.69  E-value=0.0057  Score=44.31  Aligned_cols=22  Identities=27%  Similarity=0.372  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|+||+|||+++..+...
T Consensus        60 ~ili~GPPGtGKTt~a~ala~~   81 (212)
T 1tue_A           60 CLVFCGPANTGKSYFGMSFIHF   81 (212)
T ss_dssp             EEEEESCGGGCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999998887553

>1njg_A DNA polymerase III subunit gamma; rossman-like fold, AAA+ ATPase domains, sensor 1, sensor 2, transferase; HET: DNA; 2.20A {Escherichia coli} SCOP: c.37.1.20 PDB: 1njf_A*

Probab=95.66  E-value=0.007  Score=44.14  Aligned_cols=22  Identities=41%  Similarity=0.534  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|++|+|||+|++.+...
T Consensus        47 ~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           47 AYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EEEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5789999999999999988643

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=95.65  E-value=0.0074  Score=45.72  Aligned_cols=23  Identities=30%  Similarity=0.479  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        52 ~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           52 KGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             SEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            35899999999999999999654

>2chg_A Replication factor C small subunit; DNA-binding protein, DNA replication, clamp loader, AAA+ ATPase, ATP-binding, nucleotide-binding; HET: ANP; 2.1A {Archaeoglobus fulgidus}

Probab=95.65  E-value=0.0072  Score=43.50  Aligned_cols=21  Identities=29%  Similarity=0.629  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+|||+|++.+...
T Consensus        41 ~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           41 LLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988653

>4dzz_A Plasmid partitioning protein PARF; deviant walker BOX, DNA segregation, unknown function; HET: ADP; 1.80A {Escherichia coli} PDB: 4e03_A* 4e07_A* 4e09_A*

Probab=95.63  E-value=0.037  Score=39.46  Aligned_cols=86  Identities=9%  Similarity=-0.048  Sum_probs=53.4

Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhcc-CCCCcEEEEEeCCCCCCCCccCH
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST-NQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                      +.+.++|+|+..  .......+..+|.+++++..+...  .... .+...+..... ..+.++.+|+|+.|...  .. .
T Consensus        76 yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~-~~~~~l~~~~~~~~~~~~~vv~N~~~~~~--~~-~  147 (206)
T 4dzz_A           76 YDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAA-GSVVTVLEAQAYSRKVEARFLITRKIEMA--TM-L  147 (206)
T ss_dssp             SSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHH-HHHHHHHTTSCGGGCCEEEEEECSBCTTE--EE-E
T ss_pred             CCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHH-HHHHHHHHHHHhCCCCcEEEEEeccCCCc--hH-H
Confidence            678899999865  344456677899999999877554  4444 44455543321 23567789999998532  12 2


Q ss_pred             HHHHHHHHHcCCeEE
Q 028315          140 EEGMILAQEHKCLFL  154 (210)
Q Consensus       140 ~~~~~~~~~~~~~~~  154 (210)
                      .+..+....++.+++
T Consensus       148 ~~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          148 NVLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHHTCCBC
T ss_pred             HHHHHHHHHcCCcee
Confidence            234444444565554

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=95.63  E-value=0.0075  Score=46.00  Aligned_cols=23  Identities=26%  Similarity=0.453  Sum_probs=20.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        55 ~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           55 KGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CeEEEECcCCCCHHHHHHHHHHH
Confidence            46899999999999999998664

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=95.61  E-value=0.0068  Score=46.36  Aligned_cols=22  Identities=41%  Similarity=0.460  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|++.|.+|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            3 KIILTIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            4689999999999999999875

>2qz4_A Paraplegin; AAA+, SPG7, protease, ADP, structural genomics, structural G consortium, SGC, ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.22A {Homo sapiens}

Probab=95.60  E-value=0.0083  Score=44.71  Aligned_cols=23  Identities=26%  Similarity=0.460  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        40 ~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           40 KGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999998653

>1svm_A Large T antigen; AAA+ fold, viral protein; HET: ATP; 1.94A {Simian virus 40} SCOP: c.37.1.20 PDB: 1svl_A* 1svo_A 1n25_A 2h1l_A

Probab=95.55  E-value=0.0076  Score=47.90  Aligned_cols=22  Identities=23%  Similarity=0.324  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -.++++|++|+|||||++.+.+
T Consensus       170 ~~i~l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          170 RYWLFKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHh
Confidence            3679999999999999999875

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=95.55  E-value=0.0086  Score=45.89  Aligned_cols=24  Identities=21%  Similarity=0.553  Sum_probs=19.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ....+++.|++|+|||++++.+..
T Consensus        66 ~~~~vll~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           66 PTLHMSFTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             CCCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            345789999999999999986643

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=95.51  E-value=0.0086  Score=44.18  Aligned_cols=24  Identities=21%  Similarity=0.437  Sum_probs=19.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...+++++|+|||||||+..+|..
T Consensus         7 ~~~~~~~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A            7 HHMRLILLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             --CEEEEECCTTSCHHHHHHHHHH
T ss_pred             cccceeeECCCCCCHHHHHHHHHH
Confidence            357899999999999999998854

>1d2n_A N-ethylmaleimide-sensitive fusion protein; hexamerization domain, ATPase, transport; HET: ANP; 1.75A {Cricetulus griseus} SCOP: c.37.1.20 PDB: 1nsf_A*

Probab=95.46  E-value=0.013  Score=44.12  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=22.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ...-.+++.|++|+|||+|++.+...
T Consensus        62 ~~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           62 TPLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             CSEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHH
Confidence            34568999999999999999998664

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=95.44  E-value=0.0096  Score=45.71  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.|++.|++|+|||+|++.+...
T Consensus        50 ~~vLL~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           50 KGVLFYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             SEEEEECSSSSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCcCHHHHHHHHHHH
Confidence            35899999999999999998764

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=95.39  E-value=0.0092  Score=46.18  Aligned_cols=22  Identities=27%  Similarity=0.511  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|++|+|||+|++.+...
T Consensus        39 ~lll~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           39 PIFIYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             SEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998653

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=95.37  E-value=0.01  Score=48.14  Aligned_cols=23  Identities=35%  Similarity=0.472  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +++++|+.|+|||||++.+.+..
T Consensus       159 ~~~IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          159 RMGLFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHHS
T ss_pred             EEEEECCCCCCHHHHHHHHhccc
Confidence            68999999999999999987764

>1nlf_A Regulatory protein REPA; replicative DNA helicase structural changes, replication; 1.95A {Escherichia coli} SCOP: c.37.1.11 PDB: 1g8y_A 1olo_A

Probab=95.33  E-value=0.01  Score=44.98  Aligned_cols=21  Identities=33%  Similarity=0.433  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -++++|++|+|||||+..+..
T Consensus        32 i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           32 VGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHH
Confidence            478999999999999998865

>3euj_A Chromosome partition protein MUKB, linker; MUKB, MUKE, chromosome condensation, condensin, SMC, N subunit, ABC-type ATPase, WHD, ATP-binding; HET: AGS; 3.10A {Haemophilus ducreyi} PDB: 3euk_A*

Probab=95.31  E-value=0.01  Score=48.67  Aligned_cols=21  Identities=29%  Similarity=0.547  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .++++|+.|+|||||++.+.+
T Consensus        31 ~~~liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           31 VTTLSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHhc
Confidence            478999999999999998864

>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein transport, biosynthetic protein; HET: GNP; 3.00A {Bacillus subtilis} PDB: 2px3_A* 3syn_A*

Probab=95.31  E-value=0.011  Score=45.28  Aligned_cols=86  Identities=15%  Similarity=0.076  Sum_probs=47.4

Q ss_pred             EEEEEEEeCCCCccccc-chh---hhhc--cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC
Q 028315           60 RLKLTIWDTAGQERFGT-LTS---SYYR--GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS  133 (210)
Q Consensus        60 ~~~~~l~Dt~G~~~~~~-~~~---~~~~--~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~  133 (210)
                      .+.+.++||+|...... ...   ..+.  ..+.+++|+|++...  ..+. .+...+.    ..+ ..-+|+||.|...
T Consensus       182 ~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~~--~~~~-~~~~~~~----~l~-~~giVltk~D~~~  253 (296)
T 2px0_A          182 EYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAKY--EDMK-HIVKRFS----SVP-VNQYIFTKIDETT  253 (296)
T ss_dssp             GSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBCH--HHHH-HHTTTTS----SSC-CCEEEEECTTTCS
T ss_pred             CCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCCH--HHHH-HHHHHHh----cCC-CCEEEEeCCCccc
Confidence            35788999999654432 111   2222  367889999877542  2222 2222221    112 2346679999753


Q ss_pred             CCccCHHHHHHHHHHcCCeEEEec
Q 028315          134 ERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus       134 ~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      ..    ..+.......+.++..+.
T Consensus       254 ~~----g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          254 SL----GSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             CC----HHHHHHHHTCSCCCSEEC
T ss_pred             ch----hHHHHHHHHHCcCEEEEE
Confidence            21    245566667788865554

>3ake_A Cytidylate kinase; CMP kinase, CMP complex, open conformation, nucleotide metab transferase; HET: C5P; 1.50A {Thermus thermophilus} PDB: 3akc_A* 3akd_A*

Probab=95.28  E-value=0.013  Score=42.05  Aligned_cols=21  Identities=29%  Similarity=0.352  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+|.|.+|+||||+.+.|..
T Consensus         4 ~i~i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            4 IVTIDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998854

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=95.28  E-value=0.011  Score=45.14  Aligned_cols=23  Identities=43%  Similarity=0.608  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||++++.+...
T Consensus        51 ~~vll~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           51 KNILMIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=95.26  E-value=0.012  Score=49.16  Aligned_cols=23  Identities=26%  Similarity=0.423  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus        49 ~~~LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           49 VVGIVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCC
Confidence            57999999999999999997754

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=95.25  E-value=0.011  Score=46.53  Aligned_cols=23  Identities=26%  Similarity=0.530  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.++|.|++|+|||+|++.+...
T Consensus        46 ~~vli~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           46 NNIFIYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             CCEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            36799999999999999998653

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=95.24  E-value=0.011  Score=43.66  Aligned_cols=25  Identities=20%  Similarity=0.278  Sum_probs=21.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .....|+++|.+|+||||+.+.+..
T Consensus        14 ~~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           14 MKTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3456799999999999999998864

>3b60_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; HET: ANP; 3.70A {Salmonella typhimurium} SCOP: c.37.1.12 f.37.1.1 PDB: 3b5y_A* 3b5z_A* 3b5w_A

Probab=95.23  E-value=0.011  Score=49.82  Aligned_cols=23  Identities=35%  Similarity=0.469  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTLl~~l~g~~  393 (582)
T 3b60_A          371 TVALVGRSGSGKSTIASLITRFY  393 (582)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTTT
T ss_pred             EEEEECCCCCCHHHHHHHHhhcc
Confidence            57999999999999999986643

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.22  E-value=0.013  Score=40.04  Aligned_cols=19  Identities=47%  Similarity=0.802  Sum_probs=16.7

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028315           16 ILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~   34 (210)
                      .+|+|+.|+|||+|+..+.
T Consensus        26 ~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           26 NLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHH
Confidence            3688999999999999874

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=95.22  E-value=0.011  Score=42.56  Aligned_cols=24  Identities=46%  Similarity=0.782  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ..|+|+|++|+|||+|...|....
T Consensus        35 ~~ilI~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           35 LGVLITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EEEEEECCCTTTTHHHHHHHHTTT
T ss_pred             EEEEEECCCCCCHHHHHHHHHHhC
Confidence            468999999999999999996654

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=95.21  E-value=0.011  Score=47.61  Aligned_cols=24  Identities=21%  Similarity=0.383  Sum_probs=20.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..-|+++|.+|+||||+.++|...
T Consensus       258 ~~lIil~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          258 PEVVVAVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHTGG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            345889999999999999998653

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=95.20  E-value=0.013  Score=44.89  Aligned_cols=24  Identities=29%  Similarity=0.519  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.+++.|++|+|||++++.+....
T Consensus        48 ~~~ll~G~~GtGKt~la~~la~~~   71 (311)
T 4fcw_A           48 GSFLFLGPTGVGKTELAKTLAATL   71 (311)
T ss_dssp             EEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHHHH
Confidence            468999999999999999886543

>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA replication initation factor, cell cycle control factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP: a.4.5.11 c.37.1.20

Probab=95.20  E-value=0.013  Score=46.28  Aligned_cols=23  Identities=30%  Similarity=0.433  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|.|++|+|||+|++.+....
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHHH
Confidence            68999999999999999986543

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=95.16  E-value=0.013  Score=43.23  Aligned_cols=21  Identities=29%  Similarity=0.474  Sum_probs=17.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -++++|++|+|||+|+..+..
T Consensus        25 ~~~i~G~~GsGKTtl~~~~~~   45 (247)
T 2dr3_A           25 VVLLSGGPGTGKTIFSQQFLW   45 (247)
T ss_dssp             EEEEEECTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            468999999999999877754

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=95.14  E-value=0.076  Score=40.90  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +++-|++|+|||++++.+....
T Consensus        51 ~L~~G~~G~GKT~la~~la~~l   72 (324)
T 3u61_B           51 ILHSPSPGTGKTTVAKALCHDV   72 (324)
T ss_dssp             EEECSSTTSSHHHHHHHHHHHT
T ss_pred             EEeeCcCCCCHHHHHHHHHHHh
Confidence            4666779999999999986543

>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.13  E-value=0.01  Score=46.40  Aligned_cols=21  Identities=33%  Similarity=0.680  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+||||+++.+.+.
T Consensus        39 ~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           39 LLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EEEECSTTSSHHHHHHTHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988763

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=95.12  E-value=0.012  Score=45.82  Aligned_cols=22  Identities=32%  Similarity=0.632  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++|.|++|+||||+++.+...-
T Consensus        49 ~ll~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           49 LLFYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHHH
Confidence            7999999999999999986643

>3eie_A Vacuolar protein sorting-associated protein 4; AAA ATPase, ATP-binding cassette, ATP-binding, endosome, MEM nucleotide-binding; 2.70A {Saccharomyces cerevisiae} PDB: 3eih_A* 2rko_A 3mhv_C

Probab=95.09  E-value=0.014  Score=45.19  Aligned_cols=24  Identities=33%  Similarity=0.499  Sum_probs=20.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .-.|++.|++|+|||+|++.+...
T Consensus        51 ~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           51 TSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            457899999999999999998654

>1vma_A Cell division protein FTSY; TM0570, structural genomics, JCS protein structure initiative, PSI, joint center for structu genomics; HET: CIT; 1.60A {Thermotoga maritima} SCOP: a.24.13.1 c.37.1.10

Probab=95.08  E-value=0.014  Score=45.04  Aligned_cols=87  Identities=18%  Similarity=0.121  Sum_probs=47.6

Q ss_pred             EEEEEEeCCCCccccc-ch------hhhh-----ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           61 LKLTIWDTAGQERFGT-LT------SSYY-----RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~-~~------~~~~-----~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      +.+.++||||...... .+      ...+     ..++.+++|+|+....  +.+. .... +...   .+. .-+|+||
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~--~~l~-~a~~-~~~~---~~i-~gvVlTk  258 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQ--NGLV-QAKI-FKEA---VNV-TGIILTK  258 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHH--HHHH-HHHH-HHHH---SCC-CEEEEEC
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCH--HHHH-HHHH-HHhc---CCC-CEEEEeC
Confidence            4588899999532211 11      1111     2478899999987442  2222 2211 1111   122 3467899


Q ss_pred             CCCCCCCccCHHHHHHHHHHcCCeEEEeccc
Q 028315          129 VDRDSERAVTREEGMILAQEHKCLFLECSAK  159 (210)
Q Consensus       129 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~  159 (210)
                      .|....  .  -.+.......+.|+.++..-
T Consensus       259 ~D~~~~--g--G~~l~~~~~~~~Pi~~i~~G  285 (306)
T 1vma_A          259 LDGTAK--G--GITLAIARELGIPIKFIGVG  285 (306)
T ss_dssp             GGGCSC--T--THHHHHHHHHCCCEEEEECS
T ss_pred             CCCccc--h--HHHHHHHHHHCCCEEEEeCC
Confidence            996322  1  23566777788887777543

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=95.05  E-value=0.015  Score=44.81  Aligned_cols=23  Identities=35%  Similarity=0.582  Sum_probs=20.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .-.+++.|++|+|||+|+..+..
T Consensus       152 ~~~lll~G~~GtGKT~La~aia~  174 (308)
T 2qgz_A          152 QKGLYLYGDMGIGKSYLLAAMAH  174 (308)
T ss_dssp             CCEEEEECSTTSSHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            35789999999999999998854

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.03  E-value=0.015  Score=45.10  Aligned_cols=24  Identities=33%  Similarity=0.512  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.|++.|++|+|||+|++.+....
T Consensus        46 ~~iLL~GppGtGKT~la~ala~~~   69 (322)
T 1xwi_A           46 RGILLFGPPGTGKSYLAKAVATEA   69 (322)
T ss_dssp             SEEEEESSSSSCHHHHHHHHHHHT
T ss_pred             ceEEEECCCCccHHHHHHHHHHHc
Confidence            468999999999999999997643

>3b5x_A Lipid A export ATP-binding/permease protein MSBA; ABC transporter, lipid flippase, hydrolase, inner membrane, lipid transport, membrane; 5.50A {Vibrio cholerae}

Probab=95.01  E-value=0.017  Score=48.65  Aligned_cols=23  Identities=35%  Similarity=0.444  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          371 TVALVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCC
Confidence            67999999999999999986654

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=95.00  E-value=0.014  Score=49.39  Aligned_cols=23  Identities=35%  Similarity=0.557  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus       105 i~~LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          105 VLGLVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47999999999999999997654

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.98  E-value=0.017  Score=48.11  Aligned_cols=23  Identities=30%  Similarity=0.546  Sum_probs=20.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+..
T Consensus        27 i~gLiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           27 ILGVLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCC
Confidence            47899999999999999997754

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=94.97  E-value=0.017  Score=44.81  Aligned_cols=23  Identities=26%  Similarity=0.537  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..|+|+|++|+|||||...|...
T Consensus         6 ~~i~i~GptGsGKTtla~~La~~   28 (323)
T 3crm_A            6 PAIFLMGPTAAGKTDLAMALADA   28 (323)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999988643

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=94.96  E-value=0.016  Score=45.54  Aligned_cols=23  Identities=26%  Similarity=0.585  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.++|.|++|+|||+|++.+...
T Consensus        71 ~~vLl~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           71 RAVLIAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998654

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.94  E-value=0.015  Score=46.94  Aligned_cols=23  Identities=26%  Similarity=0.512  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      --|++.|+||+|||+|++.+.+.
T Consensus       207 rGiLL~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          207 RGVLLYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             CEEEEESCTTTTHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999999654

>3ld9_A DTMP kinase, thymidylate kinase; ssgcid, NIH, niaid, SBRI, UW, emerald biostructures, ehrlich chaffeensis; 2.15A {Ehrlichia chaffeensis}

Probab=94.93  E-value=0.02  Score=42.06  Aligned_cols=25  Identities=28%  Similarity=0.201  Sum_probs=21.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+..-|+|.|.+|+||||+++.+..
T Consensus        19 ~~~~~i~~~G~~g~GKst~~~~l~~   43 (223)
T 3ld9_A           19 PGSMFITFEGIDGSGKTTQSHLLAE   43 (223)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457799999999999999998754

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.90  E-value=0.016  Score=45.18  Aligned_cols=21  Identities=38%  Similarity=0.729  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+|||++++.+...
T Consensus        61 ~ll~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           61 MLFYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            899999999999999988654

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=94.88  E-value=0.016  Score=45.82  Aligned_cols=21  Identities=29%  Similarity=0.532  Sum_probs=17.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHh
Q 028315           13 SFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      .+ .+|+|+.|+|||||++.++
T Consensus        24 g~-~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           24 GI-TVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EE-EEEECCTTSSHHHHHHHHH
T ss_pred             Ce-EEEECCCCCCHHHHHHHHH
Confidence            35 4589999999999999875

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.88  E-value=0.016  Score=46.82  Aligned_cols=24  Identities=21%  Similarity=0.326  Sum_probs=20.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +-.|++.|+||+|||.|++.+.+.
T Consensus       215 prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          215 PKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeeEEECcCCCCHHHHHHHHHHH
Confidence            456899999999999999999664

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=94.87  E-value=0.017  Score=45.18  Aligned_cols=22  Identities=23%  Similarity=0.604  Sum_probs=19.4

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..|+|+|++|||||||...|..
T Consensus         8 ~lI~I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A            8 FLIVIVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCcCcHHHHHHHHHH
Confidence            4689999999999999998854

>2ga8_A Hypothetical 39.9 kDa protein; YFR007W, YFH7, unknown function; HET: CME; 1.77A {Saccharomyces cerevisiae} PDB: 2gaa_A*

Probab=94.87  E-value=0.021  Score=44.89  Aligned_cols=22  Identities=36%  Similarity=0.604  Sum_probs=19.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHh
Q 028315           13 SFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      ..+|+++|++|+||||+.+.+.
T Consensus        24 ~~~i~l~G~~G~GKTTl~~~la   45 (359)
T 2ga8_A           24 RVCVILVGSPGSGKSTIAEELC   45 (359)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHH
T ss_pred             eeEEEEECCCCCcHHHHHHHHH
Confidence            3579999999999999998764

>2bjv_A PSP operon transcriptional activator; AAA, transcription activation, gene regulation, sigma54 activator, enhancer binding protein, PSPF; 1.7A {Escherichia coli} PDB: 2bjw_A 2c96_A* 2c98_A* 2c99_A* 2c9c_A* 2vii_A*

Probab=94.87  E-value=0.034  Score=41.60  Aligned_cols=25  Identities=36%  Similarity=0.430  Sum_probs=21.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      ..|++.|++|+|||+|++.+.....
T Consensus        30 ~~vll~G~~GtGKt~la~~i~~~~~   54 (265)
T 2bjv_A           30 KPVLIIGERGTGKELIASRLHYLSS   54 (265)
T ss_dssp             SCEEEECCTTSCHHHHHHHHHHTST
T ss_pred             CCEEEECCCCCcHHHHHHHHHHhcC
Confidence            4689999999999999999866543

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.86  E-value=0.014  Score=45.87  Aligned_cols=23  Identities=26%  Similarity=0.434  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|++|+|||+|++.+...
T Consensus        45 ~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           45 SNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            46899999999999999998653

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.84  E-value=0.017  Score=48.92  Aligned_cols=23  Identities=22%  Similarity=0.413  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+..
T Consensus       119 ~~~LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          119 VVGIVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            57999999999999999997654

>2ocp_A DGK, deoxyguanosine kinase; protein-nucleotide complex, transferase; HET: DTP; 2.80A {Homo sapiens} SCOP: c.37.1.1

Probab=94.84  E-value=0.02  Score=42.30  Aligned_cols=23  Identities=26%  Similarity=0.397  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..|++.|..|+||||+++.|...
T Consensus         3 ~~i~~~G~~g~GKtt~~~~l~~~   25 (241)
T 2ocp_A            3 RRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            56899999999999999998654

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=94.83  E-value=0.0075  Score=45.27  Aligned_cols=21  Identities=29%  Similarity=0.623  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+|||+|++.+...
T Consensus        47 vll~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           47 VLLVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CCCBCSSCSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998653

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.82  E-value=0.018  Score=47.98  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++++|+.|+|||||++.+.+...
T Consensus       314 ~~~i~G~NGsGKSTLlk~l~Gl~~  337 (538)
T 1yqt_A          314 VIGIVGPNGIGKTTFVKMLAGVEE  337 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            578999999999999999977543

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.82  E-value=0.016  Score=48.36  Aligned_cols=24  Identities=25%  Similarity=0.484  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++++|+.|+|||||++.+.+-..
T Consensus       296 i~~i~G~nGsGKSTLl~~l~Gl~~  319 (538)
T 3ozx_A          296 IIGILGPNGIGKTTFARILVGEIT  319 (538)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCC
Confidence            478999999999999999976543

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=94.82  E-value=0.019  Score=45.96  Aligned_cols=24  Identities=29%  Similarity=0.527  Sum_probs=21.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      .+++|++++|...+||||++..+.
T Consensus        38 ~~~~klLLLG~geSGKSTi~KQmk   61 (402)
T 1azs_C           38 RATHRLLLLGAGESGKSTIVKQMR   61 (402)
T ss_dssp             TTEEEEEEEESTTSSHHHHHHHHH
T ss_pred             hccceEEEecCCCCchhhHHHHHH
Confidence            468999999999999999999863

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=94.82  E-value=0.013  Score=45.38  Aligned_cols=25  Identities=4%  Similarity=0.050  Sum_probs=20.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .-++.+.|+||+|||++++.+....
T Consensus        45 ~~~lli~GpPGTGKT~~v~~v~~~L   69 (318)
T 3te6_A           45 NKLFYITNADDSTKFQLVNDVMDEL   69 (318)
T ss_dssp             CCEEEEECCCSHHHHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHHH
Confidence            3577999999999999999986543

>3exa_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2, protein structure initiative; 2.30A {Bacillus halodurans} PDB: 2qgn_A

Probab=94.82  E-value=0.019  Score=44.32  Aligned_cols=22  Identities=23%  Similarity=0.451  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|+|+|++|||||+|...+...
T Consensus         5 ~i~i~GptgsGKt~la~~La~~   26 (322)
T 3exa_A            5 LVAIVGPTAVGKTKTSVMLAKR   26 (322)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEECCCcCCHHHHHHHHHHh
Confidence            4789999999999999999654

>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB, proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR binding; 3.65A {Bacillus subtilis}

Probab=94.81  E-value=0.015  Score=47.60  Aligned_cols=22  Identities=41%  Similarity=0.676  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++++|+||+|||++++.+...
T Consensus       203 ~~LL~G~pG~GKT~la~~la~~  224 (468)
T 3pxg_A          203 NPVLIGEPGVGKTAIAEGLAQQ  224 (468)
T ss_dssp             EEEEESCTTTTTHHHHHHHHHH
T ss_pred             CeEEECCCCCCHHHHHHHHHHH
Confidence            6799999999999999988554

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.81  E-value=0.017  Score=45.39  Aligned_cols=24  Identities=21%  Similarity=0.263  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      --+.|+|++|+|||||+..+....
T Consensus       132 ~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          132 AITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            357899999999999999997653

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=94.80  E-value=0.019  Score=44.81  Aligned_cols=22  Identities=32%  Similarity=0.677  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|+|+|++|+|||+|...|...
T Consensus        42 lIvI~GPTgsGKTtLa~~LA~~   63 (339)
T 3a8t_A           42 LLVLMGATGTGKSRLSIDLAAH   63 (339)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTT
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998654

>1p5z_B DCK, deoxycytidine kinase; nucleoside kinase, P-loop, ARAC, cytarabine, transferase; HET: AR3 ADP; 1.60A {Homo sapiens} SCOP: c.37.1.1 PDB: 1p60_A* 1p61_B* 1p62_B* 2a7q_A* 2qrn_A* 2qro_A* 3exk_A* 3hp1_A* 2no7_A* 2no1_A* 2no6_A* 2no0_A* 2no9_A* 2noa_A* 2zi5_A* 2zi4_A* 2zi6_A* 2zi7_B* 2zia_A* 3kfx_A* ...

Probab=94.79  E-value=0.012  Score=44.13  Aligned_cols=25  Identities=28%  Similarity=0.222  Sum_probs=21.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +...|+|.|..|+||||+++.|...
T Consensus        23 ~~~~I~ieG~~GsGKST~~~~L~~~   47 (263)
T 1p5z_B           23 RIKKISIEGNIAAGKSTFVNILKQL   47 (263)
T ss_dssp             CCEEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHh
Confidence            4578999999999999999988543

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.78  E-value=0.018  Score=46.64  Aligned_cols=24  Identities=25%  Similarity=0.441  Sum_probs=20.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +--|++.|+||+|||+|++.+.+.
T Consensus       215 prGvLL~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          215 PKGVLLYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             CCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            346899999999999999999654

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.75  E-value=0.017  Score=48.87  Aligned_cols=23  Identities=35%  Similarity=0.580  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus       383 ~~~ivG~sGsGKSTll~~l~g~~  405 (598)
T 3qf4_B          383 KVALVGPTGSGKTTIVNLLMRFY  405 (598)
T ss_dssp             EEEEECCTTSSTTHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            67999999999999999886543

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.71  E-value=0.02  Score=48.44  Aligned_cols=24  Identities=25%  Similarity=0.447  Sum_probs=20.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .++++|+.|+|||||++.+.+...
T Consensus       384 i~~i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          384 VIGIVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            478999999999999999977543

>3tqf_A HPR(Ser) kinase; transferase, hydrolase; 2.80A {Coxiella burnetii}

Probab=94.68  E-value=0.026  Score=39.68  Aligned_cols=35  Identities=3%  Similarity=-0.114  Sum_probs=24.8

Q ss_pred             CCeEEEecccCCcCHHHHHHHHHHHHHccchhhhc
Q 028315          150 KCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQ  184 (210)
Q Consensus       150 ~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~~~~~  184 (210)
                      .+|.+.+....|.|+.-+.+........+...+..
T Consensus       127 ~iP~i~iPv~~GRn~a~iiE~Aa~n~~lk~~G~~~  161 (181)
T 3tqf_A          127 NVPKILFPIHPGRNLPLLIETLVRNHRLKMEGYDS  161 (181)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             cccEEEeccCCCCcHHHHHHHHHHHHHHHHhCCcH
Confidence            34688889999999988888777655544444443

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=94.68  E-value=0.02  Score=44.51  Aligned_cols=22  Identities=27%  Similarity=0.513  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|++.|++|+|||+|++.+...
T Consensus        57 ~vll~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           57 HILFSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECcCCCCHHHHHHHHHHH
Confidence            5899999999999999998554

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=94.67  E-value=0.014  Score=49.04  Aligned_cols=22  Identities=27%  Similarity=0.412  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus       369 ~~~ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          369 TVAFVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EEEEECSTTSSHHHHHTTTTTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            5789999999999999977554

>1c9k_A COBU, adenosylcobinamide kinase; alpha/beta structure rossmann fold P-loop, transferase; HET: 5GP; 2.20A {Salmonella typhimurium} SCOP: c.37.1.11 PDB: 1cbu_A

Probab=94.67  E-value=0.022  Score=40.29  Aligned_cols=21  Identities=38%  Similarity=0.514  Sum_probs=19.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++|+|.+++|||+|..++...
T Consensus         2 ilV~Gg~~SGKS~~A~~la~~   22 (180)
T 1c9k_A            2 ILVTGGARSGKSRHAEALIGD   22 (180)
T ss_dssp             EEEEECTTSSHHHHHHHHHCS
T ss_pred             EEEECCCCCcHHHHHHHHHhc
Confidence            689999999999999999754

>2qp9_X Vacuolar protein sorting-associated protein 4; ATPase domain, beta domain, C-terminal helix, ATP-binding, E nucleotide-binding; 2.90A {Saccharomyces cerevisiae} PDB: 2qpa_A*

Probab=94.66  E-value=0.02  Score=45.08  Aligned_cols=23  Identities=35%  Similarity=0.499  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.|++.|++|+|||+|++.+...
T Consensus        85 ~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           85 SGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCEEEECSTTSCHHHHHHHHHHH
T ss_pred             ceEEEECCCCCcHHHHHHHHHHH
Confidence            45899999999999999998654

>2qby_B CDC6 homolog 3, cell division control protein 6 homolog 3; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.64  E-value=0.022  Score=44.91  Aligned_cols=22  Identities=23%  Similarity=0.424  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|++|+|||+|++.+...
T Consensus        47 ~vll~G~~G~GKT~la~~l~~~   68 (384)
T 2qby_B           47 SNLFLGLTGTGKTFVSKYIFNE   68 (384)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998653

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=94.63  E-value=0.014  Score=49.19  Aligned_cols=23  Identities=22%  Similarity=0.436  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus       371 ~~~ivG~sGsGKSTll~~l~g~~  393 (587)
T 3qf4_A          371 LVAVLGETGSGKSTLMNLIPRLI  393 (587)
T ss_dssp             EEEEECSSSSSHHHHHHTTTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHhCCc
Confidence            57999999999999999885543

>3d8b_A Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, structural genomics consortium, ATP- hydrolase, magnesium, metal-binding, nucleotide-binding; HET: ADP; 2.00A {Homo sapiens}

Probab=94.62  E-value=0.023  Score=44.77  Aligned_cols=24  Identities=38%  Similarity=0.468  Sum_probs=20.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .-.|++.|++|+|||+|++.+...
T Consensus       117 ~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          117 PKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             CSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHHH
Confidence            346899999999999999998654

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=94.61  E-value=0.021  Score=45.70  Aligned_cols=23  Identities=22%  Similarity=0.427  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.|++.|+||+|||.|++.+.+.
T Consensus       183 rGvLL~GPPGTGKTllAkAiA~e  205 (405)
T 4b4t_J          183 KGVILYGPPGTGKTLLARAVAHH  205 (405)
T ss_dssp             CCEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEeCCCCCCHHHHHHHHHHh
Confidence            46899999999999999999654

>1um8_A ATP-dependent CLP protease ATP-binding subunit CL; CLPP binding loop, chaperone; HET: ADP; 2.60A {Helicobacter pylori} SCOP: c.37.1.20

Probab=94.58  E-value=0.021  Score=45.12  Aligned_cols=24  Identities=38%  Similarity=0.553  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ..+++.|++|+|||++.+.+....
T Consensus        73 ~~ill~Gp~GtGKT~la~~la~~l   96 (376)
T 1um8_A           73 SNILLIGPTGSGKTLMAQTLAKHL   96 (376)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHHT
T ss_pred             CCEEEECCCCCCHHHHHHHHHHHh
Confidence            468999999999999999986543

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.55  E-value=0.021  Score=48.29  Aligned_cols=23  Identities=22%  Similarity=0.586  Sum_probs=20.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      ++++|+.|+|||||++.+.+-..
T Consensus       381 v~iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          381 LVMMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EEEESCTTSSHHHHHHHHHTSSC
T ss_pred             EEEECCCCCcHHHHHHHHhcCCC
Confidence            79999999999999999977543

>3foz_A TRNA delta(2)-isopentenylpyrophosphate transferas; nucleoside modification, isopentenyl-tRNA transferase, transferase-RNA complex; 2.50A {Escherichia coli k-12} PDB: 2zxu_A* 2zm5_A

Probab=94.54  E-value=0.024  Score=43.74  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .-|+|+|++|||||+|...+...
T Consensus        11 ~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           11 KAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEEECCCccCHHHHHHHHHHh
Confidence            35789999999999999998643

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=94.52  E-value=0.021  Score=46.31  Aligned_cols=22  Identities=27%  Similarity=0.557  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|++|+|||+|++.+.+.
T Consensus       132 ~lll~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          132 PLFIYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            5799999999999999988653

>3m6a_A ATP-dependent protease LA 1; alpha, beta, ATP-binding, hydrolase, nucleotide-binding, Pro serine protease, stress response; HET: ADP; 3.40A {Bacillus subtilis} PDB: 1x37_A

Probab=94.51  E-value=0.023  Score=47.42  Aligned_cols=22  Identities=36%  Similarity=0.560  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|++|+|||||++.+.+.
T Consensus       110 ~vll~Gp~GtGKTtlar~ia~~  131 (543)
T 3m6a_A          110 ILCLAGPPGVGKTSLAKSIAKS  131 (543)
T ss_dssp             EEEEESSSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999988553

---

Homologous Structure Domains

Structure Domains Detected by RPS-BLAST

Original result of RPS-BLAST against SCOP70(version1.75) database

ID	Length	Definition	E-value
Query	210
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	2e-50
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	6e-46
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	7e-46
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-45
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	9e-45
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	2e-43
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	7e-43
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	1e-42
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-41
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-41
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-39
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	8e-36
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	9e-36
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	9e-34
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-33
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-33
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-31
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	3e-30
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	5e-30
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	5e-30
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	7e-30
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	1e-29
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	1e-29
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	5e-29
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	5e-29
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-28
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	3e-28
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	4e-28
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	8e-28
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	8e-28
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	2e-27
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	4e-27
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-26
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	2e-26
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-26
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	1e-24
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	1e-24
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	1e-24
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	3e-23
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	5e-23
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	6e-23
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	9e-23
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-22
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	2e-22
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-22
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	6e-21
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-19
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	3e-19
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	5e-19
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-18
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-18
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	1e-16
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-16
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	1e-15
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	3e-15
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	2e-14
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	4e-07
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	1e-06
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	4e-06
d1wf3a1	178	c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {	7e-06
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	4e-05
d1xzpa2	160	c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotog	2e-04
d1mkya2	186	c.37.1.8 (A:173-358) Probable GTPase Der, N-termin	4e-04
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	5e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	0.004

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  159 bits (403), Expect = 2e-50
 Identities = 75/170 (44%), Positives = 108/170 (63%), Gaps = 3/170 (1%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           +YDY FK+LLIGDSGVGK+ +L     ++       TIG+DFKI+ + + GKR+KL IWD
Sbjct: 2   TYDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWD 61

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF T+T++YYRGA GI+LVYD+T  ++F N+ +           + D  K+++GN
Sbjct: 62  TAGQERFRTITTAYYRGAMGIMLVYDITNEKSFDNIRNWI--RNIEEHASADVEKMILGN 119

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K D + +R V++E G  LA ++   F+E SAK   +V+  F  L   I  
Sbjct: 120 KCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKA 169

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  148 bits (373), Expect = 6e-46
 Identities = 64/169 (37%), Positives = 100/169 (59%), Gaps = 3/169 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YD+ FKI+LIG++GVGK+ ++              TIGVDF IK + + G+++KL IWDT
Sbjct: 2   YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDT 61

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF ++T SYYR A+ +IL YD+T  E+F  L             +   + +LVGNK
Sbjct: 62  AGQERFRSITQSYYRSANALILTYDITCEESFRCLPEWL--REIEQYASNKVITVLVGNK 119

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +D    R V+++     ++     +LE SAK +++V++ F DL  +++ 
Sbjct: 120 IDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLIS 168

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  148 bits (374), Expect = 7e-46
 Identities = 82/186 (44%), Positives = 111/186 (59%), Gaps = 3/186 (1%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
           + YDY FK+LLIG+SGVGKS +LL    ++  +D   TIGVDFKIK + + GK +KL IW
Sbjct: 1   SEYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIW 60

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQERF T+TSSYYRG+HGII+VYDVT +E+F  +     +           +K+LVG
Sbjct: 61  DTAGQERFRTITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYA--TSTVLKLLVG 118

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQGS 186
           NK D   +R V  +     A  +K  FLE SA ++ +V+  F  +  +I E  S      
Sbjct: 119 NKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNE 178

Query: 187 AVVKNQ 192
              K +
Sbjct: 179 TTQKKE 184

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  144 bits (365), Expect = 7e-45
 Identities = 80/165 (48%), Positives = 104/165 (63%), Gaps = 4/165 (2%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            KILLIGDSGVGKS +L+  + +        TIG+DFKIK + + GK++KL IWDTAGQE
Sbjct: 3   MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQE 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF T+T++YYRGA GIILVYD+T   TFTN+   +         N +   +LVGNK D  
Sbjct: 63  RFRTITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVN--EHANDEAQLLLVGNKSD-M 119

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             R VT ++G  LA+E    F+E SAKN ++V + F  L   I E
Sbjct: 120 ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 164

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  145 bits (365), Expect = 9e-45
 Identities = 69/169 (40%), Positives = 105/169 (62%), Gaps = 4/169 (2%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNS--VHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
            YD +FK++L+GDSGVGK+ +L+     +        T+G+DF+ K+L V G ++KL +W
Sbjct: 2   FYDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMW 61

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQERF ++T +YYR AH ++L+YDVT + +F N+ +   +  E      D   +L+G
Sbjct: 62  DTAGQERFRSVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYA--QHDVALMLLG 119

Query: 127 NKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           NKVD   ER V RE+G  LA+E+   F+E SAK   +V   F  +  ++
Sbjct: 120 NKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKEL 168

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  141 bits (356), Expect = 2e-43
 Identities = 80/175 (45%), Positives = 110/175 (62%), Gaps = 3/175 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
              + KIL+IG+SGVGKSS+LL    ++   + + TIGVDFK+K ++V G + KL IWDT
Sbjct: 4   VLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDT 63

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF TLT SYYRGA G+ILVYDVTRR+TF  L +   +     + N      ++   
Sbjct: 64  AGQERFRTLTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIV--NMLVGN 121

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
                 R V R EG+  A++H  LF+E SAK  + V+  F++L+ KI++ P L E
Sbjct: 122 KIDKENREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWE 176

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  140 bits (352), Expect = 7e-43
 Identities = 74/169 (43%), Positives = 101/169 (59%), Gaps = 3/169 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           +DY FKIL+IG+S VGK+S L     +S       T+G+DFK+K +    KR+KL IWDT
Sbjct: 2   FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDT 61

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQER+ T+T++YYRGA G IL+YD+T  E+F  +            +  +   +LVGNK
Sbjct: 62  AGQERYRTITTAYYRGAMGFILMYDITNEESFNAVQDWS--TQIKTYSWDNAQVLLVGNK 119

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            D + ER V+ E G  LA      F E SAK+  +VKQ F+ L+  I E
Sbjct: 120 CDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  139 bits (351), Expect = 1e-42
 Identities = 79/167 (47%), Positives = 106/167 (63%), Gaps = 3/167 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           Y Y FK ++IGD GVGKS +L        + D   TIGV+F  +++ V G+++KL IWDT
Sbjct: 1   YSYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDT 60

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQERF  +T SYYRGA G ++VYD+TRR T+ +LSS          TN + V IL+GNK
Sbjct: 61  AGQERFRAVTRSYYRGAAGALMVYDITRRSTYNHLSSWL--TDARNLTNPNTVIILIGNK 118

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            D +++R VT EE    A+E+  LFLE SAK  E+V+  F +   KI
Sbjct: 119 ADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  136 bits (344), Expect = 1e-41
 Identities = 81/170 (47%), Positives = 109/170 (64%), Gaps = 3/170 (1%)

Query: 9   SYDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           +YD+ FK L+IG++G GKS +L   I      D + TIGV+F  K++ VGGK +KL IWD
Sbjct: 1   TYDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWD 60

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
           TAGQERF ++T SYYRGA G +LVYD+T RET+  L++       L   +Q+ V IL GN
Sbjct: 61  TAGQERFRSVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLA--SQNIVIILCGN 118

Query: 128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           K D D++R VT  E    AQE++ +FLE SA   E+V++ F     KIL 
Sbjct: 119 KKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILN 168

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  136 bits (343), Expect = 2e-41
 Identities = 71/172 (41%), Positives = 107/172 (62%), Gaps = 3/172 (1%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           YDY FK++LIGDSGVGKS++L     N    +   TIGV+F  + + V GK +K  IWDT
Sbjct: 1   YDYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDT 60

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
           AGQER+  +TS+YYRGA G +LVYD+ +  T+ N+     +  +    + + V +LVGNK
Sbjct: 61  AGQERYRRITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRD--HADSNIVIMLVGNK 118

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS 180
            D    RAV  +E    A+++   F+E SA ++ +V++ FK++L +I  + S
Sbjct: 119 SDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVS 170

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  132 bits (333), Expect = 1e-39
 Identities = 55/179 (30%), Positives = 100/179 (55%), Gaps = 12/179 (6%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGK--------- 59
           YDY  K+L +GDSGVGK++ L     N        T+G+DF+ K +    +         
Sbjct: 2   YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKA 61

Query: 60  -RLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQ 118
            ++ L +WDTAGQERF +LT++++R A G +L++D+T +++F N+ +  ++     +  +
Sbjct: 62  FKVHLQLWDTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQA-NAYCE 120

Query: 119 DCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +   +L+GNK D   +R V   +   LA ++   + E SA   ++V++  + LL  I++
Sbjct: 121 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMK 179

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  121 bits (305), Expect = 8e-36
 Identities = 75/167 (44%), Positives = 107/167 (64%), Gaps = 3/167 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           Y FK ++IGD+GVGKS +LL             TIGV+F  +++ + GK++KL IWDTAG
Sbjct: 2   YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAG 61

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QE F ++T SYYRGA G +LVYD+TRRETF +L+S      +   ++ + V +L+GNK D
Sbjct: 62  QESFRSITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQ--HSSSNMVIMLIGNKSD 119

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +S R V REEG   A+EH  +F+E SAK   +V++ F +   +I  
Sbjct: 120 LESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYR 166

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  121 bits (304), Expect = 9e-36
 Identities = 61/167 (36%), Positives = 93/167 (55%), Gaps = 3/167 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
           YSFK++L+G+  VGK+S++L    N        T+G  F  K L +GGKR+ L IWDTAG
Sbjct: 2   YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAG 61

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QERF  L   YYR ++G ILVYD+T  ++F  + +   +         +    +VGNK+D
Sbjct: 62  QERFHALGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELR--KMLGNEICLCIVGNKID 119

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            + ER V+ +E    A+         SAK  + +++ F DL  +++E
Sbjct: 120 LEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE 166

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (291), Expect = 9e-34
 Identities = 51/163 (31%), Positives = 87/163 (53%), Gaps = 1/163 (0%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K++++G  GVGKS++ +  ++ +  +       DF  K + V      L I DTAG E+
Sbjct: 4   YKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIEDFYRKEIEVDSSPSVLEILDTAGTEQ 63

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F ++   Y +   G ILVY +  +++F +       ++      +    ILVGNKVD +S
Sbjct: 64  FASMRDLYIKNGQGFILVYSLVNQQSFQD-IKPMRDQIIRVKRYEKVPVILVGNKVDLES 122

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           ER V+  EG  LA+E  C F+E SAK+   V + F +++ ++ 
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 1e-33
 Identities = 58/166 (34%), Positives = 90/166 (54%), Gaps = 3/166 (1%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
            FK++L+G+S VGKSS++L  +          TIG  F  + + +    +K  IWDTAGQ
Sbjct: 6   QFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQ 65

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ER+ +L   YYRGA   I+VYD+T  E+F    +    +      + + V  L GNK D 
Sbjct: 66  ERYHSLAPMYYRGAQAAIVVYDITNEESFARAKNWV--KELQRQASPNIVIALSGNKADL 123

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            ++RAV  +E    A ++  LF+E SAK + +V + F  +  K+ +
Sbjct: 124 ANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 1e-33
 Identities = 56/163 (34%), Positives = 91/163 (55%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++ +G+  VGK+S++   + +S  +    TIG+DF  K + +  + ++L +WDTAGQE
Sbjct: 1   FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQE 60

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF +L  SY R +   ++VYD+T   +F   +              D + +LVGNK D  
Sbjct: 61  RFRSLIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRT--ERGSDVIIMLVGNKTDLA 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            +R V+ EEG   A+E   +F+E SAK   +VKQ F+ +   +
Sbjct: 119 DKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  110 bits (276), Expect = 2e-31
 Identities = 45/163 (27%), Positives = 87/163 (53%), Gaps = 1/163 (0%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K++++G  GVGKS++ L  + +   +       D   K + + G+ +++ I DTAGQE 
Sbjct: 5   HKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKVVLDGEEVQIDILDTAGQED 64

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +  +Y+R   G + V+ +T  E+F   +  + +++     +++   +LVGNK D + 
Sbjct: 65  YAAIRDNYFRSGEGFLCVFSITEMESFAATAD-FREQILRVKEDENVPFLLVGNKSDLED 123

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
           +R V+ EE    A +    ++E SAK   +V + F DL+ +I 
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR 166

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  107 bits (267), Expect = 3e-30
 Identities = 60/163 (36%), Positives = 85/163 (52%), Gaps = 6/163 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FKI++IGDS VGK+ +     +         TIGVDF+ + + + G+R+K+ +WDTAGQE
Sbjct: 3   FKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQE 62

Query: 73  RFGTL-TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           RF       YYR  H ++ VYD+T   +F +L +   +E + +    D  +ILVGNK D 
Sbjct: 63  RFRKSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWI-EECKQHLLANDIPRILVGNKCDL 121

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTED---VKQCFKDL 171
            S   V  +     A  H     E SAKN  D   V+  F  L
Sbjct: 122 RSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  107 bits (266), Expect = 5e-30
 Identities = 50/167 (29%), Positives = 83/167 (49%), Gaps = 1/167 (0%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG 70
             + K++++G  GVGKS++ +  I +           D   K+ +V G   +L I DTAG
Sbjct: 4   SETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAG 63

Query: 71  QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD 130
           QE FG +   Y R  HG +LV+ +  R++F  +  ++ + +       D   +LVGNK D
Sbjct: 64  QEEFGAMREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILR-VKDRDDFPVVLVGNKAD 122

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +S+R V R E       H   + E SAK   +V + F+ L+  + +
Sbjct: 123 LESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK 169

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  107 bits (267), Expect = 5e-30
 Identities = 46/184 (25%), Positives = 84/184 (45%), Gaps = 15/184 (8%)

Query: 7   NNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIW 66
           +       K +++GD  VGK+ +L+S  +++  +       D     +TVGGK+  L ++
Sbjct: 3   HGPGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAVSVTVGGKQYLLGLY 62

Query: 67  DTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVG 126
           DTAGQE +  L    Y      ++ + V    +F N+   W  E++ Y    +   +L+G
Sbjct: 63  DTAGQEDYDRLRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY--APNVPFLLIG 120

Query: 127 NKVDRDSERA------------VTREEGMILAQEHK-CLFLECSAKNTEDVKQCFKDLLY 173
            ++D   +              +  E+G  LA+E   C ++ECSA   + +K  F + + 
Sbjct: 121 TQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAII 180

Query: 174 KILE 177
            IL 
Sbjct: 181 AILT 184

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  106 bits (265), Expect = 7e-30
 Identities = 45/164 (27%), Positives = 81/164 (49%), Gaps = 2/164 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K++++G  GVGKS++ + LI N   D       D   K + + G+   L I DTAGQE 
Sbjct: 4   YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQVVIDGETCLLDILDTAGQEE 63

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           +  +   Y R   G + V+ +   ++F      + ++++    + D   +LVGNK D  +
Sbjct: 64  YSAMRDQYMRTGEGFLCVFAINNTKSF-EDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA 122

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
              V   +   LA+ +   ++E SAK  + V+  F  L+ +I +
Sbjct: 123 RT-VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  106 bits (265), Expect = 1e-29
 Identities = 47/180 (26%), Positives = 81/180 (45%), Gaps = 15/180 (8%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           + K +++GD  VGK+ +L+S  +N+          D     + V GK + L +WDTAGQE
Sbjct: 5   AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMVDGKPVNLGLWDTAGQE 64

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  L    Y      ++ + +    +F N+ + W  EV  +  N     ILVG K+D  
Sbjct: 65  DYDRLRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPN--TPIILVGTKLDLR 122

Query: 133 SERAVTRE------------EGMILAQEHK-CLFLECSAKNTEDVKQCFKDLLYKILEVP 179
            ++    +            +G+ +A+E     +LECSA     +K  F + +  +L  P
Sbjct: 123 DDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPP 182

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  105 bits (263), Expect = 1e-29
 Identities = 69/167 (41%), Positives = 95/167 (56%), Gaps = 6/167 (3%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           S K++L+G++ VGKSSI+L  +SN    +  PTIG  F  + +T+    +K  IWDTAGQ
Sbjct: 3   SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQ 62

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           ERF +L   YYR A   ++VYDVT+ ++F        +       ++D +  LVGNK+D 
Sbjct: 63  ERFASLAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELH--EQASKDIIIALVGNKIDM 120

Query: 132 ---DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
                ER V REEG  LA+E   LF E SAK  E+V   F  +  KI
Sbjct: 121 LQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  104 bits (260), Expect = 5e-29
 Identities = 56/170 (32%), Positives = 90/170 (52%), Gaps = 3/170 (1%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
              FK++L+GD GVGKSS++   ++N        TIGV+F  K L V G  + + IWDTA
Sbjct: 4   SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTA 63

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           GQERF +L + +YRG+   +L + V   ++F NLS+   + +      +      V    
Sbjct: 64  GQERFRSLRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGN 123

Query: 130 DRD-SERAVTREEGMILAQEHK-CLFLECSAKNTEDVKQCFKDLLYKILE 177
             D SER V+ EE     +++    + E SAK+  +V   F++ + ++L 
Sbjct: 124 KIDISERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  104 bits (259), Expect = 5e-29
 Identities = 53/164 (32%), Positives = 87/164 (53%), Gaps = 1/164 (0%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           ++++++G  GVGKS++ +  I +           D   K   +  +  +L I DTAGQE 
Sbjct: 6   YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSYTKQCVIDDRAARLDILDTAGQEE 65

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           FG +   Y R   G +LV+ VT R +F  +   + +++       +   IL+GNK D D 
Sbjct: 66  FGAMREQYMRTGEGFLLVFSVTDRGSFEEIYK-FQRQILRVKDRDEFPMILIGNKADLDH 124

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +R VT+EEG  LA++ K  ++E SAK   +V Q F +L+  I +
Sbjct: 125 QRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRK 168

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (257), Expect = 2e-28
 Identities = 45/181 (24%), Positives = 80/181 (44%), Gaps = 17/181 (9%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K +++GD  VGK+ +L+S  +N    +  PT+  D     + +GG+   L ++DTAGQ
Sbjct: 3   TIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQ 61

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E +  L    Y      ++ + V    +F N+   W  E+           +LVG ++D 
Sbjct: 62  EDYDRLRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEI--THHCPKTPFLLVGTQIDL 119

Query: 132 DSERAVTR------------EEGMILAQEHK-CLFLECSAKNTEDVKQCFKDLLYKILEV 178
             + +               E    LA++ K   ++ECSA   + +K  F + +   LE 
Sbjct: 120 RDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEP 179

Query: 179 P 179
           P
Sbjct: 180 P 180

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  102 bits (254), Expect = 3e-28
 Identities = 58/163 (35%), Positives = 85/163 (52%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K+ L+GD+GVGKSSI+   + +S   + +PTIG  F  K +    +  K  IWDTAG E
Sbjct: 5   LKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLE 64

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           RF  L   YYRG+   I+VYD+T+ ETF+ L +   +           V  + GNK D  
Sbjct: 65  RFRALAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELR--QHGPPSIVVAIAGNKCDLT 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             R V   +    A     +F+E SAKN  ++ + F ++  +I
Sbjct: 123 DVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 165

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  102 bits (254), Expect = 4e-28
 Identities = 48/166 (28%), Positives = 82/166 (49%), Gaps = 2/166 (1%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           ++K++++GD GVGKS++ +                D  +K   +  +   L + DTAGQE
Sbjct: 4   TYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHTEIDNQWAILDVLDTAGQE 63

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            F  +   Y R   G ++VY VT + +F ++       + +       + ILV NKVD  
Sbjct: 64  EFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPM-ILVANKVDLM 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTED-VKQCFKDLLYKILE 177
             R VTR++G  +A ++   ++E SAK+    V + F DL+  I +
Sbjct: 123 HLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 168

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  101 bits (252), Expect = 8e-28
 Identities = 55/173 (31%), Positives = 96/173 (55%), Gaps = 3/173 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++GDSGVGK+S++   ++    +    TIG DF  K + V  + + + IWDTAGQE
Sbjct: 3   LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQE 62

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTN--QDCVKILVGNKVD 130
           RF +L  ++YRGA   +LV+DVT   TF  L S   + +   S    ++   +++GNK+D
Sbjct: 63  RFQSLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKID 122

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLE 183
            ++ +  T+        ++   + E SAK   +V+Q F+ +    L+  + +E
Sbjct: 123 LENRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVE 175

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  101 bits (251), Expect = 8e-28
 Identities = 47/159 (29%), Positives = 77/159 (48%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +++ + G  GVGKSS++L  +  +  +       D   ++++       L I DT G  +
Sbjct: 3   YRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVISCDKSICTLQITDTTGSHQ 62

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F  +        H  ILVY +T R++   L  ++ +  E+    +    +LVGNK D   
Sbjct: 63  FPAMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP 122

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
            R V   E   LA+  KC F+E SAK   +VK+ F++LL
Sbjct: 123 SREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 161

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  100 bits (248), Expect = 2e-27
 Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 2/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K++++G  GVGKS++ +  +     +       D   K + V  ++  L I DTAG E+
Sbjct: 4   YKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRKQVEVDCQQCMLEILDTAGTEQ 63

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
           F  +   Y +   G  LVY +T + TF N      +++      +D   ILVGNK D + 
Sbjct: 64  FTAMRDLYMKNGQGFALVYSITAQSTF-NDLQDLREQILRVKDTEDVPMILVGNKCDLED 122

Query: 134 ERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKI 175
           ER V +E+G  LA++   C FLE SAK+  +V + F DL+ +I
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI 165

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 99.7 bits (247), Expect = 4e-27
 Identities = 44/167 (26%), Positives = 71/167 (42%), Gaps = 8/167 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK++IL  L    V    PTIG + +    T+  K LKL +WD  GQ  
Sbjct: 18  LRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVE----TLSYKNLKLNVWDLGGQTS 73

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD- 132
                  YY     +I V D T ++  +  S      +      QD   ++  NK D+  
Sbjct: 74  IRPYWRCYYADTAAVIFVVDSTDKDRMSTASK-ELHLMLQEEELQDAALLVFANKQDQPG 132

Query: 133 --SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             S   V++E  ++  ++     +  SA   E + +    L+  I E
Sbjct: 133 ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKE 179

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score = 97.4 bits (241), Expect = 2e-26
 Identities = 29/163 (17%), Positives = 60/163 (36%), Gaps = 6/163 (3%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           +IL++G    GK++IL  L    +     T        + TV  K +  T+WD  GQ++ 
Sbjct: 2   RILMVGLDAAGKTTILYKLKLGEI----VTTIPTIGFNVETVEYKNISFTVWDVGGQDKI 57

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD-- 132
             L   Y++   G+I V D   RE          + +         + +    +   +  
Sbjct: 58  RPLWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM 117

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           +   +T + G+   +          A + + + +    L  ++
Sbjct: 118 NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 97.5 bits (241), Expect = 2e-26
 Identities = 59/166 (35%), Positives = 87/166 (52%), Gaps = 4/166 (2%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           + K++++G+  VGKSS++          D   TIGVDF  + + V  + ++L +WDTAGQ
Sbjct: 2   AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQ 61

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
           E F  +T +YYRGA   +LV+  T RE+F  +SS   K     +   D    LV NK+D 
Sbjct: 62  EEFDAITKAYYRGAQACVLVFSTTDRESFEAISSWREKV---VAEVGDIPTALVQNKIDL 118

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             +  +  EE   LA+  K  F   S K   +V + FK L  K L+
Sbjct: 119 LDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 164

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score = 96.9 bits (240), Expect = 5e-26
 Identities = 35/165 (21%), Positives = 64/165 (38%), Gaps = 8/165 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G    GK++IL  L         PT+G + +    TV  K +K  +WD  GQ++
Sbjct: 13  MRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDK 68

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR-- 131
              L   YY G  G+I V D   R+          + +      +D + ++  NK D   
Sbjct: 69  IRPLWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIIN-DREMRDAIILIFANKQDLPD 127

Query: 132 -DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
                 +  + G+   ++         A + + + +    L    
Sbjct: 128 AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.5 bits (231), Expect = 1e-24
 Identities = 46/178 (25%), Positives = 82/178 (46%), Gaps = 17/178 (9%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            K++++GD   GK+ +L+    +       PT+  +  +  + V GK+++L +WDTAG E
Sbjct: 3   KKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLE 61

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +  L    Y     I++ + +   ++  N+   W  EV+ +  N     ILVGNK D  
Sbjct: 62  DYDRLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPN--VPIILVGNKKDLR 119

Query: 133 SERAVTR------------EEGMILAQEHKCL-FLECSAKNTEDVKQCFKDLLYKILE 177
           ++    R            EEG  +A       ++ECSAK  + V++ F+      L+
Sbjct: 120 NDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 177

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 93.2 bits (230), Expect = 1e-24
 Identities = 48/165 (29%), Positives = 78/165 (47%), Gaps = 3/165 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K+ + G +GVGKS++++  ++                   T+  + + + I DTAGQE 
Sbjct: 3   VKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQATIDDEVVSMEILDTAGQED 62

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
                  + R   G +LVYD+T R +F  +  +    ++     ++   ILVGNK D D 
Sbjct: 63  TIQ-REGHMRWGEGFVLVYDITDRGSFEEVLPLK-NILDEIKKPKNVTLILVGNKADLDH 120

Query: 134 ERAVTREEGMILAQEHKCLFLECSAK-NTEDVKQCFKDLLYKILE 177
            R V+ EEG  LA E  C F ECSA     ++ + F +L  ++  
Sbjct: 121 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 165

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 93.2 bits (230), Expect = 1e-24
 Identities = 54/170 (31%), Positives = 93/170 (54%), Gaps = 6/170 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRL-KLTIWDTAGQ 71
            K++++GDSGVGK+S++   +++        TIG DF  K +TV G ++  + +WDTAGQ
Sbjct: 3   LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQ 62

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTN--QDCVKILVGNKV 129
           ERF +L  ++YRGA   +LVYDVT   +F N+ S   + +   + N  +    +++GNK+
Sbjct: 63  ERFQSLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKI 122

Query: 130 DRDSERAVTREEG--MILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           D +  + +  E+    +            SAKN  +V   F+++    L+
Sbjct: 123 DAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 172

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 89.4 bits (220), Expect = 3e-23
 Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 2/164 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
           +K+LL+G  GVGKS++            +   G     + + V G+   L ++D   Q+ 
Sbjct: 2   YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAG-HTYDRSIVVDGEEASLMVYDIWEQDG 60

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
              L           ++VY VT + +F   S +  +         D   ILVGNK D   
Sbjct: 61  GRWLPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRR-ARQTDDVPIILVGNKSDLVR 119

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            R V+ +EG   A    C F+E SA    +V+  F+ ++ +I  
Sbjct: 120 SREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL 163

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 88.6 bits (218), Expect = 5e-23
 Identities = 51/163 (31%), Positives = 79/163 (48%), Gaps = 1/163 (0%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           S KI ++G   VGKSS+ +  +     D       +   KL+TV G+   L + DTAGQ+
Sbjct: 4   SRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTFTKLITVNGQEYHLQLVDTAGQD 63

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
            +     +Y    +G ILVY VT  ++F  +  +  K ++          +LVGNK D  
Sbjct: 64  EYSIFPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLD-MVGKVQIPIMLVGNKKDLH 122

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
            ER ++ EEG  LA+     FLE SAK  +     F+ ++ + 
Sbjct: 123 MERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEA 165

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 88.6 bits (218), Expect = 6e-23
 Identities = 46/169 (27%), Positives = 86/169 (50%), Gaps = 6/169 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNS-VHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           FK++L+GD G GK++ +   ++         T+GV+    +       +K  +WDTAGQE
Sbjct: 4   FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQE 63

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD 132
           +FG L   YY  A   I+++DVT R T+ N+ +      +L    ++   +L GNK   D
Sbjct: 64  KFGGLRDGYYIQAQCAIIMFDVTSRVTYKNVPNWH---RDLVRVCENIPIVLCGNK--VD 118

Query: 133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPSL 181
            +    + + ++  ++    + + SAK+  + ++ F  L  K++  P+L
Sbjct: 119 IKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNL 167

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 88.5 bits (218), Expect = 9e-23
 Identities = 37/171 (21%), Positives = 65/171 (38%), Gaps = 8/171 (4%)

Query: 8   NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWD 67
           ++ D   +ILL+G    GK+++L  L S  +   +PT G + K    +V  +  KL +WD
Sbjct: 11  SAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIK----SVQSQGFKLNVWD 66

Query: 68  TAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGN 127
             GQ +      SY+     +I V D   R+ F   +     E+           ++  N
Sbjct: 67  IGGQRKIRPYWRSYFENTDILIYVIDSADRKRFEE-TGQELTELLEEEKLSCVPVLIFAN 125

Query: 128 KVD---RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
           K D         +     +   ++       CSA   E V+     +   +
Sbjct: 126 KQDLLTAAPASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 88.1 bits (217), Expect = 1e-22
 Identities = 34/165 (20%), Positives = 71/165 (43%), Gaps = 8/165 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K++++G    GK++IL     N V   SPTIG + +     +     +  +WD  GQE 
Sbjct: 16  HKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVE----EIVINNTRFLMWDIGGQES 71

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD--- 130
             +  ++YY     +I+V D T RE  +        ++  +   +    ++  NK D   
Sbjct: 72  LRSSWNTYYTNTEFVIVVVDSTDRERISVTREEL-YKMLAHEDLRKAGLLIFANKQDVKE 130

Query: 131 RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             +   +++   +   ++H+     C A   E + Q  + ++ ++
Sbjct: 131 CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 87.4 bits (215), Expect = 2e-22
 Identities = 36/176 (20%), Positives = 81/176 (46%), Gaps = 16/176 (9%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           KI+++GDS  GK+++L     +   +       +       +  +R++L++WDT+G   +
Sbjct: 4   KIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEIDTQRIELSLWDTSGSPYY 63

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD---- 130
             +    Y  +  +++ +D++R ET  ++   W  E++ +    +   +LVG K D    
Sbjct: 64  DNVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEF--CPNTKMLLVGCKSDLRTD 121

Query: 131 --------RDSERAVTREEGMILAQEHK-CLFLECSAKNTED-VKQCFKDLLYKIL 176
                      +  V+ ++G  +A++     ++ECSA  +E+ V+  F       +
Sbjct: 122 VSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 177

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 85.9 bits (211), Expect = 6e-22
 Identities = 37/165 (22%), Positives = 62/165 (37%), Gaps = 8/165 (4%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++L++G    GK++IL       V   SPT+G + K        +  KL IWD  GQ+ 
Sbjct: 3   LRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKTL----EHRGFKLNIWDVGGQKS 58

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
             +   +Y+    G+I V D   R+   +      + + +         ++  NK D   
Sbjct: 59  LRSYWRNYFESTDGLIWVVDSADRQRMQDCQREL-QSLLVEERLAGATLLIFANKQDLPG 117

Query: 134 ERAVT---REEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKI 175
             +         +   + H      CSA   ED+      LL  I
Sbjct: 118 ALSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 83.7 bits (205), Expect = 6e-21
 Identities = 38/169 (22%), Positives = 68/169 (40%), Gaps = 2/169 (1%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLISN--SVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDT 68
           +  ++++LIG+ GVGKS++         S+      +G D   + L V G+   + + D 
Sbjct: 1   NTYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDM 60

Query: 69  AGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK 128
              +        +        L+            +S    ++      +D   ILVGNK
Sbjct: 61  WENKGENEWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 120

Query: 129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            D    R V+  EG   A    C F+E SA    +VK+ F+ ++ ++  
Sbjct: 121 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRL 169

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 79.6 bits (195), Expect = 2e-19
 Identities = 32/168 (19%), Positives = 66/168 (39%), Gaps = 10/168 (5%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            ++ ++GD+  GKSS++   ++ S      T    +  K + V G+   + I + AG   
Sbjct: 6   LRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQY-KKEMLVDGQTHLVLIREEAGAPD 64

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVEL-YSTNQDCVKILVGNKVDRD 132
                  +   A  +I V+ +    +F  +S +  +   L           LVG +    
Sbjct: 65  A-----KFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS 119

Query: 133 SE--RAVTREEGMILAQE-HKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +   R V       L  +  +C + E  A    +V + F+++  K++ 
Sbjct: 120 ASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVT 167

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 80.2 bits (197), Expect = 3e-19
 Identities = 28/178 (15%), Positives = 51/178 (28%), Gaps = 17/178 (9%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           Y  + ++LL+G    GKS+I+  +    V     T G+            ++   ++D  
Sbjct: 3   YRATHRLLLLGAGESGKSTIVKQMRILHV---VLTSGIFET----KFQVDKVNFHMFDVG 55

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNL---------SSVWAKEVELYSTNQDC 120
           GQ          +     II V   +                 +    K +      +  
Sbjct: 56  GQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTI 115

Query: 121 VKILVGNKVDRDSERAVTREEGM-ILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
             IL  NK D  +E+ +  +  +     E         A              Y I +
Sbjct: 116 SVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRD 173

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 78.2 bits (191), Expect = 5e-19
 Identities = 28/167 (16%), Positives = 59/167 (35%), Gaps = 15/167 (8%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
           K+L +G    GK+++L  L ++ +     T+   +      +    +K T +D  G  + 
Sbjct: 2   KLLFLGLDNAGKTTLLHMLKNDRL----ATLQPTWHPTSEELAIGNIKFTTFDLGGHIQA 57

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE 134
             L   Y+   +GI+ + D    E F          +   +  +D   +++GNK+D  + 
Sbjct: 58  RRLWKDYFPEVNGIVFLVDAADPERFDEARV-ELDALFNIAELKDVPFVILGNKIDAPNA 116

Query: 135 RAVTR----------EEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
            +                  +  +       CS        + F+ L
Sbjct: 117 VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWL 163

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 77.1 bits (188), Expect = 2e-18
 Identities = 33/166 (19%), Positives = 59/166 (35%), Gaps = 6/166 (3%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            +IL++G  G GK++IL  L    V    PTIG + +        K LK  +WD  G   
Sbjct: 6   MRILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVETV----TYKNLKFQVWDLGGLTS 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKIL--VGNKVDR 131
                  YY     +I V D   R+      S     +E     +  + +     +    
Sbjct: 62  IRPYWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQA 121

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
            +   +    G+   ++ K    + SA     + +  + L+  +  
Sbjct: 122 MTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS 167

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 77.3 bits (189), Expect = 2e-18
 Identities = 29/199 (14%), Positives = 57/199 (28%), Gaps = 40/199 (20%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K+LL+G    GKS+ +  +         PT G+           + +   + D  GQ  
Sbjct: 3   LKLLLLGTGESGKSTFIKQMRIIHG-SGVPTTGIIEY----PFDLQSVIFRMVDVGGQRS 57

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNL---------SSVWAKEVELYSTNQDCVKIL 124
                   +     I+ +  ++  +              S    + +  Y   Q+   IL
Sbjct: 58  ERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVIL 117

Query: 125 VGNKVDRDSERAVTREEGMILAQ--------------------------EHKCLFLECSA 158
             NK D   E+ +         +                          +         A
Sbjct: 118 FLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCA 177

Query: 159 KNTEDVKQCFKDLLYKILE 177
            +TE+++  F  +   IL+
Sbjct: 178 TDTENIRFVFAAVKDTILQ 196

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 72.6 bits (177), Expect = 1e-16
 Identities = 27/167 (16%), Positives = 49/167 (29%), Gaps = 17/167 (10%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            KILL+G    GKS+ L  +    +H   PT G+           K +   + D  GQ  
Sbjct: 3   VKILLLGAGESGKSTFLKQM--RIIHGQDPTKGIHEY----DFEIKNVPFKMVDVGGQRS 56

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNL---------SSVWAKEVELYSTNQDCVKIL 124
                   +     I+ +   +  +              S    + +       +   IL
Sbjct: 57  ERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIIL 116

Query: 125 VGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL 171
             NK D   E+           +           +  + + +CF+  
Sbjct: 117 FLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQ--KFLVECFRGK 161

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 71.3 bits (173), Expect = 3e-16
 Identities = 32/163 (19%), Positives = 66/163 (40%), Gaps = 9/163 (5%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
            ++ L+G    GK++ +  + S     D  PT+G + +     +    + + +WD  GQ 
Sbjct: 3   MELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQP 58

Query: 73  RFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVD-- 130
           RF ++   Y RG   I+ + D   +E     S      +      Q    +++GNK D  
Sbjct: 59  RFRSMWERYCRGVSAIVYMVDAADQEKIEA-SKNELHNLLDKPQLQGIPVLVLGNKRDLP 117

Query: 131 -RDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL 172
               E+ +  +  +   Q+ +      S K  +++    + L+
Sbjct: 118 GALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI 160

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 70.0 bits (170), Expect = 1e-15
 Identities = 27/197 (13%), Positives = 61/197 (30%), Gaps = 10/197 (5%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF 74
            +L +G    GK+ + + L++    D   +I     I  +          I     +   
Sbjct: 2   AVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLR 61

Query: 75  GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYS--TNQDCVKILVGNKVDRD 132
             L   +   A  ++ V D    +      + +  +V + S         ++  NK D  
Sbjct: 62  FQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIA 121

Query: 133 SERAVTR------EEGMILAQEH--KCLFLECSAKNTEDVKQCFKDLLYKILEVPSLLEQ 184
             ++         +E   L          L+ S+     + +  K+  +  L +     +
Sbjct: 122 MAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLGKKGKEFEFSQLPLKVEFLE 181

Query: 185 GSAVVKNQILKQKEVQE 201
            SA          ++Q+
Sbjct: 182 CSAKGGRGDTGSADIQD 198

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 68.6 bits (166), Expect = 3e-15
 Identities = 30/181 (16%), Positives = 63/181 (34%), Gaps = 20/181 (11%)

Query: 10  YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
           Y  + K++ +G    GK+++L  L  + +    PT+    +     +    +  T +D  
Sbjct: 10  YKKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSE----ELTIAGMTFTTFDLG 65

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           G  +   +  +Y    +GI+ + D    E            +    T  +   +++GNK+
Sbjct: 66  GHIQARRVWKNYLPAINGIVFLVDCADHERLLESKE-ELDSLMTDETIANVPILILGNKI 124

Query: 130 DRD------------SERAVTREEGMILAQE---HKCLFLECSAKNTEDVKQCFKDLLYK 174
           DR                  T  +G +  +E          CS    +   + F+ +   
Sbjct: 125 DRPEAISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY 184

Query: 175 I 175
           I
Sbjct: 185 I 185

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 66.5 bits (161), Expect = 2e-14
 Identities = 33/199 (16%), Positives = 55/199 (27%), Gaps = 43/199 (21%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K+LL+G    GKS+I+  +            G+           K L   ++D  GQ  
Sbjct: 3   VKLLLLGAGESGKSTIVKQM----KIIHEAGTGIVET----HFTFKDLHFKMFDVGGQRS 54

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELY---------STNQDCVKIL 124
                   + G   II    ++  +          +  E               D   IL
Sbjct: 55  ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIIL 114

Query: 125 VGNKVDRDSERAVTREEG------------MILAQEHKCLFL--------------ECSA 158
             NK D   E+                      A   +C F                  A
Sbjct: 115 FLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCA 174

Query: 159 KNTEDVKQCFKDLLYKILE 177
            +T++V+  F  +   I++
Sbjct: 175 TDTKNVQFVFDAVTDVIIK 193

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 46.6 bits (109), Expect = 4e-07
 Identities = 30/199 (15%), Positives = 65/199 (32%), Gaps = 16/199 (8%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           Y   I++ G    GK+S+L  L ++SV    PT+     +      G  + L  +    +
Sbjct: 2   YQPSIIIAGPQNSGKTSLLTLLTTDSVR---PTVVSQEPLSAADYDGSGVTLVDFPGHVK 58

Query: 72  ERFGT---LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVG 126
            R+     L +        I +V      +  T  +      + +  +        ++  
Sbjct: 59  LRYKLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIAC 118

Query: 127 NKVDRDSERAVTRE--------EGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
           NK +  + R  ++         + +I  ++     +E      +  +     L       
Sbjct: 119 NKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQSTDGFK 178

Query: 179 PSLLEQGSAVVKNQILKQK 197
            + LE      +  I K+K
Sbjct: 179 FANLEASVVAFEGSINKRK 197

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]} Length = 180

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

 Score = 45.0 bits (105), Expect = 1e-06
 Identities = 19/166 (11%), Positives = 42/166 (25%), Gaps = 5/166 (3%)

Query: 16  ILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ---- 71
           + L+G    GKSS+L ++                    +    +  + T+ D  G     
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGA 63

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
                L   + R      ++  V         +    ++           +  +      
Sbjct: 64  SEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKV 123

Query: 132 DSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           D       +             L  SA     +    K+ L+ ++ 
Sbjct: 124 DLLEEEAVKALADALAREGLAVLPVSALTGAGLPA-LKEALHALVR 168

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 42.8 bits (99), Expect = 4e-06
 Identities = 24/163 (14%), Positives = 51/163 (31%), Gaps = 3/163 (1%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER 73
            K+++ G    GKSS+L +L        +   G    +    +    + L I DTAG   
Sbjct: 2   MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLRE 61

Query: 74  FGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS 133
                              +   R  F    +            +   ++     +    
Sbjct: 62  ASDEVERIGI--ERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVR 119

Query: 134 ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKIL 176
            +A    E + +++ +    +  SA+  E V    ++ L + +
Sbjct: 120 NKADITGETLGMSEVNGHALIRLSARTGEGVDV-LRNHLKQSM 161

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]} Length = 178

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

 Score = 42.8 bits (99), Expect = 7e-06
 Identities = 33/172 (19%), Positives = 54/172 (31%), Gaps = 2/172 (1%)

Query: 12  YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ 71
           YS  + ++G   VGKS++L +L+   V   SP      K     +   R ++   DT G 
Sbjct: 4   YSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGL 63

Query: 72  ERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDR 131
            +       +        L                  ++  +    +  V  +    V  
Sbjct: 64  HKPMDALGEFMDQEVYEALADVNAVVWVVDLRHPPTPEDELVARALKPLVGKVPILLVGN 123

Query: 132 DSERAVTREEGMILAQEHKCL--FLECSAKNTEDVKQCFKDLLYKILEVPSL 181
             + A   EE M    E          SA +   V +   DLL  + E P  
Sbjct: 124 KLDAAKYPEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALMPEGPFF 175

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]} Length = 400

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 41.3 bits (96), Expect = 4e-05
 Identities = 21/125 (16%), Positives = 36/125 (28%), Gaps = 8/125 (6%)

Query: 14  FKILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTA 69
             + + G++G GKSS + +L      +     +  + V  +            +  WD  
Sbjct: 57  LNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP-NVVFWDLP 115

Query: 70  GQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKV 129
           G         +Y          YD     + T          +  S  +      V  KV
Sbjct: 116 GIGSTNFPPDTYL--EKMKFYEYDFFIIISATRFKKNDIDIAKAISMMKKEF-YFVRTKV 172

Query: 130 DRDSE 134
           D D  
Sbjct: 173 DSDIT 177

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

 Score = 38.4 bits (88), Expect = 2e-04
 Identities = 27/169 (15%), Positives = 64/169 (37%), Gaps = 21/169 (12%)

Query: 15  KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAG---- 70
           +++++G   VGKS++L  L++      +   G    +    +  + +   I DTAG    
Sbjct: 2   RMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSE 61

Query: 71  -----QERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILV 125
                +      T      A  ++ V D +      +         ++    ++   ++V
Sbjct: 62  TNDLVERLGIERTLQEIEKADIVLFVLDASSPLDEEDR--------KILERIKNKRYLVV 113

Query: 126 GNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYK 174
            NKVD   +      +  +    H    ++ SA   E +++  ++ +Y+
Sbjct: 114 INKVDVVEKINEEEIKNKLGTDRH---MVKISALKGEGLEK-LEESIYR 158

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

 Score = 37.4 bits (85), Expect = 4e-04
 Identities = 26/177 (14%), Positives = 50/177 (28%), Gaps = 15/177 (8%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           + K+ ++G   VGKS++  ++++      SP  G         V     K    DTAG  
Sbjct: 8   AIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGRKYVFVDTAGLR 67

Query: 73  RFGTLTSSYYRGAHGI----------ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK 122
           R   +                     ++V  +   +  T      A  +E        V 
Sbjct: 68  RKSRVEPRTVEKYSNYRVVDSIEKADVVVIVLDATQGITRQDQRMAGLMERRGRASVVVF 127

Query: 123 ILVGNKVDRDSERAVTREEGM-ILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEV 178
                 V R+       +     L        +  SA    ++      ++  +   
Sbjct: 128 NKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNI----DRMIDAMNLA 180

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]} Length = 257

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

 Score = 37.5 bits (86), Expect = 5e-04
 Identities = 35/196 (17%), Positives = 59/196 (30%), Gaps = 23/196 (11%)

Query: 13  SFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQE 72
           S  IL++G  GVGKSS + S+I   V   SP      +  +++       L I DT G  
Sbjct: 32  SLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAGFTLNIIDTPGLI 91

Query: 73  RFGTLTSSYYR---------GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI 123
             G +                   ++ V  +           V     + +        I
Sbjct: 92  EGGYINDMALNIIKSFLLDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAI 151

Query: 124 LVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC---FKDLLYKILEVPS 180
           +            +  +E           F + S    + V+      KD     + V  
Sbjct: 152 VALTHAQFSPPDGLPYDE----------FFSKRSEALLQVVRSGASLKKDAQASDIPV-V 200

Query: 181 LLEQGSAVVKNQILKQ 196
           L+E      KN   ++
Sbjct: 201 LIENSGRCNKNDSDEK 216

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 34.8 bits (78), Expect = 0.004
 Identities = 24/176 (13%), Positives = 44/176 (25%), Gaps = 13/176 (7%)

Query: 11  DYSFKILLIGDSGVGKSSILLSLI--------SNSVHDPSPTIGVDFKIKLLTVGGKRLK 62
           D   ++   G S  GKSS L +L         S +          +       V      
Sbjct: 14  DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYG 73

Query: 63  LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK 122
                   + ++      Y      +  +  +               E  + S     V 
Sbjct: 74  YAEVPEEMKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVL 133

Query: 123 ILVGNKVDRDSERAVTRE-EGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILE 177
           +   +K+   + +A        +LA          S+      KQ    L  K+  
Sbjct: 134 LTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLK----KQGVDKLRQKLDT 185

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	210
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	100.0
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	100.0
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.98
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.97
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.97
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.97
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.96
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.95
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.94
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.94
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.93
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.92
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.92
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.91
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.91
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.91
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.91
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.9
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.9
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.89
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.88
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.87
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.87
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.86
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.85
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.85
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.85
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.84
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.83
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.81
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.78
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.77
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.72
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.72
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.7
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.69
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.69
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.67
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.61
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.59
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.58
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.4
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.34
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.33
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.29
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.05
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	99.03
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.02
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.97
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.92
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.47
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.35
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.34
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.29
d1okkd2	207	GTPase domain of the signal recognition particle r	98.25
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.24
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.2
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.15
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.1
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.03
d1ls1a2	207	GTPase domain of the signal sequence recognition p	97.98
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	97.75
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.63
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.55
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.47
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.47
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.38
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.34
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.33
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.29
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.28
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.24
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.24
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.23
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.22
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.21
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.2
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.19
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	97.19
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	97.15
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.14
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.1
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.06
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.05
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.05
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.03
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.02
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.99
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.93
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.91
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.9
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.87
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.85
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.81
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.79
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	96.77
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.76
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.75
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.73
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.73
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.73
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.72
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.71
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.68
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.67
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.67
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.67
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.66
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.65
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.65
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.63
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.63
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.62
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	96.6
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	96.59
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.59
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.57
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.54
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.54
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.54
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.53
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.51
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.46
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.45
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.42
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	96.39
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	96.39
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.38
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.34
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.33
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.32
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.32
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	96.3
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	96.27
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.26
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.26
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.24
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.22
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	96.19
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.17
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.05
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	96.01
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	96.0
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	95.99
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.95
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	95.93
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.9
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.87
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.85
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.77
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	95.75
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.74
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	95.65
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.51
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.48
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.37
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	95.31
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	95.19
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	95.04
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	94.99
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	94.94
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	94.9
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.88
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.88
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	94.7
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.64
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	94.63
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.62
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.61
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.6
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	94.52
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	94.45
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.35
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	94.21
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	94.05
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	94.04
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	93.97
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	93.87
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	93.84
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	93.82
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	93.8
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	93.75
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	93.72
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.71
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	93.64
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	93.56
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	93.52
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	93.41
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	93.32
d1tuea_	205	Replication protein E1 helicase domain {Human papi	93.11
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.1
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	93.06
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.89
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	92.77
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	92.56
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	92.42
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.38
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	92.3
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	92.13
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.8
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	91.69
d1xpua3	289	Transcription termination factor Rho, ATPase domai	91.2
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	91.03
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	90.66
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	90.54
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	89.96
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.9
d1xx6a1	141	Thymidine kinase, TK1, N-terminal domain {Clostrid	88.86
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	87.84
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	86.41
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	86.4
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	86.38
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	85.12
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	85.0
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	84.43
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	83.99
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.51
g1qhh.1	623	DEXX box DNA helicase {Bacillus stearothermophilus	82.9
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	82.73
d7mdha1	175	Malate dehydrogenase {Sorghum (Sorghum vulgare), c	82.25
d1eg7a_	549	Formyltetrahydrofolate synthetase {Moorella thermo	81.19
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	80.94
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	80.68
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	80.13

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-37  Score=222.22  Aligned_cols=171  Identities=29%  Similarity=0.485  Sum_probs=150.7

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +++.+++||+++|++|||||||+++|.++.+.........+.....+.+++..+.+.+||++|.+.+...+..+++.+|+
T Consensus         1 p~~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~   80 (173)
T d2fn4a1           1 PPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHG   80 (173)
T ss_dssp             CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSE
T ss_pred             CCCCCeEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEeccCCeeeeeeccccccccccccccchhhcccee
Confidence            34568899999999999999999999999988844444556666778889999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.+|..+. .|...+.......+.|+++|+||+|+...+.+..+++..++...+++|++|||++|.||+++
T Consensus        81 ~i~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~  159 (173)
T d2fn4a1          81 FLLVFAINDRQSFNEVG-KLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEA  159 (173)
T ss_dssp             EEEEEETTCHHHHHHHH-HHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHH
T ss_pred             eeeecccccccccchhh-hhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHH
Confidence            99999999999999998 56665555444678899999999999888888899999999999999999999999999999


Q ss_pred             HHHHHHHHHccc
Q 028315          168 FKDLLYKILEVP  179 (210)
Q Consensus       168 ~~~i~~~~~~~~  179 (210)
                      |++|++.+.+.+
T Consensus       160 f~~l~~~i~k~~  171 (173)
T d2fn4a1         160 FEQLVRAVRKYQ  171 (173)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHh
Confidence            999999987544

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.1e-37  Score=219.73  Aligned_cols=164  Identities=26%  Similarity=0.340  Sum_probs=132.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|++|||||||+++|.+..+....++.+.. +...+.+++..+.+.+||++|++.+..++..+++.+|++++|||
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~-~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d   80 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPEAEAAGHT-YDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYS   80 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC---------CEE-EEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEE
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCcCCeeeee-ecceeeccccccceeeeecccccccceecccchhhhhhhceecc
Confidence            79999999999999999999888776655555544 44567789999999999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLY  173 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~  173 (210)
                      ++++.+++.+. .|...+.........|+++|+||+|+.+.+.+...+++.++..++++|++|||++|.||+++|.+|++
T Consensus        81 ~t~~~s~~~~~-~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~  159 (168)
T d2gjsa1          81 VTDKGSFEKAS-ELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVR  159 (168)
T ss_dssp             TTCHHHHHHHH-HHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHH
T ss_pred             ccccccccccc-cccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHH
Confidence            99999999998 67777666654677899999999999888889999999999999999999999999999999999999


Q ss_pred             HHHccc
Q 028315          174 KILEVP  179 (210)
Q Consensus       174 ~~~~~~  179 (210)
                      .+..++
T Consensus       160 ~i~~~~  165 (168)
T d2gjsa1         160 QIRLRR  165 (168)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            887554

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=8.3e-37  Score=217.71  Aligned_cols=167  Identities=46%  Similarity=0.778  Sum_probs=150.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|||||||+++|.++.+.. +.++.+.+.....+......+.+.+|||||++.+..++..+++.+|++
T Consensus         2 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~   81 (169)
T d3raba_           2 FDYMFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGF   81 (169)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEE
T ss_pred             CCeEEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEE
Confidence            3678999999999999999999999998776 788888889888888999999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |+|||+++++++..... |........ ....|+++++||.|+...+.+..+++..+++.++++|++|||++|.||+++|
T Consensus        82 ilv~d~~~~~s~~~~~~-~~~~~~~~~-~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f  159 (169)
T d3raba_          82 ILMYDITNEESFNAVQD-WSTQIKTYS-WDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTF  159 (169)
T ss_dssp             EEEEETTCHHHHHTHHH-HHHHHHHHC-CSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHH
T ss_pred             EEEEECccchhhhhhhh-hhhhhhccc-CCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHH
Confidence            99999999999999984 444444333 5678999999999998888899999999999999999999999999999999


Q ss_pred             HHHHHHHHcc
Q 028315          169 KDLLYKILEV  178 (210)
Q Consensus       169 ~~i~~~~~~~  178 (210)
                      ++|++.+.++
T Consensus       160 ~~l~~~i~ek  169 (169)
T d3raba_         160 ERLVDVICEK  169 (169)
T ss_dssp             HHHHHHHHTC
T ss_pred             HHHHHHHhhC
Confidence            9999988753

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=6.1e-37  Score=217.39  Aligned_cols=162  Identities=36%  Similarity=0.569  Sum_probs=149.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||+++|.++.+.. +.+|.+.+........++..+.+.+|||+|++.+..++..+++.+|++++|
T Consensus         2 ~iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v   81 (164)
T d1z2aa1           2 AIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLV   81 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEE
T ss_pred             eEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEE
Confidence            4899999999999999999999988877 788888888888888999999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+|+.+. .|+..+....  .+.|+++|+||+|+...+.+..++++.+++.++++|++|||++|.||+++|++|
T Consensus        82 ~d~~~~~s~~~~~-~~~~~i~~~~--~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l  158 (164)
T d1z2aa1          82 FSTTDRESFEAIS-SWREKVVAEV--GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYL  158 (164)
T ss_dssp             EETTCHHHHHTHH-HHHHHHHHHH--CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHH
T ss_pred             Eeccchhhhhhcc-cccccccccC--CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHH
Confidence            9999999999998 7877776654  578999999999998888899999999999999999999999999999999999


Q ss_pred             HHHHHc
Q 028315          172 LYKILE  177 (210)
Q Consensus       172 ~~~~~~  177 (210)
                      ++.+++
T Consensus       159 ~~~~lq  164 (164)
T d1z2aa1         159 AEKHLQ  164 (164)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            998864

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.3e-37  Score=218.33  Aligned_cols=165  Identities=39%  Similarity=0.691  Sum_probs=143.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .|.+||+++|++|||||||+++|.++.+.+ +.++.+.+........++..+.+.+||++|.+.+..++..+++++|+++
T Consensus         1 ~y~fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (167)
T d1z08a1           1 AYSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAI   80 (167)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEE
T ss_pred             CceEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeE
Confidence            378999999999999999999999999887 7888888888888888999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++++|+.+. .|...+.... ....|+++++||+|+...+.++.++++.+++.++++|++|||++|.||+++|.
T Consensus        81 ~v~d~~~~~Sf~~~~-~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~  158 (167)
T d1z08a1          81 LVYDITDEDSFQKVK-NWVKELRKML-GNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFL  158 (167)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHHHH-GGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHH
T ss_pred             EEEeCCchhHHHhhh-hhhhhccccc-ccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHH
Confidence            999999999999999 4555444433 36778999999999988889999999999999999999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      +|++++++
T Consensus       159 ~l~~~i~~  166 (167)
T d1z08a1         159 DLCKRMIE  166 (167)
T ss_dssp             HHHHHHHC
T ss_pred             HHHHHHhh
Confidence            99999875

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=4e-36  Score=214.17  Aligned_cols=164  Identities=30%  Similarity=0.498  Sum_probs=146.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++||+++|++|||||||++++.++.+.+ +.++.+.. +.....+++..+.+.+||++|.+.+...+..+++.+|++++
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ll   81 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLI   81 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEE
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEEEE
Confidence            47999999999999999999999998877 66666544 45566789999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc-CHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE-DVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~l~~  169 (210)
                      |||++++.+|..+. .|...+.+.....+.|+++++||+|+...+.++.+++..+++.++++|++|||+++. ||+++|.
T Consensus        82 v~d~~d~~Sf~~~~-~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~  160 (169)
T d1x1ra1          82 VYSVTDKASFEHVD-RFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFH  160 (169)
T ss_dssp             EEETTCHHHHHTHH-HHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHH
T ss_pred             ecccccchhhhccc-hhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHH
Confidence            99999999999998 566666555546789999999999999888999999999999999999999999875 9999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      .|++.+.+
T Consensus       161 ~l~~~i~~  168 (169)
T d1x1ra1         161 DLVRVIRQ  168 (169)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99998875

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-36  Score=216.43  Aligned_cols=167  Identities=40%  Similarity=0.746  Sum_probs=150.3

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|++|||||||+++|..+.+.. +.++.+.++....+.+.+..+.+.+|||||++.+..++..+++++|++
T Consensus         2 ~~~~~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~   81 (171)
T d2ew1a1           2 YDFLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANAL   81 (171)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEE
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceE
Confidence            3578999999999999999999999999877 788888899988999999999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|++++.+++.+..+| ..+.... ....|+++|+||+|+...+.+..++++.++...++++++|||++|.||+++|
T Consensus        82 i~v~d~~~~~s~~~~~~~~-~~i~~~~-~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f  159 (171)
T d2ew1a1          82 ILTYDITCEESFRCLPEWL-REIEQYA-SNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLF  159 (171)
T ss_dssp             EEEEETTCHHHHHTHHHHH-HHHHHHS-CTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHH
T ss_pred             EEeeecccchhhhhhhhhh-hhhcccc-cccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHH
Confidence            9999999999999999544 4444333 4678999999999998888889999999999999999999999999999999


Q ss_pred             HHHHHHHHcc
Q 028315          169 KDLLYKILEV  178 (210)
Q Consensus       169 ~~i~~~~~~~  178 (210)
                      .+|++.++..
T Consensus       160 ~~l~~~l~~~  169 (171)
T d2ew1a1         160 LDLACRLISE  169 (171)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999887643

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.8e-36  Score=213.85  Aligned_cols=164  Identities=34%  Similarity=0.493  Sum_probs=147.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+.+||+++|++|||||||+++|.++.+.. +.|+.+..+ ...+.+++..+.+.+||++|.+.+..++..+++.+|+++
T Consensus         2 ~k~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~i   80 (167)
T d1xtqa1           2 SKSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYI   80 (167)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEE
T ss_pred             CcceEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhh
Confidence            357899999999999999999999988877 677777765 456688999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++.+|+.+. .|...+.......+.|+++|+||+|+...+.++.++++.+++.++++|++|||++|.||+++|.
T Consensus        81 lv~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~  159 (167)
T d1xtqa1          81 LVYSVTSIKSFEVIK-VIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFR  159 (167)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHH
T ss_pred             hhcccchhhhhhhhh-hhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHH
Confidence            999999999999998 5665555555467899999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHHH
Q 028315          170 DLLYKIL  176 (210)
Q Consensus       170 ~i~~~~~  176 (210)
                      .|++.+.
T Consensus       160 ~li~~~~  166 (167)
T d1xtqa1         160 RIILEAE  166 (167)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHhc
Confidence            9998775

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.9e-36  Score=213.06  Aligned_cols=163  Identities=47%  Similarity=0.787  Sum_probs=148.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +|.+||+++|++|||||||++++.++.+.. +.++.+.++......+++..+.+.+||+||++.+..++..+++.+|+++
T Consensus         2 ~y~~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~i   81 (166)
T d1z0fa1           2 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGAL   81 (166)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEE
T ss_pred             cEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEE
Confidence            578999999999999999999999998877 7778888888888899999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|+|++++++|+.+. .|...+.... ....|+++++||+|+.....+..++++.+++..++++++|||++|.||+++|.
T Consensus        82 lv~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~  159 (166)
T d1z0fa1          82 MVYDITRRSTYNHLS-SWLTDARNLT-NPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFL  159 (166)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEeccCchHHHHHHH-HHHHHHHhhc-cccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHH
Confidence            999999999999998 4555554443 56789999999999988888888899999999999999999999999999999


Q ss_pred             HHHHHH
Q 028315          170 DLLYKI  175 (210)
Q Consensus       170 ~i~~~~  175 (210)
                      +|++.+
T Consensus       160 ~i~~~i  165 (166)
T d1z0fa1         160 EAAKKI  165 (166)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            999876

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=100.00  E-value=3.3e-36  Score=214.36  Aligned_cols=164  Identities=28%  Similarity=0.509  Sum_probs=144.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +.+||+++|++|||||||+++|..+.+.. +.||.+.++ ...+.+++..+.+.+||++|.+.+..++..+++++|++++
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~il   81 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLC   81 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEE
Confidence            45899999999999999999999998877 677777665 4566789999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|+.+. .|+..+.......+.|+++|+||+|+...+.++.++++.++..+++++++|||++|.||+++|.+
T Consensus        82 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~  160 (168)
T d1u8za_          82 VFSITEMESFAATA-DFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFD  160 (168)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeeccchhhhhhHH-HHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            99999999999998 67777666655678999999999999888889999999999999999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      |++.+..
T Consensus       161 l~~~i~~  167 (168)
T d1u8za_         161 LMREIRA  167 (168)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHC
Confidence            9998764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=9.8e-36  Score=211.72  Aligned_cols=163  Identities=37%  Similarity=0.620  Sum_probs=149.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+++||+++|.+|||||||++||..+.+.+ +.++.+................+.+||++|++.+..++..+++.+|+++
T Consensus         2 ~k~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   81 (167)
T d1z0ja1           2 LRELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAI   81 (167)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEE
T ss_pred             CceeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceE
Confidence            367999999999999999999999999887 7888888888888888999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||++++++|+.+. .|...+.... ....|+++|+||+|+...+.+..++++.++...+++|++|||++|.||+++|.
T Consensus        82 ~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~  159 (167)
T d1z0ja1          82 IVYDITKEETFSTLK-NWVRELRQHG-PPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFI  159 (167)
T ss_dssp             EEEETTCHHHHHHHH-HHHHHHHHHS-CTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHH
T ss_pred             EEeeechhhhhhhHH-Hhhhhhhhcc-CCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHH
Confidence            999999999999998 5555554444 57899999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 028315          170 DLLYKI  175 (210)
Q Consensus       170 ~i~~~~  175 (210)
                      +|++++
T Consensus       160 ~l~~~i  165 (167)
T d1z0ja1         160 EISRRI  165 (167)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            999876

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.7e-35  Score=215.32  Aligned_cols=173  Identities=48%  Similarity=0.790  Sum_probs=154.8

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +.++-+||+|+|++|||||||+++|.++.+.. +.++.+.++....+.+.+..+.+.+|||||++.+..++..+++++|+
T Consensus         2 ~~~~~~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~   81 (194)
T d2bcgy1           2 EYDYLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHG   81 (194)
T ss_dssp             CCSEEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSE
T ss_pred             CCCEEEEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCE
Confidence            45788999999999999999999999998777 78888988888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +|+|||++++.++..+.. |...+.... ....|+++|+||.|+.+...+..++...++...++.|+++||++|.||+++
T Consensus        82 ~i~v~d~t~~~s~~~~~~-~~~~~~~~~-~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~  159 (194)
T d2bcgy1          82 IIIVYDVTDQESFNGVKM-WLQEIDRYA-TSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDA  159 (194)
T ss_dssp             EEEEEETTCHHHHHHHHH-HHHHHHHHS-CTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEeCcchhhhhhHhh-hhhhhhhcc-cCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHH
Confidence            999999999999999985 444444433 578899999999999988899999999999999999999999999999999


Q ss_pred             HHHHHHHHHccchhhh
Q 028315          168 FKDLLYKILEVPSLLE  183 (210)
Q Consensus       168 ~~~i~~~~~~~~~~~~  183 (210)
                      |.+|++.+.+......
T Consensus       160 f~~l~~~i~~~~~~~~  175 (194)
T d2bcgy1         160 FLTMARQIKESMSQQN  175 (194)
T ss_dssp             HHHHHHHHHHHCCHHH
T ss_pred             HHHHHHHHHHHhhhcc
Confidence            9999999886655433

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-35  Score=212.19  Aligned_cols=165  Identities=34%  Similarity=0.570  Sum_probs=142.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +..+||+++|++|||||||++++.++.+.. +.++.+ +.....+.+++..+.+.+||++|.+.+...+..+++.+|+++
T Consensus         3 ~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (171)
T d2erya1           3 QEKYRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFL   81 (171)
T ss_dssp             CCEEEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEE
T ss_pred             CcceEEEEECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEE
Confidence            345899999999999999999999998877 566655 555677788999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||.+++.+|+.+. .|...+.........|+++|+||+|+...+.+..+++..+++.++++|++|||++|.||+++|.
T Consensus        82 lv~d~~~~~s~~~~~-~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~  160 (171)
T d2erya1          82 LVFSVTDRGSFEEIY-KFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFH  160 (171)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHH
T ss_pred             EeeccccccchhhHH-HHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHH
Confidence            999999999999998 5655554444467889999999999988888999999999999999999999999999999999


Q ss_pred             HHHHHHHc
Q 028315          170 DLLYKILE  177 (210)
Q Consensus       170 ~i~~~~~~  177 (210)
                      +|++.+.+
T Consensus       161 ~l~~~i~k  168 (171)
T d2erya1         161 ELVRVIRK  168 (171)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99998754

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.9e-36  Score=215.27  Aligned_cols=165  Identities=29%  Similarity=0.501  Sum_probs=142.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++||+++|.+|||||||+++|+++.+.+ +.+|.+..+ .....+++..+.+.+||++|.+.+...+..+++.+|++++
T Consensus         1 n~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   79 (171)
T d2erxa1           1 NDYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFIL   79 (171)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEE
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEE
Confidence            46899999999999999999999998877 667777554 4456788999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++++++.+..+|...........+.|+++|+||+|+...+.+..++++.+++.+++++++|||++|.||+++|..
T Consensus        80 v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~  159 (171)
T d2erxa1          80 VYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQE  159 (171)
T ss_dssp             EEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHH
T ss_pred             EeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHH
Confidence            99999999999998544444443333567899999999999888889999999999999999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      |++.+.+
T Consensus       160 l~~~~~~  166 (171)
T d2erxa1         160 LLNLEKR  166 (171)
T ss_dssp             HHHTCCS
T ss_pred             HHHHHHH
Confidence            9976543

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-35  Score=212.65  Aligned_cols=168  Identities=48%  Similarity=0.790  Sum_probs=151.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      .++.+||+++|.+|||||||+++|.++.+.+ +.++.+.+.....+..+.....+.+|||||++.+..++..+++.+|++
T Consensus         2 ~~~~~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~   81 (174)
T d2bmea1           2 YDFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGA   81 (174)
T ss_dssp             CSEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEE
Confidence            4678999999999999999999999998877 778888888888888899999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ++|+|.+++.++..+. .|...+.... ..+.|+++|+||+|+.....+..+++..++...+++|++|||++|.|++++|
T Consensus        82 i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f  159 (174)
T d2bmea1          82 LLVYDITSRETYNALT-NWLTDARMLA-SQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAF  159 (174)
T ss_dssp             EEEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHH
T ss_pred             EEEEecccchhHHHHh-hhhccccccc-CCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHH
Confidence            9999999999999998 4555554444 4689999999999998888888888899999999999999999999999999


Q ss_pred             HHHHHHHHccc
Q 028315          169 KDLLYKILEVP  179 (210)
Q Consensus       169 ~~i~~~~~~~~  179 (210)
                      .++++.+.++.
T Consensus       160 ~~l~~~i~~~~  170 (174)
T d2bmea1         160 VQCARKILNKI  170 (174)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHH
Confidence            99999988553

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-35  Score=210.77  Aligned_cols=173  Identities=53%  Similarity=0.908  Sum_probs=155.9

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +...++||+++|++|||||||+++|.++.+.. +.++.+.......+.+++..+.+.+|||||++.+..++..++.++|+
T Consensus         3 ~~~~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   82 (177)
T d1x3sa1           3 DVLTTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQG   82 (177)
T ss_dssp             TEEEEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCE
T ss_pred             cccceeEEEEECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCE
Confidence            44678999999999999999999999999877 77888888888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.+++.+. .|...+.........|+++++||.|.. .+.+..++++.++..++++|++|||++|.||+++
T Consensus        83 ii~v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~  160 (177)
T d1x3sa1          83 VILVYDVTRRDTFVKLD-NWLNELETYCTRNDIVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCA  160 (177)
T ss_dssp             EEEEEETTCHHHHHTHH-HHHHHHTTCCSCSCCEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHH
T ss_pred             EEEEEECCCccccccch-hhhhhhcccccccceeeEEEeeccccc-cccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHH
Confidence            99999999999999998 666666665556778999999999964 5678888999999999999999999999999999


Q ss_pred             HHHHHHHHHccchhhh
Q 028315          168 FKDLLYKILEVPSLLE  183 (210)
Q Consensus       168 ~~~i~~~~~~~~~~~~  183 (210)
                      |+++++.+.+.+..++
T Consensus       161 f~~l~~~l~~~p~l~~  176 (177)
T d1x3sa1         161 FEELVEKIIQTPGLWE  176 (177)
T ss_dssp             HHHHHHHHHTSGGGTC
T ss_pred             HHHHHHHHccCccccc
Confidence            9999999999987765

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.3e-36  Score=212.07  Aligned_cols=163  Identities=33%  Similarity=0.575  Sum_probs=145.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++||+++|++|||||||+++|.++.+.+ +.++.+ +.......+++..+.+.+||++|.+.+...+..+++.+|++++
T Consensus         2 k~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~il   80 (167)
T d1kaoa_           2 REYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIL   80 (167)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceee
Confidence            57999999999999999999999999877 555555 5566677889999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|..+. .|...+.......+.|+++|+||+|+...+.+..++++.+++.+++++++|||++|.||+++|.+
T Consensus        81 v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~  159 (167)
T d1kaoa_          81 VYSLVNQQSFQDIK-PMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAE  159 (167)
T ss_dssp             EEETTCHHHHHHHH-HHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHH
T ss_pred             eeeecchhhhhhhh-chhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHH
Confidence            99999999999999 55555555444578999999999999888888999999999999999999999999999999999


Q ss_pred             HHHHHH
Q 028315          171 LLYKIL  176 (210)
Q Consensus       171 i~~~~~  176 (210)
                      |++++.
T Consensus       160 i~~~i~  165 (167)
T d1kaoa_         160 IVRQMN  165 (167)
T ss_dssp             HHHHHH
T ss_pred             HHHHHc
Confidence            998764

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.7e-35  Score=211.01  Aligned_cols=164  Identities=37%  Similarity=0.631  Sum_probs=148.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      -.+||+++|++|||||||+++|..+.+.. +.++.+.+............+.+.+||++|++.+...+..+++.+|++++
T Consensus         5 ~~~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   84 (170)
T d1r2qa_           5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIV   84 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEE
T ss_pred             eEEEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEE
Confidence            46899999999999999999999999877 78888888888888889999999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |+|.+++.+|+.+..+| ..+.... ..+.|+++|+||+|+...+.++.++++.++..++++|++|||++|.||+++|.+
T Consensus        85 v~d~~~~~s~~~~~~~~-~~~~~~~-~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~  162 (170)
T d1r2qa_          85 VYDITNEESFARAKNWV-KELQRQA-SPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMA  162 (170)
T ss_dssp             EEETTCHHHHHHHHHHH-HHHHHHS-CTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHH
T ss_pred             EeccchhhHHHHHHHHh-hhhhhcc-CCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHH
Confidence            99999999999999544 4443333 468999999999999888899999999999999999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      |++.+.+
T Consensus       163 l~~~i~~  169 (170)
T d1r2qa_         163 IAKKLPK  169 (170)
T ss_dssp             HHHTSCC
T ss_pred             HHHHHhh
Confidence            9987754

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-35  Score=209.98  Aligned_cols=161  Identities=35%  Similarity=0.606  Sum_probs=145.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|.+|||||||+++|.++.+.. +.++.+.+........++..+.+.+||++|++.+...+..++..+|++++||
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~   80 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVY   80 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEE
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEee
Confidence            589999999999999999999999877 7788888888888888889999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLL  172 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~  172 (210)
                      |++++.+|+.+..+| ..+.... ..+.|+++|+||+|+...+.+..+++..+++.++++|++|||++|.||+++|.+|+
T Consensus        81 d~~~~~s~~~i~~~~-~~~~~~~-~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~  158 (164)
T d1yzqa1          81 DITNVNSFQQTTKWI-DDVRTER-GSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVA  158 (164)
T ss_dssp             ETTCHHHHHTHHHHH-HHHHHHH-TTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             ccccccchhhhHhhH-HHHHHhc-CCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHH
Confidence            999999999999544 4444443 46889999999999988888888999999999999999999999999999999999


Q ss_pred             HHHH
Q 028315          173 YKIL  176 (210)
Q Consensus       173 ~~~~  176 (210)
                      ++|.
T Consensus       159 ~~l~  162 (164)
T d1yzqa1         159 AALP  162 (164)
T ss_dssp             HHSC
T ss_pred             HhhC
Confidence            8765

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.6e-35  Score=212.86  Aligned_cols=165  Identities=30%  Similarity=0.551  Sum_probs=145.5

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      +....+||+++|.+|||||||+++|..+.+.+ +.+|.+ +.....+...+..+.+.+||++|++.+...+..+++.+|+
T Consensus         5 ~~~~~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~-~~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~   83 (185)
T d2atxa1           5 PGALMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDV   83 (185)
T ss_dssp             CEEEEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSC-CCEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSE
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHhhCCCCCcCCCcee-eeeeEEEeeCCceEEeecccccccchhhhhhhhcccccce
Confidence            45778999999999999999999999999877 667765 4455566778889999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcC-CeEE
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHK-CLFL  154 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~-~~~~  154 (210)
                      +++|||++++++|+.+..+|...+....  .+.|+++|+||+|+.+            .+.++.+++..++..++ +.|+
T Consensus        84 ~ilv~d~t~~~Sf~~~~~~~~~~~~~~~--~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~  161 (185)
T d2atxa1          84 FLICFSVVNPASFQNVKEEWVPELKEYA--PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYV  161 (185)
T ss_dssp             EEEEEETTCHHHHHHHHHTHHHHHHHHS--TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEE
T ss_pred             eeeccccchHHHHHHHHHHHHHHHHhcC--CCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEE
Confidence            9999999999999988878888877654  6789999999999864            46788889999999887 6899


Q ss_pred             EecccCCcCHHHHHHHHHHHHH
Q 028315          155 ECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       155 ~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      +|||++|.||+++|+.++++++
T Consensus       162 E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         162 ECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             ECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EecCCCCcCHHHHHHHHHHHHc
Confidence            9999999999999999998875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.3e-35  Score=210.11  Aligned_cols=166  Identities=46%  Similarity=0.766  Sum_probs=145.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      |-+||+|+|++|||||||++++.++.+.. +.++.+.+............+.+.+||++|++.+..++..+++.+|++++
T Consensus         2 y~~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~il   81 (173)
T d2a5ja1           2 YLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALL   81 (173)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEE
Confidence            67999999999999999999999998877 66777777777777888889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|+.+..+| ..+.... ..+.|+++|+||+|+...+.+..+++..++...+++|++|||++|.||+++|.+
T Consensus        82 v~d~~~~~sf~~~~~~~-~~~~~~~-~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~  159 (173)
T d2a5ja1          82 VYDITRRETFNHLTSWL-EDARQHS-SSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFIN  159 (173)
T ss_dssp             EEETTCHHHHHTHHHHH-HHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHH
T ss_pred             EEeecChHHHHhHHHHH-HHHHHhC-CCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHH
Confidence            99999999999999544 4444443 467899999999999888888999999999999999999999999999999999


Q ss_pred             HHHHHHccc
Q 028315          171 LLYKILEVP  179 (210)
Q Consensus       171 i~~~~~~~~  179 (210)
                      +++.+.++.
T Consensus       160 i~~~i~~~~  168 (173)
T d2a5ja1         160 TAKEIYRKI  168 (173)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            999987543

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.3e-35  Score=209.95  Aligned_cols=163  Identities=31%  Similarity=0.491  Sum_probs=141.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|++|||||||+++|.++.+.+ +.||.+.++.. ....++..+.+.+||++|.+.+. .+..+++.+|++++|
T Consensus         2 eiKi~lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~~-~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv   79 (168)
T d2atva1           2 EVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRH-QATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLV   79 (168)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEEE-EEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEE
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhCCCCCccCCceeccccc-cccccccceEEEEeecccccccc-cchhhhcccccceee
Confidence            4899999999999999999999999877 77887776553 44678889999999999998774 556788999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCc-CHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTE-DVKQCFKD  170 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~-~i~~l~~~  170 (210)
                      ||++++.+|..+. .|...........+.|+++|+||+|+...+.++.++++.++..++++|++|||++|. ||+++|.+
T Consensus        80 ~d~~~~~s~~~~~-~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~  158 (168)
T d2atva1          80 YDITDRGSFEEVL-PLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYE  158 (168)
T ss_dssp             EETTCHHHHHTHH-HHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHH
T ss_pred             cccCCccchhhhh-hhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHH
Confidence            9999999999998 555555444445789999999999998888899999999999999999999999998 59999999


Q ss_pred             HHHHHHcc
Q 028315          171 LLYKILEV  178 (210)
Q Consensus       171 i~~~~~~~  178 (210)
                      |++.+.++
T Consensus       159 l~~~i~~~  166 (168)
T d2atva1         159 LCREVRRR  166 (168)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHh
Confidence            99988754

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.9e-35  Score=209.18  Aligned_cols=167  Identities=43%  Similarity=0.738  Sum_probs=147.9

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++-+||+++|++|||||||+++|.++.+.. +.++.+.+.....+.+++..+.+.+||++|++.|...+..+++.+|+++
T Consensus         2 ~~~~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i   81 (175)
T d2f9la1           2 DYLFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGAL   81 (175)
T ss_dssp             SEEEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEE
T ss_pred             CEEEEEEEECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEE
Confidence            577999999999999999999999998877 7778888888888889999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~  169 (210)
                      +|||.+++.+|..+. .|...+.... ..+.|+++|+||+|+.+.+....+....+....+.+|++|||++|.|++++|.
T Consensus        82 ~v~d~~~~~S~~~~~-~~~~~i~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~  159 (175)
T d2f9la1          82 LVYDIAKHLTYENVE-RWLKELRDHA-DSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFK  159 (175)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHS-CTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHH
T ss_pred             EEEECCCcccchhHH-HHHHHHHHhc-CCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHH
Confidence            999999999999999 5556665554 46789999999999987777777788888888999999999999999999999


Q ss_pred             HHHHHHHccc
Q 028315          170 DLLYKILEVP  179 (210)
Q Consensus       170 ~i~~~~~~~~  179 (210)
                      ++++.+.+..
T Consensus       160 ~l~~~i~~~~  169 (175)
T d2f9la1         160 NILTEIYRIV  169 (175)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999986433

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.4e-35  Score=208.34  Aligned_cols=163  Identities=34%  Similarity=0.580  Sum_probs=143.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++||+++|++|||||||+++|..+.+.+ +.++.+..+ ...+.+++..+.+.+||++|++.+...+..+++.+|++++
T Consensus         2 r~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~il   80 (167)
T d1c1ya_           2 REYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFAL   80 (167)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEE
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEE
Confidence            57999999999999999999999999888 666666554 4556778889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcCHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVKQCFK  169 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~~l~~  169 (210)
                      |||++++.+|+.+.. |...+.......+.|+++|+||+|+...+.+..+++..++..+ +++|++|||++|.||+++|.
T Consensus        81 v~d~~~~~sf~~~~~-~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~  159 (167)
T d1c1ya_          81 VYSITAQSTFNDLQD-LREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFY  159 (167)
T ss_dssp             EEETTCHHHHHTHHH-HHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHH
T ss_pred             eeeccchhhhHhHHH-HHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHH
Confidence            999999999999994 5555444443578999999999999888888888888888774 78999999999999999999


Q ss_pred             HHHHHHH
Q 028315          170 DLLYKIL  176 (210)
Q Consensus       170 ~i~~~~~  176 (210)
                      +|++.+.
T Consensus       160 ~l~~~i~  166 (167)
T d1c1ya_         160 DLVRQIN  166 (167)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9998875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.7e-35  Score=211.38  Aligned_cols=164  Identities=26%  Similarity=0.466  Sum_probs=143.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .++||+++|++|||||||+++|..+.+.. +.++.+. .......+++..+.+.+||++|++.|...+..+++++|++++
T Consensus         2 ~~iKvvllG~~~vGKTSli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   80 (191)
T d2ngra_           2 QTIKCVVVGDGAVGKTCLLISYTTNKFPSEYVPTVFD-NYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLV   80 (191)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEE
T ss_pred             CceEEEEECCCCcCHHHHHHHHHhCCCCCCcCCceee-ecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeec
Confidence            46999999999999999999999999877 6677664 445566788899999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHc-CCeEEEec
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEH-KCLFLECS  157 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~-~~~~~~~s  157 (210)
                      |||++++++|+.+..+|...+....  .+.|+++|+||+|+.+            .+.+..++++.++... +.+|++||
T Consensus        81 v~d~~~~~Sf~~~~~~~~~~~~~~~--~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~S  158 (191)
T d2ngra_          81 CFSVVSPSSFENVKEKWVPEITHHC--PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECS  158 (191)
T ss_dssp             EEETTCHHHHHHHHHTHHHHHHHHC--TTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECC
T ss_pred             ccccchHHHHHHHHHHHHHHHhhcC--CCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEe
Confidence            9999999999999877887776554  6799999999999853            3458888999999886 46899999


Q ss_pred             ccCCcCHHHHHHHHHHHHHcc
Q 028315          158 AKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~~~~  178 (210)
                      |++|.||+++|+.+++.+++.
T Consensus       159 Ak~~~~V~e~f~~l~~~~~~~  179 (191)
T d2ngra_         159 ALTQKGLKNVFDEAILAALEP  179 (191)
T ss_dssp             TTTCTTHHHHHHHHHHHHTSC
T ss_pred             CCCCcCHHHHHHHHHHHHhcC
Confidence            999999999999999877643

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=7.9e-35  Score=208.86  Aligned_cols=162  Identities=28%  Similarity=0.516  Sum_probs=143.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ..||+++|++|||||||+++|..+.+.+ +.||.+ +.......+++..+.+.+||++|++.+...+..+++++|++++|
T Consensus         2 r~KivvvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (177)
T d1kmqa_           2 RKKLVIVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMC   80 (177)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             cEEEEEECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhh
Confidence            5799999999999999999999999887 556655 45556677889999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEEEecc
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFLECSA  158 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa  158 (210)
                      ||++++.+|+.+..+|...+....  .+.|+++|+||+|+..            .+.+..++++.+++.++. +|++|||
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA  158 (177)
T d1kmqa_          81 FSIDSPDSLENIPEKWTPEVKHFC--PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSA  158 (177)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHS--TTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCT
T ss_pred             cccchhHHHHHHHHHHHHHHHHhC--CCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecC
Confidence            999999999998878888777654  6799999999999864            245788899999998874 7999999


Q ss_pred             cCCcCHHHHHHHHHHHHHc
Q 028315          159 KNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~  177 (210)
                      ++|.||+++|+.+.+.+++
T Consensus       159 kt~~gi~e~F~~i~~~~l~  177 (177)
T d1kmqa_         159 KTKDGVREVFEMATRAALQ  177 (177)
T ss_dssp             TTCTTHHHHHHHHHHHHHC
T ss_pred             CCCcCHHHHHHHHHHHHhC
Confidence            9999999999999998864

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1e-34  Score=206.94  Aligned_cols=165  Identities=42%  Similarity=0.722  Sum_probs=140.2

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHG   87 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~   87 (210)
                      .+..+||+++|+++||||||++++.++.+..  ..++.+.+.....+..++..+.+.+|||||++.+..++..+++++|+
T Consensus         3 ~d~~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~   82 (170)
T d2g6ba1           3 YDVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHA   82 (170)
T ss_dssp             CSEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSE
T ss_pred             CceEEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCce
Confidence            4678999999999999999999999998755  55667788888888899999999999999999999999999999999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +++|||++++.++..+..+|...... . ....|+++|+||.|+.....+..+++..+++.++++|++|||++|.||+++
T Consensus        83 ~i~v~d~~~~~s~~~~~~~~~~~~~~-~-~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~  160 (170)
T d2g6ba1          83 LLLLYDVTNKASFDNIQAWLTEIHEY-A-QHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLA  160 (170)
T ss_dssp             EEEEEETTCHHHHHTHHHHHHHHHHH-S-CTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             eEEEecCCcccchhhhhhhhhhhhhc-c-CCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHH
Confidence            99999999999999999555544433 2 467899999999999988899999999999999999999999999999999


Q ss_pred             HHHHHHHHH
Q 028315          168 FKDLLYKIL  176 (210)
Q Consensus       168 ~~~i~~~~~  176 (210)
                      |++|++.+.
T Consensus       161 f~~l~~~i~  169 (170)
T d2g6ba1         161 FTAIAKELK  169 (170)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHcC
Confidence            999999875

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.3e-35  Score=212.22  Aligned_cols=168  Identities=46%  Similarity=0.790  Sum_probs=121.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      -++-+||+++|.++||||||+++|+++.+.. +.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|++
T Consensus         3 ~~~~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~   82 (173)
T d2fu5c1           3 YDYLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGI   82 (173)
T ss_dssp             CSEEEEEEEECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEE
T ss_pred             ccEEEEEEEECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEE
Confidence            3678999999999999999999999888766 677888888888899999999999999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |+|||++++.++..+. .|...+.... ..+.|+++|+||.|+...+....+++..++...+++|++|||++|.||+++|
T Consensus        83 i~v~d~~~~~s~~~~~-~~~~~~~~~~-~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f  160 (173)
T d2fu5c1          83 MLVYDITNEKSFDNIR-NWIRNIEEHA-SADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAF  160 (173)
T ss_dssp             EEEEETTCHHHHHHHH-HHHHHHHHHS-CTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHH
T ss_pred             EEEEECCChhhHHHHH-HHHHHhhhhc-cCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHH
Confidence            9999999999999998 4545554333 5779999999999998888888888889999999999999999999999999


Q ss_pred             HHHHHHHHccc
Q 028315          169 KDLLYKILEVP  179 (210)
Q Consensus       169 ~~i~~~~~~~~  179 (210)
                      .+|++.+.+++
T Consensus       161 ~~l~~~i~~k~  171 (173)
T d2fu5c1         161 FTLARDIKAKM  171 (173)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhc
Confidence            99999886554

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-35  Score=215.04  Aligned_cols=170  Identities=33%  Similarity=0.599  Sum_probs=147.7

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEEC----------CeEEEEEEEeCCCCcccccch
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVG----------GKRLKLTIWDTAGQERFGTLT   78 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~----------~~~~~~~l~Dt~G~~~~~~~~   78 (210)
                      .++.+||+++|++|||||||+++|.++.+.. +.++.+.++....+.++          ...+.+.+|||+|++.+..++
T Consensus         2 ~d~~~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~   81 (186)
T d2f7sa1           2 YDYLIKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLT   81 (186)
T ss_dssp             CSEEEEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHH
T ss_pred             CCEEEEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHH
Confidence            3578999999999999999999999988877 66777776666655543          235789999999999999999


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecc
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                      ..+++++|++|+|||++++.+++.+. .|...+.........|+++|+||.|+...+.+..+++..+++.+++++++|||
T Consensus        82 ~~~~~~~~~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sa  160 (186)
T d2f7sa1          82 TAFFRDAMGFLLMFDLTSQQSFLNVR-NWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSA  160 (186)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHHHH-HHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBT
T ss_pred             HHHHhcCCEEEEEEeccccccceeee-eccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeC
Confidence            99999999999999999999999998 67666555444567899999999999988899999999999999999999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccch
Q 028315          159 KNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ++|.||+++|++|++.+.++.+
T Consensus       161 k~~~~i~e~f~~l~~~i~~k~~  182 (186)
T d2f7sa1         161 ATGQNVEKAVETLLDLIMKRME  182 (186)
T ss_dssp             TTTBTHHHHHHHHHHHHHHHHH
T ss_pred             CCCCCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999875543

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.5e-34  Score=205.30  Aligned_cols=163  Identities=29%  Similarity=0.526  Sum_probs=145.5

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      +++||+++|++|||||||+++|.++.+.. +.++.+..+.. .....+..+.+.+||++|.+.+...+..+++.++++++
T Consensus         2 ~e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~ii   80 (166)
T d1ctqa_           2 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRK-QVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLC   80 (166)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEE-EEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeecc-ceeeeceeeeeeeeeccCccccccchhhhhhcccccce
Confidence            56999999999999999999999999887 66777766554 45678889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |+|++++.+|+.+. .|...+.......+.|+++|+||+|+. .+.+..++++.+++.++++|++|||++|.||+++|.+
T Consensus        81 v~d~~~~~s~~~~~-~~~~~i~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~  158 (166)
T d1ctqa_          81 VFAINNTKSFEDIH-QYREQIKRVKDSDDVPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYT  158 (166)
T ss_dssp             EEETTCHHHHHTHH-HHHHHHHHHHTCSSCCEEEEEECTTCS-CCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHH
T ss_pred             eecccccccHHHHH-HHHHHHHHhcCCCCCeEEEEecccccc-cccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHH
Confidence            99999999999998 788887776656789999999999985 4567788999999999999999999999999999999


Q ss_pred             HHHHHHc
Q 028315          171 LLYKILE  177 (210)
Q Consensus       171 i~~~~~~  177 (210)
                      |++.+.+
T Consensus       159 i~~~i~~  165 (166)
T d1ctqa_         159 LVREIRQ  165 (166)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHHh
Confidence            9998864

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.7e-34  Score=204.80  Aligned_cols=162  Identities=44%  Similarity=0.724  Sum_probs=144.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ++||+++|++|||||||+++|.++.+.. +.++.+.++....+...+..+.+.+||++|.+.+..++..++..+|++++|
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv   82 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVV   82 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEE
Confidence            6899999999999999999999999877 788888888888889999999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC---CCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS---ERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~---~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      ||++++.+|+.+.. |........ ....|+++++||.|+.+   .+.+..++++.+++..+++|++|||++|.||+++|
T Consensus        83 ~d~~~~~s~~~~~~-~~~~~~~~~-~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F  160 (170)
T d1ek0a_          83 YDVTKPQSFIKARH-WVKELHEQA-SKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVF  160 (170)
T ss_dssp             EETTCHHHHHHHHH-HHHHHHHHS-CTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHH
T ss_pred             EeCCcccchhhhhh-hhhhhcccc-ccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHH
Confidence            99999999999994 444444333 46789999999999853   46788899999999999999999999999999999


Q ss_pred             HHHHHHHH
Q 028315          169 KDLLYKIL  176 (210)
Q Consensus       169 ~~i~~~~~  176 (210)
                      .+|++.+.
T Consensus       161 ~~i~~~i~  168 (170)
T d1ek0a_         161 LGIGEKIP  168 (170)
T ss_dssp             HHHHTTSC
T ss_pred             HHHHHHhc
Confidence            99887653

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-35  Score=211.80  Aligned_cols=164  Identities=28%  Similarity=0.548  Sum_probs=139.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      -.+||+++|++|||||||+++|.++.+.. +.||.+.++....+..++..+.+.+|||+|++.+..++..+++++|++++
T Consensus         2 ~~~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~il   81 (170)
T d1i2ma_           2 VQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAII   81 (170)
T ss_dssp             EEEEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEE
T ss_pred             eeEEEEEECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhh
Confidence            36899999999999999999999988777 67888888888888888889999999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      |||++++.+|+.+. .|...+....  .+.|+++|+||+|+...+..  ++...++...+++|++|||++|.||+++|.+
T Consensus        82 v~d~~~~~Sf~~~~-~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~  156 (170)
T d1i2ma_          82 MFDVTSRVTYKNVP-NWHRDLVRVC--ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLW  156 (170)
T ss_dssp             EEETTSGGGGTTHH-HHHHHHHHHH--CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHH
T ss_pred             ccccccccccchhH-HHHHHHhhcc--CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHH
Confidence            99999999999999 5665555444  57999999999999765433  3445678888999999999999999999999


Q ss_pred             HHHHHHccch
Q 028315          171 LLYKILEVPS  180 (210)
Q Consensus       171 i~~~~~~~~~  180 (210)
                      |++.++..+.
T Consensus       157 l~~~l~~~~~  166 (170)
T d1i2ma_         157 LARKLIGDPN  166 (170)
T ss_dssp             HHHHHHTCTT
T ss_pred             HHHHHccCCC
Confidence            9999986554

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-34  Score=207.21  Aligned_cols=165  Identities=25%  Similarity=0.365  Sum_probs=139.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCeEEEEEEEeCCC---Ccccccchhhhhcccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGKRLKLTIWDTAG---QERFGTLTSSYYRGAH   86 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G---~~~~~~~~~~~~~~~d   86 (210)
                      ..+||+++|++|||||||+++|.+..+..  ..++.+.+.....+.+++..+.+.+||+++   ++++  ++..+++.+|
T Consensus         2 ~~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~   79 (172)
T d2g3ya1           2 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGD   79 (172)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCS
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccc
Confidence            36899999999999999999998876543  556777778888888999999999999875   3333  4566789999


Q ss_pred             EEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           87 GIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ++|+|||++++.+++.+. .|...+.......+.|+++|+||+|+...+.+..++++.++..++++|++|||++|.||++
T Consensus        80 ~~ilvfd~t~~~s~~~~~-~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~  158 (172)
T d2g3ya1          80 AYLIVYSITDRASFEKAS-ELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKE  158 (172)
T ss_dssp             EEEEEEETTCHHHHHHHH-HHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHH
T ss_pred             eeeeeecccccchhhhhh-hhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHH
Confidence            999999999999999999 5655555444357899999999999988888999999999999999999999999999999


Q ss_pred             HHHHHHHHHHccc
Q 028315          167 CFKDLLYKILEVP  179 (210)
Q Consensus       167 l~~~i~~~~~~~~  179 (210)
                      +|++|++.+..++
T Consensus       159 ~f~~l~~~i~~rr  171 (172)
T d2g3ya1         159 LFEGIVRQVRLRR  171 (172)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHcc
Confidence            9999999887554

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.3e-34  Score=206.65  Aligned_cols=165  Identities=29%  Similarity=0.495  Sum_probs=143.4

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ++++||+++|.+|||||||+++|+.+.+.. +.++.+ +.....+..++..+.+.+||++|++.+...+..+++.+|+++
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   81 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSL   81 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEE
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhcccccceee
Confidence            678999999999999999999999999877 666665 445566778999999999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC------------CccCHHHHHHHHHHcC-CeEEEe
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE------------RAVTREEGMILAQEHK-CLFLEC  156 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~------------~~~~~~~~~~~~~~~~-~~~~~~  156 (210)
                      +|||++++.+|+.+..+|...+....  .+.|+++|+||+|+...            ......++..+++.++ ++|++|
T Consensus        82 lv~d~~~~~sf~~i~~~~~~~~~~~~--~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~  159 (183)
T d1mh1a_          82 ICFSLVSPASFENVRAKWYPEVRHHC--PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLEC  159 (183)
T ss_dssp             EEEETTCHHHHHHHHHTHHHHHHHHS--TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEEC
T ss_pred             eeeccchHHHHHHHHHHHHHHHHHhC--CCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEc
Confidence            99999999999999877888777654  67899999999997543            3455667888888876 689999


Q ss_pred             cccCCcCHHHHHHHHHHHHHcc
Q 028315          157 SAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       157 sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                      ||++|.||+++|.+|++.++.-
T Consensus       160 SAk~~~~V~e~F~~l~~~il~p  181 (183)
T d1mh1a_         160 SALTQRGLKTVFDEAIRAVLCP  181 (183)
T ss_dssp             CTTTCTTHHHHHHHHHHHHSCC
T ss_pred             CCCCCcCHHHHHHHHHHHHcCC
Confidence            9999999999999999988743

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.1e-33  Score=200.92  Aligned_cols=163  Identities=51%  Similarity=0.804  Sum_probs=139.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      -+||+++|.+|||||||+++|+++.+.. +.++.+.++....+.+++..+.+.+|||||++.+..++..+++++|++++|
T Consensus         2 ~~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   81 (166)
T d1g16a_           2 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILV   81 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEE
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEE
Confidence            4899999999999999999999998877 789999999988999999999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDL  171 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i  171 (210)
                      ||++++.+++.+.. |........ ....|++++++|.|+.. +....+++..++..++++|++|||++|.||+++|++|
T Consensus        82 ~d~~~~~s~~~~~~-~~~~~~~~~-~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l  158 (166)
T d1g16a_          82 YDITDERTFTNIKQ-WFKTVNEHA-NDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTL  158 (166)
T ss_dssp             EETTCHHHHHTHHH-HHHHHHHHS-CTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHH
T ss_pred             EECCCccCHHHHHh-hhhhhhccc-cCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHH
Confidence            99999999999984 444444433 46788999999999754 4577888999999999999999999999999999999


Q ss_pred             HHHHHcc
Q 028315          172 LYKILEV  178 (210)
Q Consensus       172 ~~~~~~~  178 (210)
                      ++.+.++
T Consensus       159 ~~~i~~k  165 (166)
T d1g16a_         159 AKLIQEK  165 (166)
T ss_dssp             HHHHHHT
T ss_pred             HHHHHhc
Confidence            9988653

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.4e-33  Score=198.84  Aligned_cols=159  Identities=38%  Similarity=0.672  Sum_probs=140.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc-chhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT-LTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~-~~~~~~~~~d~~i   89 (210)
                      +.+||+++|++|||||||+++|..+.+.. +.++.+.........+......+.+||++|...+.. .+..+++++|+++
T Consensus         1 r~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~i   80 (165)
T d1z06a1           1 RIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVV   80 (165)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEE
T ss_pred             CEEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceE
Confidence            46899999999999999999999998877 777888788888888999999999999999877654 5677899999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC---CcCHHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN---TEDVKQ  166 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~---~~~i~~  166 (210)
                      +|||++++.+|+.+. .|...+.......+.|++||+||+|+.+.+.++.++++.+++.++++|++|||++   +.||++
T Consensus        81 lv~d~~~~~s~~~~~-~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e  159 (165)
T d1z06a1          81 FVYDMTNMASFHSLP-AWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEA  159 (165)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHH
T ss_pred             EEEEeehhhhhhhhh-hhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHH
Confidence            999999999999998 5666666655467899999999999988888999999999999999999999997   459999


Q ss_pred             HHHHH
Q 028315          167 CFKDL  171 (210)
Q Consensus       167 l~~~i  171 (210)
                      +|.+|
T Consensus       160 ~F~~l  164 (165)
T d1z06a1         160 IFMTL  164 (165)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            99876

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.2e-33  Score=201.56  Aligned_cols=162  Identities=23%  Similarity=0.494  Sum_probs=142.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      .+||+++|++|||||||+++|..+.+.+ +.|+.+. .......+++..+.+.+||++|++.+...+..+++.+|++++|
T Consensus         2 ~~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv   80 (179)
T d1m7ba_           2 KCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLIC   80 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEE
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee-cccccccccceEEeeccccccccccccccccchhhhhhhhhee
Confidence            5799999999999999999999999887 6666654 4445567788999999999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCC------------CCccCHHHHHHHHHHcCC-eEEEecc
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDS------------ERAVTREEGMILAQEHKC-LFLECSA  158 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~------------~~~~~~~~~~~~~~~~~~-~~~~~sa  158 (210)
                      ||++++.+|+.+..+|...+....  .+.|+++|+||+|+..            .+.++.++...+++.++. +|++|||
T Consensus        81 ~d~~~~~Sf~~~~~~~~~~~~~~~--~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SA  158 (179)
T d1m7ba_          81 FDISRPETLDSVLKKWKGEIQEFC--PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSA  158 (179)
T ss_dssp             EETTCHHHHHHHHHTHHHHHHHHC--TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBT
T ss_pred             eecccCCCHHHHHHHHHHHHhccC--CcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeC
Confidence            999999999999978888776554  6899999999999853            456888899999988874 7999999


Q ss_pred             cCCcC-HHHHHHHHHHHHHc
Q 028315          159 KNTED-VKQCFKDLLYKILE  177 (210)
Q Consensus       159 ~~~~~-i~~l~~~i~~~~~~  177 (210)
                      ++|.+ ++++|+.+.+.+++
T Consensus       159 k~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         159 LQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             TTBHHHHHHHHHHHHHHHHT
T ss_pred             CCCCcCHHHHHHHHHHHHhc
Confidence            99985 99999999998875

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.7e-32  Score=194.99  Aligned_cols=165  Identities=37%  Similarity=0.664  Sum_probs=143.5

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      .+-+||+++|++|||||||+++|.++.+.. +.++.+...........+..+.+.+||++|...+...+..++..+|+++
T Consensus         4 ~~~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i   83 (174)
T d1wmsa_           4 SSLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCL   83 (174)
T ss_dssp             EEEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEE
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEE
Confidence            567899999999999999999999998877 7788888888888888999999999999999999889999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhc---cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc-CCeEEEecccCCcCHH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYS---TNQDCVKILVGNKVDRDSERAVTREEGMILAQEH-KCLFLECSAKNTEDVK  165 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~---~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~-~~~~~~~sa~~~~~i~  165 (210)
                      +++|.+++.+++.+. .|...+....   ...+.|+++|+||+|+. ++.+..++++.+++.. .++|++|||++|.||+
T Consensus        84 ~~~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~~piilVgnK~Dl~-~~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~  161 (174)
T d1wmsa_          84 LTFSVDDSQSFQNLS-NWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVA  161 (174)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHH
T ss_pred             EEEeeecccccchhh-hHHHHHHHHhccccCCCceEEEeccccchh-hccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHH
Confidence            999999999999988 6776654432   23568999999999985 4678888999999876 4789999999999999


Q ss_pred             HHHHHHHHHHHc
Q 028315          166 QCFKDLLYKILE  177 (210)
Q Consensus       166 ~l~~~i~~~~~~  177 (210)
                      ++|++|++.++.
T Consensus       162 e~f~~l~~~il~  173 (174)
T d1wmsa_         162 AAFEEAVRRVLA  173 (174)
T ss_dssp             HHHHHHHHHHHT
T ss_pred             HHHHHHHHHHhc
Confidence            999999998864

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3.2e-33  Score=199.97  Aligned_cols=167  Identities=34%  Similarity=0.597  Sum_probs=127.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEE-CCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTV-GGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~-~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      +-+||+++|++|||||||+++|.++.+.. +.++.+.+........ ......+.+|||+|++.+...+..+++.+|+++
T Consensus         1 n~~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i   80 (175)
T d1ky3a_           1 NILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCV   80 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEE
T ss_pred             CeEEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEE
Confidence            35899999999999999999999998877 6666666555554443 344578899999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCC-ccCHHHHHHHHHHcC-CeEEEecccCCcCH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSER-AVTREEGMILAQEHK-CLFLECSAKNTEDV  164 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~-~~~~~~~~~~~~~~~-~~~~~~sa~~~~~i  164 (210)
                      +|||++++.+|+.+. .|...+.....   ..+.|+++|+||+|+...+ .+..++++.++..++ .+|++|||++|.||
T Consensus        81 lv~d~~~~~s~~~~~-~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv  159 (175)
T d1ky3a_          81 LVYDVTNASSFENIK-SWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINV  159 (175)
T ss_dssp             EEEETTCHHHHHTHH-HHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSH
T ss_pred             EEeecccccccchhh-hcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCH
Confidence            999999999999988 67666644322   3478999999999997654 467788889988885 68999999999999


Q ss_pred             HHHHHHHHHHHHccc
Q 028315          165 KQCFKDLLYKILEVP  179 (210)
Q Consensus       165 ~~l~~~i~~~~~~~~  179 (210)
                      +++|++|++.++++.
T Consensus       160 ~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         160 DTAFEEIARSALQQN  174 (175)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhcc
Confidence            999999999887653

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=7.1e-33  Score=199.77  Aligned_cols=167  Identities=33%  Similarity=0.605  Sum_probs=144.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVY   92 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~   92 (210)
                      +||+++|.+|||||||+++|.++.+.. +.++.+.+.........+..+.+.+||++|...+...+..++..+|++++|+
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~   82 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVF   82 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEE
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEee
Confidence            799999999999999999999999777 7788899998888888899999999999999999999999999999999999


Q ss_pred             eCCCHhhHHHHHHHHHHHHhhhcc---CCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-HcCCeEEEecccCCcCHHHHH
Q 028315           93 DVTRRETFTNLSSVWAKEVELYST---NQDCVKILVGNKVDRDSERAVTREEGMILAQ-EHKCLFLECSAKNTEDVKQCF  168 (210)
Q Consensus        93 d~~~~~~~~~~~~~~~~~~~~~~~---~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~~~~~~~~~sa~~~~~i~~l~  168 (210)
                      |.+++.++..+. .|+..+.....   ..+.|+++|+||+|+.. +.+..++...++. ..++++++|||++|.||+++|
T Consensus        83 d~~~~~~~~~~~-~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f  160 (184)
T d1vg8a_          83 DVTAPNTFKTLD-SWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAF  160 (184)
T ss_dssp             ETTCHHHHHTHH-HHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHH
T ss_pred             cccchhhhhcch-hhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHH
Confidence            999999999988 67766544432   24579999999999865 4566666666654 457899999999999999999


Q ss_pred             HHHHHHHHccchhh
Q 028315          169 KDLLYKILEVPSLL  182 (210)
Q Consensus       169 ~~i~~~~~~~~~~~  182 (210)
                      ++|++.+.+++...
T Consensus       161 ~~l~~~i~~~~~~~  174 (184)
T d1vg8a_         161 QTIARNALKQETEV  174 (184)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccc
Confidence            99999988765533

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1e-31  Score=191.98  Aligned_cols=163  Identities=20%  Similarity=0.313  Sum_probs=136.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +.+||+++|++|||||||++++.++.+....++.+..+ ...+.+++..+.+.+|||+|+..+     .+++.+|++|+|
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~~~~t~~~~~-~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilV   77 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQVLEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFV   77 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCCCCCSSCEEE-EEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCCcCCccceeE-EEEeecCceEEEEEEeeccccccc-----ccccccceeEEE
Confidence            46999999999999999999999999877666666554 566788999999999999998764     478999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhcc--CCCCcEEEEEeCCCCC--CCCccCHHHHHHHHHH-cCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYST--NQDCVKILVGNKVDRD--SERAVTREEGMILAQE-HKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~--~~~~p~ivv~nK~Dl~--~~~~~~~~~~~~~~~~-~~~~~~~~sa~~~~~i~~  166 (210)
                      ||++++.+|+.+. .|...+.....  ....|+++|+||.|+.  ..+.++.+++..++.. ++++|++|||++|.|+++
T Consensus        78 fd~~~~~Sf~~~~-~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~  156 (175)
T d2bmja1          78 FSLEDENSFQAVS-RLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDR  156 (175)
T ss_dssp             EETTCHHHHHHHH-HHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHH
T ss_pred             eecccchhhhhhH-HHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHH
Confidence            9999999999998 67777654432  3567999999988874  3466778888888654 577899999999999999


Q ss_pred             HHHHHHHHHHccchh
Q 028315          167 CFKDLLYKILEVPSL  181 (210)
Q Consensus       167 l~~~i~~~~~~~~~~  181 (210)
                      +|..+++.+...+..
T Consensus       157 ~F~~l~~~i~~~~~~  171 (175)
T d2bmja1         157 VFQEVAQKVVTLRKQ  171 (175)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhh
Confidence            999999998866543

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

Probab=100.00  E-value=2.2e-32  Score=193.83  Aligned_cols=159  Identities=23%  Similarity=0.353  Sum_probs=128.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +.+||+++|++|||||||+++|.+..+..+.++.+.....    +...++.+.+||+||++.+...+..+++.++++++|
T Consensus         1 k~~ki~ivG~~~~GKTsLi~~l~~~~~~~~~~t~~~~~~~----~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v   76 (165)
T d1ksha_           1 RELRLLMLGLDNAGKTTILKKFNGEDVDTISPTLGFNIKT----LEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWV   76 (165)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHTTCCCSSCCCCSSEEEEE----EEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEE
T ss_pred             CcEEEEEECCCCCCHHHHHHHHcCCCCCcccceEeeeeee----ccccccceeeeecCcchhhhhHHHhhhhhhhcceee
Confidence            4689999999999999999999988887787887765543    333457899999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH--H---HcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA--Q---EHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~--~---~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|+++..++.....+|...+.... ..+.|++||+||+|+.+...+.  +.....  .   ..++++++|||++|.|+++
T Consensus        77 ~d~~d~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e  153 (165)
T d1ksha_          77 VDSADRQRMQDCQRELQSLLVEER-LAGATLLIFANKQDLPGALSCN--AIQEALELDSIRSHHWRIQGCSAVTGEDLLP  153 (165)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTCGG-GTTCEEEEEEECTTSTTCCCHH--HHHHHTTGGGCCSSCEEEEECCTTTCTTHHH
T ss_pred             eecccchhHHHHHHhhhhhhhhcc-cCCCceEEEEeccccccccCHH--HHHHHHHhhhhhcCCCEEEEEECCCCCCHHH
Confidence            999999999988867766664433 4678999999999996544332  222221  1   2245699999999999999


Q ss_pred             HHHHHHHHHHc
Q 028315          167 CFKDLLYKILE  177 (210)
Q Consensus       167 l~~~i~~~~~~  177 (210)
                      +|+||++.+..
T Consensus       154 ~~~~l~~~i~~  164 (165)
T d1ksha_         154 GIDWLLDDISS  164 (165)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHc
Confidence            99999998864

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

Probab=99.98  E-value=1.5e-32  Score=194.59  Aligned_cols=156  Identities=20%  Similarity=0.340  Sum_probs=125.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .++||+++|++|||||||+++|.++.+.+ +.||.+.++...  ..  ..+.+.+||+||++.+...+..++..+|++++
T Consensus         1 ~e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~~--~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~   76 (164)
T d1zd9a1           1 EEMELTLVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRKI--TK--GNVTIKLWDIGGQPRFRSMWERYCRGVSAIVY   76 (164)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEE--EE--TTEEEEEEEECCSHHHHTTHHHHHTTCSEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHHcCCCCCcccccceeeeeee--ee--eeEEEEEeeccccccccccccccccccchhhc
Confidence            36999999999999999999999998877 778877665532  33  35789999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH-HH----HHHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM-IL----AQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~-~~----~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |||+++..++.....+|...+.... ..+.|+++|+||.|+.+..  ...+.. .+    ....+++++++||++|.|++
T Consensus        77 v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~  153 (164)
T d1zd9a1          77 MVDAADQEKIEASKNELHNLLDKPQ-LQGIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNID  153 (164)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGG-GTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHH
T ss_pred             ccccccccccchhhhhhhhhhhhhc-ccCCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHH
Confidence            9999999999999855555554433 5689999999999986543  222222 22    12335579999999999999


Q ss_pred             HHHHHHHHH
Q 028315          166 QCFKDLLYK  174 (210)
Q Consensus       166 ~l~~~i~~~  174 (210)
                      ++|+||++.
T Consensus       154 e~~~~l~~~  162 (164)
T d1zd9a1         154 ITLQWLIQH  162 (164)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHHHHHc
Confidence            999999875

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

Probab=99.97  E-value=1.7e-32  Score=196.29  Aligned_cols=159  Identities=24%  Similarity=0.350  Sum_probs=124.5

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGI   88 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~   88 (210)
                      +.++++||+++|++|||||||+++|.++.+....++.+.+..  .+..  .++.+.+||++|++.+...+..+++.+|++
T Consensus        12 ~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~--~i~~--~~~~~~i~d~~g~~~~~~~~~~~~~~~~~i   87 (176)
T d1fzqa_          12 APDQEVRILLLGLDNAGKTTLLKQLASEDISHITPTQGFNIK--SVQS--QGFKLNVWDIGGQRKIRPYWRSYFENTDIL   87 (176)
T ss_dssp             CCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEEETTEEEE--EEEE--TTEEEEEEECSSCGGGHHHHHHHHTTCSEE
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHhcCCCCcceeeeeeeEE--Eecc--CCeeEeEeeccccccchhHHHHHhhcccee
Confidence            346789999999999999999999999888766566554443  2233  357899999999999999999999999999


Q ss_pred             EEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH-H----HHHcCCeEEEecccCCcC
Q 028315           89 ILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI-L----AQEHKCLFLECSAKNTED  163 (210)
Q Consensus        89 i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~sa~~~~~  163 (210)
                      ++|||++++.++..+..+|..... .....+.|++|++||+|+.+....  ....+ +    .....+++++|||++|.|
T Consensus        88 i~v~d~~d~~s~~~~~~~~~~~~~-~~~~~~~pillv~nK~Dl~~~~~~--~~~~~~~~~~~~~~~~~~~~~~SA~tg~g  164 (176)
T d1fzqa_          88 IYVIDSADRKRFEETGQELTELLE-EEKLSCVPVLIFANKQDLLTAAPA--SEIAEGLNLHTIRDRVWQIQSCSALTGEG  164 (176)
T ss_dssp             EEEEETTCGGGHHHHHHHHHHHTT-CGGGTTCCEEEEEECTTSTTCCCH--HHHHHHTTGGGCCSSCEEEEECCTTTCTT
T ss_pred             EEeeccccccchhhhhhhhhhhhh-hhccCCCeEEEEEEeccccccccH--HHHHHHHHHHHHHhcCCEEEEEeCCCCCC
Confidence            999999999999998855555443 333567899999999999754322  22221 1    122345799999999999


Q ss_pred             HHHHHHHHHHH
Q 028315          164 VKQCFKDLLYK  174 (210)
Q Consensus       164 i~~l~~~i~~~  174 (210)
                      ++++|+||++.
T Consensus       165 v~e~~~~l~~~  175 (176)
T d1fzqa_         165 VQDGMNWVCKN  175 (176)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHhc
Confidence            99999999875

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

Probab=99.97  E-value=8e-33  Score=199.16  Aligned_cols=162  Identities=25%  Similarity=0.360  Sum_probs=123.9

Q ss_pred             CceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEE
Q 028315           10 YDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGII   89 (210)
Q Consensus        10 ~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i   89 (210)
                      ..+++||+++|++|||||||++++.+..+....+|.+......    ....+.+.+||+||++.+...+..++..+|+++
T Consensus        14 ~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~~t~~~~~~~~----~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii   89 (182)
T d1moza_          14 SNKELRILILGLDGAGKTTILYRLQIGEVVTTKPTIGFNVETL----SYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVI   89 (182)
T ss_dssp             CSSCEEEEEEEETTSSHHHHHHHTCCSEEEEECSSTTCCEEEE----EETTEEEEEEEEC----CCTTGGGTTTTEEEEE
T ss_pred             CCceEEEEEECCCCCCHHHHHHHHhcCCCCccccccceEEEEE----eeCCEEEEEEecccccccchhHHhhhccceeEE
Confidence            3567999999999999999999998887777667766554432    223578999999999999999999999999999


Q ss_pred             EEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHH-----HHHcCCeEEEecccCCcCH
Q 028315           90 LVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMIL-----AQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        90 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~-----~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|+|++++.++.....+|...+... ...+.|++||+||+|+.+.  ...++....     +...++++++|||++|.||
T Consensus        90 ~v~d~~d~~s~~~~~~~l~~~~~~~-~~~~~piliv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv  166 (182)
T d1moza_          90 FVVDSTDKDRMSTASKELHLMLQEE-ELQDAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGI  166 (182)
T ss_dssp             EEEETTCTTTHHHHHHHHHHHTTSS-TTSSCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTH
T ss_pred             EEeeecccccchhHHHHHHHHHHhh-ccCCcceEEEEEeeccccc--cCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCH
Confidence            9999999999998885554544433 2567899999999999643  233333222     1233567999999999999


Q ss_pred             HHHHHHHHHHHHcc
Q 028315          165 KQCFKDLLYKILEV  178 (210)
Q Consensus       165 ~~l~~~i~~~~~~~  178 (210)
                      +++|+||++.+.++
T Consensus       167 ~e~~~~l~~~i~~~  180 (182)
T d1moza_         167 TEGLDWLIDVIKEE  180 (182)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHc
Confidence            99999999988653

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

Probab=99.97  E-value=1e-31  Score=191.86  Aligned_cols=157  Identities=23%  Similarity=0.382  Sum_probs=123.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      ..+||+++|++|||||||++++.++.+....++.+....    ......+.+.+||+||.+.+...+..+++.+|++++|
T Consensus        11 k~~kIvlvG~~~vGKTSli~rl~~~~~~~~~~t~~~~~~----~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v   86 (173)
T d1e0sa_          11 KEMRILMLGLDAAGKTTILYKLKLGQSVTTIPTVGFNVE----TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFV   86 (173)
T ss_dssp             CCEEEEEEEETTSSHHHHHHHTTCCCCEEEEEETTEEEE----EEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhcCCCCCccceeeeeEE----EeeccceeeEEecCCCcchhhhHHHhhhcccceEEEE
Confidence            359999999999999999999988877665555554433    2233457889999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHH-H----HHHcCCeEEEecccCCcCHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMI-L----AQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~-~----~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +|+++..++..+..+|...+.... ....|+++++||+|+.+..  ...+... +    ....++.+++|||++|.||++
T Consensus        87 ~D~s~~~~~~~~~~~l~~~~~~~~-~~~~piiiv~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e  163 (173)
T d1e0sa_          87 VDCADRDRIDEARQELHRIINDRE-MRDAIILIFANKQDLPDAM--KPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYE  163 (173)
T ss_dssp             EETTCGGGHHHHHHHHHHHHTSGG-GTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHH
T ss_pred             EecccchhHHHHHHHHHHHhhhcc-cccceeeeeeecccccccc--cHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHH
Confidence            999999999999866666665433 4678999999999996542  2222222 1    222355799999999999999


Q ss_pred             HHHHHHHHH
Q 028315          167 CFKDLLYKI  175 (210)
Q Consensus       167 l~~~i~~~~  175 (210)
                      +|+||.+.+
T Consensus       164 ~~~~l~~~~  172 (173)
T d1e0sa_         164 GLTWLTSNY  172 (173)
T ss_dssp             HHHHHHHHC
T ss_pred             HHHHHHHhc
Confidence            999998764

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

Probab=99.96  E-value=6e-29  Score=174.62  Aligned_cols=157  Identities=23%  Similarity=0.399  Sum_probs=121.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEe
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d   93 (210)
                      +||+++|++|||||||+++|.++.+....+.......    ......+.+.+||++|...+...+..++..++++++++|
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d   76 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTIGFNVE----TVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVD   76 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCSSCCEE----EEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEE
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccceeeEEE----EEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEE
Confidence            5899999999999999999998887664433332222    334556789999999999999999999999999999999


Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH---HHHHHHHHHcCCeEEEecccCCcCHHHHHHH
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR---EEGMILAQEHKCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~---~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      ..++.++..+..++...+.. ......|+++++||.|+.+......   +....++...++++++|||++|.||+++|+|
T Consensus        77 ~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~  155 (160)
T d1r8sa_          77 SNDRERVNEAREELMRMLAE-DELRDAVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDW  155 (160)
T ss_dssp             TTCGGGHHHHHHHHHHHHTC-GGGTTCEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHH
T ss_pred             ecChHHHHHHHHHHHHHHHh-hcccCceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHH
Confidence            99999999988555555443 3357789999999999865432211   1111223344678999999999999999999


Q ss_pred             HHHHH
Q 028315          171 LLYKI  175 (210)
Q Consensus       171 i~~~~  175 (210)
                      |++++
T Consensus       156 l~~~l  160 (160)
T d1r8sa_         156 LSNQL  160 (160)
T ss_dssp             HHHHC
T ss_pred             HHhcC
Confidence            98764

>d1wf3a1 c.37.1.8 (A:3-180) GTPase Era, N-terminal domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.95  E-value=4e-27  Score=168.50  Aligned_cols=166  Identities=22%  Similarity=0.177  Sum_probs=116.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccch--------hhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLT--------SSYY   82 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~--------~~~~   82 (210)
                      .+.-.|+++|.+|||||||+++|++.......+..+++...........+..+.+|||||........        ...+
T Consensus         3 ~~~~~I~lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~   82 (178)
T d1wf3a1           3 TYSGFVAIVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEAL   82 (178)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHT
T ss_pred             ccCcEEEEECCCCCCHHHHHHHHhCCCceeecccCCcccccccceeeeeeeeeeecccccccccccccchhccccccccc
Confidence            45567999999999999999999988765544444333333332233334578899999975543332        2346


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecccCC
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSAKNT  161 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa~~~  161 (210)
                      +++|++++|+|++++.....  ..|...+....  .+.|+++|+||+|+....   .+....+....+ ..++++||++|
T Consensus        83 ~~ad~il~v~D~~~~~~~~~--~~i~~~l~~~~--~~~piilv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~iSA~~~  155 (178)
T d1wf3a1          83 ADVNAVVWVVDLRHPPTPED--ELVARALKPLV--GKVPILLVGNKLDAAKYP---EEAMKAYHELLPEAEPRMLSALDE  155 (178)
T ss_dssp             SSCSEEEEEEETTSCCCHHH--HHHHHHHGGGT--TTSCEEEEEECGGGCSSH---HHHHHHHHHTSTTSEEEECCTTCH
T ss_pred             ccccceeeeechhhhhcccc--cchhhheeccc--cchhhhhhhcccccccCH---HHHHHHHHhhcccCceEEEecCCC
Confidence            78999999999998754332  25556665433  568999999999986532   223334444444 46899999999


Q ss_pred             cCHHHHHHHHHHHHHccchhhh
Q 028315          162 EDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      .|+++++++|.+.+.+.+..++
T Consensus       156 ~gi~~L~~~i~~~lpe~p~~~p  177 (178)
T d1wf3a1         156 RQVAELKADLLALMPEGPFFYP  177 (178)
T ss_dssp             HHHHHHHHHHHTTCCBCCCSSC
T ss_pred             CCHHHHHHHHHHhCCCCCCCCC
Confidence            9999999999998887776655

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

Probab=99.94  E-value=1.7e-27  Score=170.00  Aligned_cols=158  Identities=22%  Similarity=0.341  Sum_probs=117.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+++||+++|.+|||||||++++.+..+....++.+......  ..  ....+.+||+++.+.....+..++..++++++
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~~~~~~~~~~--~~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~   88 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSPTIGSNVEEI--VI--NNTRFLMWDIGGQESLRSSWNTYYTNTEFVIV   88 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEECCSCSSCEEE--EE--TTEEEEEEECCC----CGGGHHHHTTCCEEEE
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCccccccceeEEEE--ee--cceEEEEeccccccccccchhhhhccceeeee
Confidence            356999999999999999999999988776555554433322  22  34688999999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH-----HHcCCeEEEecccCCcCHH
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA-----QEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~-----~~~~~~~~~~sa~~~~~i~  165 (210)
                      ++|.++..++......+ ............|+++|+||+|+.....  .++.....     ...+++++++||++|.|++
T Consensus        89 v~d~~d~~~~~~~~~~~-~~~~~~~~~~~~p~iiv~nK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~  165 (177)
T d1zj6a1          89 VVDSTDRERISVTREEL-YKMLAHEDLRKAGLLIFANKQDVKECMT--VAEISQFLKLTSIKDHQWHIQACCALTGEGLC  165 (177)
T ss_dssp             EEETTCTTTHHHHHHHH-HHHHTSGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCCSSCEEEEECBTTTTBTHH
T ss_pred             ecccccccchhhhhhhh-hhhhhcccccceEEEEEEEcccccccCc--HHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHH
Confidence            99999999998877433 3333333357899999999999865432  22222222     2235679999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          166 QCFKDLLYKI  175 (210)
Q Consensus       166 ~l~~~i~~~~  175 (210)
                      ++|+||.+++
T Consensus       166 e~~~~L~~~l  175 (177)
T d1zj6a1         166 QGLEWMMSRL  175 (177)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHHh
Confidence            9999999876

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

Probab=99.94  E-value=1.1e-26  Score=164.19  Aligned_cols=161  Identities=23%  Similarity=0.337  Sum_probs=125.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +++||+++|.+|||||||++++.++.+....++.+.....    .....+.+.+||.++.+.+...+...+...++++++
T Consensus         4 ke~kI~ivG~~~vGKSSLi~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (169)
T d1upta_           4 REMRILILGLDGAGKTTILYRLQVGEVVTTIPTIGFNVET----VTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYV   79 (169)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCCCCCSSEEEEE----EEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEE
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCCcceecccceeeee----eccCceEEEEeeccccccccccchhhhhhhhhhhhh
Confidence            4599999999999999999999999988766666544432    222346788999999999999999999999999999


Q ss_pred             EeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH----HHHHHcCCeEEEecccCCcCHHHH
Q 028315           92 YDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM----ILAQEHKCLFLECSAKNTEDVKQC  167 (210)
Q Consensus        92 ~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~----~~~~~~~~~~~~~sa~~~~~i~~l  167 (210)
                      +|+.+..++......+...+.... ....|+++++||.|+...... .+...    .++...+++|++|||++|.||+++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~iv~nk~Dl~~~~~~-~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~  157 (169)
T d1upta_          80 VDSCDRDRIGISKSELVAMLEEEE-LRKAILVVFANKQDMEQAMTS-SEMANSLGLPALKDRKWQIFKTSATKGTGLDEA  157 (169)
T ss_dssp             EETTCCTTHHHHHHHHHHHHTCGG-GTTCEEEEEEECTTSTTCCCH-HHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHH
T ss_pred             hhhhhcchhhhccchhhhhhhhhc-cccceEEEEEeeccccccccH-HHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHH
Confidence            999998888877755555544333 567899999999999654321 11222    223344678999999999999999


Q ss_pred             HHHHHHHHHcc
Q 028315          168 FKDLLYKILEV  178 (210)
Q Consensus       168 ~~~i~~~~~~~  178 (210)
                      |++|.+.+.++
T Consensus       158 ~~~l~~~l~~k  168 (169)
T d1upta_         158 MEWLVETLKSR  168 (169)
T ss_dssp             HHHHHHHHHTC
T ss_pred             HHHHHHHHHhC
Confidence            99999988654

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.94  E-value=2.7e-25  Score=156.20  Aligned_cols=152  Identities=20%  Similarity=0.289  Sum_probs=120.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDV   94 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~   94 (210)
                      ||+++|++|||||||+++|.++.+....|+.+.+..    ..........+||++|...+...+..++..++++++++|.
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~~~~t~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~   77 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLATLQPTWHPTSE----ELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDA   77 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCCCCCCSCEEE----EECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEET
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCeeeceeeEeEE----EeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccc
Confidence            799999999999999999999998888888776665    3444456788999999999999999999999999999999


Q ss_pred             CCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHH------------HHcCCeEEEecccCCc
Q 028315           95 TRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILA------------QEHKCLFLECSAKNTE  162 (210)
Q Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~------------~~~~~~~~~~sa~~~~  162 (210)
                      ++..++......|.. ........+.|+++++||.|+...  ....+.....            ....+.+++|||++|.
T Consensus        78 ~~~~~~~~~~~~~~~-~~~~~~~~~~~i~i~~~k~d~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~  154 (166)
T d2qtvb1          78 ADPERFDEARVELDA-LFNIAELKDVPFVILGNKIDAPNA--VSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRN  154 (166)
T ss_dssp             TCGGGHHHHHHHHHH-HHTCTTTTTCCEEEEEECTTSSSC--CCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTB
T ss_pred             cchhhhhhhhHHHHh-hhhhhccCCceEEEEecccccccc--CCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCC
Confidence            999998888744444 444344678899999999998643  2333322221            1123469999999999


Q ss_pred             CHHHHHHHHHH
Q 028315          163 DVKQCFKDLLY  173 (210)
Q Consensus       163 ~i~~l~~~i~~  173 (210)
                      |++|+|+||.+
T Consensus       155 Gv~e~~~~l~~  165 (166)
T d2qtvb1         155 GYLEAFQWLSQ  165 (166)
T ss_dssp             SHHHHHHHHTT
T ss_pred             CHHHHHHHHhC
Confidence            99999999875

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.93  E-value=5.6e-26  Score=164.93  Aligned_cols=160  Identities=17%  Similarity=0.172  Sum_probs=123.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +++||+++|..|||||||++||..+.+ .+.||.|....    .+....+.+.+||++|++.+...|..+++.+++++++
T Consensus         1 ke~Kiv~lG~~~vGKTsll~r~~~~~~-~~~pTiG~~~~----~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~   75 (200)
T d2bcjq2           1 RELKLLLLGTGESGKSTFIKQMRIIHG-SGVPTTGIIEY----PFDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFL   75 (200)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTS-SCCCCCSCEEE----EEECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEE
T ss_pred             CeeEEEEECCCCCCHHHHHHHHhCCCC-CCCceeeEEEE----EEeccceeeeeccccccccccccccccccccceeeEe
Confidence            479999999999999999999988877 46788887654    3444567899999999999999999999999999999


Q ss_pred             EeCCCHh----------hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC----------------CccCHHHHHHH
Q 028315           92 YDVTRRE----------TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE----------------RAVTREEGMIL  145 (210)
Q Consensus        92 ~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~----------------~~~~~~~~~~~  145 (210)
                      +|.++..          .+.+....|...+.... ..+.|+++++||.|+...                ...+......+
T Consensus        76 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~-~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  154 (200)
T d2bcjq2          76 VALSEYDQVLVESDNENRMEESKALFRTIITYPW-FQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREF  154 (200)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGG-GSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHH
T ss_pred             eeccchhhhhhhhccccchHHHHHHHHHHHhhhh-ccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHH
Confidence            9998764          23333447888876655 578899999999997321                11222222222


Q ss_pred             HH----------HcCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          146 AQ----------EHKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       146 ~~----------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ..          ...+.+++|||++|.||+++|+.+.+.+.+
T Consensus       155 i~~~f~~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~  196 (200)
T d2bcjq2         155 ILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQ  196 (200)
T ss_dssp             HHHHHHTTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHH
Confidence            21          112347899999999999999999888774

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

Probab=99.92  E-value=5.7e-26  Score=159.71  Aligned_cols=152  Identities=19%  Similarity=0.213  Sum_probs=108.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc--------hhhhhccc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL--------TSSYYRGA   85 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~--------~~~~~~~~   85 (210)
                      +||+++|.+|||||||+++|++.........++.+.......+...+..+.+||+||.......        ...++..+
T Consensus         2 ~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~   81 (161)
T d2gj8a1           2 MKVVIAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQA   81 (161)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTC
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceEeecccccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhc
Confidence            7999999999999999999998876543333333333333333333457889999996444321        23446789


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++++|..+...+.... .|...+....  .+.|+++|+||+|+.......       ....+.+++++||++|.|++
T Consensus        82 d~~i~~~d~~~~~~~~~~~-~~~~~~~~~~--~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~  151 (161)
T d2gj8a1          82 DRVLFMVDGTTTDAVDPAE-IWPEFIARLP--AKLPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVD  151 (161)
T ss_dssp             SEEEEEEETTTCCCCSHHH-HCHHHHHHSC--TTCCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHH
T ss_pred             cccceeeccccccchhhhh-hhhhhhhhcc--cccceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHH
Confidence            9999999999887766555 5655555433  578999999999986543211       12235689999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          166 QCFKDLLYKI  175 (210)
Q Consensus       166 ~l~~~i~~~~  175 (210)
                      +++++|.+.+
T Consensus       152 ~L~~~l~~~l  161 (161)
T d2gj8a1         152 VLRNHLKQSM  161 (161)
T ss_dssp             HHHHHHHHHC
T ss_pred             HHHHHHHhhC
Confidence            9999998753

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.92  E-value=8.1e-25  Score=158.12  Aligned_cols=157  Identities=20%  Similarity=0.195  Sum_probs=114.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +++||+++|..|||||||+++|....++.    .+..    ...++...+.+++|||+|++.+...+..+++.++++++|
T Consensus         1 ~e~KivllG~~~vGKTsl~~r~~~~~~~t----~~~~----~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v   72 (195)
T d1svsa1           1 REVKLLLLGAGESGKSTIVKQMKIIHEAG----TGIV----ETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFC   72 (195)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHSCC----CSEE----EEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEE
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCC----ccEE----EEEEEeeeeeeeeeccccccccccchhhcccCCceeeeE
Confidence            47999999999999999999998776643    3322    123444567899999999999999999999999999999


Q ss_pred             EeCCCHhhH----------HHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC---------------CccCHHHHHH-H
Q 028315           92 YDVTRRETF----------TNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE---------------RAVTREEGMI-L  145 (210)
Q Consensus        92 ~d~~~~~~~----------~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~---------------~~~~~~~~~~-~  145 (210)
                      +|+++..++          .+....|...+.... ....|+++++||+|+...               ......+... +
T Consensus        73 ~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~-~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  151 (195)
T d1svsa1          73 VALSDYDLVLAEDEEMNRMHESMKLFDSICNNKW-FTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYI  151 (195)
T ss_dssp             EEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGG-GTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHH
T ss_pred             EeecccchHHHHhhhhHHHHHHHHHHHHHhcccc-cCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHH
Confidence            999987655          233336666665443 567899999999996211               1111222211 1


Q ss_pred             ----HHH------cCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          146 ----AQE------HKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       146 ----~~~------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                          ...      ..+.+++|||++|.||+++|+.+.+.+++
T Consensus       152 ~~~f~~~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~  193 (195)
T d1svsa1         152 QCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIK  193 (195)
T ss_dssp             HHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHh
Confidence                111      13357899999999999999999887764

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=99.91  E-value=2.6e-24  Score=154.06  Aligned_cols=158  Identities=18%  Similarity=0.268  Sum_probs=113.7

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIIL   90 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~   90 (210)
                      .+..||+++|++|||||||+++|.++.+....++.+.+....  ...+  ..+.+||+.+...+...+..+++..+++++
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~~~~~~~~~~~--~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVPTLHPTSEEL--TIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVF   86 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------CCCCCSCEEE--EETT--EEEEEEEECC----CCGGGGGGGGCSEEEE
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcceecccccceeEE--Eecc--cccccccccchhhhhhHHhhhhcccceeee
Confidence            456899999999999999999999988877666666555432  3343  467889999999999999999999999999


Q ss_pred             EEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHH-----------------cCCeE
Q 028315           91 VYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQE-----------------HKCLF  153 (210)
Q Consensus        91 v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~-----------------~~~~~  153 (210)
                      ++|..+...+......+........ ..+.|+++++||.|+...  ....+.......                 .+.++
T Consensus        87 ~~d~~d~~~~~~~~~~~~~~~~~~~-~~~~~~li~~~K~D~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~  163 (186)
T d1f6ba_          87 LVDCADHERLLESKEELDSLMTDET-IANVPILILGNKIDRPEA--ISEERLREMFGLYGQTTGKGSVSLKELNARPLEV  163 (186)
T ss_dssp             EEETTCGGGHHHHHHHHHHHHTCGG-GTTSCEEEEEECTTSTTC--CCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEE
T ss_pred             eeeccCccchHHHHHHHHHhhcccc-cCCCceEEEEeccCcccc--CCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEE
Confidence            9999999988877755544443332 567999999999998543  334443333211                 12358


Q ss_pred             EEecccCCcCHHHHHHHHHHHH
Q 028315          154 LECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       154 ~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ++|||++|.|++|+|+||++.+
T Consensus       164 ~~~SA~tg~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         164 FMCSVLKRQGYGEGFRWMAQYI  185 (186)
T ss_dssp             EECBTTTTBSHHHHHHHHHTTC
T ss_pred             EEEeCCCCCCHHHHHHHHHHhh
Confidence            9999999999999999998754

>d1mkya1 c.37.1.8 (A:2-172) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=8.4e-25  Score=155.26  Aligned_cols=157  Identities=22%  Similarity=0.159  Sum_probs=100.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc---------cchhhhhccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG---------TLTSSYYRGA   85 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~---------~~~~~~~~~~   85 (210)
                      +|+++|++|||||||+++|++..........+.+.......+......+.+||++|.....         .....++..+
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~a   81 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREA   81 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC--------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTC
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecccCceeeccccccccccccccccccccceeeeeccccccccccccccccccC
Confidence            6899999999999999999887765545555555444444444455678899999942221         2223446789


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHH
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVK  165 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~  165 (210)
                      |++++++|.+........  .+...+..    .++|+++|+||+|+.++  ...+...++.......++++||++|.|++
T Consensus        82 d~i~~~~~~~~~~~~~~~--~~~~~l~~----~~~pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~i~iSAk~g~gid  153 (171)
T d1mkya1          82 DLVLFVVDGKRGITKEDE--SLADFLRK----STVDTILVANKAENLRE--FEREVKPELYSLGFGEPIPVSAEHNINLD  153 (171)
T ss_dssp             SEEEEEEETTTCCCHHHH--HHHHHHHH----HTCCEEEEEESCCSHHH--HHHHTHHHHGGGSSCSCEECBTTTTBSHH
T ss_pred             cEEEEeeccccccccccc--cccccccc----ccccccccchhhhhhhh--hhhHHHHHHHhcCCCCeEEEecCCCCCHH
Confidence            999999999876544332  34444442    46799999999998532  22222223333334468999999999999


Q ss_pred             HHHHHHHHHHHccc
Q 028315          166 QCFKDLLYKILEVP  179 (210)
Q Consensus       166 ~l~~~i~~~~~~~~  179 (210)
                      +++++|.+.+.+..
T Consensus       154 ~L~~~i~~~l~e~~  167 (171)
T d1mkya1         154 TMLETIIKKLEEKG  167 (171)
T ss_dssp             HHHHHHHHHHHHTT
T ss_pred             HHHHHHHHhCCCCC
Confidence            99999999886544

>d1udxa2 c.37.1.8 (A:157-336) Obg GTP-binding protein middle domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.91  E-value=3.6e-24  Score=153.18  Aligned_cols=161  Identities=18%  Similarity=0.085  Sum_probs=104.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccc----cc---chhhhhccccE
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERF----GT---LTSSYYRGAHG   87 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~----~~---~~~~~~~~~d~   87 (210)
                      +|+|+|.+|||||||+|+|++...........++..............+++|||||....    ..   .....+..+++
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~   82 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRV   82 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSE
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceeccCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhh
Confidence            489999999999999999987665332222222222222334444557899999994321    11   22234678999


Q ss_pred             EEEEEeCCCHhhHHHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315           88 IILVYDVTRRETFTNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus        88 ~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      +++++|..... +.... .+...+.... ...++|+++|+||+|+.....+  ++........+.+++.+||++|.|+++
T Consensus        83 ~~~~~d~~~~~-~~~~~-~~~~~~~~~~~~~~~~p~iiv~NK~D~~~~~~~--~~~~~~~~~~~~~~~~iSA~tg~gid~  158 (180)
T d1udxa2          83 LLYVLDAADEP-LKTLE-TLRKEVGAYDPALLRRPSLVALNKVDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPA  158 (180)
T ss_dssp             EEEEEETTSCH-HHHHH-HHHHHHHHHCHHHHHSCEEEEEECCTTSCHHHH--HHHHHHHHTTTSCEEECCTTTCTTHHH
T ss_pred             hhhhccccccc-ccchh-hhhhhhhccccccchhhhhhhhhhhhhhhHHHH--HHHHHHHHhcCCeEEEEEcCCCCCHHH
Confidence            99999987643 22222 2222222111 1235799999999999654322  233444455688999999999999999


Q ss_pred             HHHHHHHHHHccc
Q 028315          167 CFKDLLYKILEVP  179 (210)
Q Consensus       167 l~~~i~~~~~~~~  179 (210)
                      +++.|.+.+...+
T Consensus       159 L~~~i~~~l~~~~  171 (180)
T d1udxa2         159 LKEALHALVRSTP  171 (180)
T ss_dssp             HHHHHHHHHHTSC
T ss_pred             HHHHHHHHHhhcC
Confidence            9999988876543

>d1mkya2 c.37.1.8 (A:173-358) Probable GTPase Der, N-terminal and middle domains {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase Der, N-terminal and middle domains
species: Thermotoga maritima [TaxId: 2336]

Probab=99.91  E-value=8.1e-24  Score=151.98  Aligned_cols=161  Identities=20%  Similarity=0.184  Sum_probs=104.4

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEE--EEEEECCeEEEEEEEeCCCCccc-----------
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKI--KLLTVGGKRLKLTIWDTAGQERF-----------   74 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~~-----------   74 (210)
                      +.....+||+++|++|||||||+++|++..........+++...  .....++  ..+.++|+||....           
T Consensus         3 p~~~~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~d~~g~~~~~~~~~~~~~~~   80 (186)
T d1mkya2           3 PEITDAIKVAIVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDG--RKYVFVDTAGLRRKSRVEPRTVEKY   80 (186)
T ss_dssp             CCCCSCEEEEEECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETT--EEEEESSCSCC-----------CCS
T ss_pred             CCCCCCCEEEEECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccCC--ceeeeeccCCccccccccccccccc
Confidence            33445799999999999999999999987654322222222222  2334444  45778899995322           


Q ss_pred             -ccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH-H----
Q 028315           75 -GTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ-E----  148 (210)
Q Consensus        75 -~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~-~----  148 (210)
                       .......++.+|++++|+|++.+...+..  .+...+.    ..+.|+++|+||+|+.........+...... .    
T Consensus        81 ~~~~~~~~~~~~dvii~v~d~~~~~~~~~~--~~~~~~~----~~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~  154 (186)
T d1mkya2          81 SNYRVVDSIEKADVVVIVLDATQGITRQDQ--RMAGLME----RRGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFI  154 (186)
T ss_dssp             CCHHHHHHHHHCSEEEEEEETTTCCCHHHH--HHHHHHH----HTTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGG
T ss_pred             hhHHHHHHHhcCCEEEEeecccccchhhHH--HHHHHHH----HcCCceeeeccchhhhcchhhhhhhHHHHHHHHhccc
Confidence             22334456789999999999876443322  3444443    2568999999999986555444333332222 2    


Q ss_pred             cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          149 HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       149 ~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ...+++.+||++|.|+++|+++|.+.+.
T Consensus       155 ~~~~i~~vSa~~g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         155 DYSPLIFTSADKGWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             TTSCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             CCCeEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            1357999999999999999999976554

>d1wb1a4 c.37.1.8 (A:1-179) Elongation factor SelB, N-terminal domain {Methanococcus maripaludis [TaxId: 39152]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor SelB, N-terminal domain
species: Methanococcus maripaludis [TaxId: 39152]

Probab=99.90  E-value=2.3e-24  Score=154.11  Aligned_cols=160  Identities=14%  Similarity=0.116  Sum_probs=106.3

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCce------eeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTI------GVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGA   85 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~   85 (210)
                      +.+||+++|++++|||||+|+|++.......+..      +.+...........+..+.++|+||+..|.......+..+
T Consensus         4 k~inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~   83 (179)
T d1wb1a4           4 KNINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADII   83 (179)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSC
T ss_pred             CCEEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhc
Confidence            5689999999999999999999864432211111      1111111111222235778899999999888888889999


Q ss_pred             cEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HHHHHHHHH----cCCeEEEeccc
Q 028315           86 HGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EEGMILAQE----HKCLFLECSAK  159 (210)
Q Consensus        86 d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~----~~~~~~~~sa~  159 (210)
                      |++++|+|+.++...+... .|. .+.    ..++|+++|+||+|+........  +....+...    .+.+++++||+
T Consensus        84 d~~ilv~d~~~g~~~~~~~-~~~-~~~----~~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~  157 (179)
T d1wb1a4          84 DLALIVVDAKEGPKTQTGE-HML-ILD----HFNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAK  157 (179)
T ss_dssp             CEEEEEEETTTCSCHHHHH-HHH-HHH----HTTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTT
T ss_pred             cccccccccccccchhhhh-hhh-hhh----hcCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcc
Confidence            9999999999875443322 222 222    25789999999999865432211  111222221    24579999999


Q ss_pred             CCcCHHHHHHHHHHHHHc
Q 028315          160 NTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       160 ~~~~i~~l~~~i~~~~~~  177 (210)
                      +|.|++++++.|.+.+.+
T Consensus       158 ~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         158 TGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TCTTHHHHHHHHHHHHHH
T ss_pred             CCcCHHHHHHHHHhcCCc
Confidence            999999999999988764

>d1xzpa2 c.37.1.8 (A:212-371) TrmE GTPase domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: TrmE GTPase domain
species: Thermotoga maritima [TaxId: 2336]

Probab=99.90  E-value=3.6e-24  Score=150.20  Aligned_cols=150  Identities=18%  Similarity=0.181  Sum_probs=102.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc------c---chhhhhcc
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG------T---LTSSYYRG   84 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~------~---~~~~~~~~   84 (210)
                      +||+++|.+|||||||+|+|++.......+.++.+.......+...+..+.+|||||.....      .   .....+..
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~   80 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRGILFRIVDTAGVRSETNDLVERLGIERTLQEIEK   80 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEeCCeeEEeccccccccCCccHHHHHHHHHHHHHHHh
Confidence            69999999999999999999987765544444443333333333344678899999942211      1   11223678


Q ss_pred             ccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCH
Q 028315           85 AHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDV  164 (210)
Q Consensus        85 ~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i  164 (210)
                      +|++++|+|++++...+... .+ ..+      ...++++++||.|+.+.  ...++... ....+.+++++||++|.|+
T Consensus        81 ad~ii~v~d~~~~~~~~~~~-~~-~~~------~~~~~i~~~~k~d~~~~--~~~~~~~~-~~~~~~~~~~vSA~~g~gi  149 (160)
T d1xzpa2          81 ADIVLFVLDASSPLDEEDRK-IL-ERI------KNKRYLVVINKVDVVEK--INEEEIKN-KLGTDRHMVKISALKGEGL  149 (160)
T ss_dssp             CSEEEEEEETTSCCCHHHHH-HH-HHH------TTSSEEEEEEECSSCCC--CCHHHHHH-HHTCSTTEEEEEGGGTCCH
T ss_pred             CCEEEEEEeCCCCcchhhhh-hh-hhc------ccccceeeeeeccccch--hhhHHHHH-HhCCCCcEEEEECCCCCCH
Confidence            99999999999987654333 22 111      45689999999998653  23333222 2234567999999999999


Q ss_pred             HHHHHHHHHH
Q 028315          165 KQCFKDLLYK  174 (210)
Q Consensus       165 ~~l~~~i~~~  174 (210)
                      ++|+++|.++
T Consensus       150 ~~L~~~I~ke  159 (160)
T d1xzpa2         150 EKLEESIYRE  159 (160)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHHHHhc
Confidence            9999998764

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.89  E-value=1.5e-23  Score=152.11  Aligned_cols=159  Identities=22%  Similarity=0.238  Sum_probs=108.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +.+||+++|.+|||||||++||..  ...+.||.|....    .++.....+++||++|++.+...+..+++.+++++++
T Consensus         1 r~iKivllG~~~vGKTsll~r~~f--~~~~~pTiG~~~~----~~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~   74 (200)
T d1zcba2           1 RLVKILLLGAGESGKSTFLKQMRI--IHGQDPTKGIHEY----DFEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFL   74 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH--HHSCCCCSSEEEE----EEEETTEEEEEEEECC-------CTTSCTTCCEEEEE
T ss_pred             CeEEEEEECCCCCCHHHHHHHHhc--CCCCCCeeeeEEE----EEeeeeeeeeeecccceeeecccccccccccceeEEE
Confidence            358999999999999999999942  2236788886544    3333457889999999999999999999999999999


Q ss_pred             EeCCCHh----------hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC----------------CccCHHHHHHH
Q 028315           92 YDVTRRE----------TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE----------------RAVTREEGMIL  145 (210)
Q Consensus        92 ~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~----------------~~~~~~~~~~~  145 (210)
                      +|.++..          .++.....|...+.... ..+.|+++++||.|+...                ..-..+.+..+
T Consensus        75 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~-~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~  153 (200)
T d1zcba2          75 VSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRV-FSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKF  153 (200)
T ss_dssp             EETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGG-GTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHH
T ss_pred             EEcCCcceeeeecccchhhhHHHHHHHHHhhChh-hcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHH
Confidence            9999753          33444434444444333 468899999999997321                01122233332


Q ss_pred             HHH-----------cCCeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          146 AQE-----------HKCLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       146 ~~~-----------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                      ...           ..+.+++|||+++.||+++|+.+.+.+.+
T Consensus       154 ~~~~f~~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~  196 (200)
T d1zcba2         154 LVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILH  196 (200)
T ss_dssp             HHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHH
Confidence            221           12447789999999999999998877764

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.88  E-value=1.8e-22  Score=144.49  Aligned_cols=151  Identities=21%  Similarity=0.211  Sum_probs=96.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc---------------cchh
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG---------------TLTS   79 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~---------------~~~~   79 (210)
                      .|+++|.+|||||||+|+|++.... ..+.+++|.....+...    .+.+|||||.....               ....
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~-~~~~~g~T~~~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~   76 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVR-RGKRPGVTRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIE   76 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCS-SSSSTTCTTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCce-eeCCCCEeecccccccc----cceecccCCceeccccccccccccchhhhhhhh
Confidence            5899999999999999999887653 33444444333333332    35688999942111               1122


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHH---------HHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLS---------SVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK  150 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~---------~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~  150 (210)
                      ..++.+|++++|+|+..+.......         ..+...+.    ..+.|+++|+||+|+....+.   ....+.....
T Consensus        77 ~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~----~~~~p~iiv~NK~D~~~~~~~---~~~~~~~~~~  149 (184)
T d2cxxa1          77 DNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLR----ELDIPTIVAVNKLDKIKNVQE---VINFLAEKFE  149 (184)
T ss_dssp             HHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHH----HTTCCEEEEEECGGGCSCHHH---HHHHHHHHHT
T ss_pred             hcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHH----HcCCCEEEEEeeeehhhhHHH---HHHHHHHHhc
Confidence            3456799999999998653322111         01122222    357899999999997543221   1112222221


Q ss_pred             -------CeEEEecccCCcCHHHHHHHHHHHHHc
Q 028315          151 -------CLFLECSAKNTEDVKQCFKDLLYKILE  177 (210)
Q Consensus       151 -------~~~~~~sa~~~~~i~~l~~~i~~~~~~  177 (210)
                             ..++++||++|.|+++++++|.+.+.+
T Consensus       150 ~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         150 VPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             CCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence                   238899999999999999999988875

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.87  E-value=4.5e-21  Score=139.80  Aligned_cols=120  Identities=17%  Similarity=0.233  Sum_probs=92.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc-cchhhhhccccEEEEEEe
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG-TLTSSYYRGAHGIILVYD   93 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-~~~~~~~~~~d~~i~v~d   93 (210)
                      +|+++|++|||||||+++|.++.+....++.+.+.....+ .....+.+.+||++|++.+. ..+..+++.++++++|+|
T Consensus         2 ~V~ivG~~~~GKTsLl~~l~~~~~~~~~~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D   80 (207)
T d2fh5b1           2 AVLFVGLCDSGKTLLFVRLLTGQYRDTQTSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVD   80 (207)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCBCCCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEE
T ss_pred             EEEEECCCCCCHHHHHHHHHcCCCCcccCCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEEE
Confidence            6899999999999999999999888877777766654432 24556789999999998875 566778899999999999


Q ss_pred             CCCHhhH-HHHHHHHHHHHhhhc-cCCCCcEEEEEeCCCCCCCC
Q 028315           94 VTRRETF-TNLSSVWAKEVELYS-TNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        94 ~~~~~~~-~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      +++..++ .....++...+.... ....+|++|++||+|+....
T Consensus        81 ~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~a~  124 (207)
T d2fh5b1          81 SAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAK  124 (207)
T ss_dssp             TTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCC
T ss_pred             cccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCCCC
Confidence            9998764 444434545544332 24568999999999997643

>d1g7sa4 c.37.1.8 (A:1-227) Initiation factor IF2/eIF5b, N-terminal (G) domain {Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor IF2/eIF5b, N-terminal (G) domain
species: Archaeon Methanobacterium thermoautotrophicum [TaxId: 145262]

Probab=99.87  E-value=4.7e-22  Score=147.05  Aligned_cols=155  Identities=19%  Similarity=0.139  Sum_probs=101.0

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCCCCCCC---CceeeEEEEEE--------------EEECCeEEEEEEEeCCCCcccccch
Q 028315           16 ILLIGDSGVGKSSILLSLISNSVHDPS---PTIGVDFKIKL--------------LTVGGKRLKLTIWDTAGQERFGTLT   78 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~~~~~~---~~~~~~~~~~~--------------~~~~~~~~~~~l~Dt~G~~~~~~~~   78 (210)
                      |+|+|++++|||||+++|++.......   .+.........              ..+......+.++|||||+.|....
T Consensus         8 IaIiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~   87 (227)
T d1g7sa4           8 VSVLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLR   87 (227)
T ss_dssp             EEEECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSB
T ss_pred             EEEEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccc
Confidence            999999999999999999875432210   01000000000              0112334578899999999998888


Q ss_pred             hhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHH------------------
Q 028315           79 SSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTRE------------------  140 (210)
Q Consensus        79 ~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~------------------  140 (210)
                      ...+..+|++|+|+|+.++...+... .| ..+.    ..++|+++++||+|+.........                  
T Consensus        88 ~~~~~~~D~~ilVvda~~g~~~~~~~-~~-~~~~----~~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~  161 (227)
T d1g7sa4          88 KRGGALADLAILIVDINEGFKPQTQE-AL-NILR----MYRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKL  161 (227)
T ss_dssp             CSSSBSCSEEEEEEETTTCCCHHHHH-HH-HHHH----HTTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHH
T ss_pred             hhcccccceEEEEEecccCcccchhH-HH-HHhh----cCCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHH
Confidence            88889999999999999865444332 23 2222    257899999999998654321100                  


Q ss_pred             --H----HHHHHHH--------------cCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          141 --E----GMILAQE--------------HKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       141 --~----~~~~~~~--------------~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                        .    ...+...              ..++++.+||.+|.|+++|++.|.....
T Consensus       162 ~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~  217 (227)
T d1g7sa4         162 DTKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQ  217 (227)
T ss_dssp             HHHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence              0    0011110              0136899999999999999998877654

>d1kk1a3 c.37.1.8 (A:6-200) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Archaeon Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Archaeon Pyrococcus abyssi [TaxId: 29292]

Probab=99.86  E-value=8.1e-22  Score=142.56  Aligned_cols=163  Identities=15%  Similarity=0.104  Sum_probs=105.7

Q ss_pred             CCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC------CceeeEEEEEEEE-------------------ECCeEEEE
Q 028315            9 SYDYSFKILLIGDSGVGKSSILLSLISNSVHDPS------PTIGVDFKIKLLT-------------------VGGKRLKL   63 (210)
Q Consensus         9 ~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~------~~~~~~~~~~~~~-------------------~~~~~~~~   63 (210)
                      ++..++||+++|+.++|||||+++|++.......      .+....+......                   .......+
T Consensus         1 ~~~~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (195)
T d1kk1a3           1 SRQAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRV   80 (195)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEE
T ss_pred             CCCCcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeE
Confidence            3567899999999999999999999864322210      1111111111100                   11224678


Q ss_pred             EEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HH
Q 028315           64 TIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EE  141 (210)
Q Consensus        64 ~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~  141 (210)
                      .++||||+..|.......+..+|++++|+|+.++...+...+.+ ..+...   ...+++|++||+|+.+......  +.
T Consensus        81 ~~iDtPGh~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~-~~~~~~---~~~~iiv~inK~D~~d~~~~~~~~~~  156 (195)
T d1kk1a3          81 SFIDAPGHEALMTTMLAGASLMDGAILVIAANEPCPRPQTREHL-MALQII---GQKNIIIAQNKIELVDKEKALENYRQ  156 (195)
T ss_dssp             EEEECSSHHHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHH-HHHHHH---TCCCEEEEEECGGGSCHHHHHHHHHH
T ss_pred             eeeccchhhhhhHHhhcccccccccccccchhhhhhhhhhHHHH-HHHHHh---cCccceeeeecccchhhHHHHHHHHH
Confidence            99999999999888888888999999999999864222222122 222221   2346788999999865432211  12


Q ss_pred             HHHHHHHc---CCeEEEecccCCcCHHHHHHHHHHHH
Q 028315          142 GMILAQEH---KCLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       142 ~~~~~~~~---~~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      ...+....   .++++++||++|.|+++|++.|.+.+
T Consensus       157 ~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         157 IKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             HHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            22333322   35799999999999999999987754

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

Probab=99.86  E-value=2.8e-23  Score=149.12  Aligned_cols=161  Identities=17%  Similarity=0.135  Sum_probs=98.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCCC-CCceeeEEEEEEEEECCeEEEEEEEeCCCCcc----cccchhh---hhcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHDP-SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER----FGTLTSS---YYRGAH   86 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~----~~~~~~~---~~~~~d   86 (210)
                      +|+++|++|||||||+|+|++...... .+..+.........+. ....+.+|||||...    .......   .+..++
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~   81 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETD-DGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTR   81 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECS-SSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCC
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEec-CCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhh
Confidence            589999999999999999987664331 1221222222222222 234678999999522    1222222   245688


Q ss_pred             EEEEEEeCCCHhhHHH--HHHHHHHHHhhh-ccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHc--CCeEEEecccCC
Q 028315           87 GIILVYDVTRRETFTN--LSSVWAKEVELY-STNQDCVKILVGNKVDRDSERAVTREEGMILAQEH--KCLFLECSAKNT  161 (210)
Q Consensus        87 ~~i~v~d~~~~~~~~~--~~~~~~~~~~~~-~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~--~~~~~~~sa~~~  161 (210)
                      .++++++.........  ....+....... ....++|+++|+||+|+.+..    +....+...+  +.+++.+||++|
T Consensus        82 ~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~~~----~~~~~~~~~~~~~~~v~~iSA~~g  157 (185)
T d1lnza2          82 VIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPEAA----ENLEAFKEKLTDDYPVFPISAVTR  157 (185)
T ss_dssp             EEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTTHH----HHHHHHHHHCCSCCCBCCCSSCCS
T ss_pred             hhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHhHH----HHHHHHHHHhccCCcEEEEECCCC
Confidence            8888887765432211  110111111111 223468999999999986532    2223333333  678999999999


Q ss_pred             cCHHHHHHHHHHHHHccch
Q 028315          162 EDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       162 ~~i~~l~~~i~~~~~~~~~  180 (210)
                      .|+++++++|.+.+.+.+.
T Consensus       158 ~Gi~~L~~~i~~~L~~~p~  176 (185)
T d1lnza2         158 EGLRELLFEVANQLENTPE  176 (185)
T ss_dssp             STTHHHHHHHHHHHTSCCC
T ss_pred             CCHHHHHHHHHHhhhhCCC
Confidence            9999999999998865443

>d1d2ea3 c.37.1.8 (A:55-250) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Cow (Bos taurus), mitochondrial [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Cow (Bos taurus), mitochondrial [TaxId: 9913]

Probab=99.85  E-value=6.3e-22  Score=142.69  Aligned_cols=159  Identities=13%  Similarity=0.042  Sum_probs=109.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC-----C--C--------CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN-----S--V--------HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT   76 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~-----~--~--------~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~   76 (210)
                      +++||+++|+.++|||||+++|++.     .  .        .......+.+.......+......+.++||||+..|..
T Consensus         2 p~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~   81 (196)
T d1d2ea3           2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVK   81 (196)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHH
T ss_pred             CCcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHH
Confidence            4689999999999999999999642     0  0        01112234455555556666667889999999999988


Q ss_pred             chhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccC---HHHHHHHHHHcC---
Q 028315           77 LTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVT---REEGMILAQEHK---  150 (210)
Q Consensus        77 ~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~---  150 (210)
                      .....+..+|++++|+|+.++..-+... .|.....    ....|+||++||+|+....+..   ..+...+....+   
T Consensus        82 ~~~~~~~~aD~allVVda~~G~~~QT~~-~~~~a~~----~~~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~  156 (196)
T d1d2ea3          82 NMITGTAPLDGCILVVAANDGPMPQTRE-HLLLARQ----IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKG  156 (196)
T ss_dssp             HHHHTSSCCSEEEEEEETTTCSCHHHHH-HHHHHHH----TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCT
T ss_pred             HHHHHHhhcCeEEEEEEcCCCCchhHHH-HHHHHHH----hcCCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCc
Confidence            8888889999999999999875444333 3332222    2346889999999986532211   112333333333   


Q ss_pred             --CeEEEecccCC----------cCHHHHHHHHHHHH
Q 028315          151 --CLFLECSAKNT----------EDVKQCFKDLLYKI  175 (210)
Q Consensus       151 --~~~~~~sa~~~----------~~i~~l~~~i~~~~  175 (210)
                        ++++.+||++|          .++.+|++.|.+.+
T Consensus       157 ~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~~i  193 (196)
T d1d2ea3         157 EETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (196)
T ss_dssp             TTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             ccCEEEEEEccccccccCcccccCCHHHHHHHHHhhC
Confidence              56999999998          58888888776543

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

Probab=99.85  E-value=5.6e-22  Score=146.09  Aligned_cols=159  Identities=19%  Similarity=0.214  Sum_probs=115.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhhhccccEEEEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILV   91 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v   91 (210)
                      +.+||+++|+.|||||||+++|....+   .||.|....  .+.+.  ++.+.+||++|++.++..|..+++.++++++|
T Consensus         5 ~~~KilllG~~~vGKTsll~~~~~~~~---~pTiG~~~~--~~~~~--~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v   77 (221)
T d1azta2           5 ATHRLLLLGAGESGKSTIVKQMRILHV---VLTSGIFET--KFQVD--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFV   77 (221)
T ss_dssp             HSEEEEEECSTTSSHHHHHHHHHHHHC---CCCCSCEEE--EEEET--TEEEEEEECCCSTTTTTGGGGGCTTCSEEEEE
T ss_pred             hcCEEEEECCCCCCHHHHHHHHhcCCc---CCCCCeEEE--EEEEC--cEEEEEEecCccceeccchhhhcccccceEEE
Confidence            468999999999999999999976544   477775443  23333  57899999999999999999999999999999


Q ss_pred             EeCCCHh----------hHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCc----c--------------------
Q 028315           92 YDVTRRE----------TFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERA----V--------------------  137 (210)
Q Consensus        92 ~d~~~~~----------~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~----~--------------------  137 (210)
                      +|.++..          ...+....|...+.... ..+.|++|++||+|+...+.    .                    
T Consensus        78 ~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~-~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~  156 (221)
T d1azta2          78 VASSSYNMVIREDNQTNRLQEALNLFKSIWNNRW-LRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATP  156 (221)
T ss_dssp             EETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGG-GSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCC
T ss_pred             EEccccccccccccchHHHHHHHHHHHHHhcChh-hCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccc
Confidence            9998642          33444446666665544 46799999999999732110    0                    


Q ss_pred             ------CHHHHHHHH-----HH--------cCCeEEEecccCCcCHHHHHHHHHHHHHcc
Q 028315          138 ------TREEGMILA-----QE--------HKCLFLECSAKNTEDVKQCFKDLLYKILEV  178 (210)
Q Consensus       138 ------~~~~~~~~~-----~~--------~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~  178 (210)
                            ...++..+.     ..        ..+..++|||+++.+|+.+|+.+.+.+++.
T Consensus       157 ~~g~~~~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         157 EPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             cCCCchhHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHH
Confidence                  011222211     11        113367899999999999999987777643

>d2qn6a3 c.37.1.8 (A:2-206) Initiation factor eIF2 gamma subunit, N-terminal (G) domain {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Initiation factor eIF2 gamma subunit, N-terminal (G) domain
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=99.85  E-value=8.5e-21  Score=138.15  Aligned_cols=162  Identities=15%  Similarity=0.083  Sum_probs=102.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCC--------ceeeEEEEEEEEE----------------------CCeE
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSP--------TIGVDFKIKLLTV----------------------GGKR   60 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~--------~~~~~~~~~~~~~----------------------~~~~   60 (210)
                      -+++||+++|+.++|||||+++|++........        ..+..........                      ....
T Consensus         6 ~p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (205)
T d2qn6a3           6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFL   85 (205)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEE
T ss_pred             CCCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccce
Confidence            346899999999999999999997643221000        0111100000000                      1123


Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH-
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR-  139 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~-  139 (210)
                      ..+.++|||||..|.......+..+|++|+|+|+.++..-....+.|. .+..   ..-.|++|++||+|+.+...... 
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~-~~~~---~~i~~iIV~vNK~Dl~~~~~~~~~  161 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFV-ALGI---IGVKNLIIVQNKVDVVSKEEALSQ  161 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHH-HHHH---TTCCCEEEEEECGGGSCHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHH-HHHH---cCCceeeeccccCCCccchHHHHH
Confidence            578999999999998888778889999999999988631111121222 2221   23358899999999965432211 


Q ss_pred             -HHHHHHHHHc---CCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          140 -EEGMILAQEH---KCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       140 -~~~~~~~~~~---~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                       .+...+....   .++++.+||++|.|++++++.|...+.
T Consensus       162 ~~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~ip  202 (205)
T d2qn6a3         162 YRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYIK  202 (205)
T ss_dssp             HHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             HHHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhCC
Confidence             1122222222   467999999999999999998887654

>d1egaa1 c.37.1.8 (A:4-182) GTPase Era, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Era, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=99.84  E-value=4.3e-21  Score=136.64  Aligned_cols=164  Identities=21%  Similarity=0.166  Sum_probs=105.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCC--CceeeEEEEEEEEECCeEEEEEEEeCCCCcccc---------cchh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPS--PTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG---------TLTS   79 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~---------~~~~   79 (210)
                      .|-=.|+|+|.+|||||||+|+|++.......  +...............  ..+..+|++|.....         ....
T Consensus         3 ~~~~~I~iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (179)
T d1egaa1           3 SYCGFIAIVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTEGA--YQAIYVDTPGLHMEEKRAINRLMNKAAS   80 (179)
T ss_dssp             CEEEEEEEECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEETT--EEEEEESSSSCCHHHHHHHHHHHTCCTT
T ss_pred             ccccEEEEECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeecCC--ceeEeecCCCceecchhhhhhhhhhccc
Confidence            45567999999999999999999987654322  2222112222222333  345668888843221         1222


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcC-CeEEEecc
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHK-CLFLECSA  158 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~-~~~~~~sa  158 (210)
                      .....+++++++.|..+.....  . .+...+.    ....|.++++||.|..............+...++ .+++++||
T Consensus        81 ~~~~~~~~~l~~~d~~~~~~~~--~-~~~~~l~----~~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA  153 (179)
T d1egaa1          81 SSIGDVELVIFVVEGTRWTPDD--E-MVLNKLR----EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISA  153 (179)
T ss_dssp             SCCCCEEEEEEEEETTCCCHHH--H-HHHHHHH----SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCT
T ss_pred             cchhhcceeEEEEecCccchhH--H-HHHHHhh----hccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeC
Confidence            2345678889999987653322  1 1222222    3567889999999986654333344445555555 57999999


Q ss_pred             cCCcCHHHHHHHHHHHHHccchhhh
Q 028315          159 KNTEDVKQCFKDLLYKILEVPSLLE  183 (210)
Q Consensus       159 ~~~~~i~~l~~~i~~~~~~~~~~~~  183 (210)
                      ++|.|+++|+++|.+.+.+.+..++
T Consensus       154 ~~g~gi~~L~~~i~~~lpe~~~~yp  178 (179)
T d1egaa1         154 ETGLNVDTIAAIVRKHLPEATHHFP  178 (179)
T ss_dssp             TTTTTHHHHHHHHHTTCCBCCCSSC
T ss_pred             cCCCCHHHHHHHHHHhCCCCCCCCC
Confidence            9999999999999998877666544

>d1svia_ c.37.1.8 (A:) Probable GTPase EngB {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Bacillus subtilis [TaxId: 1423]

Probab=99.83  E-value=1.3e-20  Score=136.04  Aligned_cols=152  Identities=16%  Similarity=0.185  Sum_probs=92.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC-CCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCccccc-------------chh
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV-HDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT-------------LTS   79 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~-------------~~~   79 (210)
                      .+|+++|.+|||||||+|+|++... .......+.+..........   .+.+.|+++......             .+.
T Consensus        24 ~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~  100 (195)
T d1svia_          24 PEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYI  100 (195)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccccccc---cceEEEEEeeccccccccccchhhhHHhhhh
Confidence            3899999999999999999987653 23444444444444434433   234557766322211             111


Q ss_pred             hhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH----HcCCeEEE
Q 028315           80 SYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ----EHKCLFLE  155 (210)
Q Consensus        80 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~----~~~~~~~~  155 (210)
                      ..+..+|++++++|++.+..-+..  .+...+.    ..++|+++|+||+|+........ ....+..    ....+++.
T Consensus       101 ~~~~~~~~vi~viD~~~~~~~~~~--~~~~~l~----~~~~piivv~NK~D~~~~~~~~~-~~~~~~~~l~~~~~~~~~~  173 (195)
T d1svia_         101 TTREELKAVVQIVDLRHAPSNDDV--QMYEFLK----YYGIPVIVIATKADKIPKGKWDK-HAKVVRQTLNIDPEDELIL  173 (195)
T ss_dssp             HHCTTEEEEEEEEETTSCCCHHHH--HHHHHHH----HTTCCEEEEEECGGGSCGGGHHH-HHHHHHHHHTCCTTSEEEE
T ss_pred             ccccchhhhhhhhhcccccccccc--ccccccc----cccCcceechhhccccCHHHHHH-HHHHHHHHhcccCCCCEEE
Confidence            233567999999999876432222  3444444    25679999999999865443322 2222222    23457999


Q ss_pred             ecccCCcCHHHHHHHHHHHH
Q 028315          156 CSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       156 ~sa~~~~~i~~l~~~i~~~~  175 (210)
                      +||++|.|+++++++|.+.+
T Consensus       174 ~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         174 FSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             CCTTTCTTHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHh
Confidence            99999999999999998876

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor Tu (EF-Tu), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.81  E-value=5.4e-21  Score=138.83  Aligned_cols=143  Identities=15%  Similarity=0.087  Sum_probs=94.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCC--------CCC-----C---CCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNS--------VHD-----P---SPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~--------~~~-----~---~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      +++||+++|++++|||||+++|+...        ...     .   ....+.+.......+...+..+.|+||||+..|.
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~   81 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYI   81 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGH
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhH
Confidence            46999999999999999999996320        000     0   0011334444444555556678899999999999


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCc-EEEEEeCCCCCCCCccC---HHHHHHHHHHcC-
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCV-KILVGNKVDRDSERAVT---REEGMILAQEHK-  150 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p-~ivv~nK~Dl~~~~~~~---~~~~~~~~~~~~-  150 (210)
                      ......+..+|++|+|+|+.++...+... .|.....     .++| ++|++||+|+.+..+.-   .++...+....+ 
T Consensus        82 ~~~~~~~~~aD~avlVvda~~Gv~~qt~~-~~~~~~~-----~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~  155 (204)
T d2c78a3          82 KNMITGAAQMDGAILVVSAADGPMPQTRE-HILLARQ-----VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEF  155 (204)
T ss_dssp             HHHHHHHTTCSSEEEEEETTTCCCHHHHH-HHHHHHH-----TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTS
T ss_pred             HHHHHHHHHCCEEEEEEECCCCCcHHHHH-HHHHHHH-----cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCC
Confidence            88888899999999999999887666544 4433332     4555 67889999986532211   112223333322 


Q ss_pred             ----CeEEEecccC
Q 028315          151 ----CLFLECSAKN  160 (210)
Q Consensus       151 ----~~~~~~sa~~  160 (210)
                          ++++..|+..
T Consensus       156 ~~~~i~~i~~sa~~  169 (204)
T d2c78a3         156 PGDEVPVIRGSALL  169 (204)
T ss_dssp             CTTTSCEEECCHHH
T ss_pred             Ccccceeeeeechh
Confidence                4578888763

>d1zunb3 c.37.1.8 (B:16-237) Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain {Pseudomonas syringae pv. tomato [TaxId: 323]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Sulfate adenylate transferase subunit cysN/C, EF-Tu domain G-like domain
species: Pseudomonas syringae pv. tomato [TaxId: 323]

Probab=99.78  E-value=1.2e-18  Score=127.63  Aligned_cols=153  Identities=16%  Similarity=0.131  Sum_probs=98.9

Q ss_pred             CCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCC----------C----------------------CCceeeEEEEEEEE
Q 028315            8 NSYDYSFKILLIGDSGVGKSSILLSLISNSVHD----------P----------------------SPTIGVDFKIKLLT   55 (210)
Q Consensus         8 ~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~----------~----------------------~~~~~~~~~~~~~~   55 (210)
                      ..+...+||+++|+.++|||||+.+|+...-..          .                      ....+.+.......
T Consensus         4 ~~~~~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~   83 (222)
T d1zunb3           4 HERKEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRY   83 (222)
T ss_dssp             TTSCEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEE
T ss_pred             cccCCcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEE
Confidence            345678999999999999999999996421110          0                      00111122222223


Q ss_pred             ECCeEEEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCC-cEEEEEeCCCCCCC
Q 028315           56 VGGKRLKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDC-VKILVGNKVDRDSE  134 (210)
Q Consensus        56 ~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl~~~  134 (210)
                      +......+.++|+|||..|...+..-+..+|++++|+|+.++..-+... .+.. +.    ..++ .++|++||+|+.+.
T Consensus        84 ~~~~~~~~~iiD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt~e-~~~~-~~----~~gv~~iiv~vNK~D~~~~  157 (222)
T d1zunb3          84 FSTAKRKFIIADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQTRR-HSYI-AS----LLGIKHIVVAINKMDLNGF  157 (222)
T ss_dssp             EECSSEEEEEEECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHHHH-HHHH-HH----HTTCCEEEEEEECTTTTTS
T ss_pred             EeccceEEEEEeccchhhhhhhhccccccCceEEEEeccccCcccchHH-HHHH-HH----HcCCCEEEEEEEccccccc
Confidence            3334467889999999999988888899999999999999875544333 2222 22    2344 47899999999753


Q ss_pred             CccCHH----HHHHHHHHcCC-----eEEEecccCCcCHHH
Q 028315          135 RAVTRE----EGMILAQEHKC-----LFLECSAKNTEDVKQ  166 (210)
Q Consensus       135 ~~~~~~----~~~~~~~~~~~-----~~~~~sa~~~~~i~~  166 (210)
                      .+...+    +...+....++     +++++||.+|.|+.+
T Consensus       158 ~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         158 DERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             CHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             cceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            322111    22333444433     579999999999843

>d2bv3a2 c.37.1.8 (A:7-282) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus [TaxId: 274]

Probab=99.77  E-value=3e-18  Score=128.67  Aligned_cols=114  Identities=19%  Similarity=0.275  Sum_probs=82.6

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC--CCCC---------------CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN--SVHD---------------PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~--~~~~---------------~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      .-||+++|+.++|||||+.+++..  ....               .....+.+.......+...+.+++|+||||+..|.
T Consensus         6 iRni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           6 LRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCS
T ss_pred             ceEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhH
Confidence            347999999999999999998632  1111               00111112222222333445678999999999999


Q ss_pred             cchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           76 TLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        76 ~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ......++.+|++|+|+|+.++...+... .|...-     ..+.|.++++||+|..
T Consensus        86 ~e~~~~l~~~D~avlVvda~~Gv~~~T~~-~w~~a~-----~~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          86 IEVERSMRVLDGAIVVFDSSQGVEPQSET-VWRQAE-----KYKVPRIAFANKMDKT  136 (276)
T ss_dssp             TTHHHHHHHCCEEEEEEETTTSSCHHHHH-HHHHHH-----TTTCCEEEEEECTTST
T ss_pred             HHHHHHHHhhhheEEeccccCCcchhHHH-HHHHHH-----HcCCCEEEEEeccccc
Confidence            99999999999999999999987766665 564443     4689999999999974

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.72  E-value=1.1e-17  Score=121.55  Aligned_cols=118  Identities=21%  Similarity=0.240  Sum_probs=80.9

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhhh----hccccE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSSY----YRGAHG   87 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~----~~~~d~   87 (210)
                      |+.+|+++|++|||||||+|+|.+..+...   .+.+..  ...++..+..+.+|||||++.+...+..+    +..++.
T Consensus         2 ~~p~V~lvG~~n~GKTSLln~l~~~~~~~~---tt~~~~--~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~   76 (209)
T d1nrjb_           2 YQPSIIIAGPQNSGKTSLLTLLTTDSVRPT---VVSQEP--LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKG   76 (209)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSSCCCB---CCCSSC--EEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCe---EEecce--EEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccc
Confidence            456899999999999999999998876542   211111  22345556678999999998876655544    345689


Q ss_pred             EEEEEeCCC-HhhHHHHHHHH---HHHHhhhccCCCCcEEEEEeCCCCCCCC
Q 028315           88 IILVYDVTR-RETFTNLSSVW---AKEVELYSTNQDCVKILVGNKVDRDSER  135 (210)
Q Consensus        88 ~i~v~d~~~-~~~~~~~~~~~---~~~~~~~~~~~~~p~ivv~nK~Dl~~~~  135 (210)
                      +++++|+.+ ..++.....++   ...+... ...+.|+++++||+|+....
T Consensus        77 ~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~-~~~~~piiiv~NK~D~~~~~  127 (209)
T d1nrjb_          77 LIFMVDSTVDPKKLTTTAEFLVDILSITESS-CENGIDILIACNKSELFTAR  127 (209)
T ss_dssp             EEEEEETTSCTTCCHHHHHHHHHHHHHHHHH-STTCCCEEEEEECTTSTTCC
T ss_pred             cceEEEEecccccHHHHHHHHHHHHHHHHHH-HhccCCeEEEEEeecccccC
Confidence            999999775 44455554222   2222222 25789999999999986543

>d2dy1a2 c.37.1.8 (A:8-274) Elongation factor G (EF-G), N-terminal (G) domain {Thermus thermophilus, EF-G-2 [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor G (EF-G), N-terminal (G) domain
species: Thermus thermophilus, EF-G-2 [TaxId: 274]

Probab=99.72  E-value=3.7e-17  Score=122.37  Aligned_cols=112  Identities=13%  Similarity=0.200  Sum_probs=80.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC--C-----CC----------ceeeEEEEEEEEECCeEEEEEEEeCCCCcccccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD--P-----SP----------TIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTL   77 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~--~-----~~----------~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~   77 (210)
                      ||+++|+.++|||||+.+++...-..  .     ..          ..+.+.......+...+.++.++||||+..|...
T Consensus         4 Nv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e   83 (267)
T d2dy1a2           4 TVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGE   83 (267)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhhh
Confidence            69999999999999999986321100  0     00          0111222222233334457889999999999999


Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ....++.+|++++|+|+.++...+... .|.....     .++|.++++||+|..
T Consensus        84 ~~~al~~~D~avlvvda~~Gv~~~t~~-~~~~~~~-----~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          84 IRGALEAADAALVAVSAEAGVQVGTER-AWTVAER-----LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHHHHCSEEEEEEETTTCSCHHHHH-HHHHHHH-----TTCCEEEEEECGGGC
T ss_pred             hhhhhcccCceEEEeeccCCccchhHH-HHHhhhh-----ccccccccccccccc
Confidence            999999999999999999887666655 5554443     578999999999963

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

Probab=99.70  E-value=1.7e-17  Score=118.20  Aligned_cols=164  Identities=13%  Similarity=0.069  Sum_probs=85.3

Q ss_pred             CCCCCceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCc-eeeEEEEEEEEECCeEEEEEEEeCCCCccccc-------c
Q 028315            6 GNNSYDYSFKILLIGDSGVGKSSILLSLISNSVHDPSPT-IGVDFKIKLLTVGGKRLKLTIWDTAGQERFGT-------L   77 (210)
Q Consensus         6 ~~~~~~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~-------~   77 (210)
                      ..-+.+..++|+++|.+|||||||+|++++......... .+................+..++.++......       .
T Consensus         9 ~~~p~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (188)
T d1puia_           9 RHLPSDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRA   88 (188)
T ss_dssp             GGSSCSCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHH
T ss_pred             hHCCCccCCEEEEECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhh
Confidence            344567789999999999999999999988765542222 22222222222222222222222222111111       1


Q ss_pred             hhh---hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HHHHHHHHHc--C
Q 028315           78 TSS---YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EEGMILAQEH--K  150 (210)
Q Consensus        78 ~~~---~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~~~~--~  150 (210)
                      ...   .....+.++.+.+..........  .+...+.    ....++++++||.|+........  +...+....+  .
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~----~~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~  162 (188)
T d1puia_          89 LGEYLEKRQSLQGLVVLMDIRHPLKDLDQ--QMIEWAV----DSNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGD  162 (188)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHH--HHHHHHH----HTTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSC
T ss_pred             hhhhhhhhhheeEEEEeecccccchhHHH--HHHHHhh----hccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCC
Confidence            111   12234566667776665433322  2223322    24678899999999865432221  1112222222  3


Q ss_pred             CeEEEecccCCcCHHHHHHHHHHHH
Q 028315          151 CLFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       151 ~~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      .+++.+||++|.|+++|++.|.+.+
T Consensus       163 ~~~i~vSA~~g~Gid~L~~~i~~~~  187 (188)
T d1puia_         163 VQVETFSSLKKQGVDKLRQKLDTWF  187 (188)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CcEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4699999999999999999876543

>d1r5ba3 c.37.1.8 (A:215-459) Eukaryotic peptide chain release factor ERF2, G domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Eukaryotic peptide chain release factor ERF2, G domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.69  E-value=2.1e-17  Score=122.82  Aligned_cols=153  Identities=17%  Similarity=0.136  Sum_probs=82.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC------------------------------CCCceeeEEEEEEEEECCeEE
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD------------------------------PSPTIGVDFKIKLLTVGGKRL   61 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~   61 (210)
                      ..+||+++|+.++|||||+.+|+...-..                              .....+.+.............
T Consensus        23 ~~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~  102 (245)
T d1r5ba3          23 EHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEHR  102 (245)
T ss_dssp             EEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSSE
T ss_pred             CceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccccccccc
Confidence            47899999999999999999995311100                              011112222222222333346


Q ss_pred             EEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHH------HHHHHHHHHHhhhccCCCC-cEEEEEeCCCCCCC
Q 028315           62 KLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFT------NLSSVWAKEVELYSTNQDC-VKILVGNKVDRDSE  134 (210)
Q Consensus        62 ~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~------~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl~~~  134 (210)
                      .+.++|||||..|..........+|++++|+|+.++..-.      ...+.+ ..+.    ..++ ++++++||+|+...
T Consensus       103 ~i~~iDtPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l-~l~~----~~~i~~iiv~iNKmD~~~~  177 (245)
T d1r5ba3         103 RFSLLDAPGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHA-VLAR----TQGINHLVVVINKMDEPSV  177 (245)
T ss_dssp             EEEECCCCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHH-HHHH----HTTCSSEEEEEECTTSTTC
T ss_pred             eeeeecccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHH-HHHH----HcCCCeEEEEEEcCCCCcc
Confidence            7889999999999988888899999999999998753110      111111 1111    1334 47899999998643


Q ss_pred             CccCHH-------HHHHHHHHc-------CCeEEEecccCCcCHHHHHHH
Q 028315          135 RAVTRE-------EGMILAQEH-------KCLFLECSAKNTEDVKQCFKD  170 (210)
Q Consensus       135 ~~~~~~-------~~~~~~~~~-------~~~~~~~sa~~~~~i~~l~~~  170 (210)
                      . ...+       +...+....       .++++++||++|.||.++++.
T Consensus       178 ~-~~e~~~~ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~~s  226 (245)
T d1r5ba3         178 Q-WSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVDS  226 (245)
T ss_dssp             S-SCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCCT
T ss_pred             c-hhHHHHHHHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccchhc
Confidence            2 1111       111111221       246999999999999876543

>d1jnya3 c.37.1.8 (A:4-227) Elongation factor eEF-1alpha, N-terminal (G) domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=99.69  E-value=1.8e-17  Score=121.79  Aligned_cols=154  Identities=18%  Similarity=0.202  Sum_probs=92.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCCCC------------------------------CCCCceeeEEEEEEEEECCeEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNSVH------------------------------DPSPTIGVDFKIKLLTVGGKRLK   62 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~~~------------------------------~~~~~~~~~~~~~~~~~~~~~~~   62 (210)
                      ++||+++|+.++|||||+.+|+...-.                              ......+.+.......+....+.
T Consensus         3 ~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~   82 (224)
T d1jnya3           3 HLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYF   82 (224)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSCE
T ss_pred             ccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCCce
Confidence            689999999999999999998531100                              01112233333333344445578


Q ss_pred             EEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHH--HHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCcc--C
Q 028315           63 LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNL--SSVWAKEVELYSTNQDCVKILVGNKVDRDSERAV--T  138 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~--~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~--~  138 (210)
                      +.|+|||||..|...+...++-+|++|+|+|+.+...-+..  ..+..+.+.......-.++++++||+|+......  .
T Consensus        83 i~iiDtPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~~~~~iIv~iNK~D~~~~~~~~~~  162 (224)
T d1jnya3          83 FTIIDAPGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKR  162 (224)
T ss_dssp             EEECCCSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHHH
T ss_pred             eEEeeCCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHhCCCceEEEEEcccCCCccccHHH
Confidence            99999999999999999999999999999999986321110  0011111111111234568899999998643211  1


Q ss_pred             H----HHHHHHHHHc-----CCeEEEecccCCcCHHH
Q 028315          139 R----EEGMILAQEH-----KCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       139 ~----~~~~~~~~~~-----~~~~~~~sa~~~~~i~~  166 (210)
                      .    .+...+....     .++++.+||..|.|+.+
T Consensus       163 ~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         163 YKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             HHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             HHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            1    1222233333     24689999999999854

>d1f60a3 c.37.1.8 (A:2-240) Elongation factor eEF-1alpha, N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor eEF-1alpha, N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.67  E-value=5.4e-17  Score=120.03  Aligned_cols=148  Identities=18%  Similarity=0.147  Sum_probs=95.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC--CC---------------C-C------------CCceeeEEEEEEEEECCeEEE
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS--VH---------------D-P------------SPTIGVDFKIKLLTVGGKRLK   62 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~--~~---------------~-~------------~~~~~~~~~~~~~~~~~~~~~   62 (210)
                      .+||+++|+.++|||||+.+|+...  ..               . .            ....+.+.......+...+.+
T Consensus         6 ~iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~   85 (239)
T d1f60a3           6 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQ   85 (239)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEE
T ss_pred             ccEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCCEE
Confidence            5899999999999999999986311  00               0 0            011222333223334445578


Q ss_pred             EEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhh-------HHHHHHHHHHHHhhhccCCCC-cEEEEEeCCCCCCC
Q 028315           63 LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRET-------FTNLSSVWAKEVELYSTNQDC-VKILVGNKVDRDSE  134 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~-------~~~~~~~~~~~~~~~~~~~~~-p~ivv~nK~Dl~~~  134 (210)
                      +.|+|||||..|...+..-+..+|++|+|+|+....-       .+... .|+...     ..++ +++|++||+|+.+.
T Consensus        86 i~iiDtPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~e-h~~~~~-----~~gv~~iiv~iNKmD~~~~  159 (239)
T d1f60a3          86 VTVIDAPGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTRE-HALLAF-----TLGVRQLIVAVNKMDSVKW  159 (239)
T ss_dssp             EEEEECCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHH-HHHHHH-----HTTCCEEEEEEECGGGGTT
T ss_pred             EEEEECCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHH-HHHHHH-----HcCCCeEEEEEECCCCCCC
Confidence            9999999999999998888999999999999987531       11222 332222     1344 47889999998653


Q ss_pred             CccCH----HHHHHHHHHcC-----CeEEEecccCCcCHHH
Q 028315          135 RAVTR----EEGMILAQEHK-----CLFLECSAKNTEDVKQ  166 (210)
Q Consensus       135 ~~~~~----~~~~~~~~~~~-----~~~~~~sa~~~~~i~~  166 (210)
                      .....    ++...+....+     ++++.+|+..|.|+-+
T Consensus       160 d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         160 DESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             CHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            32111    22233333333     4589999999998654

>d1h65a_ c.37.1.8 (A:) Chloroplast protein translocon GTPase Toc34 {Garden pea (Pisum sativum) [TaxId: 3888]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Chloroplast protein translocon GTPase Toc34
species: Garden pea (Pisum sativum) [TaxId: 3888]

Probab=99.61  E-value=3.3e-15  Score=111.76  Aligned_cols=125  Identities=22%  Similarity=0.195  Sum_probs=76.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEE--EEEECCeEEEEEEEeCCCCcccccc-------hhhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIK--LLTVGGKRLKLTIWDTAGQERFGTL-------TSSY   81 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~l~Dt~G~~~~~~~-------~~~~   81 (210)
                      ...++|+++|.+|+|||||+|.+++.......+..+.+....  .....+  ..+.++||||.......       ...+
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~g--~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRAG--FTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEETT--EEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEecc--EEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            357999999999999999999999887655443333333322  334444  56889999995322111       1111


Q ss_pred             --hccccEEEEEEeCCCHh-hHHHHHHHHHHHHhhh-ccCCCCcEEEEEeCCCCCCCCccCH
Q 028315           82 --YRGAHGIILVYDVTRRE-TFTNLSSVWAKEVELY-STNQDCVKILVGNKVDRDSERAVTR  139 (210)
Q Consensus        82 --~~~~d~~i~v~d~~~~~-~~~~~~~~~~~~~~~~-~~~~~~p~ivv~nK~Dl~~~~~~~~  139 (210)
                        ....|++++|++++... +... . .....+... ....-.+++||+||+|...+.....
T Consensus       108 ~~~~~~~~il~v~~~~~~r~~~~~-~-~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~  167 (257)
T d1h65a_         108 LLDKTIDVLLYVDRLDAYRVDNLD-K-LVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPY  167 (257)
T ss_dssp             TTTCEECEEEEEEESSCCCCCHHH-H-HHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCH
T ss_pred             HhcCCCCeEEEEEECCCCCCCHHH-H-HHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcH
Confidence              23568899998887532 1111 1 222222222 1122357899999999876554443

>d1tq4a_ c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-inducible GTPase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.59  E-value=7e-15  Score=116.48  Aligned_cols=160  Identities=16%  Similarity=0.188  Sum_probs=95.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcccccchhh-----hh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQERFGTLTSS-----YY   82 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~-----~~   82 (210)
                      .+++|+++|.+|+|||||+|.|++....+    .....+++.....+... ....+.+|||||..........     .+
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~-~~~~~~l~DtPG~~~~~~~~~~~~~~~~~  133 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKF  133 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTG
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeecc-CCCeEEEEeCCCcccccccHHHHHHHhhh
Confidence            36999999999999999999998865433    12222233333333322 2235789999996544322222     35


Q ss_pred             ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC-------CCCccCHHHHH--------HHHH
Q 028315           83 RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD-------SERAVTREEGM--------ILAQ  147 (210)
Q Consensus        83 ~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~-------~~~~~~~~~~~--------~~~~  147 (210)
                      ..+|.++++.|..-..  .+.  .+...+.    ..++|+++|.||+|..       .......+...        ....
T Consensus       134 ~~~d~~l~~~~~~~~~--~d~--~l~~~l~----~~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~  205 (400)
T d1tq4a_         134 YEYDFFIIISATRFKK--NDI--DIAKAIS----MMKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFR  205 (400)
T ss_dssp             GGCSEEEEEESSCCCH--HHH--HHHHHHH----HTTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHH
T ss_pred             hcceEEEEecCCCCCH--HHH--HHHHHHH----HcCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHH
Confidence            6789888888754221  221  2333343    2578999999999952       11222222211        1112


Q ss_pred             HcCC---eEEEecccC--CcCHHHHHHHHHHHHHccch
Q 028315          148 EHKC---LFLECSAKN--TEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       148 ~~~~---~~~~~sa~~--~~~i~~l~~~i~~~~~~~~~  180 (210)
                      ..+.   ++|.+|..+  ..++.++.+++.+.+.+...
T Consensus       206 ~~~~~~~~vflvS~~~~~~~d~~~L~~~l~~~L~~~~~  243 (400)
T d1tq4a_         206 ENGIAEPPIFLLSNKNVCHYDFPVLMDKLISDLPIYKR  243 (400)
T ss_dssp             HTTCSSCCEEECCTTCTTSTTHHHHHHHHHHHSCGGGH
T ss_pred             HcCCCCCCEEEecCCcccccCHHHHHHHHHHHhHHHHH
Confidence            2232   488888765  45899999999888776544

>d1n0ua2 c.37.1.8 (A:3-343) Elongation factor 2 (eEF-2), N-terminal (G) domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Elongation factor 2 (eEF-2), N-terminal (G) domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.58  E-value=2.7e-15  Score=115.79  Aligned_cols=113  Identities=20%  Similarity=0.331  Sum_probs=81.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC--CCC-------------CCCceeeEEEEEEEEE----------------CCeEEE
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS--VHD-------------PSPTIGVDFKIKLLTV----------------GGKRLK   62 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~--~~~-------------~~~~~~~~~~~~~~~~----------------~~~~~~   62 (210)
                      -||+++|+.++|||||+.+|+...  ...             .....+.+.......+                ++..+.
T Consensus        18 RNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~   97 (341)
T d1n0ua2          18 RNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFL   97 (341)
T ss_dssp             EEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEE
T ss_pred             cEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceE
Confidence            369999999999999999996311  110             0001111111111111                335678


Q ss_pred             EEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           63 LTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        63 ~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      +.++|||||..|.......++-+|++++|+|+.++...+... .|.....     .+.|+++++||+|..
T Consensus        98 inliDtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~-~~~~a~~-----~~~p~i~viNKiDr~  161 (341)
T d1n0ua2          98 INLIDSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTET-VLRQALG-----ERIKPVVVINKVDRA  161 (341)
T ss_dssp             EEEECCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHH-HHHHHHH-----TTCEEEEEEECHHHH
T ss_pred             EEEEcCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHH-HHHHHHH-----cCCCeEEEEECcccc
Confidence            999999999999999999999999999999999987766666 5655554     578999999999963

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.40  E-value=5.2e-14  Score=104.01  Aligned_cols=110  Identities=18%  Similarity=0.074  Sum_probs=65.3

Q ss_pred             EEEEEEeCCCCcccccchhh---h--hccccEEEEEEeCCC---HhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           61 LKLTIWDTAGQERFGTLTSS---Y--YRGAHGIILVYDVTR---RETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~---~--~~~~d~~i~v~d~~~---~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ..+.++|+||+..+......   +  ....+.+++++|+..   +..+.... ........   ....|.++++||+|+.
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~-l~~~~~~~---~~~~~~ivvinK~D~~  170 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVR-FFALLIDL---RLGATTIPALNKVDLL  170 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHH-HHHHHHHH---HHTSCEEEEECCGGGC
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHH-HHHHHHHH---HhCCCceeeeeccccc
Confidence            35788899998765332222   1  124568999999864   33322221 11111111   2467999999999986


Q ss_pred             CCCccCHHH-----------------------HHH---HHH--HcCCeEEEecccCCcCHHHHHHHHHHH
Q 028315          133 SERAVTREE-----------------------GMI---LAQ--EHKCLFLECSAKNTEDVKQCFKDLLYK  174 (210)
Q Consensus       133 ~~~~~~~~~-----------------------~~~---~~~--~~~~~~~~~sa~~~~~i~~l~~~i~~~  174 (210)
                      .........                       ...   ...  ...++++.+||++|.|++++++.|.+.
T Consensus       171 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         171 SEEEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             CHHHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             cHHHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            532111000                       000   001  124679999999999999999888765

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.34  E-value=1.1e-12  Score=100.64  Aligned_cols=103  Identities=6%  Similarity=0.028  Sum_probs=63.8

Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHH
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTRE  140 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~  140 (210)
                      +.+.|++|.|.-.-.   .....-+|.+++|.....++..+....   ..+       ..+-++|+||+|+.+.......
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~---gil-------E~aDi~vvNKaD~~~~~~~~~~  210 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKK---GIF-------ELADMIAVNKADDGDGERRASA  210 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCT---THH-------HHCSEEEEECCSTTCCHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhh---hHh-------hhhheeeEeccccccchHHHHH
Confidence            466777887753322   223455999999999998765553331   111       2344999999998655433322


Q ss_pred             HHHHHHH----------HcCCeEEEecccCCcCHHHHHHHHHHHHH
Q 028315          141 EGMILAQ----------EHKCLFLECSAKNTEDVKQCFKDLLYKIL  176 (210)
Q Consensus       141 ~~~~~~~----------~~~~~~~~~sa~~~~~i~~l~~~i~~~~~  176 (210)
                      ....+..          .+..+++.+||.+|.|+++++++|.+...
T Consensus       211 ~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~  256 (323)
T d2qm8a1         211 AASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  256 (323)
T ss_dssp             HHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHH
Confidence            2222222          14557999999999999999999977543

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.33  E-value=1.3e-12  Score=100.27  Aligned_cols=85  Identities=15%  Similarity=0.121  Sum_probs=51.3

Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCH--HHHHHHH-------HHcCC
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTR--EEGMILA-------QEHKC  151 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~--~~~~~~~-------~~~~~  151 (210)
                      +...+|.+++|.+....+..+.......+          .+-++|+||+|+........  .+.....       ..+..
T Consensus       164 i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e----------~aDi~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p  233 (327)
T d2p67a1         164 VARMVDCFISLQIAGGGDDLQGIKKGLME----------VADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQP  233 (327)
T ss_dssp             HHTTCSEEEEEECC------CCCCHHHHH----------HCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCC
T ss_pred             hhhccceEEEEecCCCchhhhhhchhhhc----------cccEEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcc
Confidence            45678999999988777665544422222          23388899999865322211  1111111       12345


Q ss_pred             eEEEecccCCcCHHHHHHHHHHHH
Q 028315          152 LFLECSAKNTEDVKQCFKDLLYKI  175 (210)
Q Consensus       152 ~~~~~sa~~~~~i~~l~~~i~~~~  175 (210)
                      +++.|||.+|.|++++++.|.+..
T Consensus       234 ~V~~~SA~~g~Gi~eL~~~I~~~~  257 (327)
T d2p67a1         234 RVLTCSALEKRGIDEIWHAIIDFK  257 (327)
T ss_dssp             EEEECBGGGTBSHHHHHHHHHHHH
T ss_pred             eeEEEEeeCCCCHHHHHHHHHHHH
Confidence            799999999999999999987643

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.29  E-value=2.4e-11  Score=91.50  Aligned_cols=82  Identities=20%  Similarity=0.229  Sum_probs=52.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCceeeEEEEEEEEECCe-------------E--EEEEEEeCCCCc-----
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTIGVDFKIKLLTVGGK-------------R--LKLTIWDTAGQE-----   72 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~-------------~--~~~~l~Dt~G~~-----   72 (210)
                      +||+++|.|+||||||++++++..... .+|....+-....+.+.+.             .  ..+.++|.||.-     
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~   82 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASK   82 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCccc
Confidence            689999999999999999999876543 3333332222223333221             1  257889999932     


Q ss_pred             --ccccchhhhhccccEEEEEEeCC
Q 028315           73 --RFGTLTSSYYRGAHGIILVYDVT   95 (210)
Q Consensus        73 --~~~~~~~~~~~~~d~~i~v~d~~   95 (210)
                        ......-..++.+|++++|+|+.
T Consensus        83 g~Glg~~FL~~ir~~d~LihVVr~f  107 (278)
T d1jala1          83 GEGLGNKFLANIRETDAIGHVVRCF  107 (278)
T ss_dssp             HGGGTCCHHHHHHTCSEEEEEEECS
T ss_pred             CCCccHHHHHHHHhccceEEEeecc
Confidence              12223344578999999999874

>d2akab1 c.37.1.8 (B:6-304) Dynamin G domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.05  E-value=8e-10  Score=83.75  Aligned_cols=118  Identities=22%  Similarity=0.243  Sum_probs=68.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEE-------E---CC-----------------------
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLT-------V---GG-----------------------   58 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~-------~---~~-----------------------   58 (210)
                      .+|+|+|..++|||||+|.|++..+.+  ..+++..........       .   .+                       
T Consensus        27 P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  106 (299)
T d2akab1          27 PQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTGT  106 (299)
T ss_dssp             CEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCSS
T ss_pred             CeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhCC
Confidence            379999999999999999999988633  333322111111100       0   00                       


Q ss_pred             ----------------eEEEEEEEeCCCCccc-------------ccchhhhhcccc-EEEEEEeCCCHhhHHHHHHHHH
Q 028315           59 ----------------KRLKLTIWDTAGQERF-------------GTLTSSYYRGAH-GIILVYDVTRRETFTNLSSVWA  108 (210)
Q Consensus        59 ----------------~~~~~~l~Dt~G~~~~-------------~~~~~~~~~~~d-~~i~v~d~~~~~~~~~~~~~~~  108 (210)
                                      .-..+.|+||||....             ..+...++...+ ++++|.++.....-.... .+.
T Consensus       107 ~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~-~~~  185 (299)
T d2akab1         107 NKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDAL-KIA  185 (299)
T ss_dssp             TTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHH-HHH
T ss_pred             CcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHH-HHH
Confidence                            0114789999994321             123344566666 455666666554433333 333


Q ss_pred             HHHhhhccCCCCcEEEEEeCCCCCCCCc
Q 028315          109 KEVELYSTNQDCVKILVGNKVDRDSERA  136 (210)
Q Consensus       109 ~~~~~~~~~~~~p~ivv~nK~Dl~~~~~  136 (210)
                      ..+.    ....++++|+||+|..++..
T Consensus       186 ~~~~----~~~~r~i~Vltk~D~~~~~~  209 (299)
T d2akab1         186 KEVD----PQGQRTIGVITKLDLMDEGT  209 (299)
T ss_dssp             HHHC----TTCSSEEEEEECGGGSCTTC
T ss_pred             HHhC----cCCCceeeEEeccccccchh
Confidence            3332    45568999999999876533

>d1wxqa1 c.37.1.8 (A:1-319) GTP-binding protein PH0525 {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein PH0525
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=99.03  E-value=2.1e-10  Score=87.84  Aligned_cols=83  Identities=27%  Similarity=0.291  Sum_probs=45.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCCCC-CCCce------eeEEEEEEEE----------------ECCeEEEEEEEeCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSVHD-PSPTI------GVDFKIKLLT----------------VGGKRLKLTIWDTAG   70 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~~~-~~~~~------~~~~~~~~~~----------------~~~~~~~~~l~Dt~G   70 (210)
                      ++|+++|.|+||||||+|.+++..... .+|.+      |.........                .......++++|+||
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pG   80 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAG   80 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCC
Confidence            479999999999999999998765432 22222      2111111100                012346799999999


Q ss_pred             Ccc-------cccchhhhhccccEEEEEEeCCC
Q 028315           71 QER-------FGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        71 ~~~-------~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                      .-.       .....-..++.+|++++|+|+.+
T Consensus        81 li~ga~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          81 LVPGAHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             --------------CCCSSTTCSEEEEEEETTC
T ss_pred             cccchhcccchHHHHHHhhccceEEEEEecccc
Confidence            421       11122233578999999999863

>d1ni3a1 c.37.1.8 (A:11-306) YchF GTP-binding protein N-terminal domain {Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]

Probab=99.02  E-value=5.7e-10  Score=84.50  Aligned_cols=85  Identities=22%  Similarity=0.284  Sum_probs=56.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCCCC--CCCceeeEEEEEEEEECCe---------------EEEEEEEeCCCCcc-
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSVHD--PSPTIGVDFKIKLLTVGGK---------------RLKLTIWDTAGQER-   73 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~~~--~~~~~~~~~~~~~~~~~~~---------------~~~~~l~Dt~G~~~-   73 (210)
                      ..++|+++|.|+||||||++.+++.....  .+|.++.+-....+.+.+.               ...+.+.|.||.-. 
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~g   88 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKG   88 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccc
Confidence            45899999999999999999999876543  3333332222333444321               24688899998321 


Q ss_pred             ------cccchhhhhccccEEEEEEeCCC
Q 028315           74 ------FGTLTSSYYRGAHGIILVYDVTR   96 (210)
Q Consensus        74 ------~~~~~~~~~~~~d~~i~v~d~~~   96 (210)
                            .....-..++.+|++++|+|+.+
T Consensus        89 A~~g~GLGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          89 ASTGVGLGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             CCSSSSSCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cccccccHHHHHHHhhccceeEEEEeccC
Confidence                  11223345789999999999865

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.97  E-value=6.7e-10  Score=84.48  Aligned_cols=26  Identities=27%  Similarity=0.551  Sum_probs=23.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD   40 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~   40 (210)
                      +|+|+|..++|||||+|.|++..+.+
T Consensus        26 ~ivVvG~~ssGKSSliNaLlG~~~lP   51 (306)
T d1jwyb_          26 QIVVVGSQSSGKSSVLENIVGRDFLP   51 (306)
T ss_dssp             EEEEEECSSSSHHHHHHHHHTSCCCC
T ss_pred             eEEEEeCCCCCHHHHHHHHhCCCCCC
Confidence            78999999999999999999987644

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.92  E-value=6.7e-10  Score=83.14  Aligned_cols=58  Identities=26%  Similarity=0.442  Sum_probs=39.3

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCCCCCCCCceeeEEEEEEEEECCeEEEEEEEeCCCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNSVHDPSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQ   71 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~   71 (210)
                      ...++|+|+|.|+||||||+|++.+.......+.+|.|.....+..+.   .+.++||||.
T Consensus       110 ~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~pG~Tr~~~~i~~~~---~~~l~DTPGi  167 (273)
T d1puja_         110 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRPGITTSQQWVKVGK---ELELLDTPGI  167 (273)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC------------CCEEETT---TEEEEECCCC
T ss_pred             CCceEEEEEecCccchhhhhhhhhccceEEECCcccccccceEEECCC---CeEEecCCCc
Confidence            467999999999999999999999988888899999888876665543   3788899995

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.47  E-value=1.2e-07  Score=67.96  Aligned_cols=85  Identities=21%  Similarity=0.164  Sum_probs=58.2

Q ss_pred             hhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHH--HcCCeEEEecc
Q 028315           81 YYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQ--EHKCLFLECSA  158 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~--~~~~~~~~~sa  158 (210)
                      ...+.|.+++|+.+.+|..-....+.|+....    ..++|.+||+||+||.+....  +....+..  ..+.+++.+|+
T Consensus         7 ~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~----~~~i~pvIvlnK~DL~~~~~~--~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           7 HVANVDQVILVVTVKMPETSTYIIDKFLVLAE----KNELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TEESCCEEEEEECSSTTCCCHHHHHHHHHHHH----HTTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCT
T ss_pred             CcccCCEEEEEEeCCCCCCCHHHHHHHHHHHH----HcCCCEEEEEeCcccCCHHHH--HHHHHhhcccccceeEEEecc
Confidence            45788999999999887532333335555554    368899999999999653321  12222233  23467999999


Q ss_pred             cCCcCHHHHHHHH
Q 028315          159 KNTEDVKQCFKDL  171 (210)
Q Consensus       159 ~~~~~i~~l~~~i  171 (210)
                      +++.|++++..++
T Consensus        81 ~~~~g~~~L~~~l   93 (225)
T d1u0la2          81 KTGMGIEELKEYL   93 (225)
T ss_dssp             TTCTTHHHHHHHH
T ss_pred             ccchhHhhHHHHh
Confidence            9999999976654

>d1u0la2 c.37.1.8 (A:69-293) Probable GTPase EngC (YjeQ), C-terminal domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Thermotoga maritima [TaxId: 2336]

Probab=98.35  E-value=1.4e-07  Score=67.66  Aligned_cols=58  Identities=26%  Similarity=0.221  Sum_probs=34.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC---CCCce----eeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD---PSPTI----GVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~---~~~~~----~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ..+|+|.+|||||||+|+|.......   .+...    -+|....-+.++..+   .++||||...+.
T Consensus        97 t~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~gg---~iiDTPG~r~~~  161 (225)
T d1u0la2          97 ISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFGG---YVVDTPGFANLE  161 (225)
T ss_dssp             EEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTSC---EEESSCSSTTCC
T ss_pred             eEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCCc---EEEeCCcccccc
Confidence            46899999999999999997654322   11111    122222233444433   567999976654

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.34  E-value=2.5e-06  Score=61.27  Aligned_cols=22  Identities=32%  Similarity=0.581  Sum_probs=19.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .+|.|.-|||||||+++++...
T Consensus         6 ~iitGFLGaGKTTll~~lL~~~   27 (222)
T d1nija1           6 TLLTGFLGAGKTTLLRHILNEQ   27 (222)
T ss_dssp             EEEEESSSSSCHHHHHHHHHSC
T ss_pred             EEEeeCCCCCHHHHHHHHHhcC
Confidence            5788999999999999998753

>d1puja_ c.37.1.8 (A:) Probable GTPase YlqF {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase YlqF
species: Bacillus subtilis [TaxId: 1423]

Probab=98.29  E-value=6e-07  Score=66.73  Aligned_cols=93  Identities=12%  Similarity=0.006  Sum_probs=65.1

Q ss_pred             hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEec
Q 028315           78 TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECS  157 (210)
Q Consensus        78 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~s  157 (210)
                      ....+..+|+++.|+|+.+|.+..+-.      +....  .++|.++|+||+|+.+.... . +........+...+.+|
T Consensus         9 i~~~i~~~DvIl~V~DaR~P~ss~~~~------l~~~~--~~Kp~IlVlNK~DLv~~~~~-~-~w~~~f~~~~~~~i~is   78 (273)
T d1puja_           9 VTEKLKLIDIVYELVDARIPMSSRNPM------IEDIL--KNKPRIMLLNKADKADAAVT-Q-QWKEHFENQGIRSLSIN   78 (273)
T ss_dssp             HHHHGGGCSEEEEEEETTSTTTTSCHH------HHHHC--SSSCEEEEEECGGGSCHHHH-H-HHHHHHHTTTCCEEECC
T ss_pred             HHHHHHhCCEEEEEEECCCCCCCCCHH------HHHHH--cCCCeEEEEECccCCchHHH-H-HHHHHHHhcCCccceee
Confidence            345688999999999999987654321      22222  36799999999999754321 1 22222344567899999


Q ss_pred             ccCCcCHHHHHHHHHHHHHccch
Q 028315          158 AKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       158 a~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +.++.++.++...+.+.+.+...
T Consensus        79 a~~~~~~~~~~~~~~~~l~~~~~  101 (273)
T d1puja_          79 SVNGQGLNQIVPASKEILQEKFD  101 (273)
T ss_dssp             TTTCTTGGGHHHHHHHHHHHHHH
T ss_pred             cccCCCccccchhhhhhhhhhhh
Confidence            99999999988888776665443

>d1okkd2 c.37.1.10 (D:97-303) GTPase domain of the signal recognition particle receptor FtsY {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermus aquaticus [TaxId: 271]

Probab=98.25  E-value=1.2e-06  Score=62.20  Aligned_cols=91  Identities=14%  Similarity=0.117  Sum_probs=51.5

Q ss_pred             EEEEEEeCCCCcccccc----hhhhh--------ccccEEEEEEeCCCHhh-HHHHHHHHHHHHhhhccCCCCcEEEEEe
Q 028315           61 LKLTIWDTAGQERFGTL----TSSYY--------RGAHGIILVYDVTRRET-FTNLSSVWAKEVELYSTNQDCVKILVGN  127 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~----~~~~~--------~~~d~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ivv~n  127 (210)
                      ..+.|+||+|...+...    +..+.        ...+-+++|+|++.... ...+. .+...+.        +--+++|
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~-~~~~~~~--------~~~lI~T  159 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAK-KFHEAVG--------LTGVIVT  159 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHH-HHHHHHC--------CSEEEEE
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHH-HhhhccC--------CceEEEe
Confidence            46889999995444322    11111        13577899999987643 23222 2222221        2256899


Q ss_pred             CCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       128 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      |.|....-.    .+..+....+.|+..++.  |.++++
T Consensus       160 KlDet~~~G----~~l~~~~~~~~Pi~~i~~--Gq~p~D  192 (207)
T d1okkd2         160 KLDGTAKGG----VLIPIVRTLKVPIKFVGV--GEGPDD  192 (207)
T ss_dssp             CTTSSCCCT----THHHHHHHHCCCEEEEEC--SSSTTC
T ss_pred             ccCCCCCcc----HHHHHHHHHCCCEEEEeC--CCChHh
Confidence            999643222    244566778888777763  444443

>d1vmaa2 c.37.1.10 (A:82-294) GTPase domain of the signal recognition particle receptor FtsY {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Thermotoga maritima [TaxId: 2336]

Probab=98.24  E-value=1.5e-06  Score=61.81  Aligned_cols=92  Identities=21%  Similarity=0.131  Sum_probs=51.5

Q ss_pred             EEEEEEeCCCCcccccc----hhhhhc--------cccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeC
Q 028315           61 LKLTIWDTAGQERFGTL----TSSYYR--------GAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNK  128 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~----~~~~~~--------~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK  128 (210)
                      +.+.|+||+|...++..    ...+.+        ..+-.++|+|++....  .+. ........    .+ +-=+|+||
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~--~~~-~~~~~~~~----~~-~~~lI~TK  165 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQN--GLV-QAKIFKEA----VN-VTGIILTK  165 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHH--HHH-HHHHHHHH----SC-CCEEEEEC
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcc--hhh-hhhhhccc----cC-CceEEEec
Confidence            46899999995433321    111211        1467899999886532  222 22222221    11 33578999


Q ss_pred             CCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          129 VDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       129 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      .|....  .  -.+.......+.|+..++  +|.++++
T Consensus       166 lDe~~~--~--G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         166 LDGTAK--G--GITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GGGCSC--T--THHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             ccCCCc--c--cHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            996432  2  234566777888887776  4555544

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.20  E-value=2.7e-07  Score=66.40  Aligned_cols=85  Identities=13%  Similarity=0.076  Sum_probs=59.4

Q ss_pred             hhccccEEEEEEeCCCHhh-HHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHH---HHHHHcCCeEEEe
Q 028315           81 YYRGAHGIILVYDVTRRET-FTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGM---ILAQEHKCLFLEC  156 (210)
Q Consensus        81 ~~~~~d~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~---~~~~~~~~~~~~~  156 (210)
                      ...+.|.+++|+++.+|.. ...+. .|+....    ..+++.+||+||+||.+..+. .+...   ......|.+++.+
T Consensus         7 ~vANiD~~~iV~s~~~P~~~~~~id-R~Lv~a~----~~~i~pvIvlnK~DL~~~~~~-~~~~~~~~~~y~~~g~~v~~~   80 (231)
T d1t9ha2           7 PICNVDQAVLVFSAVQPSFSTALLD-RFLVLVE----ANDIQPIICITKMDLIEDQDT-EDTIQAYAEDYRNIGYDVYLT   80 (231)
T ss_dssp             TEECCCEEEEEEESTTTTCCHHHHH-HHHHHHH----TTTCEEEEEEECGGGCCCHHH-HHHHHHHHHHHHHHTCCEEEC
T ss_pred             CccccCEEEEEEECCCCCCCHHHHH-HHHHHHH----HcCCCEEEEEecccccccHHH-HHHHHHHHHHHhhccccceee
Confidence            4578999999999988753 33343 5555544    478899999999999754322 11222   2334568899999


Q ss_pred             cccCCcCHHHHHHHH
Q 028315          157 SAKNTEDVKQCFKDL  171 (210)
Q Consensus       157 sa~~~~~i~~l~~~i  171 (210)
                      |++++.|++++..++
T Consensus        81 Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          81 SSKDQDSLADIIPHF   95 (231)
T ss_dssp             CHHHHTTCTTTGGGG
T ss_pred             ecCChhHHHHHHHhh
Confidence            999999988876544

>d1j8yf2 c.37.1.10 (F:87-297) GTPase domain of the signal sequence recognition protein Ffh {Archaeon Acidianus ambivalens [TaxId: 2283]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Archaeon Acidianus ambivalens [TaxId: 2283]

Probab=98.15  E-value=2.3e-06  Score=60.79  Aligned_cols=92  Identities=15%  Similarity=0.211  Sum_probs=53.0

Q ss_pred             EEEEEEeCCCCccccc------chhhhh--ccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCC
Q 028315           61 LKLTIWDTAGQERFGT------LTSSYY--RGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRD  132 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~------~~~~~~--~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~  132 (210)
                      ..+.|+||+|...+..      ....+.  ...+-+++|++++....-.  . ........    .+ +--+|+||.|..
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~--~-~~~~~~~~----~~-~~~lI~TKlDet  166 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAY--D-LASKFNQA----SK-IGTIIITKMDGT  166 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHH--H-HHHHHHHH----CT-TEEEEEECTTSC
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchH--H-HHhhhhcc----cC-cceEEEecccCC
Confidence            4689999999644331      112121  2357889999988664322  1 12222221    12 234679999964


Q ss_pred             CCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          133 SERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       133 ~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      ..    .=....+....+.|+..++  +|.++++
T Consensus       167 ~~----~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         167 AK----GGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             SC----HHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             Cc----ccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence            32    3345666777889987777  4555544

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngC (YjeQ), C-terminal domain
species: Bacillus subtilis [TaxId: 1423]

Probab=98.10  E-value=3.1e-07  Score=66.11  Aligned_cols=57  Identities=26%  Similarity=0.360  Sum_probs=31.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCCCC---CCCce----eeEEEEEEEEECCeEEEEEEEeCCCCcccc
Q 028315           15 KILLIGDSGVGKSSILLSLISNSVHD---PSPTI----GVDFKIKLLTVGGKRLKLTIWDTAGQERFG   75 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~~~---~~~~~----~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~   75 (210)
                      ..+++|++|||||||+|+|.......   .+...    -+|....-+..++ +   .++||||...+.
T Consensus        99 ~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~g-g---~iiDTPG~r~~~  162 (231)
T d1t9ha2          99 TTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTSG-G---LVADTPGFSSLE  162 (231)
T ss_dssp             EEEEEESHHHHHHHHHHHHCC-------------------CCCCCEEEETT-E---EEESSCSCSSCC
T ss_pred             eEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecCC-C---EEEECCcccccc
Confidence            35799999999999999997653222   11111    0111111123443 2   366999987764

>d2qy9a2 c.37.1.10 (A:285-495) GTPase domain of the signal recognition particle receptor FtsY {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal recognition particle receptor FtsY
species: Escherichia coli [TaxId: 562]

Probab=98.03  E-value=5.4e-06  Score=58.77  Aligned_cols=91  Identities=14%  Similarity=0.126  Sum_probs=51.5

Q ss_pred             EEEEEEeCCCCccccc----chhhh---hc-----cccEEEEEEeCCCHhh-HHHHHHHHHHHHhhhccCCCCcEEEEEe
Q 028315           61 LKLTIWDTAGQERFGT----LTSSY---YR-----GAHGIILVYDVTRRET-FTNLSSVWAKEVELYSTNQDCVKILVGN  127 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~----~~~~~---~~-----~~d~~i~v~d~~~~~~-~~~~~~~~~~~~~~~~~~~~~p~ivv~n  127 (210)
                      +.+.|+||+|....+.    .+..+   .+     ..+-+++|+|+..... ...+.    .....    .+ +--+++|
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~----~~~~~----~~-~~~lIlT  162 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAK----LFHEA----VG-LTGITLT  162 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHH----HHHHH----SC-CCEEEEE
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHh----hhhhc----cC-CceEEEe
Confidence            4678999999433321    11111   22     2468899999886533 22222    22221    11 3357899


Q ss_pred             CCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHH
Q 028315          128 KVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQ  166 (210)
Q Consensus       128 K~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~  166 (210)
                      |.|....-    =.+.......+.|+..++  +|.+|++
T Consensus       163 KlDe~~~~----G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         163 KLDGTAKG----GVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             CCTTCTTT----THHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             ecCCCCCc----cHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            99974322    235566777888988777  4555543

>d1ls1a2 c.37.1.10 (A:89-295) GTPase domain of the signal sequence recognition protein Ffh {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: GTPase domain of the signal sequence recognition protein Ffh
species: Thermus aquaticus [TaxId: 271]

Probab=97.98  E-value=1.1e-05  Score=57.05  Aligned_cols=86  Identities=19%  Similarity=0.206  Sum_probs=50.0

Q ss_pred             EEEEEEeCCCCccccc----chhhh--hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCC
Q 028315           61 LKLTIWDTAGQERFGT----LTSSY--YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSE  134 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~  134 (210)
                      ..+.|+||+|....+.    .+..+  ....+-+++|.|+..+.........+...+       + +-=+++||.|....
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~-------~-~~~~I~TKlDe~~~  164 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKV-------G-VTGLVLTKLDGDAR  164 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHT-------C-CCEEEEECGGGCSS
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhC-------C-CCeeEEeecCcccc
Confidence            4688999999544432    12222  235688999999987754332221222221       1 22478999996332


Q ss_pred             CccCHHHHHHHHHHcCCeEEEecc
Q 028315          135 RAVTREEGMILAQEHKCLFLECSA  158 (210)
Q Consensus       135 ~~~~~~~~~~~~~~~~~~~~~~sa  158 (210)
                          .-.+..+....+.|+..++.
T Consensus       165 ----~G~~l~~~~~~~~Pi~~i~~  184 (207)
T d1ls1a2         165 ----GGAALSARHVTGKPIYFAGV  184 (207)
T ss_dssp             ----CHHHHHHHHHHCCCEEEEC-
T ss_pred             ----chHHHHHHHHHCCCEEEEeC
Confidence                23455667778888776653

>d1ye8a1 c.37.1.11 (A:1-178) Hypothetical kinase-like protein Aq_1292 {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hypothetical kinase-like protein Aq 1292
species: Aquifex aeolicus [TaxId: 63363]

Probab=97.75  E-value=7.1e-06  Score=56.34  Aligned_cols=23  Identities=30%  Similarity=0.801  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +||+++|++|+|||||++.+.+.
T Consensus         1 ~ki~I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           1 MKIIITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCcHHHHHHHHHHhc
Confidence            48999999999999999998764

>d1lw7a2 c.37.1.1 (A:220-411) Transcriptional regulator NadR, ribosylnicotinamide kinase domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Transcriptional regulator NadR, ribosylnicotinamide kinase domain
species: Haemophilus influenzae [TaxId: 727]

Probab=97.63  E-value=1.3e-05  Score=55.14  Aligned_cols=23  Identities=22%  Similarity=0.369  Sum_probs=20.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      =+|+|.|++|+|||||+++|...
T Consensus         8 K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           8 KTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             EEEEEECCTTSHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999654

>d1y63a_ c.37.1.1 (A:) Probable kinase LmjF30.1890 {Leishmania major [TaxId: 5664]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Probable kinase LmjF30.1890
species: Leishmania major [TaxId: 5664]

Probab=97.55  E-value=1.7e-05  Score=54.08  Aligned_cols=26  Identities=27%  Similarity=0.486  Sum_probs=22.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +...+|+++|++||||||+.+.|...
T Consensus         3 pk~~~I~i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_           3 PKGINILITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             CSSCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEeCCCCCHHHHHHHHHHH
Confidence            45689999999999999999998553

>d1np6a_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Escherichia coli [TaxId: 562]

Probab=97.47  E-value=3.2e-05  Score=52.35  Aligned_cols=20  Identities=35%  Similarity=0.549  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      ++|+|.+|||||||++++..
T Consensus         5 i~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           5 LAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEcCCCCCHHHHHHHHHH
Confidence            78999999999999999975

>d1rkba_ c.37.1.1 (A:) Adenylate kinase {Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Human (Homo sapiens), isoenzyme 6 [TaxId: 9606]

Probab=97.47  E-value=2.7e-05  Score=52.83  Aligned_cols=22  Identities=45%  Similarity=0.608  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .||+++|+|||||||+.+.|..
T Consensus         5 ~~I~i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           5 PNILLTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999998854

>d1ak2a1 c.37.1.1 (A:14-146,A:177-233) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-2 [TaxId: 9913]

Probab=97.38  E-value=4.2e-05  Score=53.08  Aligned_cols=24  Identities=25%  Similarity=0.440  Sum_probs=21.2

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +.+||+++|+|||||||+...|..
T Consensus         2 ~~~riil~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           2 KGVRAVLLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHH
Confidence            457999999999999999998864

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.34  E-value=7.8e-05  Score=55.00  Aligned_cols=61  Identities=20%  Similarity=0.097  Sum_probs=41.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCCC--CC----CCCceeeEEEEEEEEECCeEEEEEEEeCCCCcc
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNSV--HD----PSPTIGVDFKIKLLTVGGKRLKLTIWDTAGQER   73 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~~--~~----~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~   73 (210)
                      +-.=|.++|+.++|||+|+|.+++..+  ..    ...|.|.-...... ..+....+.++||.|...
T Consensus        31 ~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~~   97 (277)
T d1f5na2          31 PMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLGD   97 (277)
T ss_dssp             BEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBCC
T ss_pred             CEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEecccccc
Confidence            456789999999999999999987653  22    23444543332221 234556788999999543

>d1ly1a_ c.37.1.1 (A:) Polynucleotide kinase, kinase domain {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Polynucleotide kinase, kinase domain
species: Bacteriophage T4 [TaxId: 10665]

Probab=97.33  E-value=6.1e-05  Score=50.05  Aligned_cols=21  Identities=43%  Similarity=0.580  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |++.|+||||||||+++|...
T Consensus         5 Iii~G~pGsGKTTla~~L~~~   25 (152)
T d1ly1a_           5 ILTIGCPGSGKSTWAREFIAK   25 (152)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            788999999999999998653

>d1zina1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.29  E-value=6.3e-05  Score=51.61  Aligned_cols=23  Identities=22%  Similarity=0.520  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +||+|+|+|||||||+...|...
T Consensus         1 m~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           1 MNLVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999888543

>d1zaka1 c.37.1.1 (A:3-127,A:159-222) Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Maize (Zea mays) [TaxId: 4577]

Probab=97.28  E-value=4.6e-05  Score=52.87  Aligned_cols=24  Identities=17%  Similarity=0.350  Sum_probs=20.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +.+|+|+|+|||||||+...|...
T Consensus         3 Pm~I~i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           3 PLKVMISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            468999999999999999988544

>d2cdna1 c.37.1.1 (A:1-181) Adenylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.24  E-value=7.9e-05  Score=51.20  Aligned_cols=23  Identities=30%  Similarity=0.666  Sum_probs=20.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +||+|+|+|||||||+...|...
T Consensus         1 m~I~i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           1 MRVLLLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999998644

>d2ak3a1 c.37.1.1 (A:0-124,A:162-225) Adenylate kinase {Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Cow (Bos taurus), mitochondrial izozyme-3 [TaxId: 9913]

Probab=97.24  E-value=8.7e-05  Score=51.56  Aligned_cols=26  Identities=15%  Similarity=0.386  Sum_probs=22.6

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+-+||+++|+|||||||+...|...
T Consensus         4 ~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           4 ARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             SCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcceeEEEECCCCCCHHHHHHHHHHH
Confidence            35589999999999999999998654

>d1qf9a_ c.37.1.1 (A:) UMP/CMP kinase {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Dictyostelium discoideum [TaxId: 44689]

Probab=97.23  E-value=0.00011  Score=51.07  Aligned_cols=24  Identities=17%  Similarity=0.412  Sum_probs=20.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ++..|+++|+|||||||+..+|..
T Consensus         5 kp~iI~i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_           5 KPNVVFVLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             CCEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            446789999999999999999865

>d1xjca_ c.37.1.10 (A:) Molybdopterin-guanine dinucleotide biosynthesis protein MobB {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Molybdopterin-guanine dinucleotide biosynthesis protein MobB
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=97.22  E-value=9.3e-05  Score=50.08  Aligned_cols=20  Identities=15%  Similarity=0.371  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      +.|+|.+|||||||++++..
T Consensus         4 i~I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           4 WQVVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            36999999999999999864

>d1s3ga1 c.37.1.1 (A:1-125,A:161-217) Adenylate kinase {Bacillus globisporus [TaxId: 1459]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Bacillus globisporus [TaxId: 1459]

Probab=97.21  E-value=9e-05  Score=50.99  Aligned_cols=23  Identities=26%  Similarity=0.518  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .||+|+|+|||||||+...|...
T Consensus         1 M~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           1 MNIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999988654

>d2bdta1 c.37.1.25 (A:1-176) Hypothetical protein BH3686 {Bacillus halodurans [TaxId: 86665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein BH3686
species: Bacillus halodurans [TaxId: 86665]

Probab=97.20  E-value=9.6e-05  Score=49.91  Aligned_cols=21  Identities=33%  Similarity=0.563  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |++.|++||||||+.++|...
T Consensus         5 I~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           5 YIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            789999999999999998654

>d1kgda_ c.37.1.1 (A:) Guanylate kinase-like domain of Cask {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase-like domain of Cask
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.19  E-value=3.6e-05  Score=53.05  Aligned_cols=22  Identities=36%  Similarity=0.711  Sum_probs=19.4

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+++|++|+||+||+++|....
T Consensus         6 ivl~Gpsg~GK~tl~~~L~~~~   27 (178)
T d1kgda_           6 LVLLGAHGVGRRHIKNTLITKH   27 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHC
T ss_pred             EEEECCCCCCHHHHHHHHHHhC
Confidence            7899999999999999997543

>d1akya1 c.37.1.1 (A:3-130,A:169-220) Adenylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=97.19  E-value=9.1e-05  Score=50.90  Aligned_cols=24  Identities=33%  Similarity=0.570  Sum_probs=20.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+||+|+|+|||||||+.+.|...
T Consensus         2 ~mrIvl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           2 SIRMVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998543

>d1e4va1 c.37.1.1 (A:1-121,A:157-214) Adenylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Escherichia coli [TaxId: 562]

Probab=97.15  E-value=0.00011  Score=50.45  Aligned_cols=22  Identities=23%  Similarity=0.472  Sum_probs=19.5

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +||+|+|+|||||||..+.|..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4899999999999999988854

>d2i3ba1 c.37.1.11 (A:1-189) Cancer-related NTPase, C1orf57 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Cancer-related NTPase, C1orf57
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.14  E-value=0.0001  Score=50.22  Aligned_cols=22  Identities=27%  Similarity=0.561  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|++.|++|+|||||+..+...
T Consensus         3 ~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           3 HVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4799999999999999998643

>d1kaga_ c.37.1.2 (A:) Shikimate kinase (AroK) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Escherichia coli [TaxId: 562]

Probab=97.10  E-value=0.00012  Score=48.96  Aligned_cols=22  Identities=41%  Similarity=0.611  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +|+++|++||||||+.+.|...
T Consensus         4 ~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           4 NIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4899999999999999988554

>d1yj5a2 c.37.1.1 (A:351-522) 5' polynucleotide kinase-3' phosphatase, C-terminal domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: 5' polynucleotide kinase-3' phosphatase, C-terminal domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=97.06  E-value=0.00016  Score=49.35  Aligned_cols=23  Identities=22%  Similarity=0.387  Sum_probs=19.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +.=|+++|.|||||||+..++..
T Consensus        14 p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          14 PEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            45688999999999999999854

>d1bifa1 c.37.1.7 (A:37-249) 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
domain: 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase, kinase domain
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=97.05  E-value=0.00016  Score=50.56  Aligned_cols=22  Identities=27%  Similarity=0.326  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .=|+++|.|||||||+.++|..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999864

>d1m8pa3 c.37.1.15 (A:391-573) ATP sulfurylase C-terminal domain {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=97.05  E-value=0.00021  Score=48.42  Aligned_cols=25  Identities=32%  Similarity=0.417  Sum_probs=20.8

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..-+.|.++|.+||||||+.+.|..
T Consensus         4 ~~g~~I~l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3           4 TQGFTIFLTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             TCCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457889999999999999888753

>d2iyva1 c.37.1.2 (A:2-166) Shikimate kinase (AroK) {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=97.03  E-value=0.00013  Score=49.34  Aligned_cols=21  Identities=43%  Similarity=0.539  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ||+++|.+||||||+.+.+..
T Consensus         3 ~IvliG~~G~GKSTig~~La~   23 (165)
T d2iyva1           3 KAVLVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             SEEEECSTTSSHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            588999999999999888743

>d1teva_ c.37.1.1 (A:) UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: UMP/CMP kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.02  E-value=0.00021  Score=49.50  Aligned_cols=23  Identities=17%  Similarity=0.540  Sum_probs=20.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ++.|+|+|+|||||||...++..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999988854

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.99  E-value=0.00017  Score=48.60  Aligned_cols=21  Identities=38%  Similarity=0.575  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|+++|++||||||+.+.+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~   22 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAK   22 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999888743

>d1khta_ c.37.1.1 (A:) Adenylate kinase {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=96.93  E-value=0.00023  Score=48.59  Aligned_cols=20  Identities=20%  Similarity=0.403  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+|.|.+||||||+++.|..
T Consensus         4 I~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           4 VVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EEEECCTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            68889999999999998843

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.91  E-value=0.00026  Score=48.83  Aligned_cols=21  Identities=43%  Similarity=0.743  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|+|++|||||||+++|...
T Consensus         4 Ivl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           4 IVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            689999999999999999664

>d1gvnb_ c.37.1.21 (B:) Plasmid maintenance system epsilon/zeta, toxin zeta subunit {Streptococcus pyogenes [TaxId: 1314]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
domain: Plasmid maintenance system epsilon/zeta, toxin zeta subunit
species: Streptococcus pyogenes [TaxId: 1314]

Probab=96.90  E-value=0.0003  Score=51.11  Aligned_cols=27  Identities=26%  Similarity=0.447  Sum_probs=22.2

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +.+--|++.|+||+|||+|++.+....
T Consensus        30 ~~P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          30 ESPTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            334568999999999999999987654

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.87  E-value=0.00029  Score=50.74  Aligned_cols=23  Identities=30%  Similarity=0.355  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +|+|+|+.|+|||||++.+.+-.
T Consensus        31 ~vaIvG~sGsGKSTLl~ll~gl~   53 (241)
T d2pmka1          31 VIGIVGRSGSGKSTLTKLIQRFY   53 (241)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHhcC
Confidence            58999999999999999886543

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.85  E-value=0.00031  Score=47.32  Aligned_cols=21  Identities=33%  Similarity=0.536  Sum_probs=18.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++|++||||||+.+.|...
T Consensus         9 ivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           9 YVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EEEECSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            567899999999999998653

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.81  E-value=0.00034  Score=47.95  Aligned_cols=21  Identities=38%  Similarity=0.596  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+++|++|||||||++.|...
T Consensus         5 ivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           5 VVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999998654

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.79  E-value=0.00039  Score=46.94  Aligned_cols=21  Identities=43%  Similarity=0.599  Sum_probs=18.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |++.|++||||||+.+.+...
T Consensus         7 I~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           7 LLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEECTTSCHHHHHHHHHTC
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            678999999999999888544

>d1jbka_ c.37.1.20 (A:) ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.77  E-value=0.00042  Score=48.07  Aligned_cols=22  Identities=41%  Similarity=0.715  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++++|+||||||++++.+...
T Consensus        45 n~lLvG~pGVGKTalv~~LA~r   66 (195)
T d1jbka_          45 NPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEecCCcccHHHHHHHHHH
Confidence            7899999999999999887553

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.76  E-value=0.0004  Score=48.14  Aligned_cols=23  Identities=26%  Similarity=0.507  Sum_probs=19.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      --|+|+|+|||||||+...|...
T Consensus         9 ~iI~i~GppGSGKsT~a~~La~~   31 (196)
T d1ukza_           9 SVIFVLGGPGAGKGTQCEKLVKD   31 (196)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            35889999999999999998653

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.75  E-value=0.00042  Score=49.94  Aligned_cols=23  Identities=39%  Similarity=0.359  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        30 ~vaivG~sGsGKSTLl~ll~gl~   52 (242)
T d1mv5a_          30 IIAFAGPSGGGKSTIFSLLERFY   52 (242)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCCHHHHHHHHHHhh
Confidence            68999999999999999886543

>d1qhxa_ c.37.1.3 (A:) Chloramphenicol phosphotransferase {Streptomyces venezuelae [TaxId: 54571]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Chloramphenicol phosphotransferase
domain: Chloramphenicol phosphotransferase
species: Streptomyces venezuelae [TaxId: 54571]

Probab=96.73  E-value=0.00045  Score=46.58  Aligned_cols=21  Identities=48%  Similarity=0.566  Sum_probs=17.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |++.|.+||||||+.+.|...
T Consensus         6 I~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           6 IILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHH
Confidence            566799999999999998654

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.73  E-value=0.00054  Score=47.88  Aligned_cols=23  Identities=22%  Similarity=0.475  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+++-.
T Consensus        29 i~~l~G~NGsGKSTLl~~i~gl~   51 (200)
T d1sgwa_          29 VVNFHGPNGIGKTTLLKTISTYL   51 (200)
T ss_dssp             CEEEECCTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCChHHHHHHHHhccc
Confidence            46899999999999999996644

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.73  E-value=0.0004  Score=49.56  Aligned_cols=22  Identities=32%  Similarity=0.415  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          33 FVSIMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCcchhhHhccCC
Confidence            4789999999999999977554

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.72  E-value=0.00044  Score=50.16  Aligned_cols=22  Identities=36%  Similarity=0.519  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++++|+.|+|||||++.+.+-
T Consensus        43 ~iaivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          43 TVALVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEEEEECTTSSHHHHHHHHTTT
T ss_pred             EEEEECCCCChHHHHHHHHhcc
Confidence            6899999999999999988553

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.71  E-value=0.00046  Score=49.30  Aligned_cols=22  Identities=32%  Similarity=0.569  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|+.|+|||||++.+.+-
T Consensus        28 i~~liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          28 FVVFVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTS
T ss_pred             EEEEECCCCChHHHHHHHHhcC
Confidence            4789999999999999988654

>d1lvga_ c.37.1.1 (A:) Guanylate kinase {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.68  E-value=0.00051  Score=47.53  Aligned_cols=21  Identities=43%  Similarity=0.735  Sum_probs=18.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|+|++|||||||+++|...
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            789999999999999998543

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.67  E-value=0.00051  Score=49.21  Aligned_cols=22  Identities=32%  Similarity=0.475  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++++|+.|+|||||++.+.+-.
T Consensus        27 ~~liGpnGaGKSTll~~i~Gl~   48 (240)
T d2onka1          27 CVLLGPTGAGKSVFLELIAGIV   48 (240)
T ss_dssp             EEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEECCCCChHHHHHHHHHcCC
Confidence            5789999999999999997654

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.67  E-value=0.00051  Score=49.74  Aligned_cols=23  Identities=30%  Similarity=0.381  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        42 ~vaivG~sGsGKSTLl~li~gl~   64 (251)
T d1jj7a_          42 VTALVGPNGSGKSTVAALLQNLY   64 (251)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhccc
Confidence            67999999999999999885543

>d1ixsb2 c.37.1.20 (B:4-242) Holliday junction helicase RuvB {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermus thermophilus [TaxId: 274]

Probab=96.67  E-value=0.0005  Score=49.17  Aligned_cols=23  Identities=26%  Similarity=0.543  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|+||+||||+++.+...
T Consensus        36 ~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          36 EHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            35799999999999999998654

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.66  E-value=0.00054  Score=47.10  Aligned_cols=24  Identities=21%  Similarity=0.145  Sum_probs=20.8

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .++-|+|.|++|||||||.++|..
T Consensus        21 ~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          21 GRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            356799999999999999999854

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.65  E-value=0.00054  Score=49.12  Aligned_cols=23  Identities=30%  Similarity=0.508  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        34 ~~~liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          34 FLVLLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHHcCC
Confidence            47999999999999999886654

>d3adka_ c.37.1.1 (A:) Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Pig (Sus scrofa) [TaxId: 9823]

Probab=96.65  E-value=0.00053  Score=47.43  Aligned_cols=22  Identities=23%  Similarity=0.516  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|+|+|+|||||||+..+|...
T Consensus        10 iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          10 IIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            3789999999999999998553

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.63  E-value=0.00056  Score=50.35  Aligned_cols=23  Identities=26%  Similarity=0.615  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++|+|+.|+|||||++.+.+-.
T Consensus        64 ~vaivG~nGsGKSTLl~~i~Gl~   86 (281)
T d1r0wa_          64 MLAITGSTGSGKTSLLMLILGEL   86 (281)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhCCC
Confidence            57999999999999999987643

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.63  E-value=0.00055  Score=48.00  Aligned_cols=21  Identities=33%  Similarity=0.596  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      |+|+|++|||||||+++|+..
T Consensus         5 ivi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           5 YIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHhh
Confidence            678999999999999999764

>d1e6ca_ c.37.1.2 (A:) Shikimate kinase (AroK) {Erwinia chrysanthemi [TaxId: 556]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Erwinia chrysanthemi [TaxId: 556]

Probab=96.62  E-value=0.00056  Score=46.28  Aligned_cols=20  Identities=25%  Similarity=0.542  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+++|++||||||+.+.+..
T Consensus         5 Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           5 IFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EEEESCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67899999999999998843

>d1uj2a_ c.37.1.6 (A:) Uridine-cytidine kinase 2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Uridine-cytidine kinase 2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.60  E-value=0.00067  Score=47.59  Aligned_cols=23  Identities=30%  Similarity=0.485  Sum_probs=20.2

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ++-|+|.|.+|||||||.+.|..
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHH
Confidence            47799999999999999998854

>d1r6bx2 c.37.1.20 (X:169-436) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=96.59  E-value=0.00062  Score=49.70  Aligned_cols=23  Identities=43%  Similarity=0.590  Sum_probs=19.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -+++++|+||||||++++.+...
T Consensus        40 ~n~lLVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          40 NNPLLVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEECCCCCcHHHHHHHHHHH
Confidence            37899999999999999987554

>d1in4a2 c.37.1.20 (A:17-254) Holliday junction helicase RuvB {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Holliday junction helicase RuvB
species: Thermotoga maritima [TaxId: 2336]

Probab=96.59  E-value=0.00059  Score=48.69  Aligned_cols=22  Identities=32%  Similarity=0.628  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++|.|+||+|||++++.+...
T Consensus        37 ~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          37 HVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CEEEESSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHhc
Confidence            5899999999999999998654

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.57  E-value=0.00058  Score=48.99  Aligned_cols=22  Identities=32%  Similarity=0.375  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++++|+.|+|||||++.+.+-
T Consensus        33 ~~~iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          33 IYGVIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCCHHHHHHHHcCC
Confidence            4689999999999999998654

>d1nksa_ c.37.1.1 (A:) Adenylate kinase {Archaeon Sulfolobus acidocaldarius [TaxId: 2285]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Adenylate kinase
species: Archaeon Sulfolobus acidocaldarius [TaxId: 2285]

Probab=96.54  E-value=0.00064  Score=46.42  Aligned_cols=21  Identities=43%  Similarity=0.695  Sum_probs=17.2

Q ss_pred             EE-EEEcCCCCcHHHHHHHHhh
Q 028315           15 KI-LLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i-~i~G~~~~GKSsli~~l~~   35 (210)
                      || +|.|.+||||||+++.|..
T Consensus         2 kiivi~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           2 KIGIVTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            45 4679999999999998843

>d1x6va3 c.37.1.4 (A:34-228) Adenosine-5'phosphosulfate kinase (APS kinase) {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.54  E-value=0.00038  Score=47.89  Aligned_cols=25  Identities=28%  Similarity=0.441  Sum_probs=20.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +...|.++|.+||||||+.+.|...
T Consensus        18 ~g~vI~L~G~pGSGKTTiAk~La~~   42 (195)
T d1x6va3          18 RGCTVWLTGLSGAGKTTVSMALEEY   42 (195)
T ss_dssp             CCEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3456889999999999999988543

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.54  E-value=0.00046  Score=49.14  Aligned_cols=23  Identities=22%  Similarity=0.419  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        28 ~~~liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          28 YFVILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EEEEECCCTHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhcCc
Confidence            37899999999999999997654

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.53  E-value=0.0007  Score=48.57  Aligned_cols=23  Identities=30%  Similarity=0.518  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        31 ~~~liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          31 FMILLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHHTSS
T ss_pred             EEEEECCCCChHHHHHHHHhcCC
Confidence            47899999999999999886654

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.51  E-value=0.00067  Score=48.75  Aligned_cols=23  Identities=30%  Similarity=0.511  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -++++|+.|+|||||++.+.+-.
T Consensus        34 i~~liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          34 IVTLIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EEEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEEECCCCCcHHHHHHHHhCCC
Confidence            36899999999999999996654

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.46  E-value=0.00057  Score=48.86  Aligned_cols=21  Identities=33%  Similarity=0.645  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++|+.|+|||||++.+.+-
T Consensus        28 ~~iiG~nGaGKSTLl~~l~Gl   48 (231)
T d1l7vc_          28 LHLVGPNGAGKSTLLARMAGM   48 (231)
T ss_dssp             EECBCCTTSSHHHHHHHHHTS
T ss_pred             EEEECCCCCcHHHHHHHHhCC
Confidence            789999999999999999763

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.45  E-value=0.0017  Score=43.34  Aligned_cols=25  Identities=24%  Similarity=0.505  Sum_probs=21.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ..-|++-|+-|+|||||++.+...-
T Consensus        33 g~ii~L~G~LGaGKTtfvr~~~~~l   57 (158)
T d1htwa_          33 AIMVYLNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CeEEEEecCCCccHHHHHHHHHhhc
Confidence            3568899999999999999987654

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.42  E-value=0.0011  Score=47.54  Aligned_cols=24  Identities=29%  Similarity=0.337  Sum_probs=20.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      -++++|+.|+|||||++.+.+-..
T Consensus        30 i~glvG~nGaGKSTLl~~l~G~~~   53 (238)
T d1vpla_          30 IFGLIGPNGAGKTTTLRIISTLIK   53 (238)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTSSC
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCC
Confidence            368999999999999999976543

>d2hyda1 c.37.1.12 (A:324-578) Putative multidrug export ATP-binding/permease protein SAV1866 {Staphylococcus aureus [TaxId: 1280]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative multidrug export ATP-binding/permease protein SAV1866
species: Staphylococcus aureus [TaxId: 1280]

Probab=96.39  E-value=0.00054  Score=49.68  Aligned_cols=21  Identities=29%  Similarity=0.480  Sum_probs=18.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +++++|+.|+|||||++-+.+
T Consensus        46 ~vaivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          46 TVAFVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EEEEECSTTSSHHHHHTTTTT
T ss_pred             EEEEECCCCCcHHHHHHHHHh
Confidence            689999999999999987754

>d1d2na_ c.37.1.20 (A:) Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein {Chinese hamster (Cricetulus griseus) [TaxId: 10029]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Hexamerization domain of N-ethylmalemide-sensitive fusion (NSF) protein
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

Probab=96.39  E-value=0.0015  Score=47.07  Aligned_cols=25  Identities=20%  Similarity=0.312  Sum_probs=21.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +.-.|++.|+||+|||+|++.+...
T Consensus        39 p~~~vLL~GppGtGKT~la~alA~~   63 (246)
T d1d2na_          39 PLVSVLLEGPPHSGKTALAAKIAEE   63 (246)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECcCCCCHHHHHHHHhhc
Confidence            3467999999999999999999653

>d1q3ta_ c.37.1.1 (A:) CMP kinase {Streptococcus pneumoniae [TaxId: 1313]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Streptococcus pneumoniae [TaxId: 1313]

Probab=96.38  E-value=0.00085  Score=47.24  Aligned_cols=23  Identities=22%  Similarity=0.375  Sum_probs=19.9

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .++|+|.|++||||||....|..
T Consensus         3 ~i~IaIdGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           3 TIQIAIDGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             CCEEEEECSSCSSHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHH
Confidence            47789999999999999998854

>d1fnna2 c.37.1.20 (A:1-276) CDC6, N-domain {Archaeon Pyrobaculum aerophilum [TaxId: 13773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6, N-domain
species: Archaeon Pyrobaculum aerophilum [TaxId: 13773]

Probab=96.34  E-value=0.0011  Score=47.73  Aligned_cols=24  Identities=29%  Similarity=0.362  Sum_probs=20.6

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.++|.|++|+|||++++.+....
T Consensus        44 ~~lll~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          44 PRATLLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CceEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999886543

>d1g6oa_ c.37.1.11 (A:) Hexameric traffic ATPase, HP0525 {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric traffic ATPase, HP0525
species: Helicobacter pylori [TaxId: 210]

Probab=96.33  E-value=0.0009  Score=50.26  Aligned_cols=24  Identities=21%  Similarity=0.466  Sum_probs=20.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -+|+|.|.+|+|||||++.++..-
T Consensus       167 ~nili~G~tgSGKTT~l~al~~~i  190 (323)
T d1g6oa_         167 KNVIVCGGTGSGKTTYIKSIMEFI  190 (323)
T ss_dssp             CCEEEEESTTSSHHHHHHHHGGGS
T ss_pred             CCEEEEeeccccchHHHHHHhhhc
Confidence            468999999999999999997543

>d1iqpa2 c.37.1.20 (A:2-232) Replication factor C {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=96.32  E-value=0.0012  Score=46.78  Aligned_cols=22  Identities=36%  Similarity=0.678  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++.|++|+|||++++.+...
T Consensus        47 ~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          47 HLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHHH
Confidence            4899999999999999988654

>d1cp2a_ c.37.1.10 (A:) Nitrogenase iron protein {Clostridium pasteurianum [TaxId: 1501]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Clostridium pasteurianum [TaxId: 1501]

Probab=96.32  E-value=0.0093  Score=43.05  Aligned_cols=88  Identities=16%  Similarity=0.118  Sum_probs=51.8

Q ss_pred             EEEEEEeCCCCcccccc-hhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeCCCCCCCCccC
Q 028315           61 LKLTIWDTAGQERFGTL-TSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDRDSERAVT  138 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~-~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~~~~~~~  138 (210)
                      +.+.++|||+.-..... .......+|.++++.+. +..++.... .....+.......+.++ -++.|+.+....    
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~-~~~~~i~~~~~~~~~~~~~vv~N~~~~~~~----  189 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAAN-NISKGIQKYAKSGGVRLGGIICNSRKVANE----  189 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHH-HHHHHHHHHBTTBBCEEEEEEEECCSSSCC----
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHH-HHHHHHHhhccccceeccceEEeeecCCCc----
Confidence            46888999875433222 22233568888888765 556666655 45555555443344433 478899876442    


Q ss_pred             HHHHHHHHHHcCCeEE
Q 028315          139 REEGMILAQEHKCLFL  154 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~  154 (210)
                      .+..+.+.+.++.+++
T Consensus       190 ~~~~~~~~~~~~~~~~  205 (269)
T d1cp2a_         190 YELLDAFAKELGSQLI  205 (269)
T ss_dssp             HHHHHHHHHHHTCCEE
T ss_pred             cchhhhhHhhcCCeEE
Confidence            3445566666776644

>d1b0ua_ c.37.1.12 (A:) ATP-binding subunit of the histidine permease {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ATP-binding subunit of the histidine permease
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.30  E-value=0.0011  Score=48.17  Aligned_cols=22  Identities=41%  Similarity=0.493  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|+.|+|||||++.+.+-
T Consensus        30 i~~iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          30 VISIIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EEEEECCTTSSHHHHHHHHTTS
T ss_pred             EEEEECCCCCcHHHHHHHHHcC
Confidence            4789999999999999998654

>d1oxxk2 c.37.1.12 (K:1-242) Glucose transport protein GlcV, N-terminal domain {Archaeon Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Glucose transport protein GlcV, N-terminal domain
species: Archaeon Sulfolobus solfataricus [TaxId: 2287]

Probab=96.27  E-value=0.0006  Score=48.93  Aligned_cols=23  Identities=22%  Similarity=0.468  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .++++|+.|+|||||++.+.+-.
T Consensus        33 ~~~iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          33 RFGILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EEEEECSCHHHHHHHHHHHHTSS
T ss_pred             EEEEECCCCCcHHHHHHHHHcCc
Confidence            47999999999999999986644

>d1ofha_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.26  E-value=0.0012  Score=49.26  Aligned_cols=23  Identities=43%  Similarity=0.608  Sum_probs=20.1

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.++++||||+|||.|.+.+...
T Consensus        50 ~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          50 KNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHhhc
Confidence            46799999999999999998654

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.26  E-value=0.0015  Score=47.33  Aligned_cols=22  Identities=32%  Similarity=0.533  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ++++|+.|+|||||++.+.+-.
T Consensus        33 ~~liG~nGaGKSTLl~~i~Gl~   54 (254)
T d1g6ha_          33 TLIIGPNGSGKSTLINVITGFL   54 (254)
T ss_dssp             EEEECSTTSSHHHHHHHHTTSS
T ss_pred             EEEECCCCCcHHHHHHHHHCCC
Confidence            6899999999999999997653

>d1sxja2 c.37.1.20 (A:295-547) Replication factor C1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.24  E-value=0.0014  Score=46.95  Aligned_cols=24  Identities=21%  Similarity=0.342  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.+++.|+||+||||+++.+....
T Consensus        53 ~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          53 RAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHH
Confidence            468999999999999999997653

>d1uf9a_ c.37.1.1 (A:) Dephospho-CoA kinase {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Thermus thermophilus [TaxId: 274]

Probab=96.22  E-value=0.0019  Score=44.28  Aligned_cols=24  Identities=33%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           13 SFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++-|++.|.+||||||+.+.|...
T Consensus         3 p~IIgitG~~gSGKstva~~l~~~   26 (191)
T d1uf9a_           3 PIIIGITGNIGSGKSTVAALLRSW   26 (191)
T ss_dssp             CEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHC
Confidence            577899999999999999988543

>d1g41a_ c.37.1.20 (A:) HslU {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: HslU
species: Haemophilus influenzae [TaxId: 727]

Probab=96.19  E-value=0.0011  Score=52.02  Aligned_cols=22  Identities=45%  Similarity=0.681  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -||+++||+|||||-|.++|..
T Consensus        50 sNILliGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHH
Confidence            3899999999999999999843

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.17  E-value=0.0014  Score=47.48  Aligned_cols=21  Identities=24%  Similarity=0.374  Sum_probs=17.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|+||+|||++++.+...
T Consensus        49 l~l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          49 YGSIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             EECTTCCSSSHHHHHHHHHHH
T ss_pred             EEeECCCCCCHHHHHHHHHHH
Confidence            455699999999999998654

>d2vp4a1 c.37.1.1 (A:12-208) Deoxyribonucleoside kinase {Fruit fly (Drosophila melanogaster) [TaxId: 7227]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyribonucleoside kinase
species: Fruit fly (Drosophila melanogaster) [TaxId: 7227]

Probab=96.05  E-value=0.0015  Score=45.04  Aligned_cols=26  Identities=27%  Similarity=0.469  Sum_probs=22.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .+++-|+|-|..||||||+++.|...
T Consensus         7 ~kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           7 TQPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999988543

>d1ixza_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Thermus thermophilus [TaxId: 274]

Probab=96.01  E-value=0.002  Score=46.42  Aligned_cols=22  Identities=32%  Similarity=0.656  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|++.|+||+|||+|++.+...
T Consensus        44 giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          44 GVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEecCCCCChhHHHHHHHHH
Confidence            4899999999999999999753

>d2fnaa2 c.37.1.20 (A:1-283) Archaeal ATPase SSO1545 {Sulfolobus solfataricus [TaxId: 2287]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Archaeal ATPase SSO1545
species: Sulfolobus solfataricus [TaxId: 2287]

Probab=96.00  E-value=0.0018  Score=46.65  Aligned_cols=21  Identities=38%  Similarity=0.396  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .|+|.|++|+|||+|++++..
T Consensus        31 ~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          31 ITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEEEEESTTSSHHHHHHHHHH
T ss_pred             EEEEEcCCCCcHHHHHHHHHH
Confidence            478899999999999999864

>d1sq5a_ c.37.1.6 (A:) Pantothenate kinase PanK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Pantothenate kinase PanK
species: Escherichia coli [TaxId: 562]

Probab=95.99  E-value=0.0017  Score=48.30  Aligned_cols=28  Identities=29%  Similarity=0.357  Sum_probs=22.6

Q ss_pred             CCCCceEEEEEEEcCCCCcHHHHHHHHh
Q 028315            7 NNSYDYSFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus         7 ~~~~~~~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      ....-.++=|+|.|.+|||||||.+.|.
T Consensus        74 ~~~~k~P~iIGIaG~sgSGKSTla~~L~  101 (308)
T d1sq5a_          74 TNGQRIPYIISIAGSVAVGKSTTARVLQ  101 (308)
T ss_dssp             CC-CCCCEEEEEEECTTSSHHHHHHHHH
T ss_pred             ccCCCCCEEEEEeCCCCCCCcHHHHHHH
Confidence            3444567899999999999999988874

>d1sxjd2 c.37.1.20 (D:26-262) Replication factor C2 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C2
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.95  E-value=0.0021  Score=45.48  Aligned_cols=21  Identities=38%  Similarity=0.729  Sum_probs=18.9

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+||||+++.+...
T Consensus        36 lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          36 MLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCChHHHHHHHHHH
Confidence            799999999999999998654

>d1ckea_ c.37.1.1 (A:) CMP kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: CMP kinase
species: Escherichia coli [TaxId: 562]

Probab=95.93  E-value=0.0023  Score=44.79  Aligned_cols=20  Identities=30%  Similarity=0.513  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+|.|+|||||||+...|..
T Consensus         6 I~I~GppGSGKgT~ak~La~   25 (225)
T d1ckea_           6 ITIDGPSGAGKGTLCKAMAE   25 (225)
T ss_dssp             EEEECCTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999999988844

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.90  E-value=0.0016  Score=46.64  Aligned_cols=22  Identities=32%  Similarity=0.658  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++.|++|+||||+++.+...
T Consensus        35 ~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          35 HLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            5899999999999999988664

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.87  E-value=0.0023  Score=44.81  Aligned_cols=24  Identities=33%  Similarity=0.416  Sum_probs=20.6

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...-|.|.|.||+|||||.+.|..
T Consensus        23 kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          23 RGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHH
Confidence            456789999999999999998853

>d1sxjb2 c.37.1.20 (B:7-230) Replication factor C4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.85  E-value=0.0025  Score=44.89  Aligned_cols=22  Identities=23%  Similarity=0.539  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++.|++|+||||+++.+...
T Consensus        38 ~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          38 HMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCchhhHHHHHHH
Confidence            4799999999999999987543

>d1e32a2 c.37.1.20 (A:201-458) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.77  E-value=0.0028  Score=45.84  Aligned_cols=23  Identities=35%  Similarity=0.488  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.|++.|+||+|||+|++.+...
T Consensus        39 ~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          39 RGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceeEEecCCCCCchHHHHHHHHH
Confidence            35899999999999999998664

>d1lv7a_ c.37.1.20 (A:) AAA domain of cell division protein FtsH {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: AAA domain of cell division protein FtsH
species: Escherichia coli [TaxId: 562]

Probab=95.75  E-value=0.0032  Score=45.52  Aligned_cols=23  Identities=22%  Similarity=0.502  Sum_probs=20.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -.+++.|+||+|||++++.+...
T Consensus        46 ~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          46 KGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEeeCCCCCCccHHHHHHHHH
Confidence            35899999999999999999653

>d1sxjc2 c.37.1.20 (C:12-238) Replication factor C3 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C3
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.74  E-value=0.0029  Score=44.59  Aligned_cols=22  Identities=32%  Similarity=0.668  Sum_probs=19.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ++++.|++|+||||+++.+...
T Consensus        37 ~lLl~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          37 HLLFYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             CEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHHH
Confidence            4789999999999999998764

>d1qvra2 c.37.1.20 (A:149-535) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=95.65  E-value=0.002  Score=49.49  Aligned_cols=20  Identities=45%  Similarity=0.778  Sum_probs=17.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028315           15 KILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~   34 (210)
                      |++++|+||||||++++.|.
T Consensus        45 n~llvG~~GvGKtaiv~~la   64 (387)
T d1qvra2          45 NPVLIGEPGVGKTAIVEGLA   64 (387)
T ss_dssp             CCEEEECTTSCHHHHHHHHH
T ss_pred             CCeEECCCCCCHHHHHHHHH
Confidence            56899999999999986554

>d1gsia_ c.37.1.1 (A:) Thymidylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=95.51  E-value=0.0041  Score=43.03  Aligned_cols=21  Identities=29%  Similarity=0.434  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|+|-|..||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            488999999999999998753

>d1um8a_ c.37.1.20 (A:) ClpX {Helicobacter pylori [TaxId: 210]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpX
species: Helicobacter pylori [TaxId: 210]

Probab=95.48  E-value=0.0033  Score=47.91  Aligned_cols=23  Identities=39%  Similarity=0.592  Sum_probs=20.0

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .-+++++|++|||||-|.++|..
T Consensus        68 ~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          68 KSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CcceeeeCCCCccHHHHHHHHHh
Confidence            45689999999999999999854

>d1odfa_ c.37.1.6 (A:) Hypothetical protein Ygr205W {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein Ygr205W
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.37  E-value=0.0061  Score=44.65  Aligned_cols=23  Identities=26%  Similarity=0.426  Sum_probs=20.0

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHH
Q 028315           11 DYSFKILLIGDSGVGKSSILLSL   33 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l   33 (210)
                      ..++=|+|.|.+|||||||...+
T Consensus        25 ~~P~iIGi~G~qGSGKSTl~~~l   47 (286)
T d1odfa_          25 KCPLFIFFSGPQGSGKSFTSIQI   47 (286)
T ss_dssp             CSCEEEEEECCTTSSHHHHHHHH
T ss_pred             CCCEEEEeECCCCCCHHHHHHHH
Confidence            45688999999999999988765

>d1r7ra3 c.37.1.20 (A:471-735) Membrane fusion ATPase VCP/p97 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Membrane fusion ATPase VCP/p97
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=95.31  E-value=0.0045  Score=44.95  Aligned_cols=24  Identities=21%  Similarity=0.426  Sum_probs=20.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -.|++.|++|+|||+|++.+....
T Consensus        42 ~giLL~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          42 KGVLFYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             CEEEEBCCTTSSHHHHHHHHHHHT
T ss_pred             CeEEEECCCCCcchhHHHHHHHHh
Confidence            458999999999999999996554

>d1g8pa_ c.37.1.20 (A:) ATPase subunit of magnesium chelatase, BchI {Rhodobacter capsulatus [TaxId: 1061]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ATPase subunit of magnesium chelatase, BchI
species: Rhodobacter capsulatus [TaxId: 1061]

Probab=95.19  E-value=0.0023  Score=47.99  Aligned_cols=21  Identities=38%  Similarity=0.702  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +|++.|+||+|||+|++++..
T Consensus        30 ~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          30 GVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CEEEECCGGGCTTHHHHHHHH
T ss_pred             eEEEECCCCccHHHHHHHHHH
Confidence            689999999999999999853

>d4tmka_ c.37.1.1 (A:) Thymidylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Escherichia coli [TaxId: 562]

Probab=95.04  E-value=0.007  Score=42.03  Aligned_cols=20  Identities=25%  Similarity=0.439  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+|-|..||||||+++.|..
T Consensus         5 IviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           5 IVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EEEEECTTSCHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67889999999999998754

>d1vhta_ c.37.1.1 (A:) Dephospho-CoA kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Escherichia coli [TaxId: 562]

Probab=94.99  E-value=0.011  Score=41.08  Aligned_cols=24  Identities=25%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +-|+++|..||||||+.+.|....
T Consensus         4 ~iIgitG~igSGKStv~~~l~~~G   27 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFADLG   27 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHTT
T ss_pred             EEEEEECCCcCCHHHHHHHHHHCC
Confidence            458899999999999999875443

>d1jjva_ c.37.1.1 (A:) Dephospho-CoA kinase {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Dephospho-CoA kinase
species: Haemophilus influenzae [TaxId: 727]

Probab=94.94  E-value=0.011  Score=40.94  Aligned_cols=22  Identities=27%  Similarity=0.425  Sum_probs=19.0

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhh
Q 028315           14 FKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +-|++.|..||||||+.+.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            5689999999999999987743

>d1kkma_ c.91.1.2 (A:) HPr kinase HprK C-terminal domain {Lactobacillus casei [TaxId: 1582]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Lactobacillus casei [TaxId: 1582]

Probab=94.90  E-value=0.01  Score=40.11  Aligned_cols=24  Identities=46%  Similarity=0.726  Sum_probs=20.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      =|+|.|++|+||||+.-.+....+
T Consensus        16 gvl~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          16 GVLITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHTTC
T ss_pred             EEEEEeCCCCCHHHHHHHHHHcCC
Confidence            479999999999999999876654

>d1n0wa_ c.37.1.11 (A:) DNA repair protein Rad51, catalytic domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.88  E-value=0.0082  Score=41.35  Aligned_cols=22  Identities=23%  Similarity=0.339  Sum_probs=18.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +.|.|+||+|||+|...+....
T Consensus        26 ~~i~G~~GsGKT~l~l~la~~~   47 (242)
T d1n0wa_          26 TEMFGEFRTGKTQICHTLAVTC   47 (242)
T ss_dssp             EEEECCTTSSHHHHHHHHHHHT
T ss_pred             EEEEeCCCCCHHHHHHHHHHHH
Confidence            5789999999999999886544

>d1knxa2 c.91.1.2 (A:133-309) HPr kinase HprK C-terminal domain {Mycoplasma pneumoniae [TaxId: 2104]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Mycoplasma pneumoniae [TaxId: 2104]

Probab=94.70  E-value=0.012  Score=39.86  Aligned_cols=25  Identities=44%  Similarity=0.676  Sum_probs=20.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .=|+|.|++|+||||+.-.+....+
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTTTC
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHcCC
Confidence            3479999999999999999876544

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.64  E-value=0.009  Score=42.07  Aligned_cols=23  Identities=26%  Similarity=0.304  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      -+.|.|+||+|||+|...+....
T Consensus        36 ~~li~G~pGsGKT~l~lq~~~~~   58 (251)
T d1szpa2          36 ITELFGEFRTGKSQLCHTLAVTC   58 (251)
T ss_dssp             EEEEEESTTSSHHHHHHHHTTTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHh
Confidence            36889999999999999886543

>d1r6bx3 c.37.1.20 (X:437-751) ClpA, an Hsp100 chaperone, AAA+ modules {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpA, an Hsp100 chaperone, AAA+ modules
species: Escherichia coli [TaxId: 562]

Probab=94.63  E-value=0.01  Score=44.16  Aligned_cols=22  Identities=32%  Similarity=0.622  Sum_probs=19.4

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|++|+|||.|...+...
T Consensus        54 ~~lf~Gp~GvGKT~lak~la~~   75 (315)
T d1r6bx3          54 SFLFAGPTGVGKTEVTVQLSKA   75 (315)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCcchhHHHHHHHHhh
Confidence            6899999999999999998543

>d2a5yb3 c.37.1.20 (B:109-385) CED-4, NB-ARC domain {Caenorhabditis elegans [TaxId: 6239]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CED-4, NB-ARC domain
species: Caenorhabditis elegans [TaxId: 6239]

Probab=94.62  E-value=0.01  Score=43.26  Aligned_cols=24  Identities=42%  Similarity=0.584  Sum_probs=20.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      .-|+|.|..|+|||||+..+.+..
T Consensus        45 ~~v~I~GmgGiGKTtLA~~v~~~~   68 (277)
T d2a5yb3          45 FFLFLHGRAGSGKSVIASQALSKS   68 (277)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHHC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHhh
Confidence            357899999999999999986643

>d1nn5a_ c.37.1.1 (A:) Thymidylate kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.61  E-value=0.01  Score=41.28  Aligned_cols=20  Identities=35%  Similarity=0.419  Sum_probs=16.7

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+|-|..||||||+++.|..
T Consensus         6 I~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           6 IVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHH
Confidence            67779999999998887643

>d1svma_ c.37.1.20 (A:) Papillomavirus large T antigen helicase domain {Simian virus 40 [TaxId: 10633]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Papillomavirus large T antigen helicase domain
species: Simian virus 40 [TaxId: 10633]

Probab=94.60  E-value=0.011  Score=44.87  Aligned_cols=21  Identities=24%  Similarity=0.390  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+++.|+||+|||+|...+..
T Consensus       156 ~~~~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         156 YWLFKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHH
Confidence            689999999999999998854

>d1pzna2 c.37.1.11 (A:96-349) DNA repair protein Rad51, catalytic domain {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=94.52  E-value=0.011  Score=41.99  Aligned_cols=24  Identities=21%  Similarity=0.274  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           15 KILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      -++|.|+||+|||+|.-.+.....
T Consensus        38 ~~li~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          38 ITEVFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHHTT
T ss_pred             EEEEEcCCCCCHHHHHHHHHHHhh
Confidence            368899999999999998865443

>d1p5zb_ c.37.1.1 (B:) Deoxycytidine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxycytidine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=94.45  E-value=0.0076  Score=42.52  Aligned_cols=22  Identities=32%  Similarity=0.356  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .|+|-|..||||||+++.|...
T Consensus         4 ~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           4 KISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             EEEEECSTTSSHHHHHTTTGGG
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999988553

>d1ko7a2 c.91.1.2 (A:130-298) HPr kinase HprK C-terminal domain {Staphylococcus xylosus [TaxId: 1288]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: HPr kinase HprK C-terminal domain
domain: HPr kinase HprK C-terminal domain
species: Staphylococcus xylosus [TaxId: 1288]

Probab=94.35  E-value=0.016  Score=38.85  Aligned_cols=25  Identities=44%  Similarity=0.706  Sum_probs=21.2

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhCCC
Q 028315           14 FKILLIGDSGVGKSSILLSLISNSV   38 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~~~   38 (210)
                      .-|+|.|++|+||||+.-.+....+
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHTTC
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHcCC
Confidence            4589999999999999988877654

>d1w44a_ c.37.1.11 (A:) NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: NTPase P4
species: Bacteriophage phi-12 [TaxId: 161736]

Probab=94.21  E-value=0.015  Score=43.21  Aligned_cols=21  Identities=19%  Similarity=0.460  Sum_probs=17.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|+||+|||.|.+.+.+.
T Consensus       126 ~l~~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         126 VIVTGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             EEEECSSSSCHHHHHHHHHHH
T ss_pred             EEEECCCCccHHHHHHHHHHH
Confidence            445799999999999998654

>d1p6xa_ c.37.1.1 (A:) Thymidine kinase {Equine herpesvirus type 4 [TaxId: 10331]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Equine herpesvirus type 4 [TaxId: 10331]

Probab=94.05  E-value=0.022  Score=42.62  Aligned_cols=25  Identities=32%  Similarity=0.321  Sum_probs=22.1

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      ..++|.|=|.-|+||||+++.|...
T Consensus         5 ~~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           5 TIVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             ceEEEEEECCccCCHHHHHHHHHHH
Confidence            5689999999999999999988654

>d1a7ja_ c.37.1.6 (A:) Phosphoribulokinase {Rhodobacter sphaeroides [TaxId: 1063]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Phosphoribulokinase
species: Rhodobacter sphaeroides [TaxId: 1063]

Probab=94.04  E-value=0.0067  Score=44.44  Aligned_cols=19  Identities=32%  Similarity=0.497  Sum_probs=14.5

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028315           16 ILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~   34 (210)
                      |+|.|.+||||||+.++|.
T Consensus         7 IgIaG~SGSGKTTva~~l~   25 (288)
T d1a7ja_           7 ISVTGSSGAGTSTVKHTFD   25 (288)
T ss_dssp             EEEESCC---CCTHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHH
Confidence            8999999999999999863

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.97  E-value=0.017  Score=40.76  Aligned_cols=23  Identities=30%  Similarity=0.527  Sum_probs=19.3

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      --++|.|+||+|||+|..++...
T Consensus        27 sl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          27 SIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHH
Confidence            34688899999999999988655

>d1osna_ c.37.1.1 (A:) Thymidine kinase {Varicella-zoster virus [TaxId: 10335]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Varicella-zoster virus [TaxId: 10335]

Probab=93.87  E-value=0.018  Score=43.02  Aligned_cols=26  Identities=23%  Similarity=0.376  Sum_probs=22.7

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhCC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      ..++|.|=|.-|+||||+++.|....
T Consensus         4 ~~lrI~IEG~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_           4 GVLRIYLDGAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             EEEEEEEEESSSSCTTHHHHHHHHTT
T ss_pred             cceEEEEECCCCCCHHHHHHHHHHHH
Confidence            46899999999999999999996643

>d1p9ra_ c.37.1.11 (A:) Extracellular secretion NTPase EpsE {Vibrio cholerae [TaxId: 666]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Extracellular secretion NTPase EpsE
species: Vibrio cholerae [TaxId: 666]

Probab=93.84  E-value=0.012  Score=45.26  Aligned_cols=22  Identities=36%  Similarity=0.570  Sum_probs=19.6

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      |+|.|++|+||||.+..++...
T Consensus       161 iLvtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         161 ILVTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EEEECSTTSCHHHHHHHHHHHH
T ss_pred             EEEEcCCCCCccHHHHHHhhhh
Confidence            7899999999999999987643

>d1e2ka_ c.37.1.1 (A:) Thymidine kinase {Herpes simplex virus type 1, different strains [TaxId: 10298]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidine kinase
species: Herpes simplex virus type 1, different strains [TaxId: 10298]

Probab=93.82  E-value=0.022  Score=42.50  Aligned_cols=24  Identities=21%  Similarity=0.447  Sum_probs=21.0

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhh
Q 028315           12 YSFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .-++|.|=|.-|+||||+++.|..
T Consensus         3 ~~lrI~IEG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_           3 TLLRVYIDGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             EEEEEEECSCTTSSHHHHHHHHTC
T ss_pred             CceEEEEECCcCCCHHHHHHHHHH
Confidence            457899999999999999998853

>d1a5ta2 c.37.1.20 (A:1-207) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.80  E-value=0.02  Score=39.66  Aligned_cols=21  Identities=19%  Similarity=0.458  Sum_probs=18.5

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +++.|++|+|||++++.+...
T Consensus        27 lLl~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          27 LLIQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHh
Confidence            799999999999999987653

>d2ocpa1 c.37.1.1 (A:37-277) Deoxyguanosine kinase {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxyguanosine kinase
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.75  E-value=0.018  Score=40.56  Aligned_cols=22  Identities=27%  Similarity=0.463  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|+|=|..||||||+++.|...
T Consensus         4 ~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           4 RLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCcHHHHHHHHHHH
Confidence            4789999999999999998653

>d1njfa_ c.37.1.20 (A:) delta prime subunit of DNA polymerase III, N-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: delta prime subunit of DNA polymerase III, N-domain
species: Escherichia coli [TaxId: 562]

Probab=93.72  E-value=0.02  Score=40.51  Aligned_cols=21  Identities=43%  Similarity=0.553  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      .+++.|++|+|||++++.+..
T Consensus        36 ~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          36 AYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHHHH
Confidence            368899999999999998754

>d1l8qa2 c.37.1.20 (A:77-289) Chromosomal replication initiation factor DnaA {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Chromosomal replication initiation factor DnaA
species: Aquifex aeolicus [TaxId: 63363]

Probab=93.71  E-value=0.02  Score=39.88  Aligned_cols=22  Identities=27%  Similarity=0.537  Sum_probs=19.1

Q ss_pred             EEEEcCCCCcHHHHHHHHhhCC
Q 028315           16 ILLIGDSGVGKSSILLSLISNS   37 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~~   37 (210)
                      +.+.|++|+|||.|++.+....
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHHh
Confidence            6899999999999999986653

>d2i1qa2 c.37.1.11 (A:65-322) DNA repair protein Rad51, catalytic domain {Archaeon Methanococcus voltae [TaxId: 2188]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Archaeon Methanococcus voltae [TaxId: 2188]

Probab=93.64  E-value=0.02  Score=40.16  Aligned_cols=22  Identities=27%  Similarity=0.286  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++|.|++|+|||+|...+...
T Consensus        36 l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          36 VTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            4688899999999999998643

>d1qhla_ c.37.1.12 (A:) Cell division protein MukB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cell division protein MukB
species: Escherichia coli [TaxId: 562]

Probab=93.56  E-value=0.004  Score=42.56  Aligned_cols=18  Identities=33%  Similarity=0.665  Sum_probs=16.0

Q ss_pred             EEEcCCCCcHHHHHHHHh
Q 028315           17 LLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        17 ~i~G~~~~GKSsli~~l~   34 (210)
                      +|+|+.|+|||||+..+.
T Consensus        28 vi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          28 TLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHSCCSHHHHHHHHHHH
T ss_pred             EEECCCCCCHHHHHHHHH
Confidence            467999999999999974

>d1v5wa_ c.37.1.11 (A:) Meiotic recombination protein DMC1/LIM15 homolog {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Meiotic recombination protein DMC1/LIM15 homolog
species: Human (Homo sapiens) [TaxId: 9606]

Probab=93.41  E-value=0.024  Score=40.01  Aligned_cols=22  Identities=18%  Similarity=0.214  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -++|.|+||+|||+|...+...
T Consensus        39 ~~~i~G~~GsGKT~lalq~~~~   60 (258)
T d1v5wa_          39 ITEAFGEFRTGKTQLSHTLCVT   60 (258)
T ss_dssp             EEEEECCTTCTHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4688999999999999998754

>d1tuea_ c.37.1.20 (A:) Replication protein E1 helicase domain {Human papillomavirus type 18 [TaxId: 333761]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication protein E1 helicase domain
species: Human papillomavirus type 18 [TaxId: 333761]

Probab=93.11  E-value=0.025  Score=38.97  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=20.4

Q ss_pred             eEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           12 YSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        12 ~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +.=.+++.|++++|||.|+..+..-
T Consensus        52 Kkn~i~~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          52 KKNCLVFCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             TCSEEEEESCGGGCHHHHHHHHHHH
T ss_pred             CceEEEEECCCCccHHHHHHHHHHH
Confidence            3456799999999999999887543

>d1tmka_ c.37.1.1 (A:) Thymidylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Thymidylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=93.10  E-value=0.027  Score=39.18  Aligned_cols=20  Identities=30%  Similarity=0.305  Sum_probs=17.8

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      |+|-|..||||||+++.|..
T Consensus         6 I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           6 ILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EEEEESTTSSHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHH
Confidence            78999999999999998854

>d1cr2a_ c.37.1.11 (A:) Gene 4 protein (g4p, DNA primase), helicase domain {Bacteriophage T7 [TaxId: 10760]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Gene 4 protein (g4p, DNA primase), helicase domain
species: Bacteriophage T7 [TaxId: 10760]

Probab=93.06  E-value=0.029  Score=40.44  Aligned_cols=20  Identities=30%  Similarity=0.479  Sum_probs=17.2

Q ss_pred             EEEEcCCCCcHHHHHHHHhh
Q 028315           16 ILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~   35 (210)
                      ++|.|.||+|||+|+..+..
T Consensus        38 ~vi~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          38 IMVTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHHH
Confidence            57899999999999888754

>d1tf7a1 c.37.1.11 (A:14-255) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=92.89  E-value=0.031  Score=38.84  Aligned_cols=20  Identities=30%  Similarity=0.581  Sum_probs=16.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHh
Q 028315           15 KILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~   34 (210)
                      -+.|.|++|+|||+|...+.
T Consensus        28 ~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          28 STLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             EEEEEESTTSSHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHH
Confidence            45788999999999987764

>d1deka_ c.37.1.1 (A:) Deoxynucleoside monophosphate kinase {Bacteriophage T4 [TaxId: 10665]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Deoxynucleoside monophosphate kinase
species: Bacteriophage T4 [TaxId: 10665]

Probab=92.77  E-value=0.033  Score=39.22  Aligned_cols=21  Identities=29%  Similarity=0.297  Sum_probs=18.5

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|++.|..||||||..+.|..
T Consensus         3 iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           3 LIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            489999999999999998854

>d1e69a_ c.37.1.12 (A:) Smc head domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Thermotoga maritima [TaxId: 2336]

Probab=92.56  E-value=0.021  Score=41.78  Aligned_cols=20  Identities=30%  Similarity=0.581  Sum_probs=16.7

Q ss_pred             EEEEEEcCCCCcHHHHHHHHh
Q 028315           14 FKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~   34 (210)
                      ++ +++|+.|+|||+++.++.
T Consensus        26 ln-vlvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          26 VT-AIVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EE-EEECCTTTCSTHHHHHHH
T ss_pred             eE-EEECCCCCcHHHHHHHHH
Confidence            44 567999999999999873

>d1w1wa_ c.37.1.12 (A:) Smc head domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Smc head domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=92.42  E-value=0.034  Score=42.37  Aligned_cols=21  Identities=33%  Similarity=0.662  Sum_probs=17.4

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHh
Q 028315           13 SFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      .+++ |+|+.|+|||+++..+.
T Consensus        26 ~l~~-i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          26 NFTS-IIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             SEEE-EECSTTSSHHHHHHHHH
T ss_pred             CEEE-EECCCCCCHHHHHHHHH
Confidence            4655 67999999999999974

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=92.38  E-value=0.026  Score=41.07  Aligned_cols=18  Identities=28%  Similarity=0.529  Sum_probs=14.2

Q ss_pred             EEEEcCCCCcHHH-HHHHH
Q 028315           16 ILLIGDSGVGKSS-ILLSL   33 (210)
Q Consensus        16 i~i~G~~~~GKSs-li~~l   33 (210)
                      ++|+|.||+|||+ |++++
T Consensus        17 ~lI~g~aGTGKTt~l~~rv   35 (306)
T d1uaaa1          17 CLVLAGAGSGKTRVITNKI   35 (306)
T ss_dssp             EEECCCTTSCHHHHHHHHH
T ss_pred             EEEEeeCCccHHHHHHHHH
Confidence            5788999999997 45543

>d1pjra1 c.37.1.19 (A:1-318) DEXX box DNA helicase {Bacillus stearothermophilus, PcrA [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Bacillus stearothermophilus, PcrA [TaxId: 1422]

Probab=92.30  E-value=0.031  Score=41.00  Aligned_cols=18  Identities=22%  Similarity=0.606  Sum_probs=14.5

Q ss_pred             EEEEcCCCCcHHH-HHHHH
Q 028315           16 ILLIGDSGVGKSS-ILLSL   33 (210)
Q Consensus        16 i~i~G~~~~GKSs-li~~l   33 (210)
                      ++|.|.+|+|||| |++++
T Consensus        27 ~lV~g~aGSGKTt~l~~ri   45 (318)
T d1pjra1          27 LLIMAGAGSGKTRVLTHRI   45 (318)
T ss_dssp             EEEEECTTSCHHHHHHHHH
T ss_pred             EEEEecCCccHHHHHHHHH
Confidence            6889999999997 55543

>d1e9ra_ c.37.1.11 (A:) Bacterial conjugative coupling protein TrwB {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Bacterial conjugative coupling protein TrwB
species: Escherichia coli [TaxId: 562]

Probab=92.13  E-value=0.037  Score=42.55  Aligned_cols=21  Identities=38%  Similarity=0.602  Sum_probs=18.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      +++|+|.+|+|||+++..+..
T Consensus        52 H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          52 HLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             CEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEeCCCCcHHHHHHHHHH
Confidence            579999999999999877653

>d1nlfa_ c.37.1.11 (A:) Hexameric replicative helicase repA {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Hexameric replicative helicase repA
species: Escherichia coli [TaxId: 562]

Probab=91.80  E-value=0.05  Score=38.93  Aligned_cols=19  Identities=37%  Similarity=0.489  Sum_probs=16.4

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028315           16 ILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~   34 (210)
                      .+|.|++|+|||+|+-.+.
T Consensus        32 ~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          32 GALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             EEEEESTTSSHHHHHHHHH
T ss_pred             EEEEeCCCCCHHHHHHHHH
Confidence            4689999999999998764

>d1qvra3 c.37.1.20 (A:536-850) ClpB, AAA+ modules {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: ClpB, AAA+ modules
species: Thermus thermophilus [TaxId: 274]

Probab=91.69  E-value=0.049  Score=40.31  Aligned_cols=22  Identities=32%  Similarity=0.676  Sum_probs=18.7

Q ss_pred             EEEEEcCCCCcHHHHHHHHhhC
Q 028315           15 KILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      .++++|++|+|||.+.+.+...
T Consensus        55 ~~lf~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          55 SFLFLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EEEEBSCSSSSHHHHHHHHHHH
T ss_pred             EEEEECCCcchHHHHHHHHHHH
Confidence            5788999999999999987543

>d1xpua3 c.37.1.11 (A:129-417) Transcription termination factor Rho, ATPase domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Transcription termination factor Rho, ATPase domain
species: Escherichia coli [TaxId: 562]

Probab=91.20  E-value=0.073  Score=38.72  Aligned_cols=23  Identities=17%  Similarity=0.346  Sum_probs=19.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|++|+|++|+|||+|+..+...
T Consensus        44 Qr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          44 QRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CeeeEeCCCCCCHHHHHHHHHHH
Confidence            48899999999999999887653

>d1w36d1 c.37.1.19 (D:2-360) Exodeoxyribonuclease V alpha chain (RecD) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: Exodeoxyribonuclease V alpha chain (RecD)
species: Escherichia coli [TaxId: 562]

Probab=91.03  E-value=0.068  Score=40.27  Aligned_cols=18  Identities=28%  Similarity=0.586  Sum_probs=15.0

Q ss_pred             EEEEcCCCCcHHHHHHHH
Q 028315           16 ILLIGDSGVGKSSILLSL   33 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l   33 (210)
                      ++|.|+||+|||+++..+
T Consensus       166 ~vI~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         166 SVISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EEEECCTTSTHHHHHHHH
T ss_pred             EEEEcCCCCCceehHHHH
Confidence            678899999999987553

>d1u0ja_ c.37.1.20 (A:) Rep 40 protein helicase domain {Adeno-associated virus 2, AAV2 [TaxId: 10804]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Rep 40 protein helicase domain
species: Adeno-associated virus 2, AAV2 [TaxId: 10804]

Probab=90.66  E-value=0.081  Score=38.07  Aligned_cols=26  Identities=23%  Similarity=0.317  Sum_probs=21.1

Q ss_pred             ceEEEEEEEcCCCCcHHHHHHHHhhC
Q 028315           11 DYSFKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        11 ~~~~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +..-.+.+.|++++|||+|++.+..-
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~  127 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHT  127 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHH
Confidence            34456789999999999999988553

>d1g3qa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

Probab=90.54  E-value=1  Score=30.72  Aligned_cols=73  Identities=14%  Similarity=0.125  Sum_probs=46.2

Q ss_pred             EEEEEEeCCCCcccccchhhhhccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcEE-EEEeCCCCCCCCccCH
Q 028315           61 LKLTIWDTAGQERFGTLTSSYYRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVKI-LVGNKVDRDSERAVTR  139 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~i-vv~nK~Dl~~~~~~~~  139 (210)
                      +.+.++|+|+...  ......+..+|.++++.... ..++.... .....+.    ..+.|++ +|+|+.+... ..+..
T Consensus       112 ~d~IiiD~~~~~~--~~~~~~l~~aD~viiv~~~~-~~s~~~~~-~~~~~~~----~~~~~~~giv~N~~~~~~-~~~~~  182 (237)
T d1g3qa_         112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTM-KVGIVLK----KAGLAILGFVLNRYGRSD-RDIPP  182 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHH-HHHHHHH----HTTCEEEEEEEEEETSCT-TCCCH
T ss_pred             CCEEEEccccccc--ccchhhhhhhhccccccccc-ceecchhh-HHHHHHh----hhhhhhhhhhhccccccc-chhhh
Confidence            5788999997643  33444567899999999865 44555555 3444443    2456665 8899998643 33444


Q ss_pred             HHH
Q 028315          140 EEG  142 (210)
Q Consensus       140 ~~~  142 (210)
                      +..
T Consensus       183 ~~~  185 (237)
T d1g3qa_         183 EAA  185 (237)
T ss_dssp             HHH
T ss_pred             HHH
Confidence            333

>d1g8fa3 c.37.1.15 (A:390-511) ATP sulfurylase C-terminal domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ATP sulfurylase C-terminal domain
domain: ATP sulfurylase C-terminal domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=89.96  E-value=0.13  Score=32.14  Aligned_cols=22  Identities=23%  Similarity=0.437  Sum_probs=19.8

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHh
Q 028315           13 SFKILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~   34 (210)
                      -+.|.+.|..|+|||+|.+.|.
T Consensus         6 gf~i~~tg~~~~gk~~ia~al~   27 (122)
T d1g8fa3           6 GFSIVLGNSLTVSREQLSIALL   27 (122)
T ss_dssp             CEEEEECTTCCSCHHHHHHHHH
T ss_pred             ceEEEEeCCCCCCHHHHHHHHH
Confidence            4789999999999999999884

>d1ny5a2 c.37.1.20 (A:138-384) Transcriptional activator sigm54 (NtrC1), C-terminal domain {Aquifex aeolicus [TaxId: 63363]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Transcriptional activator sigm54 (NtrC1), C-terminal domain
species: Aquifex aeolicus [TaxId: 63363]

Probab=88.90  E-value=0.2  Score=35.44  Aligned_cols=21  Identities=33%  Similarity=0.596  Sum_probs=18.0

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      -|+|.|++|+||+.+.+.+-.
T Consensus        25 pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          25 PVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             CEEEECSTTSSHHHHHHHHHH
T ss_pred             CEEEECCCCcCHHHHHHHHHH
Confidence            378999999999999988744

>d1xx6a1 c.37.1.24 (A:2-142) Thymidine kinase, TK1, N-terminal domain {Clostridium acetobutylicum [TaxId: 1488]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Type II thymidine kinase
domain: Thymidine kinase, TK1, N-terminal domain
species: Clostridium acetobutylicum [TaxId: 1488]

Probab=88.86  E-value=0.21  Score=32.13  Aligned_cols=20  Identities=20%  Similarity=0.413  Sum_probs=14.9

Q ss_pred             EEEEEEEcCCCCcHHH-HHHHH
Q 028315           13 SFKILLIGDSGVGKSS-ILLSL   33 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSs-li~~l   33 (210)
                      .+.+ ++|+=.||||| |++++
T Consensus         8 ~l~l-I~GpMfSGKTteLi~~~   28 (141)
T d1xx6a1           8 WVEV-IVGPMYSGKSEELIRRI   28 (141)
T ss_dssp             EEEE-EECSTTSSHHHHHHHHH
T ss_pred             eEEE-EEeccccHHHHHHHHHH
Confidence            3444 47999999999 66655

>d2jdid3 c.37.1.11 (D:82-357) Central domain of beta subunit of F1 ATP synthase {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of beta subunit of F1 ATP synthase
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=87.84  E-value=0.2  Score=36.14  Aligned_cols=23  Identities=48%  Similarity=0.754  Sum_probs=19.8

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|++++|.+|+|||+|+..+..+
T Consensus        69 Qr~~If~~~g~GKt~l~~~i~~~   91 (276)
T d2jdid3          69 GKIGLFGGAGVGKTVLIMELINN   91 (276)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CEEEeeCCCCCCHHHHHHHHHHH
Confidence            37899999999999998888644

>d1u94a1 c.37.1.11 (A:6-268) RecA protein, ATPase-domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Escherichia coli [TaxId: 562]

Probab=86.41  E-value=0.23  Score=35.50  Aligned_cols=21  Identities=24%  Similarity=0.525  Sum_probs=17.3

Q ss_pred             EEEEcCCCCcHHHHHHHHhhC
Q 028315           16 ILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~~~   36 (210)
                      +.|.|++++|||+|.-.+...
T Consensus        57 tei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          57 VEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             EEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEecCCCcHHHHHHHHHHHH
Confidence            568899999999998877543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=86.40  E-value=4  Score=28.73  Aligned_cols=114  Identities=16%  Similarity=0.169  Sum_probs=60.3

Q ss_pred             EEEEEEeCCCCcccccchhhh-hccccEEEEEEeCCCHhhHHHHHHHHHHHHhhhccCCCCcE-EEEEeCCCCCCCCccC
Q 028315           61 LKLTIWDTAGQERFGTLTSSY-YRGAHGIILVYDVTRRETFTNLSSVWAKEVELYSTNQDCVK-ILVGNKVDRDSERAVT  138 (210)
Q Consensus        61 ~~~~l~Dt~G~~~~~~~~~~~-~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~p~-ivv~nK~Dl~~~~~~~  138 (210)
                      +.+.++|+|+........... ...+|.++++.. .+..++..+. .....+.......+.++ -+|.|+.+....    
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~-~~~~s~~~~~-~~~~~i~~~~~~~~~~~~gvv~n~~~~~~~----  192 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCS-GEMMAMYAAN-NISKGIVKYANSGSVRLGGLICNSRNTDRE----  192 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEEC-SSHHHHHHHH-HHHHHHHHHHTTSCCEEEEEEEECCCCTTH----
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccc-hhHHHHHHHH-HHHHHHHhhhhcccccccceeehhhcchhh----
Confidence            577889998764333222222 235677766655 4455555555 34444444333445554 378898764322    


Q ss_pred             HHHHHHHHHHcCCeEEEec---------cc---------CCcCHHHHHHHHHHHHHccch
Q 028315          139 REEGMILAQEHKCLFLECS---------AK---------NTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       139 ~~~~~~~~~~~~~~~~~~s---------a~---------~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      .+....+.+.++.+++.+=         ..         .+....+-|..|.+.+.++..
T Consensus       193 ~~~~~~~~~~~g~~vl~~IP~~~~v~eA~~~g~pv~~~~p~S~~a~~y~~LA~ei~e~~~  252 (289)
T d2afhe1         193 DELIIALANKLGTQMIHFVPRDNVVQRAEIRRMTVIEYDPKAKQADEYRALARKVVDNKL  252 (289)
T ss_dssp             HHHHHHHHHHHTSCEEEEECCCHHHHHHHHTTSCHHHHCTTSHHHHHHHHHHHHHHHCCC
T ss_pred             HHHHHHHHHHcCCeEEEEEeccHHHHHHHHcCCceEEECcCCHHHHHHHHHHHHHHcCCC
Confidence            2334556666676654321         11         122333457777777776554

>d1wb9a2 c.37.1.12 (A:567-800) DNA repair protein MutS, the C-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=86.38  E-value=0.48  Score=33.12  Aligned_cols=19  Identities=21%  Similarity=0.340  Sum_probs=16.9

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028315           16 ILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~   34 (210)
                      +++.|+..+|||++++.+.
T Consensus        44 ~iiTGpN~~GKSt~lk~i~   62 (234)
T d1wb9a2          44 LIITGPNMGGKSTYMRQTA   62 (234)
T ss_dssp             EEEECCTTSSHHHHHHHHH
T ss_pred             EEEeccCchhhHHHHHHHH
Confidence            5899999999999999863

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=85.12  E-value=2.5  Score=27.63  Aligned_cols=59  Identities=17%  Similarity=0.203  Sum_probs=41.9

Q ss_pred             CCCHhhHHHHHHHHHHHHhhhccCCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccC
Q 028315           94 VTRRETFTNLSSVWAKEVELYSTNQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKN  160 (210)
Q Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~  160 (210)
                      .+|+.+.+...+.....+.    ..+.|+|+++.......    ..++...|++..+++++.+..-.
T Consensus         2 ~sd~~~l~~~v~~~~~~l~----~AkrPvIi~G~g~~~~~----a~~~l~~lae~~~~Pv~tt~~gk   60 (175)
T d1zpda1           2 ASDEASLNAAVDETLKFIA----NRDKVAVLVGSKLRAAG----AEEAAVKFTDALGGAVATMAAAK   60 (175)
T ss_dssp             CCCHHHHHHHHHHHHHHHT----TCSCEEEEECTTTTTTT----CHHHHHHHHHHHCCCEEEEGGGT
T ss_pred             CCChHHHHHHHHHHHHHHH----cCCCEEEEECcCccccc----hHHHHHHHHHhhceeEEeccccc
Confidence            3566666666655555554    68899999998886532    45678899999999987665443

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=85.00  E-value=0.19  Score=36.75  Aligned_cols=14  Identities=36%  Similarity=0.707  Sum_probs=12.8

Q ss_pred             EEEcCCCCcHHHHH
Q 028315           17 LLIGDSGVGKSSIL   30 (210)
Q Consensus        17 ~i~G~~~~GKSsli   30 (210)
                      +|.|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (313)
T d2olra1          18 VFFGLSGTGKTTLS   31 (313)
T ss_dssp             EEECSTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            68999999999976

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=84.43  E-value=0.21  Score=36.67  Aligned_cols=16  Identities=31%  Similarity=0.576  Sum_probs=13.6

Q ss_pred             EEEEcCCCCcHHHHHH
Q 028315           16 ILLIGDSGVGKSSILL   31 (210)
Q Consensus        16 i~i~G~~~~GKSsli~   31 (210)
                      -+|.|.+|+|||||-.
T Consensus        17 alffGLSGTGKTTLs~   32 (318)
T d1j3ba1          17 AVFFGLSGTGKTTLST   32 (318)
T ss_dssp             EEEEECTTSCHHHHTC
T ss_pred             EEEEccCCCCcccccc
Confidence            3889999999999653

>d1a1va1 c.37.1.14 (A:190-325) HCV helicase domain {Human hepatitis C virus (HCV), different isolates [TaxId: 11103]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RNA helicase
domain: HCV helicase domain
species: Human hepatitis C virus (HCV), different isolates [TaxId: 11103]

Probab=83.99  E-value=0.24  Score=31.14  Aligned_cols=21  Identities=24%  Similarity=0.248  Sum_probs=16.1

Q ss_pred             EEEEEcCCCCcHHHHHHHHhh
Q 028315           15 KILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ..++.+++|+|||.++-.+..
T Consensus        10 ~~ll~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          10 VAHLHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EEEEECCTTSCTTTHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHH
Confidence            346789999999998765543

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=83.51  E-value=0.25  Score=36.31  Aligned_cols=14  Identities=36%  Similarity=0.707  Sum_probs=12.9

Q ss_pred             EEEcCCCCcHHHHH
Q 028315           17 LLIGDSGVGKSSIL   30 (210)
Q Consensus        17 ~i~G~~~~GKSsli   30 (210)
                      +|.|.+|+|||||-
T Consensus        18 lfFGLSGTGKTTLs   31 (323)
T d1ii2a1          18 VFFGLSGTGKTTLS   31 (323)
T ss_dssp             EEECCTTSSHHHHH
T ss_pred             EEEccCCCCcccce
Confidence            68999999999987

>d1ewqa2 c.37.1.12 (A:542-765) DNA repair protein MutS, the C-terminal domain {Thermus aquaticus [TaxId: 271]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: DNA repair protein MutS, the C-terminal domain
species: Thermus aquaticus [TaxId: 271]

Probab=82.73  E-value=0.41  Score=33.24  Aligned_cols=19  Identities=32%  Similarity=0.476  Sum_probs=17.1

Q ss_pred             EEEEcCCCCcHHHHHHHHh
Q 028315           16 ILLIGDSGVGKSSILLSLI   34 (210)
Q Consensus        16 i~i~G~~~~GKSsli~~l~   34 (210)
                      +++.|+..+|||++++.+.
T Consensus        38 ~iiTGpN~~GKSt~lk~i~   56 (224)
T d1ewqa2          38 VLITGPNMAGKSTFLRQTA   56 (224)
T ss_dssp             EEEESCSSSSHHHHHHHHH
T ss_pred             EEEECCCccccchhhhhhH
Confidence            6899999999999999863

>d7mdha1 c.2.1.5 (A:23-197) Malate dehydrogenase {Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]}

class: Alpha and beta proteins (a/b)
fold: NAD(P)-binding Rossmann-fold domains
superfamily: NAD(P)-binding Rossmann-fold domains
family: LDH N-terminal domain-like
domain: Malate dehydrogenase
species: Sorghum (Sorghum vulgare), chloroplast [TaxId: 4558]

Probab=82.25  E-value=2.6  Score=27.71  Aligned_cols=26  Identities=19%  Similarity=0.224  Sum_probs=18.0

Q ss_pred             ceEEEEEEEcC-CCCcHHHHHHHHhhCC
Q 028315           11 DYSFKILLIGD-SGVGKSSILLSLISNS   37 (210)
Q Consensus        11 ~~~~~i~i~G~-~~~GKSsli~~l~~~~   37 (210)
                      .+.+||.|+|. .++|-+. +..+..+.
T Consensus        22 k~~~kV~I~GA~G~Ig~~l-~~~La~g~   48 (175)
T d7mdha1          22 KKLVNIAVSGAAGMISNHL-LFKLASGE   48 (175)
T ss_dssp             CCCEEEEEETTTSHHHHHH-HHHHHHTT
T ss_pred             CCCcEEEEECCCcHHHHHH-HHHHHcCc
Confidence            36799999997 6677654 55565554

>d1eg7a_ c.37.1.10 (A:) Formyltetrahydrofolate synthetase {Moorella thermoacetica [TaxId: 1525]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Formyltetrahydrofolate synthetase
species: Moorella thermoacetica [TaxId: 1525]

Probab=81.19  E-value=1.4  Score=34.34  Aligned_cols=62  Identities=16%  Similarity=0.044  Sum_probs=43.5

Q ss_pred             CCCCcEEEEEeCCCCCCCCccCHHHHHHHHHHcCCeEEEecccCCcCHHHHHHHHHHHHHccch
Q 028315          117 NQDCVKILVGNKVDRDSERAVTREEGMILAQEHKCLFLECSAKNTEDVKQCFKDLLYKILEVPS  180 (210)
Q Consensus       117 ~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~l~~~i~~~~~~~~~  180 (210)
                      +.+.|+||.+|++.-..+.+  .+..+.++...++.+...-++-|.|-.+|-+.+++.+...+.
T Consensus       366 ~fGlpvVVAIN~F~tDTd~E--i~~i~~~~~~~g~~~a~~wa~GG~Ga~dLA~~Vv~a~e~~~~  427 (549)
T d1eg7a_         366 KFGVPAVVAINAFPTDTEAE--LNLLYELCAKAGAEVALSWAKGGEGGLELARKVLQTLESRPS  427 (549)
T ss_dssp             TTTCCEEEEEECCTTCCHHH--HHHHHHHTTTSEEEEECCTTTGGGGGHHHHHHHHHHHHHSCC
T ss_pred             hcCCCeEEEeccCCccchhH--HHHHHHHHhhcCcceeeecccCccchHHHHHHHHHHHhcccc
Confidence            57999999999997533322  234555666667665545566679999999999998865543

>d2gnoa2 c.37.1.20 (A:11-208) gamma subunit of DNA polymerase III, N-domain {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: gamma subunit of DNA polymerase III, N-domain
species: Thermotoga maritima [TaxId: 2336]

Probab=80.94  E-value=0.52  Score=31.92  Aligned_cols=23  Identities=22%  Similarity=0.235  Sum_probs=20.1

Q ss_pred             EEEEEEEcCCCCcHHHHHHHHhh
Q 028315           13 SFKILLIGDSGVGKSSILLSLIS   35 (210)
Q Consensus        13 ~~~i~i~G~~~~GKSsli~~l~~   35 (210)
                      ...+++.|++|+|||++...+..
T Consensus        15 ~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          15 GISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CceEEEECCCCCCHHHHHHHHHH
Confidence            46889999999999999988764

>d2jdia3 c.37.1.11 (A:95-379) Central domain of alpha subunit of F1 ATP synthase {Cow (Bos taurus) [TaxId: 9913]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Central domain of alpha subunit of F1 ATP synthase
species: Cow (Bos taurus) [TaxId: 9913]

Probab=80.68  E-value=0.38  Score=34.74  Aligned_cols=23  Identities=43%  Similarity=0.618  Sum_probs=18.9

Q ss_pred             EEEEEEcCCCCcHHHHHHHHhhC
Q 028315           14 FKILLIGDSGVGKSSILLSLISN   36 (210)
Q Consensus        14 ~~i~i~G~~~~GKSsli~~l~~~   36 (210)
                      -|++++|.+|+|||+|+..+...
T Consensus        69 Qr~~If~~~g~GKt~ll~~~~~~   91 (285)
T d2jdia3          69 QRELIIGDRQTGKTSIAIDTIIN   91 (285)
T ss_dssp             CBCEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEeecCCCCChHHHHHHHHHh
Confidence            47899999999999998766543

>d2afhe1 c.37.1.10 (E:1-289) Nitrogenase iron protein {Azotobacter vinelandii [TaxId: 354]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Nitrogenase iron protein
species: Azotobacter vinelandii [TaxId: 354]

Probab=80.13  E-value=0.6  Score=33.37  Aligned_cols=19  Identities=32%  Similarity=0.587  Sum_probs=15.7

Q ss_pred             EEEEEcCCCCcHHHHHHHH
Q 028315           15 KILLIGDSGVGKSSILLSL   33 (210)
Q Consensus        15 ~i~i~G~~~~GKSsli~~l   33 (210)
                      +|++-|..|+||||+.-.+
T Consensus         4 ~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           4 QCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEECTTSSHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHH
Confidence            4677899999999977665