Citrus Sinensis ID: 025391

---

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-------220-------230-------240-------250---
Protein Sequence
MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSSKRQQLGSNSNWQRSKLLD
Secondary Structure (PSIPRED)
cccccccccccccccccccEEEEEEccccccHHHHHHHHHccccccccccccccccEEEEEEEEEEccEEEEEEEcccccccccccHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHcHHHHccEEEEEEcccccccccccHHHHHcccccHHHHHHHHHHccEEEEEEccccccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHccccHHHHHHHcc
Secondary Structure Prediction (SSPRO)
cccccccccHHccccccccEEEEEEEccccccccccccHccccHEHccccccccHHHHHHcccccccccEEEEEEcccccccccccHHHHHHHHHHHHHcccccEEEEEEEEccccccHHHHHHHHHHHHHHcHHHHcEEEEEEEccHHHHcccccHHHHHHccccHHHHHHHHHHcccEEEEcccccccHHHHHHHHHHHHHHHHHHHHHHHHHccccccHHHHHHHHHHHHHHHHHHHHHccHHHHHHHcc
Coil and Loop (DISEMBL)
mggsaidddweltspsngerTVVLVGrtgngksatgnsilgrrafksrasssgvtstCEMQRTvlkdgqvvnvidtpglfdfsagsefvGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTggdeledndeTLEDylgrecpkplkkgatklrDQQFEvdslkgysKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSSKRqqlgsnsnwqrsklld
Flexible Loop (DISEMBL)
mggsaidddweltspsngertvvlvgrtgngksatgnsilgrrafksrasssgvtstcemqrtvlkdgqvvNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRecpkplkkgatklrdqqfevdslkgyskreISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSskrqqlgsnsnwqrsklld
Low Complexity Region (SEG)
MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLvvfsvrsrfsQEEEAALHSLQTLFGKKIFDYMIVVFtggdeledndetledYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSSKRQQLGSNSNWQRSKLLD
Disordered region (IsUnstruct)
*********************************************************CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL**********************************************************LKRITEMCAGTCNDILNCETWRLS*********************
Disordered Region (DISOPRED)
*********************VVLVGRTGNGKSATGNSILGRRAFKS***********EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDIL**********************QRSKLLD
Disordered Region (DISEMBL)
MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAF*************EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLS*******************
Disordered Region (DISPRO)
*****************GERTVVLVGRTGNGKSAT****L*RRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSSKRQQLGSNSNWQRSKLLD
Transmembrane Helix (TMHMM)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Signal Peptide (SignalP NN Mode)
xxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxxx
Coiled Coils (COILS)
MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCNDILNCETWRLSLSSKRQQLGSNSNWQRSKLLD
Positional Conservation
no confident homologs detected

---

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	253	2.2.26 [Sep-21-2011]
P54120	353	Protein AIG1 OS=Arabidops	no	no	0.644	0.461	0.597	6e-52
O81025	463	Putative protein PHLOEM P	no	no	0.600	0.328	0.539	2e-45
Q9NUV9	329	GTPase IMAP family member	yes	no	0.596	0.458	0.410	3e-28
Q8K3K9	310	GTPase IMAP family member	no	no	0.604	0.493	0.379	1e-22
Q8K349	305	GTPase IMAP family member	no	no	0.529	0.439	0.435	8e-22
Q99JY3	219	GTPase IMAP family member	no	no	0.557	0.643	0.383	3e-21
Q8NHV1	300	GTPase IMAP family member	no	no	0.541	0.456	0.368	2e-20
Q5FVN6	304	GTPase IMAP family member	no	no	0.529	0.440	0.421	3e-20
Q75N62	688	GTPase IMAP family member	no	no	0.573	0.210	0.389	3e-19
Q96F15	307	GTPase IMAP family member	no	no	0.588	0.485	0.333	7e-19

>sp|P54120|AIG1_ARATH Protein AIG1 OS=Arabidopsis thaliana GN=AIG1 PE=2 SV=1

 Score =  204 bits (518), Expect = 6e-52,   Method: Compositional matrix adjust.
 Identities = 98/164 (59%), Positives = 120/164 (73%), Gaps = 1/164 (0%)

Query: 8   DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 67
           D++  + P   E  +VLVGRTGNGKSATGNSI+  + FKS+  SSGVT  C   + V  +
Sbjct: 32  DEFSASQPHPVE-NIVLVGRTGNGKSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPE 90

Query: 68  GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 127
           G ++NVIDTPGLFD S  +EF+GKEIVKC+ +A  G+HAVL+V SVR+R SQEEE  L +
Sbjct: 91  GPILNVIDTPGLFDLSVSAEFIGKEIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLST 150

Query: 128 LQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
           LQ LFG KI DY+IVVFTGGD LED+  TLEDYLG   P  LK+
Sbjct: 151 LQVLFGSKIVDYLIVVFTGGDVLEDDGMTLEDYLGDNMPDFLKR 194

Arabidopsis thaliana (taxid: 3702)

>sp|O81025|P2A03_ARATH Putative protein PHLOEM PROTEIN 2-LIKE A3 OS=Arabidopsis thaliana GN=PP2A3 PE=4 SV=1

 Score =  182 bits (462), Expect = 2e-45,   Method: Compositional matrix adjust.
 Identities = 82/152 (53%), Positives = 114/152 (75%)

Query: 20  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
           + +VLVGRTGNGKS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVIDTPGL
Sbjct: 6   KNIVLVGRTGNGKSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVIDTPGL 65

Query: 80  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 139
            D     + +  EI+ C+ MA++GIHAVL+V S R R S+EEE+ +++LQ +FG +I DY
Sbjct: 66  CDSFVPGDDISNEIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQILDY 125

Query: 140 MIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
            IVVFTGGD+LE++D+TL+DY    CP+ L K
Sbjct: 126 CIVVFTGGDDLEEDDQTLDDYFRAGCPEFLTK 157

Arabidopsis thaliana (taxid: 3702)

>sp|Q9NUV9|GIMA4_HUMAN GTPase IMAP family member 4 OS=Homo sapiens GN=GIMAP4 PE=1 SV=1

 Score =  125 bits (314), Expect = 3e-28,   Method: Compositional matrix adjust.
 Identities = 64/156 (41%), Positives = 100/156 (64%), Gaps = 5/156 (3%)

Query: 15  PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 74
           P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+
Sbjct: 26  PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VV 84

Query: 75  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK 134
           DTPG+FD    +    KEI++CI +   G HA+L+V  +  R+++EE  A   +  +FG+
Sbjct: 85  DTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFGE 143

Query: 135 KIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 170
           +   +MI++FT  D+L D +  L DYL RE P+ ++
Sbjct: 144 RARSFMILIFTRKDDLGDTN--LHDYL-REAPEDIQ 176

May play a role in regulating lymphocyte apoptosis (By similarity). Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium.

Homo sapiens (taxid: 9606)

>sp|Q8K3K9|GIMA4_RAT GTPase IMAP family member 4 OS=Rattus norvegicus GN=Gimap4 PE=2 SV=1

 Score =  107 bits (266), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 60/158 (37%), Positives = 95/158 (60%), Gaps = 5/158 (3%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +VL+G+TG GKS+TGNSILGR+AF S   +  +T  CE   ++  DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGRKAFLSGICAKSITKVCEKGVSIW-DGKELVVVDTPGIFD 91

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
                    KEI +C+ +   G HA+L+V  +   ++ EE  A   L ++F KK   +MI
Sbjct: 92  TEVPDADTQKEITRCVALTSPGPHALLLVIPLGC-YTVEEHKATRKLLSMFEKKARRFMI 150

Query: 142 VVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQ 179
           ++ T  D+LED D  + +YL    P+ L++   + R++
Sbjct: 151 LLLTRKDDLEDTD--IHEYL-ETAPEVLQELIYEFRNR 185

May play a role in regulating lymphocyte apoptosis. Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium.

Rattus norvegicus (taxid: 10116)

>sp|Q8K349|GIMA6_MOUSE GTPase IMAP family member 6 OS=Mus musculus GN=Gimap6 PE=2 SV=1

 Score =  103 bits (258), Expect = 8e-22,   Method: Compositional matrix adjust.
 Identities = 61/140 (43%), Positives = 91/140 (65%), Gaps = 6/140 (4%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++LVG+TG+GKSATGNSILGR+AF+S+ S+  VT+T + + T   +G+ + VIDTP +F 
Sbjct: 106 LLLVGKTGSGKSATGNSILGRQAFESKISARPVTTTFQ-KGTREFEGKELEVIDTPDIFS 164

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
                E   K+I  C  +A  G HAVL+V  V  R++ E++A    LQ +FG  I  Y I
Sbjct: 165 PQNQPEATAKKI--CDLLASPGPHAVLLVIQV-GRYTAEDQAVARCLQEIFGNTILAYTI 221

Query: 142 VVFTGGDELEDNDETLEDYL 161
           +VFT  ++L +   +LE+Y+
Sbjct: 222 LVFTRKEDLAEG--SLEEYI 239

Mus musculus (taxid: 10090)

>sp|Q99JY3|GIMA4_MOUSE GTPase IMAP family member 4 OS=Mus musculus GN=Gimap4 PE=1 SV=1

 Score =  102 bits (253), Expect = 3e-21,   Method: Compositional matrix adjust.
 Identities = 56/146 (38%), Positives = 87/146 (59%), Gaps = 5/146 (3%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +VL+G+TG GKS+TGNSILG + F S   +  +T  CE +R    DG+ + V+DTPG+FD
Sbjct: 33  IVLLGKTGAGKSSTGNSILGEKVFNSGICAKSITKVCE-KRVSTWDGKELVVVDTPGIFD 91

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
                    +EI + + +   G HA+L+V  +  R++ EE  A   +  +FGK+   +MI
Sbjct: 92  TEVPDADTQREITRYVALTSPGPHALLLVVPL-GRYTVEEHKATQKILDMFGKQARRFMI 150

Query: 142 VVFTGGDELEDNDETLEDYLGRECPK 167
           ++ T  D+LED D  + +YL  + PK
Sbjct: 151 LLLTRKDDLEDTD--IHEYL-EKAPK 173

Exhibits intrisinic GTPase activity. Shows a higher affinity for GDP over GTP (about 12-fold higher), and binding shows an absolute requirement for magnesium (By similarity). May play a role in regulating lymphocyte apoptosis.

Mus musculus (taxid: 10090)

>sp|Q8NHV1|GIMA7_HUMAN GTPase IMAP family member 7 OS=Homo sapiens GN=GIMAP7 PE=2 SV=1

 Score = 99.4 bits (246), Expect = 2e-20,   Method: Compositional matrix adjust.
 Identities = 52/141 (36%), Positives = 87/141 (61%), Gaps = 4/141 (2%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           +VLVG+TG+GKSAT N+ILG   F SR ++  VT  C+      + G+ + V+DTPGLFD
Sbjct: 11  IVLVGKTGSGKSATANTILGEEIFDSRIAAQAVTKNCQKASREWQ-GRDLLVVDTPGLFD 69

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
                +   KEI +CI  +  G HA+++V  +  R+++EE+  +  ++ +FGK    +M+
Sbjct: 70  TKESLDTTCKEISRCIISSCPGPHAIVLVL-LLGRYTEEEQKTVALIKAVFGKSAMKHMV 128

Query: 142 VVFTGGDELEDNDETLEDYLG 162
           ++FT  +ELE   ++  D++ 
Sbjct: 129 ILFTRKEELE--GQSFHDFIA 147

Homo sapiens (taxid: 9606)

>sp|Q5FVN6|GIMA6_RAT GTPase IMAP family member 6 OS=Rattus norvegicus GN=Gimap6 PE=2 SV=1

 Score = 99.0 bits (245), Expect = 3e-20,   Method: Compositional matrix adjust.
 Identities = 59/140 (42%), Positives = 86/140 (61%), Gaps = 6/140 (4%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++LVG+TG+GKSATGNSILGR+ F+S+ S+  VT   +     L +G+ + VIDTP +  
Sbjct: 105 LLLVGKTGSGKSATGNSILGRQVFESKISARPVTMAFQKGSREL-EGKELEVIDTPDILS 163

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
                E   K+I  C  +A  G HAVL+V  V  R++ E++ A   LQ +FG  I  Y I
Sbjct: 164 PQNQPEATAKKI--CDILASPGPHAVLLVIQV-GRYTTEDQEAARCLQEIFGNGILAYTI 220

Query: 142 VVFTGGDELEDNDETLEDYL 161
           +VFT  +EL +   +LE+Y+
Sbjct: 221 LVFTRKEELAEG--SLEEYI 238

Rattus norvegicus (taxid: 10116)

>sp|Q75N62|GIMA8_MOUSE GTPase IMAP family member 8 OS=Mus musculus GN=Gimap8 PE=2 SV=1

 Score = 95.5 bits (236), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 60/154 (38%), Positives = 91/154 (59%), Gaps = 9/154 (5%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           ++L+GR+G GKSATGN+ILGR AF S+  +  VTS+ +  +  L D Q V V+DTP    
Sbjct: 478 IILLGRSGAGKSATGNTILGRSAFFSQLRAQPVTSSSQSGKRTL-DWQDVVVVDTPSFIQ 536

Query: 82  FSAGSE----FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIF 137
            + G+E     + +EI  C+ + ++G+   ++V  +  RF+QE+E  +  L+  F + I 
Sbjct: 537 -TPGTEKDPSRLKEEIHHCLSLCEEGMKIFVLVLQL-GRFTQEDEVVVEQLEASFEENIM 594

Query: 138 DYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
            YMIV+FT  ++L D D  L DY      K LKK
Sbjct: 595 KYMIVLFTRKEDLGDGD--LHDYTNNTKNKALKK 626

Exerts an anti-apoptotic effect in the immune system and is involved in responses to infections.

Mus musculus (taxid: 10090)

>sp|Q96F15|GIMA5_HUMAN GTPase IMAP family member 5 OS=Homo sapiens GN=GIMAP5 PE=1 SV=1

 Score = 94.4 bits (233), Expect = 7e-19,   Method: Compositional matrix adjust.
 Identities = 52/156 (33%), Positives = 95/156 (60%), Gaps = 7/156 (4%)

Query: 7   DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK 66
           +D+   T P+     ++LVG+TG GKSATGNSILG+  F+S+  +  VT TC++ +T   
Sbjct: 18  EDNLSATPPA---LRIILVGKTGCGKSATGNSILGQPVFESKLRAQSVTRTCQV-KTGTW 73

Query: 67  DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALH 126
           +G+ V V+DTP +F+  A ++ + K I  C  ++  G H +L+V  +  RF+ ++  A+ 
Sbjct: 74  NGRKVLVVDTPSIFESQADTQELYKNIGDCYLLSAPGPHVLLLVIQL-GRFTAQDTVAIR 132

Query: 127 SLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG 162
            ++ +FG     +++++FT  ++L    + L+DY+ 
Sbjct: 133 KVKEVFGTGAMRHVVILFTHKEDL--GGQALDDYVA 166

Required for mitochondrial integrity and T-cell survival. May contribute to T-cell quiescence.

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	253
255539412	339	aig1, putative [Ricinus communis] gi|223	0.853	0.637	0.690	2e-98
296089429	345	unnamed protein product [Vitis vinifera]	0.853	0.626	0.660	4e-95
225460273	340	PREDICTED: protein AIG1 [Vitis vinifera]	0.853	0.635	0.660	5e-95
224146305	335	predicted protein [Populus trichocarpa]	0.853	0.644	0.665	2e-94
363814318	336	uncharacterized protein LOC100807910 [Gl	0.849	0.639	0.611	1e-83
356526433	350	PREDICTED: protein AIG1-like [Glycine ma	0.833	0.602	0.616	2e-83
147836179	566	hypothetical protein VITISV_037325 [Viti	0.695	0.310	0.840	3e-83
4097585	344	NTGP4, partial [Nicotiana tabacum]	0.869	0.639	0.577	2e-81
224136037	259	predicted protein [Populus trichocarpa]	0.802	0.783	0.633	5e-80
449464872	341	PREDICTED: protein AIG1-like [Cucumis sa	0.849	0.630	0.624	2e-79

>gi|255539412|ref|XP_002510771.1| aig1, putative [Ricinus communis] gi|223551472|gb|EEF52958.1| aig1, putative [Ricinus communis]

 Score =  364 bits (935), Expect = 2e-98,   Method: Compositional matrix adjust.
 Identities = 187/271 (69%), Positives = 201/271 (74%), Gaps = 55/271 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSAIDDDWELTSPSNG RTVVLVGRTGNGKSATGNS+LGR+AFKSRASSSGVTSTCE+
Sbjct: 1   MGGSAIDDDWELTSPSNGVRTVVLVGRTGNGKSATGNSLLGRKAFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           Q+TV+ DGQV+NV+DTPGLFDFSA SEFVGKEIVKCI MAKDGIHAVLVVFSVR+RFSQE
Sbjct: 61  QQTVITDGQVINVVDTPGLFDFSAESEFVGKEIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK--------- 171
           EEAAL SLQTLFG KIFDYMIVVFTGGDELEDNDETLEDYLGRECP+PL++         
Sbjct: 121 EEAALRSLQTLFGSKIFDYMIVVFTGGDELEDNDETLEDYLGRECPQPLQEILTLCKNRL 180

Query: 172 -------------------------------GATKLRDQQF---------------EVDS 185
                                          G     D+ F               EVDS
Sbjct: 181 VLFDNKTKDEFKRAEQVHQLLSLVNLVIAENGGQPYTDELFVELKARAIKLRDQQEEVDS 240

Query: 186 LKGYSKREISELKEQMHKSYEDQLKRITEMC 216
           LKGYSK EI ELKEQMH+SYE+QLKRITEM 
Sbjct: 241 LKGYSKGEILELKEQMHRSYEEQLKRITEMV 271

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|296089429|emb|CBI39248.3| unnamed protein product [Vitis vinifera]

 Score =  353 bits (905), Expect = 4e-95,   Method: Compositional matrix adjust.
 Identities = 179/271 (66%), Positives = 200/271 (73%), Gaps = 55/271 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 6   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 65

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 66  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 125

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK--------- 171
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+PLK+         
Sbjct: 126 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDETLEDYLGRECPEPLKQTLLLCQNRL 185

Query: 172 -------------------------------GATKLRDQQF---------------EVDS 185
                                          G     D+ F               EVDS
Sbjct: 186 VLFDNKTKDEAKKYEQVQKLLSLVNSVILQNGGQPYTDELFMELKKGAQKLRDQTEEVDS 245

Query: 186 LKGYSKREISELKEQMHKSYEDQLKRITEMC 216
           L+GYSKREI  LKEQMHKSYE+QLKRITEM 
Sbjct: 246 LEGYSKREILVLKEQMHKSYEEQLKRITEMV 276

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|225460273|ref|XP_002281996.1| PREDICTED: protein AIG1 [Vitis vinifera]

 Score =  353 bits (905), Expect = 5e-95,   Method: Compositional matrix adjust.
 Identities = 179/271 (66%), Positives = 200/271 (73%), Gaps = 55/271 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK--------- 171
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+PLK+         
Sbjct: 121 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDETLEDYLGRECPEPLKQTLLLCQNRL 180

Query: 172 -------------------------------GATKLRDQQF---------------EVDS 185
                                          G     D+ F               EVDS
Sbjct: 181 VLFDNKTKDEAKKYEQVQKLLSLVNSVILQNGGQPYTDELFMELKKGAQKLRDQTEEVDS 240

Query: 186 LKGYSKREISELKEQMHKSYEDQLKRITEMC 216
           L+GYSKREI  LKEQMHKSYE+QLKRITEM 
Sbjct: 241 LEGYSKREILVLKEQMHKSYEEQLKRITEMV 271

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224146305|ref|XP_002325957.1| predicted protein [Populus trichocarpa] gi|222862832|gb|EEF00339.1| predicted protein [Populus trichocarpa]

 Score =  351 bits (901), Expect = 2e-94,   Method: Compositional matrix adjust.
 Identities = 181/272 (66%), Positives = 201/272 (73%), Gaps = 56/272 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSA+DDDWE  SPSNG RT+VLVGRTGNGKSATGNSILGR+AFKSRASSSGVTS+CE+
Sbjct: 1   MGGSAMDDDWEFASPSNGVRTIVLVGRTGNGKSATGNSILGRKAFKSRASSSGVTSSCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           QRTVL+DGQ++NVIDTPGLFDFSAGSEFVG+EIVKCI MAKDGIHAVLVVFSVR+RFSQE
Sbjct: 61  QRTVLRDGQIINVIDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQE 120

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK---------- 170
           EEAAL SLQTLFG KI DYMIVVFTGGDELEDNDETLEDYLGRECP+PLK          
Sbjct: 121 EEAALRSLQTLFGSKILDYMIVVFTGGDELEDNDETLEDYLGRECPQPLKEVLTLCENRR 180

Query: 171 -----------KGATKLRD----------------------------------QQFEVDS 185
                      KG  ++++                                  QQ EVDS
Sbjct: 181 VLFNNKTKDVLKGVEQVQELLSLVNRVIEQNGGQPYSDELFAEIQKGEMNFRGQQEEVDS 240

Query: 186 LKG-YSKREISELKEQMHKSYEDQLKRITEMC 216
           LKG +S  EISEL+EQM + YEDQLKR+T+M 
Sbjct: 241 LKGNFSIGEISELQEQMKRQYEDQLKRVTDMV 272

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|363814318|ref|NP_001242800.1| uncharacterized protein LOC100807910 [Glycine max] gi|255639255|gb|ACU19926.1| unknown [Glycine max]

 Score =  315 bits (806), Expect = 1e-83,   Method: Compositional matrix adjust.
 Identities = 165/270 (61%), Positives = 188/270 (69%), Gaps = 55/270 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+I DDWELTS SN  RTVVLVGRTGNGKSATGN+ILGR+ FKSRASSS V+++CE+
Sbjct: 1   MGGSSIGDDWELTSSSNEGRTVVLVGRTGNGKSATGNTILGRKVFKSRASSSAVSTSCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           Q T L DGQ+VNVIDTPGLFD S GSEFVGKEIVKCI +AKDGIHAV+VVFSVR+RF++E
Sbjct: 61  QTTELNDGQIVNVIDTPGLFDLSVGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEE 120

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK--------- 171
           EE AL SLQTLFG KI DYMIVVFTGGDELE+N ETLEDYLGRECP+PLK+         
Sbjct: 121 EETALRSLQTLFGSKIVDYMIVVFTGGDELEENAETLEDYLGRECPEPLKEILVLCDNRC 180

Query: 172 -------------------------------GATKLRDQQF---------------EVDS 185
                                          G     D+ F               EVDS
Sbjct: 181 VLFDNKTKDEGKRFGQVQQLLSFVNTVLSRNGGRPYTDELFTQLKKGAMELHNQQREVDS 240

Query: 186 LKGYSKREISELKEQMHKSYEDQLKRITEM 215
           LKGYSK EI + K+QM ++Y+DQLKRITE+
Sbjct: 241 LKGYSKGEILKFKKQMQQTYDDQLKRITEI 270

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|356526433|ref|XP_003531822.1| PREDICTED: protein AIG1-like [Glycine max]

 Score =  314 bits (805), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 164/266 (61%), Positives = 188/266 (70%), Gaps = 55/266 (20%)

Query: 5   AIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV 64
           +IDDDWELTS SN  RTVVLVGRTGNGKSATGN+ILGR+AFKSRASSS V+++CE++ T 
Sbjct: 19  SIDDDWELTSSSNEVRTVVLVGRTGNGKSATGNTILGRKAFKSRASSSAVSTSCELKTTE 78

Query: 65  LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA 124
           L +GQ+VNVIDTPGLFD SAGSEFVGKEIVKCI +AKDGIHAV+VVFSVR+RF++EEE A
Sbjct: 79  LNNGQIVNVIDTPGLFDLSAGSEFVGKEIVKCIDLAKDGIHAVIVVFSVRTRFTEEEETA 138

Query: 125 LHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK------------- 171
           L SLQTLFG KI DYMIVVFTGGDELE+NDETLEDYLGRECP+PLK+             
Sbjct: 139 LRSLQTLFGSKIVDYMIVVFTGGDELEENDETLEDYLGRECPEPLKEILVLCENRCVLFD 198

Query: 172 ---------------------------GATKLRDQQF---------------EVDSLKGY 189
                                      G     D+ F               EVDSLKGY
Sbjct: 199 NKTKDEGKRFGQVQQLLSFVNMVLSRNGGRPYTDELFTQLKKGAMELHNQQREVDSLKGY 258

Query: 190 SKREISELKEQMHKSYEDQLKRITEM 215
           SK EI E K+QM ++Y++QLKRITEM
Sbjct: 259 SKGEILEFKKQMQQTYDEQLKRITEM 284

Source: Glycine max

Species: Glycine max

Genus: Glycine

Family: Fabaceae

Order: Fabales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|147836179|emb|CAN68778.1| hypothetical protein VITISV_037325 [Vitis vinifera]

 Score =  314 bits (804), Expect = 3e-83,   Method: Compositional matrix adjust.
 Identities = 148/176 (84%), Positives = 165/176 (93%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGS+IDD+WE T+PS+G RT+VLVGRTGNGKSATGNSILGR++FKSRASSSGVTSTCE+
Sbjct: 1   MGGSSIDDEWEFTAPSSGVRTLVLVGRTGNGKSATGNSILGRKSFKSRASSSGVTSTCEL 60

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           QRT+L+DGQ+VNVIDTPGLFD SA S+FVGKEIVKCI +AKDG+HAVLVVFSVR+RFS+E
Sbjct: 61  QRTILRDGQIVNVIDTPGLFDLSAESDFVGKEIVKCIDLAKDGVHAVLVVFSVRTRFSKE 120

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKL 176
           EEAALHSLQTLFG KI DYMIVVFTGGDELEDNDE LEDYLGRECP+PLKKG   L
Sbjct: 121 EEAALHSLQTLFGSKIIDYMIVVFTGGDELEDNDEXLEDYLGRECPEPLKKGQIFL 176

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|4097585|gb|AAD09518.1| NTGP4, partial [Nicotiana tabacum]

 Score =  307 bits (787), Expect = 2e-81,   Method: Compositional matrix adjust.
 Identities = 160/277 (57%), Positives = 192/277 (69%), Gaps = 57/277 (20%)

Query: 1   MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
           MGGSAI DDWE  +  NG RT+VLVGRTGNGKSATGNSILGR+AF+S +SS+GVTSTCE+
Sbjct: 6   MGGSAISDDWEFAA--NGARTLVLVGRTGNGKSATGNSILGRKAFRSMSSSAGVTSTCEL 63

Query: 61  QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE 120
           QRTVL+DGQ+++VIDTPGLFDFSA  EF+G EIVKCI MAKDGIHAVLVV SVR+RFS+E
Sbjct: 64  QRTVLEDGQILDVIDTPGLFDFSAEPEFIGNEIVKCINMAKDGIHAVLVVLSVRTRFSRE 123

Query: 121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK---------- 170
           E+AA+ SL+  FG KI DYM++VFTGGD+LEDN+ETLEDYLGR+CP+PLK          
Sbjct: 124 EQAAVQSLREFFGGKISDYMVLVFTGGDDLEDNEETLEDYLGRDCPEPLKDILAMCGNRR 183

Query: 171 -----------KGATKLR----------------------------------DQQFEVDS 185
                      K A +L+                                  +Q  EV++
Sbjct: 184 VLFDNKSKDHLKKADQLKQLLSLVNVVVENNGGKPYTDDLFKELKKGAIKLRNQATEVNN 243

Query: 186 LKGYSKREISELKEQMHKSYEDQLKRITEMCAGTCND 222
           L GYSK+EI ELKEQM KSYE+QL+RITE+      D
Sbjct: 244 LVGYSKQEILELKEQMQKSYEEQLRRITEVVESKLKD 280

Source: Nicotiana tabacum

Species: Nicotiana tabacum

Genus: Nicotiana

Family: Solanaceae

Order: Solanales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224136037|ref|XP_002327365.1| predicted protein [Populus trichocarpa] gi|222835735|gb|EEE74170.1| predicted protein [Populus trichocarpa]

 Score =  303 bits (776), Expect = 5e-80,   Method: Compositional matrix adjust.
 Identities = 164/259 (63%), Positives = 179/259 (69%), Gaps = 56/259 (21%)

Query: 13  TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVN 72
            SPSNG RTVVLVGRTGNGKSATGNSILG++AFKSRASSSGVTSTCE+Q TVL DGQ++N
Sbjct: 1   ASPSNGVRTVVLVGRTGNGKSATGNSILGKKAFKSRASSSGVTSTCELQSTVLGDGQIIN 60

Query: 73  VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLF 132
           VIDTPGLFDFSAGSEFVG+EIVKCI MAKDGIHAVLVVFSVR+RFSQEEEAAL SLQTLF
Sbjct: 61  VIDTPGLFDFSAGSEFVGREIVKCINMAKDGIHAVLVVFSVRTRFSQEEEAALRSLQTLF 120

Query: 133 GKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK-----------------KGATK 175
           G KI DYMIVVFTGGDELEDNDETLEDYLGRECP+PLK                 K   K
Sbjct: 121 GSKILDYMIVVFTGGDELEDNDETLEDYLGRECPQPLKEVLKLCENRRVLFDNKTKDLFK 180

Query: 176 LRDQQFEVDSL----------KGYSKREISEL---------------------------- 197
             +Q  E+ SL          + YS    +E+                            
Sbjct: 181 RAEQMQELLSLVNRVIEQNAGQPYSDELFAEIQKGEMNFRDQQEEVNSLKGNISIREISE 240

Query: 198 -KEQMHKSYEDQLKRITEM 215
            KEQM   YE+QLKR+TEM
Sbjct: 241 LKEQMQIQYEEQLKRVTEM 259

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449464872|ref|XP_004150153.1| PREDICTED: protein AIG1-like [Cucumis sativus] gi|449520867|ref|XP_004167454.1| PREDICTED: protein AIG1-like [Cucumis sativus]

 Score =  301 bits (770), Expect = 2e-79,   Method: Compositional matrix adjust.
 Identities = 171/274 (62%), Positives = 193/274 (70%), Gaps = 59/274 (21%)

Query: 1   MGGSAIDDDWEL--TSPSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS 56
           MGGSAI++DWEL  TSP+NG   RTVVLVGRTGNGKSATGNSILGR+AFKSRA SSGVT 
Sbjct: 1   MGGSAIEEDWELDLTSPTNGRSARTVVLVGRTGNGKSATGNSILGRKAFKSRACSSGVTV 60

Query: 57  TCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR 116
           T E+Q TVL DGQ ++VIDTPG+FDFSAGS+FVGKEIVKCI MAKDGIHAVLVVFSVR+R
Sbjct: 61  TSELQTTVLSDGQEIDVIDTPGMFDFSAGSDFVGKEIVKCIDMAKDGIHAVLVVFSVRTR 120

Query: 117 FSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK------ 170
           FS EEEAAL SLQTLFG KI +YMIVVFTGGDELE+N+ETLEDYLGR CP PLK      
Sbjct: 121 FSLEEEAALRSLQTLFGSKIVNYMIVVFTGGDELEENEETLEDYLGRSCPDPLKDILALC 180

Query: 171 ----------------------------------KGATKLRDQQF--------------- 181
                                              G     D+ F               
Sbjct: 181 QNRCVLFDNKTKDEGRKVGQVQQLLSLVNGIVMQNGGQPYSDELFSELKAGAMKLRDQQK 240

Query: 182 EVDSLKGYSKREISELKEQMHKSYEDQLKRITEM 215
           EVDSL+GY+++E+ ELKEQMH+SY++QLKRITEM
Sbjct: 241 EVDSLEGYTRQELKELKEQMHRSYDEQLKRITEM 274

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

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	253
TAIR|locus:2009041	342	AT1G33970 [Arabidopsis thalian	0.671	0.497	0.567	3.3e-59
TAIR|locus:2203832	336	AT1G33930 [Arabidopsis thalian	0.644	0.485	0.509	5.9e-42
TAIR|locus:2203807	353	AIG1 "AVRRPT2-INDUCED GENE 1"	0.644	0.461	0.493	1.7e-40
TAIR|locus:2203797	326	AT1G33900 [Arabidopsis thalian	0.660	0.512	0.431	7.4e-40
TAIR|locus:2203817	311	AT1G33950 [Arabidopsis thalian	0.758	0.617	0.434	1.3e-38
TAIR|locus:2140568	336	AT4G09950 [Arabidopsis thalian	0.525	0.395	0.482	7.3e-38
TAIR|locus:2140558	394	AT4G09940 [Arabidopsis thalian	0.909	0.583	0.376	7.2e-36
TAIR|locus:2203792	301	AT1G33910 [Arabidopsis thalian	0.592	0.498	0.436	5e-35
TAIR|locus:2203802	334	AT1G33890 [Arabidopsis thalian	0.747	0.565	0.380	3.2e-33
TAIR|locus:2039528	463	PP2-A3 "phloem protein 2-A3" [	0.711	0.388	0.388	1.8e-32

TAIR|locus:2009041 AT1G33970 [Arabidopsis thaliana (taxid:3702)]

 Score = 496 (179.7 bits), Expect = 3.3e-59, Sum P(2) = 3.3e-59
 Identities = 97/171 (56%), Positives = 119/171 (69%)

Query:     1 MGGSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM 60
             MGG  ++DDWE  S SN +RT+VLVGRTGNGKSATGNSILGR+AF+SRA + GVTSTCE 
Sbjct:     6 MGGDMMEDDWEFASSSNPKRTLVLVGRTGNGKSATGNSILGRKAFRSRARTVGVTSTCES 65

Query:    61 QRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQE 120
             QR V +DG ++NV+DTPGLFD S  ++F+GKEIV+CI +A+DGIHA+L          +E
Sbjct:    66 QRVVQEDGDIINVVDTPGLFDLSTAADFIGKEIVRCISLAEDGIHAILLVFSVRRLA-EE 124

Query:   121 EEAALHSLQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLKK 171
             E+  L  LQ LFG KI DYMIVVF               YL   CP+ LK+
Sbjct:   125 EQTVLSFLQALFGSKIADYMIVVFTGGDELEENEETLEEYLADYCPEFLKE 175

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203832 AT1G33930 [Arabidopsis thaliana (taxid:3702)]

 Score = 414 (150.8 bits), Expect = 5.9e-42, Sum P(2) = 5.9e-42
 Identities = 83/163 (50%), Positives = 105/163 (64%)

Query:     8 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 67
             D WEL S S   + VVLVGRTGNGKSATGNSI+GR+ F+S+  + GVT+ C+  R V  D
Sbjct:    24 DRWELPSASEPVKNVVLVGRTGNGKSATGNSIIGRKVFESKYQAVGVTTRCKTFRAVTPD 83

Query:    68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHS 127
             G ++NVIDTPGLFD +  +EF+ KEIV C+ +A++G+HAV+          QEEE AL +
Sbjct:    84 GPIINVIDTPGLFDLAVSAEFISKEIVNCLILAREGLHAVVLVLSLSTRISQEEENALCT 143

Query:   128 LQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 170
             LQ LFG KI DY+IVVF               YL   CP+ LK
Sbjct:   144 LQMLFGGKIVDYLIVVFTCGDMLEDRNMTLEDYLSNGCPEFLK 186

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

TAIR|locus:2203807 AIG1 "AVRRPT2-INDUCED GENE 1" [Arabidopsis thaliana (taxid:3702)]

 Score = 391 (142.7 bits), Expect = 1.7e-40, Sum P(2) = 1.7e-40
 Identities = 81/164 (49%), Positives = 100/164 (60%)

Query:     8 DDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD 67
             D++  + P   E  +VLVGRTGNGKSATGNSI+  + FKS+  SSGVT  C   + V  +
Sbjct:    32 DEFSASQPHPVEN-IVLVGRTGNGKSATGNSIVRSKVFKSKTKSSGVTMECHAVKAVTPE 90

Query:    68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHS 127
             G ++NVIDTPGLFD S  +EF+GKEIVKC+ +A  G+HAVL          QEEE  L +
Sbjct:    91 GPILNVIDTPGLFDLSVSAEFIGKEIVKCLTLADGGLHAVLLVLSVRTRISQEEEMVLST 150

Query:   128 LQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLKK 171
             LQ LFG KI DY+IVVF               YLG   P  LK+
Sbjct:   151 LQVLFGSKIVDYLIVVFTGGDVLEDDGMTLEDYLGDNMPDFLKR 194

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=IEP;ISS

GO:0006897 "endocytosis" evidence=RCA

GO:0009627 "systemic acquired resistance" evidence=RCA

GO:0009697 "salicylic acid biosynthetic process" evidence=RCA

GO:0009863 "salicylic acid mediated signaling pathway" evidence=RCA

GO:0031348 "negative regulation of defense response" evidence=RCA

GO:0045087 "innate immune response" evidence=RCA

TAIR|locus:2203797 AT1G33900 [Arabidopsis thaliana (taxid:3702)]

 Score = 377 (137.8 bits), Expect = 7.4e-40, Sum P(2) = 7.4e-40
 Identities = 73/169 (43%), Positives = 106/169 (62%)

Query:     4 SAIDDDWELTSPSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ 61
             + ++D  +L  PS  E  + +VLVGRTGNGKSATGNS++G++ F+S   ++GVT  CE  
Sbjct:     2 AGLEDTTDLRLPSASEPIKNIVLVGRTGNGKSATGNSLIGKQVFRSETRATGVTMKCETC 61

Query:    62 RTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEE 121
               V   G  +NVIDTPGLFD S  +E++ +EI+ C+ +A+DG+HAV+          QEE
Sbjct:    62 VAVTPCGTGINVIDTPGLFDLSVSAEYLSQEIINCLVLAEDGLHAVVLVLSVRTRISQEE 121

Query:   122 EAALHSLQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 170
             EA L++LQ +FG +I DY++V+F               YL + CP+ LK
Sbjct:   122 EATLNTLQVIFGSQIIDYLVVLFTGGDELEANNMTLDDYLSKGCPEFLK 170

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203817 AT1G33950 [Arabidopsis thaliana (taxid:3702)]

 Score = 413 (150.4 bits), Expect = 1.3e-38, P = 1.3e-38
 Identities = 86/198 (43%), Positives = 120/198 (60%)

Query:    16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
             S     +VLVGRTGNGKSATGNS++G++ F S+A +SGVT  C+    V KDG  +NVID
Sbjct:    13 SKQAENIVLVGRTGNGKSATGNSLIGKKVFASKAHASGVTMKCQTHGVVTKDGHKINVID 72

Query:    76 TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 135
             TPGLFD S  +E++ KEIV+C+ +A+ GIHAVL          QEEE  L +LQ LFG +
Sbjct:    73 TPGLFDLSVSAEYISKEIVRCLTLAEGGIHAVLLVLSARTRITQEEENTLRTLQALFGSQ 132

Query:   136 IFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREIS 195
             I DY++VVF               YLGR+CP  +K+      +++  +D+ K + +    
Sbjct:   133 ILDYVVVVFTGGDVLEECKETLEDYLGRDCPTFIKEVMRMSSNRKVVIDN-KTHDE---G 188

Query:   196 ELKEQMHK--SYEDQLKR 211
             +  EQ+HK  S  D ++R
Sbjct:   189 KKAEQVHKLLSLVDDIRR 206

GO:0005525 "GTP binding" evidence=IEA

GO:0009617 "response to bacterium" evidence=ISS

TAIR|locus:2140568 AT4G09950 [Arabidopsis thaliana (taxid:3702)]

 Score = 333 (122.3 bits), Expect = 7.3e-38, Sum P(2) = 7.3e-38
 Identities = 67/139 (48%), Positives = 97/139 (69%)

Query:     6 IDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL 65
             +++DW+   P   ERT+VL+GRTGNGKSATGNSILG+  F+S+A    +T  C++ ++ L
Sbjct:    10 VENDWK---P---ERTLVLLGRTGNGKSATGNSILGKTMFQSKARGKFITKECKLHKSKL 63

Query:    66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAAL 125
              +G  +NVIDTPGLF  S+ ++F  +EIV+C+ +AK GI AVL          +EE++ L
Sbjct:    64 PNGLTINVIDTPGLFSASSTTDFTIREIVRCLLLAKGGIDAVLLVFSLRNRLTEEEQSTL 123

Query:   126 HSLQTLFGKKIFDYMIVVF 144
              +L+ LFG +I DY+IVVF
Sbjct:   124 RTLKILFGSQIVDYIIVVF 142

GO:0005525 "GTP binding" evidence=IEA

GO:0005634 "nucleus" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2140558 AT4G09940 [Arabidopsis thaliana (taxid:3702)]

 Score = 387 (141.3 bits), Expect = 7.2e-36, P = 7.2e-36
 Identities = 91/242 (37%), Positives = 138/242 (57%)

Query:     3 GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR 62
             GS ++   +L       RT++LVGR+GNGKSATGNSILGR+AFKS+  +SGVT+ CE+Q 
Sbjct:    31 GSGLEVTCDLRLEHKPARTLLLVGRSGNGKSATGNSILGRKAFKSKGRASGVTTACELQS 90

Query:    63 TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEE 122
             + L +GQ++NVIDTPGLF  S  +EF  +EI++C  + K+GI AVL          +EE+
Sbjct:    91 STLPNGQIINVIDTPGLFSLSPSTEFTCREILRCFSLTKEGIDAVLLVFSLKNRLTEEEK 150

Query:   123 AALHSLQTLFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLKKGATKLRDQQFE 182
             +AL +L+ LFG KI DYMIVVF               YL  + P   K+      D++  
Sbjct:   151 SALFALKILFGSKIVDYMIVVFTNEDSLEDDGDTFEEYL-EDSPD-FKEILEPCNDRKV- 207

Query:   183 VDSLKGYSKREISELKEQMHK--SYEDQLKRIT--EMCAGTCNDILNCETWRLSLSSKRQ 238
                 +  S   +S+  +Q+ +  +Y +++ R+      A   ++I   ET   +   K+Q
Sbjct:   208 --LFRNRSNAPVSQKAKQVQELLNYVEEIARLNGKSYMADLSHEIRENET---AFQIKQQ 262

Query:   239 QL 240
             ++
Sbjct:   263 EI 264

GO:0005525 "GTP binding" evidence=IEA

GO:0009507 "chloroplast" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0005774 "vacuolar membrane" evidence=IDA

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2203792 AT1G33910 [Arabidopsis thaliana (taxid:3702)]

 Score = 324 (119.1 bits), Expect = 5.0e-35, Sum P(2) = 5.0e-35
 Identities = 69/158 (43%), Positives = 94/158 (59%)

Query:    15 PSNGE--RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVN 72
             PS  E  R +VLVG TGNGKS+TGNS++G+  F           TC+  +T+  DGQ++N
Sbjct:     7 PSASEPVRNIVLVGPTGNGKSSTGNSLIGKEVFILETVEC---KTCKA-KTL--DGQIIN 60

Query:    73 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLF 132
             VIDTPGLFD S  ++++ KEI+ C+ +   G+HAV+          +EEEAAL+ LQ LF
Sbjct:    61 VIDTPGLFDLSVSTDYMNKEIINCLTLTDGGLHAVVLVLSVGTDILKEEEAALNKLQLLF 120

Query:   133 GKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK 170
             G KI DY++V+F               YL R CP+ LK
Sbjct:   121 GSKIVDYLVVLFTGGDVLEKENKTLDDYLSRGCPEFLK 158

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

TAIR|locus:2203802 AT1G33890 [Arabidopsis thaliana (taxid:3702)]

 Score = 362 (132.5 bits), Expect = 3.2e-33, P = 3.2e-33
 Identities = 72/189 (38%), Positives = 107/189 (56%)

Query:    11 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 70
             E  S     + +VLVGRTGNGKSATGNS++G+  F S A ++GVT TC+  + V   G  
Sbjct:     5 EQASAYKAVKNIVLVGRTGNGKSATGNSLIGKDVFVSEAKATGVTKTCQTYKAVTPGGSR 64

Query:    71 VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQT 130
             +NVIDTPGLFD S  +EF+ KEI+ C+ +A+ G+H V+          QEEE  L +LQ 
Sbjct:    65 INVIDTPGLFDLSVSAEFISKEIINCLRLAEGGLHVVVLVLSVRTRITQEEENTLSTLQV 124

Query:   131 LFGKKIFDYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLKKGATKLRDQQFEVDSLKGYS 190
             LFG +I DY+IV+F               Y  + CP  LK       D++   +++    
Sbjct:   125 LFGNEILDYLIVLFTGGDELEANNQTLDDYFHQGCPYFLKTVLGLCDDRKVMFNNMTKDK 184

Query:   191 KREISELKE 199
              +++ ++++
Sbjct:   185 HKKVEQVQQ 193

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0006897 "endocytosis" evidence=RCA

TAIR|locus:2039528 PP2-A3 "phloem protein 2-A3" [Arabidopsis thaliana (taxid:3702)]

 Score = 355 (130.0 bits), Expect = 1.8e-32, P = 1.8e-32
 Identities = 70/180 (38%), Positives = 105/180 (58%)

Query:    20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
             + +VLVGRTGNGKS+TGN++LG + FKS+  + GVT  CEM R  ++DG ++NVIDTPGL
Sbjct:     6 KNIVLVGRTGNGKSSTGNTLLGTKQFKSKNQAKGVTMICEMYRAAIQDGPIINVIDTPGL 65

Query:    80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFDY 139
              D     + +  EI+ C+ MA++GIHAVL          +EEE+ +++LQ +FG +I DY
Sbjct:    66 CDSFVPGDDISNEIINCLTMAEEGIHAVLLVLSARGRISKEEESTVNTLQCIFGSQILDY 125

Query:   140 MIVVFXXXXXXXXXXXXXXXYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKE 199
              IVVF               Y    CP+ L K       ++   D+     K+++ ++K+
Sbjct:   126 CIVVFTGGDDLEEDDQTLDDYFRAGCPEFLTKVLRLCGGRKVLFDNKSKDEKKKVEQVKQ 185

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=ISM

GO:0009617 "response to bacterium" evidence=ISS

GO:0030246 "carbohydrate binding" evidence=ISS

GO:0006826 "iron ion transport" evidence=RCA

GO:0006897 "endocytosis" evidence=RCA

GO:0010106 "cellular response to iron ion starvation" evidence=RCA

GO:0010167 "response to nitrate" evidence=RCA

GO:0015706 "nitrate transport" evidence=RCA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

No confident hit for EC number transfering in SWISSPROT detected by BLAST

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: GSVIVG00021940001 SubName- Full=Chromosome chr18 scaffold_24, whole genome shotgun sequence; (340 aa) (Vitis vinifera)

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	253
pfam04548	211	pfam04548, AIG1, AIG1 family	9e-76
cd01852	201	cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1)	1e-69
cd01853	248	cd01853, Toc34_like, Translocon at the Outer-envel	2e-12
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	4e-10
pfam01926	117	pfam01926, MMR_HSR1, 50S ribosome-binding GTPase	2e-07
cd09912	180	cd09912, DLP_2, Dynamin-like protein including dyn	4e-07
TIGR00993	763	TIGR00993, 3a0901s04IAP86, chloroplast protein imp	8e-07
cd00880	161	cd00880, Era_like, E	2e-06
TIGR00991	313	TIGR00991, 3a0901s02IAP34, GTP-binding protein (Ch	9e-05
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	6e-04
TIGR00437	591	TIGR00437, feoB, ferrous iron transporter FeoB	0.001
cd01850	275	cd01850, CDC_Septin, CDC/Septin GTPase family	0.001
pfam00735	280	pfam00735, Septin, Septin	0.002
COG1160	444	COG1160, COG1160, Predicted GTPases [General funct	0.002
PRK15494	339	PRK15494, era, GTPase Era; Provisional	0.003
COG0370	653	COG0370, FeoB, Fe2+ transport system protein B [In	0.003

>gnl|CDD|218141 pfam04548, AIG1, AIG1 family

 Score =  228 bits (583), Expect = 9e-76
 Identities = 87/152 (57%), Positives = 116/152 (76%), Gaps = 4/152 (2%)

Query: 20  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
             +VLVG+TGNGKSATGNSILGR+AF+S+  + GVT TC++      DG+++NVIDTPGL
Sbjct: 1   LRIVLVGKTGNGKSATGNSILGRKAFESKLRAQGVTKTCQLVSRTW-DGRIINVIDTPGL 59

Query: 80  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 139
           FD S  ++F+ KEI++C+ +A+ G HAVL+V S+  RF++EEE AL +LQ LFG KI DY
Sbjct: 60  FDLSVSNDFISKEIIRCLLLAEPGPHAVLLVLSLG-RFTEEEEQALRTLQELFGSKILDY 118

Query: 140 MIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
           MIVVFT  D+LED+   L+DYL   CP+ LK+
Sbjct: 119 MIVVFTRKDDLEDDS--LDDYLSDGCPEFLKE 148

Arabidopsis protein AIG1 appears to be involved in plant resistance to bacteria. Length = 211

>gnl|CDD|206651 cd01852, AIG1, AvrRpt2-Induced Gene 1 (AIG1)

 Score =  212 bits (543), Expect = 1e-69
 Identities = 81/152 (53%), Positives = 109/152 (71%), Gaps = 5/152 (3%)

Query: 20  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
             +VLVG+TGNGKSATGN+ILGR+ F+S+ S+SGVT TC+ +  V  DG+ VNVIDTPGL
Sbjct: 1   LRLVLVGKTGNGKSATGNTILGRKVFESKLSASGVTKTCQKESAVW-DGRRVNVIDTPGL 59

Query: 80  FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY 139
           FD S   E + KEI++C+ ++  G HA L+V  +  RF++EEE A+  LQ LFG+K+ D+
Sbjct: 60  FDTSVSPEQLSKEIIRCLSLSAPGPHAFLLVVPLG-RFTEEEEQAVEELQELFGEKVLDH 118

Query: 140 MIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
            IV+FT GD+LE    +LEDYL   C   LK+
Sbjct: 119 TIVLFTRGDDLE--GGSLEDYLEDSCE-ALKR 147

This group represents Arabidoposis protein AIG1 (avrRpt2-induced gene 1) 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). Length = 201

>gnl|CDD|206652 cd01853, Toc34_like, Translocon at the Outer-envelope membrane of Chloroplasts 34-like (Toc34-like)

 Score = 64.3 bits (157), Expect = 2e-12
 Identities = 45/128 (35%), Positives = 66/128 (51%), Gaps = 7/128 (5%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           T++++G+TG GKS+T NSI G R     A  S      E+ RTV  DG  +N+IDTPGL 
Sbjct: 33  TILVLGKTGVGKSSTINSIFGERKVSVSAFQSETLRPREVSRTV--DGFKLNIIDTPGLL 90

Query: 81  DFSAGSEFVGKEIVKCIG--MAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIF 137
           +  +  + V ++I+  I   + K  I  VL V  +   R    +   L ++   FG  I+
Sbjct: 91  E--SQDQRVNRKILSIIKRFLKKKTIDVVLYVDRLDMYRVDNLDVPLLRAITDSFGPSIW 148

Query: 138 DYMIVVFT 145
              IVV T
Sbjct: 149 RNAIVVLT 156

The Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts) 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. Length = 248

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

 Score = 56.7 bits (137), Expect = 4e-10
 Identities = 52/181 (28%), Positives = 81/181 (44%), Gaps = 24/181 (13%)

Query: 23  VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTPGLFD 81
           V+VGR G GKS+  N++LG       +   G T   ++    L  G+V + ++DTPGL +
Sbjct: 1   VVVGRGGVGKSSLLNALLGGE-VGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDE 59

Query: 82  FSA-GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 140
           F   G E + + +++       G   +L+V     R S EE+A L  L+ L  + I   +
Sbjct: 60  FGGLGREELARLLLR-------GADLILLVVDSTDRES-EEDAKLLILRRLRKEGI--PI 109

Query: 141 IVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQ 200
           I+V    D L +  E  E     E  K L           FEV +  G     + EL E+
Sbjct: 110 ILVGNKID-LLEEREVEELLRLEELAKILGVPV-------FEVSAKTG---EGVDELFEK 158

Query: 201 M 201
           +
Sbjct: 159 L 159

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|216791 pfam01926, MMR_HSR1, 50S ribosome-binding GTPase

 Score = 48.1 bits (115), Expect = 2e-07
 Identities = 29/125 (23%), Positives = 52/125 (41%), Gaps = 9/125 (7%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
            V LVGR   GKS   N++ G +     +   G T   +    VL  G+ + ++DTPG  
Sbjct: 1   RVALVGRPNVGKSTLINALTGAKVAIV-SDYPGTTR--DPILGVLGLGRQIILVDTPG-L 56

Query: 81  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 140
              A      +   + +   ++    +L+V       ++++E  L  L+ L  K     +
Sbjct: 57  IEGASEGKGVEGFNRFLEAIRE-ADLILLVVDASEGLTEDDEEILEELEKLPKKP----I 111

Query: 141 IVVFT 145
           I+V  
Sbjct: 112 ILVLN 116

The full-length GTPase protein is required for the complete activity of the protein of interacting with the 50S ribosome and binding of both adenine and guanine nucleotides, with a preference for guanine nucleotide. Length = 117

>gnl|CDD|206739 cd09912, DLP_2, Dynamin-like protein including dynamins, mitofusins, and guanylate-binding proteins

 Score = 48.3 bits (116), Expect = 4e-07
 Identities = 42/194 (21%), Positives = 72/194 (37%), Gaps = 20/194 (10%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
            + +VG    GKS   N++LG     +    +  T+   + R  L  G  V ++DTPGL 
Sbjct: 2   LLAVVGEFSAGKSTLLNALLGEEVLPT--GVTPTTAVITVLRYGLLKG--VVLVDTPGLN 57

Query: 81  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 140
                   + +  +           AV+ V S     ++ E   L  +    GKKIF   
Sbjct: 58  STIEHHTEITESFLP-------RADAVIFVLSADQPLTESEREFLKEILKWSGKKIF--- 107

Query: 141 IVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDS---LKGYSKREISEL 197
             V    D L + +        RE    L+ G      + F V +   L+   + +   L
Sbjct: 108 -FVLNKIDLLSEEELEEVLEYSREELGVLELG--GGEPRIFPVSAKEALEARLQGDEELL 164

Query: 198 KEQMHKSYEDQLKR 211
           ++   +  E+ L+ 
Sbjct: 165 EQSGFEELEEHLEE 178

The dynamin family of large mechanochemical GTPases includes the classical dynamins and dynamin-like proteins (DLPs) that are found throughout the Eukarya. This family also includes bacterial DLPs. These proteins catalyze membrane fission during clathrin-mediated endocytosis. Dynamin consists of five domains; an N-terminal G domain that binds and hydrolyzes GTP, a middle domain (MD) involved in self-assembly and oligomerization, a pleckstrin homology (PH) domain responsible for interactions with the plasma membrane, GED, which is also involved in self-assembly, and a proline arginine rich domain (PRD) that interacts with SH3 domains on accessory proteins. To date, three vertebrate dynamin genes have been identified; dynamin 1, which is brain specific, mediates uptake of synaptic vesicles in presynaptic terminals; dynamin-2 is expressed ubiquitously and similarly participates in membrane fission; mutations in the MD, PH and GED domains of dynamin 2 have been linked to human diseases such as Charcot-Marie-Tooth peripheral neuropathy and rare forms of centronuclear myopathy. Dynamin 3 participates in megakaryocyte progenitor amplification, and is also involved in cytoplasmic enlargement and the formation of the demarcation membrane system. This family also includes mitofusins (MFN1 and MFN2 in mammals) that are involved in mitochondrial fusion. Dynamin oligomerizes into helical structures around the neck of budding vesicles in a GTP hydrolysis-dependent manner. Length = 180

>gnl|CDD|233224 TIGR00993, 3a0901s04IAP86, chloroplast protein import component Toc86/159, G and M domains

 Score = 49.6 bits (118), Expect = 8e-07
 Identities = 26/59 (44%), Positives = 36/59 (61%), Gaps = 2/59 (3%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
            ++++G++G GKSAT NSI G   F + A   G TS  E++  V   G  + VIDTPGL
Sbjct: 120 NILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLV--QGVKIRVIDTPGL 176

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 [Transport and binding proteins, Amino acids, peptides and amines]. Length = 763

>gnl|CDD|206646 cd00880, Era_like, E

 Score = 46.5 bits (111), Expect = 2e-06
 Identities = 34/133 (25%), Positives = 54/133 (40%), Gaps = 11/133 (8%)

Query: 23  VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF 82
            + GR   GKS+  N++LG+      +   G T     +   L     V +IDTPGL + 
Sbjct: 1   AIFGRPNVGKSSLLNALLGQNVGIV-SPIPGTTRDPVRKEWELLPLGPVVLIDTPGLDEE 59

Query: 83  SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIV 142
                   +E  +      D    VL+V  V S  +  EE A   L    GK +    ++
Sbjct: 60  GGLGRERVEEARQVA----DRADLVLLV--VDSDLTPVEEEAKLGLLRERGKPV----LL 109

Query: 143 VFTGGDELEDNDE 155
           V    D + +++E
Sbjct: 110 VLNKIDLVPESEE 122

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|130064 TIGR00991, 3a0901s02IAP34, GTP-binding protein (Chloroplast Envelope Protein Translocase)

 Score = 42.6 bits (100), Expect = 9e-05
 Identities = 24/61 (39%), Positives = 36/61 (59%), Gaps = 2/61 (3%)

Query: 21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
          T++++G+ G GKS+T NSI+G R     A  S       + RT  + G  +N+IDTPGL 
Sbjct: 40 TILVMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRT--RAGFTLNIIDTPGLI 97

Query: 81 D 81
          +
Sbjct: 98 E 98

[Transport and binding proteins, Nucleosides, purines and pyrimidines]. Length = 313

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

 Score = 38.9 bits (91), Expect = 6e-04
 Identities = 21/91 (23%), Positives = 34/91 (37%), Gaps = 3/91 (3%)

Query: 19  ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV-VNVIDTP 77
           E  +V+VG    GKS   N +LG +   +     G T                 N++DT 
Sbjct: 1   EIKIVIVGDPNVGKSTLLNRLLGNKISIT-EYKPGTTRNYVTTVIEEDGKTYKFNLLDTA 59

Query: 78  GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVL 108
           G  D+ A      + +   + +  D +  VL
Sbjct: 60  GQEDYDAIRRLYYRAVESSLRVF-DIVILVL 89

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|232975 TIGR00437, feoB, ferrous iron transporter FeoB

 Score = 39.3 bits (92), Expect = 0.001
 Identities = 46/184 (25%), Positives = 72/184 (39%), Gaps = 28/184 (15%)

Query: 29  GN---GKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSA 84
           GN   GKS   N++ G     +  +  GVT   E +   L   G+ + ++D PG++  + 
Sbjct: 1   GNPNVGKSTLFNALTGANQ--TVGNWPGVT--VEKKEGKLGFQGEDIEIVDLPGIYSLTT 56

Query: 85  GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTL-FGKKIFDYMIVV 143
            S    +E V    +  +    V+ V       S  E     +LQ L  G      MI+ 
Sbjct: 57  FS---LEEEVARDYLLNEKPDLVVNVVDA----SNLERNLYLTLQLLELGIP----MILA 105

Query: 144 FTGGDELED-----NDETLEDYLGRECPKPL---KKGATKLRDQQFEVDSLKGYSKREIS 195
               DE E      ++E LE+ LG           +G  +L+D   +   LK   KR I 
Sbjct: 106 LNLVDEAEKKGIRIDEEKLEERLGVPVVPTSATEGRGIERLKDAIRKAIGLKELKKRAIE 165

Query: 196 ELKE 199
            + E
Sbjct: 166 IVPE 169

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 [Transport and binding proteins, Cations and iron carrying compounds]. Length = 591

>gnl|CDD|206649 cd01850, CDC_Septin, CDC/Septin GTPase family

 Score = 38.7 bits (91), Expect = 0.001
 Identities = 22/70 (31%), Positives = 38/70 (54%), Gaps = 8/70 (11%)

Query: 21 TVVLVGRTGNGKSATGNSILGRRAFKSR---ASSSGVTSTCEMQRT--VLKDGQV---VN 72
           +++VG +G GKS   N++ G + + S+   A    +T T E++ +   L++  V   + 
Sbjct: 6  NIMVVGESGLGKSTFINTLFGTKLYPSKYPPAPGEHITKTVEIKISKAELEENGVKLKLT 65

Query: 73 VIDTPGLFDF 82
          VIDTPG  D 
Sbjct: 66 VIDTPGFGDN 75

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|201420 pfam00735, Septin, Septin

 Score = 38.4 bits (90), Expect = 0.002
 Identities = 17/71 (23%), Positives = 30/71 (42%), Gaps = 8/71 (11%)

Query: 21 TVVLVGRTGNGKSATGNSILGR-----RAFKSRASSSGVTSTCEMQRTVLKDGQV---VN 72
          T+++VG +G GK+   N++        R     +     T   +     +++  V   + 
Sbjct: 6  TLMVVGESGLGKTTLINTLFLTDLIPERGIPGPSEKIKKTVEIKATTVEIEEDGVKLNLT 65

Query: 73 VIDTPGLFDFS 83
          VIDTPG  D  
Sbjct: 66 VIDTPGFGDAI 76

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|224082 COG1160, COG1160, Predicted GTPases [General function prediction only]

 Score = 38.7 bits (91), Expect = 0.002
 Identities = 29/109 (26%), Positives = 43/109 (39%), Gaps = 16/109 (14%)

Query: 20  RTVVLVGRTGNGKSATGNSILGRRAFKSRASS-SGVT-----STCEMQRTVLKDGQVVNV 73
             V +VGR   GKS   N + GRR   +  S   GVT        E        G+   +
Sbjct: 4   PVVAIVGRPNVGKSTLFNRLTGRR--IAIVSDTPGVTRDRIYGDAEWL------GREFIL 55

Query: 74  IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE 122
           IDT GL D     + + + I +   +A +    +L V   R   +  +E
Sbjct: 56  IDTGGLDDGDE--DELQELIREQALIAIEEADVILFVVDGREGITPADE 102

Length = 444

>gnl|CDD|185391 PRK15494, era, GTPase Era; Provisional

 Score = 38.2 bits (88), Expect = 0.003
 Identities = 35/123 (28%), Positives = 55/123 (44%), Gaps = 17/123 (13%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV------LKDGQVVNVI 74
           +V ++GR  +GKS   N I+G +        S VT   +  R++      LKD QV+ + 
Sbjct: 54  SVCIIGRPNSGKSTLLNRIIGEKL-------SIVTPKVQTTRSIITGIITLKDTQVI-LY 105

Query: 75  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK 134
           DTPG+F+     E   K +V+C   +      VL++      F       L  L++L   
Sbjct: 106 DTPGIFEPKGSLE---KAMVRCAWSSLHSADLVLLIIDSLKSFDDITHNILDKLRSLNIV 162

Query: 135 KIF 137
            IF
Sbjct: 163 PIF 165

Length = 339

>gnl|CDD|223447 COG0370, FeoB, Fe2+ transport system protein B [Inorganic ion transport and metabolism]

 Score = 38.4 bits (90), Expect = 0.003
 Identities = 46/197 (23%), Positives = 72/197 (36%), Gaps = 40/197 (20%)

Query: 19  ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTP 77
           + TV LVG    GK+   N++ G  A +   +  GVT   E +   LK  G  + ++D P
Sbjct: 3   KLTVALVGNPNVGKTTLFNALTG--ANQKVGNWPGVT--VEKKEGKLKYKGHEIEIVDLP 58

Query: 78  GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTL-FGKKI 136
           G +  +A SE    E V    + +     ++ V  V +  +  E     +LQ L  G   
Sbjct: 59  GTYSLTAYSE---DEKVARDFLLEGKPDLIVNV--VDA--TNLERNLYLTLQLLELGIP- 110

Query: 137 FDYMIVVFTGGDELED-----NDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSK 191
              MI+     DE +      + E L   LG   P                V        
Sbjct: 111 ---MILALNMIDEAKKRGIRIDIEKLSKLLG--VP----------------VVPTVAKRG 149

Query: 192 REISELKEQMHKSYEDQ 208
             + ELK  + +  E +
Sbjct: 150 EGLEELKRAIIELAESK 166

Length = 653

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	253
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.97
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.96
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.9
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.87
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.84
COG1159	298	Era GTPase [General function prediction only]	99.8
COG1160	444	Predicted GTPases [General function prediction onl	99.77
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.75
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.73
PRK00089	292	era GTPase Era; Reviewed	99.72
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.71
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.71
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.71
PRK15494	339	era GTPase Era; Provisional	99.7
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.7
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.7
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	99.69
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.69
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	99.69
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.68
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.68
COG1084	346	Predicted GTPase [General function prediction only	99.68
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.67
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.67
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.67
PRK00093	435	GTP-binding protein Der; Reviewed	99.67
COG0218	200	Predicted GTPase [General function prediction only	99.67
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.67
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.67
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.66
PRK03003	472	GTP-binding protein Der; Reviewed	99.66
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.66
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.66
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.66
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.66
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.66
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.66
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.66
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.65
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	99.65
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.65
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.65
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.65
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.65
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.64
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.64
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.64
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.64
PRK12299	335	obgE GTPase CgtA; Reviewed	99.64
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.64
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.64
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.64
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.64
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.64
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.64
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.63
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.63
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.63
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.63
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.63
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.63
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.62
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.62
PRK12298	390	obgE GTPase CgtA; Reviewed	99.62
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.62
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.62
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.62
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.62
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.61
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.61
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.61
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.61
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.61
PRK00093	435	GTP-binding protein Der; Reviewed	99.61
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.61
PLN03118	211	Rab family protein; Provisional	99.61
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.61
PLN03110	216	Rab GTPase; Provisional	99.61
cd00881	189	GTP_translation_factor GTP translation factor fami	99.61
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.61
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.61
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.61
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.61
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.6
COG3596	296	Predicted GTPase [General function prediction only	99.6
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.6
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.6
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.6
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.6
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	99.6
PRK12297	424	obgE GTPase CgtA; Reviewed	99.6
PTZ00369	189	Ras-like protein; Provisional	99.6
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.6
COG1160	444	Predicted GTPases [General function prediction onl	99.6
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.59
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.59
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	99.59
PLN03108	210	Rab family protein; Provisional	99.59
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.59
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.59
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.59
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.59
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.59
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.58
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.58
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.58
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.58
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	99.58
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.58
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	99.58
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.58
PRK11058	426	GTPase HflX; Provisional	99.58
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	99.58
PRK04213	201	GTP-binding protein; Provisional	99.57
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.57
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.57
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.57
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.57
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.57
PRK03003	472	GTP-binding protein Der; Reviewed	99.57
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.57
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	99.57
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.56
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.56
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.56
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.56
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.56
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.56
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.56
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.56
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.56
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.56
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.56
COG0486	454	ThdF Predicted GTPase [General function prediction	99.56
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.56
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.56
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.56
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.56
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.56
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.55
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.55
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.55
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.55
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.55
PLN00223	181	ADP-ribosylation factor; Provisional	99.55
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.55
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.55
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	99.55
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.54
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.54
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.54
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.54
PTZ00133	182	ADP-ribosylation factor; Provisional	99.54
PRK12296	500	obgE GTPase CgtA; Reviewed	99.54
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.54
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.54
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	99.54
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.53
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	99.53
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.52
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.52
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.52
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.52
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.52
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.52
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.52
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	99.52
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.52
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.51
PLN00023	334	GTP-binding protein; Provisional	99.51
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.51
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.51
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.51
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.51
CHL00071	409	tufA elongation factor Tu	99.51
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.5
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.5
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.5
CHL00189	742	infB translation initiation factor 2; Provisional	99.5
PRK05306	787	infB translation initiation factor IF-2; Validated	99.5
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.5
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.5
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.5
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.49
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.48
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.47
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.47
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.47
PRK12735	396	elongation factor Tu; Reviewed	99.47
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.46
COG2262	411	HflX GTPases [General function prediction only]	99.46
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.46
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.46
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.46
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.46
PRK12317	425	elongation factor 1-alpha; Reviewed	99.45
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.45
COG0488	530	Uup ATPase components of ABC transporters with dup	99.45
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.45
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.44
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.44
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.44
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.44
PRK12736	394	elongation factor Tu; Reviewed	99.44
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.43
PRK00049	396	elongation factor Tu; Reviewed	99.43
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.43
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.42
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.42
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.41
PRK09866	741	hypothetical protein; Provisional	99.41
PLN03127	447	Elongation factor Tu; Provisional	99.41
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.41
PRK04004	586	translation initiation factor IF-2; Validated	99.41
COG1100	219	GTPase SAR1 and related small G proteins [General	99.4
PLN03126	478	Elongation factor Tu; Provisional	99.4
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.4
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.4
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.4
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.4
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.39
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.38
PRK12739	691	elongation factor G; Reviewed	99.38
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.37
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.37
PRK00007	693	elongation factor G; Reviewed	99.37
PRK10218	607	GTP-binding protein; Provisional	99.37
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.37
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.37
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.36
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.36
COG2229	187	Predicted GTPase [General function prediction only	99.36
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.36
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	99.36
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.35
COG0536	369	Obg Predicted GTPase [General function prediction	99.33
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.32
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.32
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.31
KOG0394	210	consensus Ras-related GTPase [General function pre	99.31
PTZ00141	446	elongation factor 1- alpha; Provisional	99.31
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	99.31
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	99.31
PRK13351	687	elongation factor G; Reviewed	99.3
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.3
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.3
PRK05433	600	GTP-binding protein LepA; Provisional	99.3
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.28
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.28
KOG1145	683	consensus Mitochondrial translation initiation fac	99.27
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.27
PTZ00416	836	elongation factor 2; Provisional	99.24
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.24
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.23
COG1163	365	DRG Predicted GTPase [General function prediction	99.23
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	99.23
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.22
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.22
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	99.19
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.17
PTZ00258	390	GTP-binding protein; Provisional	99.16
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.16
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.16
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.16
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.15
KOG0395	196	consensus Ras-related GTPase [General function pre	99.15
PRK09601	364	GTP-binding protein YchF; Reviewed	99.14
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	99.12
PLN00043	447	elongation factor 1-alpha; Provisional	99.12
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.11
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.1
PRK07560	731	elongation factor EF-2; Reviewed	99.1
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.1
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.06
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	99.06
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.05
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.04
PRK12740	668	elongation factor G; Reviewed	99.03
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	99.03
PRK09602	396	translation-associated GTPase; Reviewed	99.02
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	99.02
COG0488	530	Uup ATPase components of ABC transporters with dup	99.01
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.0
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	98.98
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	98.96
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	98.96
KOG3883	198	consensus Ras family small GTPase [Signal transduc	98.95
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.94
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	98.93
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	98.9
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.88
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.88
PRK13768	253	GTPase; Provisional	98.86
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	98.86
KOG0090	238	consensus Signal recognition particle receptor, be	98.85
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.84
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.83
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.83
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.83
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.83
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.82
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.82
PRK14845	1049	translation initiation factor IF-2; Provisional	98.81
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	98.8
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	98.8
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.8
cd03230	173	ABC_DR_subfamily_A This family of ATP-binding prot	98.8
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.79
KOG1673	205	consensus Ras GTPases [General function prediction	98.79
PRK12288	347	GTPase RsgA; Reviewed	98.79
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	98.79
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.78
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	98.77
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	98.77
KOG0062	582	consensus ATPase component of ABC transporters wit	98.76
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.76
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	98.75
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	98.75
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.75
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.74
cd03216	163	ABC_Carb_Monos_I This family represents the domain	98.74
PRK12289	352	GTPase RsgA; Reviewed	98.73
KOG2486	320	consensus Predicted GTPase [General function predi	98.73
PRK10416	318	signal recognition particle-docking protein FtsY;	98.73
PRK09435	332	membrane ATPase/protein kinase; Provisional	98.71
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	98.71
cd03223	166	ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cass	98.7
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.69
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	98.69
PRK11147	635	ABC transporter ATPase component; Reviewed	98.69
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	98.69
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.68
PRK00098	298	GTPase RsgA; Reviewed	98.68
COG1162	301	Predicted GTPases [General function prediction onl	98.67
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	98.65
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.65
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.65
KOG0927	614	consensus Predicted transporter (ABC superfamily)	98.65
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.64
cd03246	173	ABCC_Protease_Secretion This family represents the	98.64
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	98.64
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	98.64
KOG0410	410	consensus Predicted GTP binding protein [General f	98.64
COG0050	394	TufB GTPases - translation elongation factors [Tra	98.64
cd03213	194	ABCG_EPDR ABCG transporters are involved in eye pi	98.63
COG3840	231	ThiQ ABC-type thiamine transport system, ATPase co	98.63
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	98.62
COG1161	322	Predicted GTPases [General function prediction onl	98.62
cd03228	171	ABCC_MRP_Like The MRP (Mutidrug Resistance Protein	98.61
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	98.61
cd03215	182	ABC_Carb_Monos_II This family represents domain II	98.6
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	98.6
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.6
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.6
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	98.59
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	98.59
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.59
KOG0461	522	consensus Selenocysteine-specific elongation facto	98.58
PRK14974	336	cell division protein FtsY; Provisional	98.58
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	98.57
KOG3886	295	consensus GTP-binding protein [Signal transduction	98.57
cd03247	178	ABCC_cytochrome_bd The CYD subfamily implicated in	98.56
COG1131	293	CcmA ABC-type multidrug transport system, ATPase c	98.56
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	98.56
cd03217	200	ABC_FeS_Assembly ABC-type transport system involve	98.55
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.55
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	98.54
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	98.54
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.52
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	98.51
cd03232	192	ABC_PDR_domain2 The pleiotropic drug resistance-li	98.51
KOG0066	807	consensus eIF2-interacting protein ABC50 (ABC supe	98.51
PTZ00099	176	rab6; Provisional	98.48
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	98.47
cd03214	180	ABC_Iron-Siderophores_B12_Hemin ABC transporters,	98.47
COG4586	325	ABC-type uncharacterized transport system, ATPase	98.47
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	98.47
COG4988	559	CydD ABC-type transport system involved in cytochr	98.46
COG1122	235	CbiO ABC-type cobalt transport system, ATPase comp	98.45
PRK11147	635	ABC transporter ATPase component; Reviewed	98.44
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	98.44
cd03274	212	ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC protein	98.44
PRK10636	638	putative ABC transporter ATP-binding protein; Prov	98.43
cd03231	201	ABC_CcmA_heme_exporter CcmA, the ATP-binding compo	98.43
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.43
COG1135	339	AbcC ABC-type metal ion transport system, ATPase c	98.43
COG1124	252	DppF ABC-type dipeptide/oligopeptide/nickel transp	98.43
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.43
PRK13543	214	cytochrome c biogenesis protein CcmA; Provisional	98.42
COG2884	223	FtsE Predicted ATPase involved in cell division [C	98.42
cd03237	246	ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 o	98.42
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	98.41
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	98.41
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.4
cd03243	202	ABC_MutS_homologs The MutS protein initiates DNA m	98.4
cd03218	232	ABC_YhbG The ABC transporters belonging to the Yhb	98.4
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	98.39
cd03264	211	ABC_drug_resistance_like ABC-type multidrug transp	98.39
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	98.39
COG1134	249	TagH ABC-type polysaccharide/polyol phosphate tran	98.39
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	98.38
PRK13796	365	GTPase YqeH; Provisional	98.38
PLN03073	718	ABC transporter F family; Provisional	98.38
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	98.37
COG4559	259	ABC-type hemin transport system, ATPase component	98.36
TIGR03719	552	ABC_ABC_ChvD ATP-binding cassette protein, ChvD fa	98.36
cd03280	200	ABC_MutS2 MutS2 homologs in bacteria and eukaryote	98.36
KOG0927	614	consensus Predicted transporter (ABC superfamily)	98.36
TIGR02868	529	CydC thiol reductant ABC exporter, CydC subunit. T	98.35
COG3839	338	MalK ABC-type sugar transport systems, ATPase comp	98.35
PRK11248	255	tauB taurine transporter ATP-binding subunit; Prov	98.35
PRK09544	251	znuC high-affinity zinc transporter ATPase; Review	98.35
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.35
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	98.34
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.34
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	98.33
cd03224	222	ABC_TM1139_LivF_branched LivF (TM1139) is part of	98.33
PRK11247	257	ssuB aliphatic sulfonates transport ATP-binding su	98.33
cd03268	208	ABC_BcrA_bacitracin_resist The BcrA subfamily repr	98.33
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.33
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	98.33
TIGR03411	242	urea_trans_UrtD urea ABC transporter, ATP-binding	98.32
TIGR01188	302	drrA daunorubicin resistance ABC transporter ATP-b	98.32
PRK13536	340	nodulation factor exporter subunit NodI; Provision	98.32
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	98.32
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	98.32
cd03265	220	ABC_DrrA DrrA is the ATP-binding protein component	98.32
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	98.32
PRK13538	204	cytochrome c biogenesis protein CcmA; Provisional	98.32
cd03263	220	ABC_subfamily_A The ABCA subfamily mediates the tr	98.32
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	98.32
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	98.32
cd03278	197	ABC_SMC_barmotin Barmotin is a tight junction-asso	98.31
TIGR01184	230	ntrCD nitrate transport ATP-binding subunits C and	98.31
TIGR01288	303	nodI ATP-binding ABC transporter family nodulation	98.31
TIGR03608	206	L_ocin_972_ABC putative bacteriocin export ABC tra	98.31
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	98.31
cd03219	236	ABC_Mj1267_LivG_branched The Mj1267/LivG ABC trans	98.31
TIGR03522	301	GldA_ABC_ATP gliding motility-associated ABC trans	98.31
cd03292	214	ABC_FtsE_transporter FtsE is a hydrophilic nucleot	98.31
PRK10895	241	lipopolysaccharide ABC transporter ATP-binding pro	98.31
PRK11174	588	cysteine/glutathione ABC transporter membrane/ATP-	98.31
PRK13546	264	teichoic acids export protein ATP-binding subunit;	98.31
cd03266	218	ABC_NatA_sodium_exporter NatA is the ATPase compon	98.31
COG3523	1188	IcmF Type VI protein secretion system component Va	98.3
PRK00771	437	signal recognition particle protein Srp54; Provisi	98.3
cd03262	213	ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-	98.3
cd03269	210	ABC_putative_ATPase This subfamily is involved in	98.3
TIGR01189	198	ccmA heme ABC exporter, ATP-binding protein CcmA.	98.3
cd03112	158	CobW_like The function of this protein family is u	98.3
cd03259	213	ABC_Carb_Solutes_like ABC Carbohydrate and Solute	98.29
cd03240	204	ABC_Rad50 The catalytic domains of Rad50 are simil	98.29
COG2274	709	SunT ABC-type bacteriocin/lantibiotic exporters, c	98.28
TIGR03410	230	urea_trans_UrtE urea ABC transporter, ATP-binding	98.28
cd03301	213	ABC_MalK_N The N-terminal ATPase domain of the mal	98.28
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	98.28
PRK13537	306	nodulation ABC transporter NodI; Provisional	98.27
PRK10867	433	signal recognition particle protein; Provisional	98.27
PRK11300	255	livG leucine/isoleucine/valine transporter ATP-bin	98.26
PRK10584	228	putative ABC transporter ATP-binding protein YbbA;	98.26
PRK13540	200	cytochrome c biogenesis protein CcmA; Provisional	98.26
cd03294	269	ABC_Pro_Gly_Bertaine This family comprises the gly	98.26
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	98.26
cd03220	224	ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transpo	98.26
TIGR01277	213	thiQ thiamine ABC transporter, ATP-binding protein	98.25
PRK13539	207	cytochrome c biogenesis protein CcmA; Provisional	98.24
cd03279	213	ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complex	98.24
cd03254	229	ABCC_Glucan_exporter_like Glucan exporter ATP-bind	98.24
cd03281	213	ABC_MSH5_euk MutS5 homolog in eukaryotes. The MutS	98.24
COG3845	501	ABC-type uncharacterized transport systems, ATPase	98.24
PRK11176	582	lipid transporter ATP-binding/permease protein; Pr	98.23
TIGR03740	223	galliderm_ABC gallidermin-class lantibiotic protec	98.23
PRK11614	237	livF leucine/isoleucine/valine transporter ATP-bin	98.23
PRK13545	549	tagH teichoic acids export protein ATP-binding sub	98.23
COG4987	573	CydC ABC-type transport system involved in cytochr	98.22
PLN03073	718	ABC transporter F family; Provisional	98.22
PRK10908	222	cell division protein FtsE; Provisional	98.22
PRK13657	588	cyclic beta-1,2-glucan ABC transporter; Provisiona	98.22
PRK15439	510	autoinducer 2 ABC transporter ATP-binding protein	98.21
cd03244	221	ABCC_MRP_domain2 Domain 2 of the ABC subfamily C.	98.2
COG1127	263	Ttg2A ABC-type transport system involved in resist	98.2
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.2
cd03236	255	ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 o	98.2
PRK11819	556	putative ABC transporter ATP-binding protein; Revi	98.2
PRK15064	530	ABC transporter ATP-binding protein; Provisional	98.19
cd03233	202	ABC_PDR_domain1 The pleiotropic drug resistance (P	98.19
cd03245	220	ABCC_bacteriocin_exporters ABC-type bacteriocin ex	98.19
cd03369	207	ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-ty	98.19
PRK09536	402	btuD corrinoid ABC transporter ATPase; Reviewed	98.18
TIGR02857	529	CydD thiol reductant ABC exporter, CydD subunit. U	98.18
COG4598	256	HisP ABC-type histidine transport system, ATPase c	98.18
cd03267	236	ABC_NatA_like Similar in sequence to NatA, this is	98.18
PRK10790	592	putative multidrug transporter membrane\ATP-bindin	98.18
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	98.18
PRK13409	590	putative ATPase RIL; Provisional	98.17
TIGR03771	223	anch_rpt_ABC anchored repeat-type ABC transporter,	98.17
PRK11153	343	metN DL-methionine transporter ATP-binding subunit	98.17
cd03283	199	ABC_MutS-like MutS-like homolog in eukaryotes. The	98.16
TIGR02142	354	modC_ABC molybdenum ABC transporter, ATP-binding p	98.16
PRK13631	320	cbiO cobalt transporter ATP-binding subunit; Provi	98.16

>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=99.97  E-value=3.6e-31  Score=214.23  Aligned_cols=177  Identities=42%  Similarity=0.685  Sum_probs=135.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|++|+||||++|+|+|...+..+....+.|..+...... ..++.++||||||++++....+.+.+++.+++..
T Consensus         1 l~IlllG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~-~~g~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~   79 (212)
T PF04548_consen    1 LRILLLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGE-VDGRQVTVIDTPGLFDSDGSDEEIIREIKRCLSL   79 (212)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEE-ETTEEEEEEE--SSEETTEEHHHHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeee-ecceEEEEEeCCCCCCCcccHHHHHHHHHHHHHh
Confidence            589999999999999999999999988887777888888877664 6899999999999999888778888999999999


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhh---------
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK---------  170 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~---------  170 (253)
                      +.++||+||||++++ +++..+...++.+.+.||..+|++++||+|++|.+.  +..+++|+....+..|+         
T Consensus        80 ~~~g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~~~k~~ivvfT~~d~~~--~~~~~~~l~~~~~~~l~~li~~c~~R  156 (212)
T PF04548_consen   80 CSPGPHAFLLVIPLG-RFTEEDREVLELLQEIFGEEIWKHTIVVFTHADELE--DDSLEDYLKKESNEALQELIEKCGGR  156 (212)
T ss_dssp             TTT-ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGGGGGGEEEEEEEGGGGT--TTTHHHHHHHHHHHHHHHHHHHTTTC
T ss_pred             ccCCCeEEEEEEecC-cchHHHHHHHHHHHHHccHHHHhHhhHHhhhccccc--cccHHHHHhccCchhHhHHhhhcCCE
Confidence            999999999999999 999999999999999999999999999999999998  66677777732222222         


Q ss_pred             ----------------hhHHHhhhHHHHHHHcCC--CCHHHHHHHHHH
Q 025391          171 ----------------KGATKLRDQQFEVDSLKG--YSKREISELKEQ  200 (253)
Q Consensus       171 ----------------~~~~~~~~~~~~~~~~~g--y~~~~~~~~~~~  200 (253)
                                      +...+++.++.|+.+++|  |+++.+++.+++
T Consensus       157 ~~~f~n~~~~~~~~~~qv~~Ll~~ie~mv~~n~g~~~~~~~~~~~~~~  204 (212)
T PF04548_consen  157 YHVFNNKTKDKEKDESQVSELLEKIEEMVQENGGQYYSNEMFEEAEER  204 (212)
T ss_dssp             EEECCTTHHHHHHHHHHHHHHHHHHHHHHHHTTTT--B-HHHHHHHHC
T ss_pred             EEEEeccccchhhhHHHHHHHHHHHHHHHHHcCCCCCChHHHHHHHHH
Confidence                            123455666666666666  666555544443

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 ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.96  E-value=9.2e-28  Score=192.28  Aligned_cols=154  Identities=51%  Similarity=0.809  Sum_probs=130.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|++|+|||||+|+|+|...+..+....+.|..+...... ..+..++||||||+.++....+....++.+++..
T Consensus         1 ~~i~lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~-~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~   79 (196)
T cd01852           1 LRLVLVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAV-WDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSL   79 (196)
T ss_pred             CEEEEECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEE-ECCeEEEEEECcCCCCccCChHHHHHHHHHHHHh
Confidence            489999999999999999999998877766666788887776665 3788999999999998876666777888888888


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhhhHHHhhhH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQ  179 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  179 (253)
                      +.+++|++|+|++++ +++..+...++.+.+.||..++.++++|+||+|.+.  +..+++|+.. ....          +
T Consensus        80 ~~~g~~~illVi~~~-~~t~~d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~--~~~~~~~~~~-~~~~----------l  145 (196)
T cd01852          80 SAPGPHAFLLVVPLG-RFTEEEEQAVETLQELFGEKVLDHTIVLFTRGDDLE--GGTLEDYLEN-SCEA----------L  145 (196)
T ss_pred             cCCCCEEEEEEEECC-CcCHHHHHHHHHHHHHhChHhHhcEEEEEECccccC--CCcHHHHHHh-ccHH----------H
Confidence            889999999999998 499999999999999999999999999999999998  6788999884 3222          5


Q ss_pred             HHHHHHcCC
Q 025391          180 QFEVDSLKG  188 (253)
Q Consensus       180 ~~~~~~~~g  188 (253)
                      ..+++.|++
T Consensus       146 ~~l~~~c~~  154 (196)
T cd01852         146 KRLLEKCGG  154 (196)
T ss_pred             HHHHHHhCC
Confidence            555666666

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).

>TIGR00991 3a0901s02IAP34 GTP-binding protein (Chloroplast Envelope Protein Translocase)

Probab=99.90  E-value=2e-22  Score=168.52  Aligned_cols=159  Identities=23%  Similarity=0.290  Sum_probs=115.9

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      +......++|+|+|.+|+|||||+|+|+|...+..+... +.+..+...... ..+..+.||||||+.+.....+.....
T Consensus        32 ~~~~~~~~rIllvGktGVGKSSliNsIlG~~v~~vs~f~-s~t~~~~~~~~~-~~G~~l~VIDTPGL~d~~~~~e~~~~~  109 (313)
T TIGR00991        32 KEEDVSSLTILVMGKGGVGKSSTVNSIIGERIATVSAFQ-SEGLRPMMVSRT-RAGFTLNIIDTPGLIEGGYINDQAVNI  109 (313)
T ss_pred             ccccccceEEEEECCCCCCHHHHHHHHhCCCcccccCCC-CcceeEEEEEEE-ECCeEEEEEECCCCCchHHHHHHHHHH
Confidence            344556789999999999999999999999864433221 222222222233 478999999999998754322222222


Q ss_pred             HHHHHHhhcCCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhh
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK  171 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~  171 (253)
                      + +++ ....++|++|||++++ .+++..+..+++.+...||..+|.+++||+||+|.+.+++.++++|+. .....++.
T Consensus       110 i-k~~-l~~~g~DvVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~~e~fv~-~~~~~lq~  186 (313)
T TIGR00991       110 I-KRF-LLGKTIDVLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLEYNDFFS-KRSEALLR  186 (313)
T ss_pred             H-HHH-hhcCCCCEEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCCHHHHHH-hcHHHHHH
Confidence            2 222 1224799999997764 378889999999999999999999999999999998766889999999 57777765


Q ss_pred             hHHHh
Q 025391          172 GATKL  176 (253)
Q Consensus       172 ~~~~~  176 (253)
                      .....
T Consensus       187 ~i~~~  191 (313)
T TIGR00991       187 VIHSG  191 (313)
T ss_pred             HHHHH
Confidence            55433

>TIGR00993 3a0901s04IAP86 chloroplast protein import component Toc86/159, G and M domains

Probab=99.87  E-value=3.3e-21  Score=173.18  Aligned_cols=162  Identities=21%  Similarity=0.279  Sum_probs=119.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+|+|++|+|||||+|+|+|...+.......++| .+...... ..+..+.||||||+.++.... .....+..++
T Consensus       117 fslrIvLVGKTGVGKSSLINSILGekvf~vss~~~~TT-r~~ei~~~-idG~~L~VIDTPGL~dt~~dq-~~neeILk~I  193 (763)
T TIGR00993       117 FSLNILVLGKSGVGKSATINSIFGEVKFSTDAFGMGTT-SVQEIEGL-VQGVKIRVIDTPGLKSSASDQ-SKNEKILSSV  193 (763)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhccccccccCCCCCce-EEEEEEEE-ECCceEEEEECCCCCccccch-HHHHHHHHHH
Confidence            34799999999999999999999998776654333333 33222222 468899999999999875432 2344555555


Q ss_pred             Hhh--cCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCCh-----hhHHHHHcccCCchh
Q 025391           98 GMA--KDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND-----ETLEDYLGRECPKPL  169 (253)
Q Consensus        98 ~~~--~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~-----~~~~~~~~~~~~~~l  169 (253)
                      ..+  ..++|++|||++++. +.+.++...++.+.+.||..+|.++|||+||+|.+.+++     .++++|+. .+...+
T Consensus       194 k~~Lsk~gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lppdg~ng~~~tye~fv~-~rs~~L  272 (763)
T TIGR00993       194 KKFIKKNPPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAPPDGPNGTPLSYDVFVA-QRSHIV  272 (763)
T ss_pred             HHHHhcCCCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCCCCCCCCCCcCHHHHHh-hChHHH
Confidence            333  247899999998862 334467889999999999999999999999999997432     68999998 577777


Q ss_pred             hhhHHHhhhHHHHH
Q 025391          170 KKGATKLRDQQFEV  183 (253)
Q Consensus       170 ~~~~~~~~~~~~~~  183 (253)
                      ++...++.....++
T Consensus       273 q~~Irq~~g~~~l~  286 (763)
T TIGR00993       273 QQAIGQAVGDLRLM  286 (763)
T ss_pred             HHHHHHhcCcceec
Confidence            76666555544433

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.

>cd01853 Toc34_like Toc34-like (Translocon at the Outer-envelope membrane of Chloroplasts)

Probab=99.84  E-value=1.6e-19  Score=148.87  Aligned_cols=136  Identities=29%  Similarity=0.331  Sum_probs=100.4

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .....++|+|+|++|+|||||+|+|+|...+..+.. .+.|..+...... .++..+.||||||+.++.... .....+.
T Consensus        27 ~~~~~~~IllvG~tGvGKSSliNaLlg~~~~~v~~~-~~~T~~~~~~~~~-~~g~~i~vIDTPGl~~~~~~~-~~~~~~~  103 (249)
T cd01853          27 ELDFSLTILVLGKTGVGKSSTINSIFGERKAATSAF-QSETLRVREVSGT-VDGFKLNIIDTPGLLESVMDQ-RVNRKIL  103 (249)
T ss_pred             hccCCeEEEEECCCCCcHHHHHHHHhCCCCcccCCC-CCceEEEEEEEEE-ECCeEEEEEECCCcCcchhhH-HHHHHHH
Confidence            345668999999999999999999999876544422 2345545444443 578899999999998764322 1223333


Q ss_pred             HHHHhhc--CCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           95 KCIGMAK--DGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        95 ~~~~~~~--~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      ..+..+.  .++|+++||..++ .+++..+..+++.+.+.||..+|.+++||+||+|...++
T Consensus       104 ~~I~~~l~~~~idvIL~V~rlD~~r~~~~d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~p~  165 (249)
T cd01853         104 SSIKRYLKKKTPDVVLYVDRLDMYRRDYLDLPLLRAITDSFGPSIWRNAIVVLTHAASSPPD  165 (249)
T ss_pred             HHHHHHHhccCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhChhhHhCEEEEEeCCccCCCC
Confidence            3333222  3679999998775 378888899999999999999999999999999998743

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.

>COG1159 Era GTPase [General function prediction only]

Probab=99.80  E-value=1.6e-18  Score=142.30  Aligned_cols=123  Identities=22%  Similarity=0.309  Sum_probs=101.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||++++|||||+|.|+|....  -.++.+.|+......+...++..++++||||++..   .....+.+.+....
T Consensus         7 GfVaIiGrPNvGKSTLlN~l~G~Kis--IvS~k~QTTR~~I~GI~t~~~~QiIfvDTPGih~p---k~~l~~~m~~~a~~   81 (298)
T COG1159           7 GFVAIIGRPNVGKSTLLNALVGQKIS--IVSPKPQTTRNRIRGIVTTDNAQIIFVDTPGIHKP---KHALGELMNKAARS   81 (298)
T ss_pred             EEEEEEcCCCCcHHHHHHHHhcCceE--eecCCcchhhhheeEEEEcCCceEEEEeCCCCCCc---chHHHHHHHHHHHH
Confidence            57999999999999999999999984  44555666666666666667889999999999875   34455777788888


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ++..+|+++||+|++..++..+...++.++..     ..|+++++||.|....
T Consensus        82 sl~dvDlilfvvd~~~~~~~~d~~il~~lk~~-----~~pvil~iNKID~~~~  129 (298)
T COG1159          82 ALKDVDLILFVVDADEGWGPGDEFILEQLKKT-----KTPVILVVNKIDKVKP  129 (298)
T ss_pred             HhccCcEEEEEEeccccCCccHHHHHHHHhhc-----CCCeEEEEEccccCCc
Confidence            88999999999999988999999998888772     2489999999999873

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.77  E-value=1.5e-17  Score=143.78  Aligned_cols=155  Identities=24%  Similarity=0.218  Sum_probs=117.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +.|+|||++++|||||+|+|+|....... +..|+|.+..+.... +.+..+.+|||+|+.+..  .+...+.++.....
T Consensus         4 ~~VAIVGRPNVGKSTLFNRL~g~r~AIV~-D~pGvTRDr~y~~~~-~~~~~f~lIDTgGl~~~~--~~~l~~~i~~Qa~~   79 (444)
T COG1160           4 PVVAIVGRPNVGKSTLFNRLTGRRIAIVS-DTPGVTRDRIYGDAE-WLGREFILIDTGGLDDGD--EDELQELIREQALI   79 (444)
T ss_pred             CEEEEECCCCCcHHHHHHHHhCCeeeEee-cCCCCccCCccceeE-EcCceEEEEECCCCCcCC--chHHHHHHHHHHHH
Confidence            68999999999999999999999875443 456788888777766 578889999999998533  34455677777777


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhhhHHHhhhH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQ  179 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  179 (253)
                      +...+|++|||+|....+++.|..+.++++..     .+|+++|+||+|... .....-+|++.-.+..+--+..-...+
T Consensus        80 Ai~eADvilfvVD~~~Git~~D~~ia~~Lr~~-----~kpviLvvNK~D~~~-~e~~~~efyslG~g~~~~ISA~Hg~Gi  153 (444)
T COG1160          80 AIEEADVILFVVDGREGITPADEEIAKILRRS-----KKPVILVVNKIDNLK-AEELAYEFYSLGFGEPVPISAEHGRGI  153 (444)
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhc-----CCCEEEEEEcccCch-hhhhHHHHHhcCCCCceEeehhhccCH
Confidence            77888999999999989999999999998842     258999999999984 134556677755555544444444444


Q ss_pred             HHHHH
Q 025391          180 QFEVD  184 (253)
Q Consensus       180 ~~~~~  184 (253)
                      ..+++
T Consensus       154 ~dLld  158 (444)
T COG1160         154 GDLLD  158 (444)
T ss_pred             HHHHH
Confidence            44443

>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=99.75  E-value=4.5e-17  Score=119.33  Aligned_cols=116  Identities=22%  Similarity=0.287  Sum_probs=79.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+|+|.+|+|||||+|+|++......+.. .+.|....+..+. ..+..+.++||||+.+........ ..+...+...
T Consensus         1 ~V~iiG~~~~GKSTlin~l~~~~~~~~~~~-~~~T~~~~~~~~~-~~~~~~~~vDtpG~~~~~~~~~~~-~~~~~~~~~~   77 (116)
T PF01926_consen    1 RVAIIGRPNVGKSTLINALTGKKLAKVSNI-PGTTRDPVYGQFE-YNNKKFILVDTPGINDGESQDNDG-KEIRKFLEQI   77 (116)
T ss_dssp             EEEEEESTTSSHHHHHHHHHTSTSSEESSS-TTSSSSEEEEEEE-ETTEEEEEEESSSCSSSSHHHHHH-HHHHHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHhcccccccccc-ccceeeeeeeeee-eceeeEEEEeCCCCcccchhhHHH-HHHHHHHHHH
Confidence            699999999999999999999754334333 3445545443333 478888999999998644322211 2333444555


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                       ..+|++++|+++..+.+..+..+++++.      ..+|+++|+||
T Consensus        78 -~~~d~ii~vv~~~~~~~~~~~~~~~~l~------~~~~~i~v~NK  116 (116)
T PF01926_consen   78 -SKSDLIIYVVDASNPITEDDKNILRELK------NKKPIILVLNK  116 (116)
T ss_dssp             -CTESEEEEEEETTSHSHHHHHHHHHHHH------TTSEEEEEEES
T ss_pred             -HHCCEEEEEEECCCCCCHHHHHHHHHHh------cCCCEEEEEcC
Confidence             7889999999987544445566666663      23589999997

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 ....

>TIGR00436 era GTP-binding protein Era

Probab=99.73  E-value=1.7e-16  Score=133.13  Aligned_cols=120  Identities=20%  Similarity=0.225  Sum_probs=81.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+|+|++|||||||+|+|+|.......  +.+.|+......+....+..+.+|||||+.+...   ...+.+......+
T Consensus         2 ~V~liG~pnvGKSTLln~L~~~~~~~vs--~~~~TTr~~i~~i~~~~~~qii~vDTPG~~~~~~---~l~~~~~~~~~~~   76 (270)
T TIGR00436         2 FVAILGRPNVGKSTLLNQLHGQKISITS--PKAQTTRNRISGIHTTGASQIIFIDTPGFHEKKH---SLNRLMMKEARSA   76 (270)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCcEeecC--CCCCcccCcEEEEEEcCCcEEEEEECcCCCCCcc---hHHHHHHHHHHHH
Confidence            7999999999999999999998753322  2222332233333334566799999999976421   2223444445556


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..+|++++|+|++...+.. ..++..+.. .    ..|+++|+||+|...
T Consensus        77 l~~aDvvl~VvD~~~~~~~~-~~i~~~l~~-~----~~p~ilV~NK~Dl~~  121 (270)
T TIGR00436        77 IGGVDLILFVVDSDQWNGDG-EFVLTKLQN-L----KRPVVLTRNKLDNKF  121 (270)
T ss_pred             HhhCCEEEEEEECCCCCchH-HHHHHHHHh-c----CCCEEEEEECeeCCC
Confidence            67889999999998655543 444454443 2    258999999999974

Era is an essential GTPase in Escherichia coli and many other bacteria. It plays a role in ribosome biogenesis. Few bacteria lack this protein.

>PRK00089 era GTPase Era; Reviewed

Probab=99.72  E-value=3.2e-16  Score=133.05  Aligned_cols=123  Identities=21%  Similarity=0.296  Sum_probs=86.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ...|+|+|++|||||||+|+|+|.......  +...|+......+....+..++++||||+.+..   ......+.....
T Consensus         5 ~g~V~iiG~pn~GKSTLin~L~g~~~~~vs--~~~~tt~~~i~~i~~~~~~qi~~iDTPG~~~~~---~~l~~~~~~~~~   79 (292)
T PRK00089          5 SGFVAIVGRPNVGKSTLLNALVGQKISIVS--PKPQTTRHRIRGIVTEDDAQIIFVDTPGIHKPK---RALNRAMNKAAW   79 (292)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhCCceeecC--CCCCcccccEEEEEEcCCceEEEEECCCCCCch---hHHHHHHHHHHH
Confidence            368999999999999999999998763332  223333333333333345789999999997644   223344445555


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+...+|++++|+|++..++..+..+++.+...     ..|+++|+||+|...
T Consensus        80 ~~~~~~D~il~vvd~~~~~~~~~~~i~~~l~~~-----~~pvilVlNKiDl~~  127 (292)
T PRK00089         80 SSLKDVDLVLFVVDADEKIGPGDEFILEKLKKV-----KTPVILVLNKIDLVK  127 (292)
T ss_pred             HHHhcCCEEEEEEeCCCCCChhHHHHHHHHhhc-----CCCEEEEEECCcCCC
Confidence            566789999999999876777776666665531     258999999999984

>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=99.71  E-value=8.1e-17  Score=122.87  Aligned_cols=119  Identities=24%  Similarity=0.293  Sum_probs=80.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|.+++|||||+|+|+|..... + ...+.|.......+.. .+..+.++|+||.++......+  +++......
T Consensus         1 i~ialvG~PNvGKStLfN~Ltg~~~~v-~-n~pG~Tv~~~~g~~~~-~~~~~~lvDlPG~ysl~~~s~e--e~v~~~~l~   75 (156)
T PF02421_consen    1 IRIALVGNPNVGKSTLFNALTGAKQKV-G-NWPGTTVEKKEGIFKL-GDQQVELVDLPGIYSLSSKSEE--ERVARDYLL   75 (156)
T ss_dssp             -EEEEEESTTSSHHHHHHHHHTTSEEE-E-ESTTSSSEEEEEEEEE-TTEEEEEEE----SSSSSSSHH--HHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCcee-c-CCCCCCeeeeeEEEEe-cCceEEEEECCCcccCCCCCcH--HHHHHHHHh
Confidence            379999999999999999999998532 2 2356677766665553 7799999999999876543321  222222221


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ...+|++++|+|++ ++. .+..++.++.+. |    .|+++++|++|...
T Consensus        76 -~~~~D~ii~VvDa~-~l~-r~l~l~~ql~e~-g----~P~vvvlN~~D~a~  119 (156)
T PF02421_consen   76 -SEKPDLIIVVVDAT-NLE-RNLYLTLQLLEL-G----IPVVVVLNKMDEAE  119 (156)
T ss_dssp             -HTSSSEEEEEEEGG-GHH-HHHHHHHHHHHT-T----SSEEEEEETHHHHH
T ss_pred             -hcCCCEEEEECCCC-CHH-HHHHHHHHHHHc-C----CCEEEEEeCHHHHH
Confidence             36899999999998 543 334455555553 4    48999999999985

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 ....

>cd04163 Era Era subfamily

Probab=99.71  E-value=4.9e-16  Score=119.89  Aligned_cols=123  Identities=22%  Similarity=0.263  Sum_probs=83.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+++|++|+|||||+|.|+|.........  ..+............+..+.+|||||+.+......   ..+.....
T Consensus         3 ~~~i~~~G~~g~GKttl~~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~---~~~~~~~~   77 (168)
T cd04163           3 SGFVAIVGRPNVGKSTLLNALVGQKISIVSPK--PQTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLG---ERMVKAAW   77 (168)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCceEeccCC--CCceeceEEEEEEcCCeEEEEEECCCCCcchHHHH---HHHHHHHH
Confidence            47999999999999999999999865333221  12222222222233467899999999976432211   22333444


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+.+|++++|++++...+.....+...+...     ..|+++|+||+|...
T Consensus        78 ~~~~~~d~i~~v~d~~~~~~~~~~~~~~~~~~~-----~~~~iiv~nK~Dl~~  125 (168)
T cd04163          78 SALKDVDLVLFVVDASEPIGEGDEFILELLKKS-----KTPVILVLNKIDLVK  125 (168)
T ss_pred             HHHHhCCEEEEEEECCCccCchHHHHHHHHHHh-----CCCEEEEEEchhccc
Confidence            556788999999999866666666666665543     247999999999973

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.

>cd01897 NOG NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans

Probab=99.71  E-value=4.3e-16  Score=121.19  Aligned_cols=124  Identities=23%  Similarity=0.203  Sum_probs=76.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+++|.+|+|||||+|+|++......  .....|......... ..+..+.+|||||+.+.......... . ..+..
T Consensus         1 ~~i~~~G~~~~GKssli~~l~~~~~~~~--~~~~~t~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~~~~~~~~-~-~~~~~   75 (168)
T cd01897           1 PTLVIAGYPNVGKSSLVNKLTRAKPEVA--PYPFTTKSLFVGHFD-YKYLRWQVIDTPGLLDRPLEERNTIE-M-QAITA   75 (168)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCccC--CCCCcccceeEEEEc-cCceEEEEEECCCcCCccccCCchHH-H-HHHHH
Confidence            4899999999999999999999764211  112233334333333 35678999999998653221110000 0 11111


Q ss_pred             hcCCccEEEEEEeCCCCCC---HHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFS---QEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~---~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+|++|+|+|++++.+   .....++..+...++   ..|+++|+||+|...
T Consensus        76 ~~~~~d~~l~v~d~~~~~~~~~~~~~~~~~~l~~~~~---~~pvilv~NK~Dl~~  127 (168)
T cd01897          76 LAHLRAAVLFLFDPSETCGYSLEEQLSLFEEIKPLFK---NKPVIVVLNKIDLLT  127 (168)
T ss_pred             HHhccCcEEEEEeCCcccccchHHHHHHHHHHHhhcC---cCCeEEEEEccccCc
Confidence            1223589999999985433   222445566655432   358999999999975

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.

>PRK15494 era GTPase Era; Provisional

Probab=99.70  E-value=5.3e-16  Score=133.96  Aligned_cols=134  Identities=21%  Similarity=0.287  Sum_probs=88.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|.+|+|||||+|+|+|.......+ ..+.|.......+. .++..+.+|||||+.+....   ....+.+...
T Consensus        52 ~~kV~ivG~~nvGKSTLin~l~~~k~~ivs~-k~~tTr~~~~~~~~-~~~~qi~~~DTpG~~~~~~~---l~~~~~r~~~  126 (339)
T PRK15494         52 TVSVCIIGRPNSGKSTLLNRIIGEKLSIVTP-KVQTTRSIITGIIT-LKDTQVILYDTPGIFEPKGS---LEKAMVRCAW  126 (339)
T ss_pred             eeEEEEEcCCCCCHHHHHHHHhCCceeeccC-CCCCccCcEEEEEE-eCCeEEEEEECCCcCCCccc---HHHHHHHHHH
Confidence            3599999999999999999999987532221 22233333222233 46778999999999653321   2234444444


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      .++.++|++|+|+|....++..+..++..+... +    .|.++|+||+|........+.+++.
T Consensus       127 ~~l~~aDvil~VvD~~~s~~~~~~~il~~l~~~-~----~p~IlViNKiDl~~~~~~~~~~~l~  185 (339)
T PRK15494        127 SSLHSADLVLLIIDSLKSFDDITHNILDKLRSL-N----IVPIFLLNKIDIESKYLNDIKAFLT  185 (339)
T ss_pred             HHhhhCCEEEEEEECCCCCCHHHHHHHHHHHhc-C----CCEEEEEEhhcCccccHHHHHHHHH
Confidence            456788999999998877887776666666542 2    3567899999986422233445554

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.70  E-value=3.7e-16  Score=121.20  Aligned_cols=119  Identities=19%  Similarity=0.156  Sum_probs=76.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||++++++...........+........... .....+.+|||||...           +......
T Consensus         1 ~ki~~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~-----------~~~~~~~   68 (168)
T cd04119           1 IKVISMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVR-NKEVRVNFFDLSGHPE-----------YLEVRNE   68 (168)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEEC-CeEEEEEEEECCccHH-----------HHHHHHH
Confidence            489999999999999999999886533222111111111111111 1245788999999732           3344455


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc---cccCeEEEEEeCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK---KIFDYMIVVFTGGDEL  150 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~---~~~~~~ivv~~k~D~~  150 (253)
                      ++.++|++|+|+|++++-+... ..++..+.+..+.   ....|+++|+||+|..
T Consensus        69 ~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~  123 (168)
T cd04119          69 FYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLT  123 (168)
T ss_pred             HhccCCEEEEEEECCCHHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcc
Confidence            6688999999999985544332 3445555554332   1346899999999986

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.

>TIGR03598 GTPase_YsxC ribosome biogenesis GTP-binding protein YsxC/EngB

Probab=99.70  E-value=1.7e-15  Score=119.43  Aligned_cols=125  Identities=18%  Similarity=0.281  Sum_probs=82.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|+|++|+|||||+|.|++...........+.|..+..+..    +..+.+|||||+........ ....+...
T Consensus        16 ~~~~~i~ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~----~~~~~liDtpG~~~~~~~~~-~~~~~~~~   90 (179)
T TIGR03598        16 DDGPEIAFAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEV----NDGFRLVDLPGYGYAKVSKE-EKEKWQKL   90 (179)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEe----CCcEEEEeCCCCccccCChh-HHHHHHHH
Confidence            45589999999999999999999987521111122334444443322    24789999999865433221 11222222


Q ss_pred             HHhh---cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMA---KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~---~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..+   ....|++++|+|++.+++..+..+++.+...     ..|+++|+||+|...
T Consensus        91 ~~~~l~~~~~~~~ii~vvd~~~~~~~~~~~~~~~~~~~-----~~pviiv~nK~D~~~  143 (179)
T TIGR03598        91 IEEYLEKRENLKGVVLLMDIRHPLKELDLEMLEWLRER-----GIPVLIVLTKADKLK  143 (179)
T ss_pred             HHHHHHhChhhcEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECcccCC
Confidence            2222   2356899999999888988887777666542     257999999999975

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.

>KOG0084 consensus GTPase Rab1/YPT1, small G protein superfamily, and related GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.69  E-value=4.6e-16  Score=119.94  Aligned_cols=151  Identities=15%  Similarity=0.125  Sum_probs=103.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .-++|+|+|.+|+|||.|+.++.+.........+.++........+. .+...+.||||+|.           ++++..+
T Consensus         8 ylFKiiliGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~-gk~iKlQIWDTAGQ-----------ERFrtit   75 (205)
T KOG0084|consen    8 YLFKIILIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELD-GKTIKLQIWDTAGQ-----------ERFRTIT   75 (205)
T ss_pred             eEEEEEEECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeec-ceEEEEEeeecccc-----------HHHhhhh
Confidence            44899999999999999999999887655544455554444333332 23458999999998           6777888


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCc-hhhhh
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPK-PLKKG  172 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~-~l~~~  172 (253)
                      ..+++++|++|+|+|+|..-|... ..|+..+.+..+..  .|.++|.||+|+.+..   ......|.....-. +++++
T Consensus        76 ~syYR~ahGii~vyDiT~~~SF~~v~~Wi~Ei~~~~~~~--v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETS  153 (205)
T KOG0084|consen   76 SSYYRGAHGIIFVYDITKQESFNNVKRWIQEIDRYASEN--VPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETS  153 (205)
T ss_pred             HhhccCCCeEEEEEEcccHHHhhhHHHHHHHhhhhccCC--CCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecc
Confidence            999999999999999997666655 55666666654443  5899999999997421   33444555533332 44444


Q ss_pred             HHHhhhHHHH
Q 025391          173 ATKLRDQQFE  182 (253)
Q Consensus       173 ~~~~~~~~~~  182 (253)
                      .+.-...+..
T Consensus       154 AK~~~NVe~~  163 (205)
T KOG0084|consen  154 AKDSTNVEDA  163 (205)
T ss_pred             cCCccCHHHH
Confidence            4433333333

>cd01878 HflX HflX subfamily

Probab=99.69  E-value=1e-15  Score=123.22  Aligned_cols=128  Identities=25%  Similarity=0.209  Sum_probs=80.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++|+|+|++|||||||+|.|++...+....  ...|.......+.......+.+|||||+.+...  ......+...
T Consensus        39 ~~~~~I~iiG~~g~GKStLl~~l~~~~~~~~~~--~~~t~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~--~~~~~~~~~~  114 (204)
T cd01878          39 SGIPTVALVGYTNAGKSTLFNALTGADVYAEDQ--LFATLDPTTRRLRLPDGREVLLTDTVGFIRDLP--HQLVEAFRST  114 (204)
T ss_pred             cCCCeEEEECCCCCCHHHHHHHHhcchhccCCc--cceeccceeEEEEecCCceEEEeCCCccccCCC--HHHHHHHHHH
Confidence            345899999999999999999999976432221  222333333334332334899999999864322  1122223222


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      + ..+..+|++++|+|++++.+.... .+.+.+... +. ...|+++|+||+|...
T Consensus       115 ~-~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~l~~~-~~-~~~~viiV~NK~Dl~~  167 (204)
T cd01878         115 L-EEVAEADLLLHVVDASDPDYEEQIETVEKVLKEL-GA-EDIPMILVLNKIDLLD  167 (204)
T ss_pred             H-HHHhcCCeEEEEEECCCCChhhHHHHHHHHHHHc-Cc-CCCCEEEEEEccccCC
Confidence            2 234578999999999866555443 333444433 21 1258999999999976

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.

>cd04124 RabL2 RabL2 subfamily

Probab=99.69  E-value=4.9e-16  Score=120.37  Aligned_cols=115  Identities=19%  Similarity=0.115  Sum_probs=74.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ++|+++|.+|+|||||++++++...........+.+...  ..... .....+.+|||||...           +.....
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~~   67 (161)
T cd04124           1 VKIILLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYK--HNAKFEGKTILVDFWDTAGQER-----------FQTMHA   67 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEE--EEEEECCEEEEEEEEeCCCchh-----------hhhhhH
Confidence            489999999999999999998765422221111111111  11111 1234688999999742           334555


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .++.++|++|+|+|++++.+..+ ..++..+.+..   ...|+++|+||.|..
T Consensus        68 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~p~ivv~nK~Dl~  117 (161)
T cd04124          68 SYYHKAHACILVFDVTRKITYKNLSKWYEELREYR---PEIPCIVVANKIDLD  117 (161)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCcEEEEEECccCc
Confidence            66788899999999986655444 34555554432   235899999999974

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

>cd01866 Rab2 Rab2 subfamily

Probab=99.68  E-value=1.2e-15  Score=119.06  Aligned_cols=119  Identities=16%  Similarity=0.115  Sum_probs=76.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|.+|+|||||++.+++.........+.+.+......... .....+.+|||||.           .++.....
T Consensus         4 ~~ki~vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~-----------~~~~~~~~   71 (168)
T cd01866           4 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITID-GKQIKLQIWDTAGQ-----------ESFRSITR   71 (168)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCc-----------HHHHHHHH
Confidence            4799999999999999999999876533332222222222222111 12347899999995           33444455


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++++|+|++++-+... ..++..+.....  ...|++||.||.|...
T Consensus        72 ~~~~~~d~il~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~pvivv~nK~Dl~~  123 (168)
T cd01866          72 SYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSN--SNMTIMLIGNKCDLES  123 (168)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECccccc
Confidence            66678899999999984433332 223333333221  2358999999999874

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

>cd01894 EngA1 EngA1 subfamily

Probab=99.68  E-value=8.4e-16  Score=117.83  Aligned_cols=119  Identities=25%  Similarity=0.283  Sum_probs=83.2

Q ss_pred             EEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcC
Q 025391           23 VLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKD  102 (253)
Q Consensus        23 ~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  102 (253)
                      +++|.+|+|||||+|.|++........ ..+.|......... ..+..+.+|||||+.+...   .....+.........
T Consensus         1 ~l~G~~~~GKssl~~~l~~~~~~~~~~-~~~~t~~~~~~~~~-~~~~~~~i~DtpG~~~~~~---~~~~~~~~~~~~~~~   75 (157)
T cd01894           1 AIVGRPNVGKSTLFNRLTGRRDAIVED-TPGVTRDRIYGEAE-WGGREFILIDTGGIEPDDE---GISKEIREQAELAIE   75 (157)
T ss_pred             CccCCCCCCHHHHHHHHhCCcEEeecC-CCCceeCceeEEEE-ECCeEEEEEECCCCCCchh---HHHHHHHHHHHHHHH
Confidence            589999999999999999875422222 22344444444443 3678899999999976432   223344444445557


Q ss_pred             CccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          103 GIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       103 ~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++|++++|+|+.++.+..+..+.+++... +    .|+++|+||+|...
T Consensus        76 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~-~----~piiiv~nK~D~~~  119 (157)
T cd01894          76 EADVILFVVDGREGLTPADEEIAKYLRKS-K----KPVILVVNKVDNIK  119 (157)
T ss_pred             hCCEEEEEEeccccCCccHHHHHHHHHhc-C----CCEEEEEECcccCC
Confidence            78999999999877777776666666543 2    58999999999986

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.

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.68  E-value=1.2e-15  Score=126.67  Aligned_cols=130  Identities=22%  Similarity=0.247  Sum_probs=90.6

Q ss_pred             CCCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccce-eeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHH
Q 025391           12 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTS-TCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (253)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~   90 (253)
                      +|+.+...++|+++|.+++|||||++.|++..+   ...+.+.|+ ....+++. .++.++.+|||||+.|-....  .+
T Consensus       161 LP~Idp~~pTivVaG~PNVGKSSlv~~lT~Akp---EvA~YPFTTK~i~vGhfe-~~~~R~QvIDTPGlLDRPl~E--rN  234 (346)
T COG1084         161 LPAIDPDLPTIVVAGYPNVGKSSLVRKLTTAKP---EVAPYPFTTKGIHVGHFE-RGYLRIQVIDTPGLLDRPLEE--RN  234 (346)
T ss_pred             CCCCCCCCCeEEEecCCCCcHHHHHHHHhcCCC---ccCCCCccccceeEeeee-cCCceEEEecCCcccCCChHH--hc
Confidence            466666779999999999999999999999875   333444444 44445444 478899999999999854332  22


Q ss_pred             HHHHHHHHhhcCCccEEEEEEeCCC--CCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           91 KEIVKCIGMAKDGIHAVLVVFSVRS--RFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        91 ~~~~~~~~~~~~~~~~~l~v~d~~~--~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .-=.+++.....-.+++||++|++.  .++.+. ..+++.+...|.    .|+++|+||.|...
T Consensus       235 ~IE~qAi~AL~hl~~~IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f~----~p~v~V~nK~D~~~  294 (346)
T COG1084         235 EIERQAILALRHLAGVILFLFDPSETCGYSLEEQISLLEEIKELFK----APIVVVINKIDIAD  294 (346)
T ss_pred             HHHHHHHHHHHHhcCeEEEEEcCccccCCCHHHHHHHHHHHHHhcC----CCeEEEEecccccc
Confidence            2112222222223378999999864  455554 556677777775    47999999999986

>cd01898 Obg Obg subfamily

Probab=99.67  E-value=1.5e-15  Score=118.23  Aligned_cols=124  Identities=20%  Similarity=0.168  Sum_probs=74.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe-EEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ-VVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~-~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +|+++|.+|||||||+|+|.+.... .+. ..+.|.......... .+. .+.+|||||+.+...........+.    .
T Consensus         2 ~v~ivG~~~~GKStl~~~l~~~~~~-v~~-~~~~t~~~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~~~~~~~----~   74 (170)
T cd01898           2 DVGLVGLPNAGKSTLLSAISNAKPK-IAD-YPFTTLVPNLGVVRV-DDGRSFVVADIPGLIEGASEGKGLGHRFL----R   74 (170)
T ss_pred             CeEEECCCCCCHHHHHHHHhcCCcc-ccC-CCccccCCcceEEEc-CCCCeEEEEecCcccCcccccCCchHHHH----H
Confidence            6899999999999999999986541 111 112233333333332 444 8999999998643222111112221    2


Q ss_pred             hcCCccEEEEEEeCCCC-CCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSR-FSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~-~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+|++++|+|++++ -+... ..+.+.+..........|+++|+||+|...
T Consensus        75 ~~~~~d~vi~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~  128 (170)
T cd01898          75 HIERTRLLLHVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLD  128 (170)
T ss_pred             HHHhCCEEEEEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCC
Confidence            22456899999999854 22222 344444544322112468999999999875

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.

>cd04164 trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein found in bacteria and eukaryotes

Probab=99.67  E-value=2.3e-15  Score=115.29  Aligned_cols=120  Identities=26%  Similarity=0.249  Sum_probs=80.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||+|+|++........ ..+.+......... ..+..+.+|||||+.+......   .........
T Consensus         2 ~~i~l~G~~~~GKstli~~l~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~~~i~DtpG~~~~~~~~~---~~~~~~~~~   76 (157)
T cd04164           2 IKVVIVGKPNVGKSSLLNALAGRDRAIVSD-IAGTTRDVIEESID-IGGIPVRLIDTAGIRETEDEIE---KIGIERARE   76 (157)
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCceEeccC-CCCCccceEEEEEE-eCCEEEEEEECCCcCCCcchHH---HHHHHHHHH
Confidence            689999999999999999999876422221 22333333333333 3577899999999976543211   111122234


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++..+|++++|+|++.+.+..+...+..   .    ...|+++|+||+|...
T Consensus        77 ~~~~~~~~v~v~d~~~~~~~~~~~~~~~---~----~~~~vi~v~nK~D~~~  121 (157)
T cd04164          77 AIEEADLVLFVIDASRGLDEEDLEILEL---P----ADKPIIVVLNKSDLLP  121 (157)
T ss_pred             HHhhCCEEEEEEECCCCCCHHHHHHHHh---h----cCCCEEEEEEchhcCC
Confidence            4467899999999997777666554433   2    2358999999999986

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.

>cd01850 CDC_Septin CDC/Septin

Probab=99.67  E-value=6.1e-15  Score=123.78  Aligned_cols=126  Identities=23%  Similarity=0.263  Sum_probs=83.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeeeeeeE-eeCC--eEEEEEeCCCCCCCCCCcHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTV-LKDG--QVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~------~~~~t~~~~~~~~~-~~~~--~~~~liDtpG~~~~~~~~~~~   89 (253)
                      .++|+++|++|+|||||+|+|++.........      ....|......... ..++  ..+++|||||+.+... ....
T Consensus         4 ~f~I~vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~-~~~~   82 (276)
T cd01850           4 QFNIMVVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNIN-NSDC   82 (276)
T ss_pred             EEEEEEEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCcccccc-chhh
Confidence            47999999999999999999999876544321      11223222222111 1234  4799999999987643 3333


Q ss_pred             HHHHHHHHHh----------------h--cCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           90 GKEIVKCIGM----------------A--KDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        90 ~~~~~~~~~~----------------~--~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +..+...+..                .  ...+|+++|+++++. .+.+.+...++.+..      ..|+++|+||+|.+
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 WKPIVDYIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLSK------RVNIIPVIAKADTL  156 (276)
T ss_pred             HHHHHHHHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHhc------cCCEEEEEECCCcC
Confidence            3333322111                1  125799999998863 677788778877764      14799999999998


Q ss_pred             C
Q 025391          151 E  151 (253)
Q Consensus       151 ~  151 (253)
                      .
T Consensus       157 ~  157 (276)
T cd01850         157 T  157 (276)
T ss_pred             C
Confidence            6

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.67  E-value=2.1e-15  Score=134.91  Aligned_cols=132  Identities=22%  Similarity=0.248  Sum_probs=94.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|.+|+|||||+|.|+|........ ..+.|......... +.+..+.+|||||+.+..   ......+......
T Consensus         2 ~~I~ivG~~~vGKStL~n~l~~~~~~~v~~-~~~~t~d~~~~~~~-~~~~~~~liDT~G~~~~~---~~~~~~~~~~~~~   76 (435)
T PRK00093          2 PVVAIVGRPNVGKSTLFNRLTGKRDAIVAD-TPGVTRDRIYGEAE-WLGREFILIDTGGIEPDD---DGFEKQIREQAEL   76 (435)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeCC-CCCCcccceEEEEE-ECCcEEEEEECCCCCCcc---hhHHHHHHHHHHH
Confidence            589999999999999999999986532222 33455555544444 467899999999997622   1233445555556


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      ++..+|++|+|+|++++++..+..+..++.+. +    .|+++|+||+|... ......++..
T Consensus        77 ~~~~ad~il~vvd~~~~~~~~~~~~~~~l~~~-~----~piilv~NK~D~~~-~~~~~~~~~~  133 (435)
T PRK00093         77 AIEEADVILFVVDGRAGLTPADEEIAKILRKS-N----KPVILVVNKVDGPD-EEADAYEFYS  133 (435)
T ss_pred             HHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-C----CcEEEEEECccCcc-chhhHHHHHh
Confidence            66788999999999988898888888887764 3    48999999999653 1233444443

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.67  E-value=4.7e-15  Score=115.82  Aligned_cols=125  Identities=20%  Similarity=0.265  Sum_probs=93.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...+-|+++|+++||||||||+|+|+....-...+.|.|...+++.+.    ..+.++|.||++=...+. .....+...
T Consensus        22 ~~~~EIaF~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~----~~~~lVDlPGYGyAkv~k-~~~e~w~~~   96 (200)
T COG0218          22 DDLPEIAFAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVD----DELRLVDLPGYGYAKVPK-EVKEKWKKL   96 (200)
T ss_pred             CCCcEEEEEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEec----CcEEEEeCCCcccccCCH-HHHHHHHHH
Confidence            345789999999999999999999977422333456777777776543    237899999987555443 444455554


Q ss_pred             HHhhcC---CccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKD---GIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~---~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++.   ...++++++|+.+.+...|++.++++... +    .|++||+||+|.+.
T Consensus        97 i~~YL~~R~~L~~vvlliD~r~~~~~~D~em~~~l~~~-~----i~~~vv~tK~DKi~  149 (200)
T COG0218          97 IEEYLEKRANLKGVVLLIDARHPPKDLDREMIEFLLEL-G----IPVIVVLTKADKLK  149 (200)
T ss_pred             HHHHHhhchhheEEEEEEECCCCCcHHHHHHHHHHHHc-C----CCeEEEEEccccCC
Confidence            443332   35788999999989999999999999875 3    47999999999997

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.67  E-value=2.3e-15  Score=117.23  Aligned_cols=118  Identities=17%  Similarity=0.126  Sum_probs=75.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..+|+++|++|+|||||++++++.........+.+..  .....+... ....+.+|||||...           +....
T Consensus         3 ~~ki~vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~--~~~~~~~~~~~~~~l~l~D~~g~~~-----------~~~~~   69 (167)
T cd01867           3 LFKLLLIGDSGVGKSCLLLRFSEDSFNPSFISTIGID--FKIRTIELDGKKIKLQIWDTAGQER-----------FRTIT   69 (167)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCcCCcccccCccce--EEEEEEEECCEEEEEEEEeCCchHH-----------HHHHH
Confidence            4799999999999999999999876422222222221  122222221 124788999999632           23344


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++++|+|++++.+... ..++..+.....  ...|+++|.||.|...
T Consensus        70 ~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~iiv~nK~Dl~~  122 (167)
T cd01867          70 TAYYRGAMGIILVYDITDEKSFENIRNWMRNIEEHAS--EDVERMLVGNKCDMEE  122 (167)
T ss_pred             HHHhCCCCEEEEEEECcCHHHHHhHHHHHHHHHHhCC--CCCcEEEEEECccccc
Confidence            455678899999999985544333 333343433322  2358999999999974

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

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.67  E-value=1.7e-15  Score=121.66  Aligned_cols=150  Identities=11%  Similarity=0.045  Sum_probs=88.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeee--eeeeEee--CCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE--MQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~--~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ++|+++|.+|+|||||++.+++.......    ..|....  ...+...  ....+.+|||||...           +..
T Consensus         1 ~KivivG~~~vGKTsli~~l~~~~~~~~~----~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~-----------~~~   65 (201)
T cd04107           1 LKVLVIGDLGVGKTSIIKRYVHGIFSQHY----KATIGVDFALKVIEWDPNTVVRLQLWDIAGQER-----------FGG   65 (201)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCC----CCceeEEEEEEEEEECCCCEEEEEEEECCCchh-----------hhh
Confidence            48999999999999999999986542211    1222211  1222221  245788999999742           334


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhc--ccccCeEEEEEeCCCCCCC---ChhhHHHHHcccC-Cch
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG--KKIFDYMIVVFTGGDELED---NDETLEDYLGREC-PKP  168 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g--~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~-~~~  168 (253)
                      ....++.++|++|+|+|++++.+... ..+...+.....  .....|++||+||.|....   ....+.++..... ..+
T Consensus        66 ~~~~~~~~a~~~ilv~D~t~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~  145 (201)
T cd04107          66 MTRVYYRGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGW  145 (201)
T ss_pred             hHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceE
Confidence            45566788999999999986554443 233334433221  1234589999999998621   1334455554322 234


Q ss_pred             hhhhHHHhhhHHHHHH
Q 025391          169 LKKGATKLRDQQFEVD  184 (253)
Q Consensus       169 l~~~~~~~~~~~~~~~  184 (253)
                      +..+......++++++
T Consensus       146 ~e~Sak~~~~v~e~f~  161 (201)
T cd04107         146 FETSAKEGINIEEAMR  161 (201)
T ss_pred             EEEeCCCCCCHHHHHH
Confidence            4444444444444444

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.

>PF00735 Septin: Septin; InterPro: IPR000038 Septins constitute a eukaryotic family of guanine nucleotide-binding proteins, most of which polymerise to form filaments []

Probab=99.66  E-value=2.3e-15  Score=126.35  Aligned_cols=135  Identities=21%  Similarity=0.244  Sum_probs=84.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--------CCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--------SSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEF   88 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--------~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~   88 (253)
                      .++|+++|.+|+|||||+|+|++.........        .............. ..  ...++|+||||+.+.- ....
T Consensus         4 ~fnImVvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~-e~~~~l~LtiiDTpGfGd~i-~n~~   81 (281)
T PF00735_consen    4 NFNIMVVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELE-ENGVKLNLTIIDTPGFGDNI-DNSD   81 (281)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEE-ETCEEEEEEEEEEC-CSSSS-THCH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEec-cCCcceEEEEEeCCCccccc-cchh
Confidence            37999999999999999999999876554310        01111222222222 12  2478899999998753 3344


Q ss_pred             HHHHHHHHHHhhc-----------------CCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           89 VGKEIVKCIGMAK-----------------DGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        89 ~~~~~~~~~~~~~-----------------~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .+..+...+...+                 +++|++||+++++ .++++.+...++.|.+.      .++|+|++|+|.+
T Consensus        82 ~~~~I~~yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di~~mk~Ls~~------vNvIPvIaKaD~l  155 (281)
T PF00735_consen   82 CWEPIVDYIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDIEFMKRLSKR------VNVIPVIAKADTL  155 (281)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHHHHHHHHTTT------SEEEEEESTGGGS
T ss_pred             hhHHHHHHHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHHHHHHHhccc------ccEEeEEeccccc
Confidence            4444444332211                 4579999999986 46899998888777664      4899999999999


Q ss_pred             CCChhhHHHHHcc
Q 025391          151 EDNDETLEDYLGR  163 (253)
Q Consensus       151 ~~~~~~~~~~~~~  163 (253)
                      .  ...+..+...
T Consensus       156 t--~~el~~~k~~  166 (281)
T PF00735_consen  156 T--PEELQAFKQR  166 (281)
T ss_dssp             ---HHHHHHHHHH
T ss_pred             C--HHHHHHHHHH
Confidence            8  7777666553

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.

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.66  E-value=3.8e-15  Score=134.22  Aligned_cols=125  Identities=25%  Similarity=0.217  Sum_probs=91.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +..++|+|||.+|||||||+|+|++....... ...++|......... +.+..+.+|||||+....   ......+...
T Consensus        36 ~~~~~V~IvG~~nvGKSSL~nrl~~~~~~~v~-~~~gvT~d~~~~~~~-~~~~~~~l~DT~G~~~~~---~~~~~~~~~~  110 (472)
T PRK03003         36 GPLPVVAVVGRPNVGKSTLVNRILGRREAVVE-DVPGVTRDRVSYDAE-WNGRRFTVVDTGGWEPDA---KGLQASVAEQ  110 (472)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCcCccccc-CCCCCCEeeEEEEEE-ECCcEEEEEeCCCcCCcc---hhHHHHHHHH
Confidence            34579999999999999999999997643222 234555555544444 477889999999986321   1233445555


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+..+..+..++...     ..|+++|+||+|...
T Consensus       111 ~~~~~~~aD~il~VvD~~~~~s~~~~~i~~~l~~~-----~~piilV~NK~Dl~~  160 (472)
T PRK03003        111 AEVAMRTADAVLFVVDATVGATATDEAVARVLRRS-----GKPVILAANKVDDER  160 (472)
T ss_pred             HHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEECccCCc
Confidence            55666788999999999988888777777777642     258999999999864

>cd04122 Rab14 Rab14 subfamily

Probab=99.66  E-value=2.7e-15  Score=116.65  Aligned_cols=116  Identities=15%  Similarity=0.149  Sum_probs=73.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++++++.........+.+......  .+. ..  ...+.+|||||..           ++....
T Consensus         3 ~ki~iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~--~~~-~~~~~~~l~i~Dt~G~~-----------~~~~~~   68 (166)
T cd04122           3 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTR--IIE-VNGQKIKLQIWDTAGQE-----------RFRAVT   68 (166)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEE--EEE-ECCEEEEEEEEECCCcH-----------HHHHHH
Confidence            6899999999999999999997754222211111111111  112 12  3468899999963           333444


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++-+... ..++..+.....  ...|+++|.||+|...
T Consensus        69 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iiiv~nK~Dl~~  121 (166)
T cd04122          69 RSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN--PNTVIFLIGNKADLEA  121 (166)
T ss_pred             HHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccc
Confidence            556788999999999986544333 233333333222  2358999999999864

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

>cd04171 SelB SelB subfamily

Probab=99.66  E-value=5e-15  Score=114.44  Aligned_cols=116  Identities=22%  Similarity=0.303  Sum_probs=75.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~-~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .|+++|++|+|||||+|+|+|....... ....+.|....+.......+..+.+|||||..           .+...+..
T Consensus         2 ~i~i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~-----------~~~~~~~~   70 (164)
T cd04171           2 IIGTAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPSGKRLGFIDVPGHE-----------KFIKNMLA   70 (164)
T ss_pred             EEEEEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecCCcEEEEEECCChH-----------HHHHHHHh
Confidence            6899999999999999999985321111 11123344444433333226789999999973           22233334


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+.++|++++|+|+++.........+..+.. .+.   +|+++|+||+|...
T Consensus        71 ~~~~ad~ii~V~d~~~~~~~~~~~~~~~~~~-~~~---~~~ilv~NK~Dl~~  118 (164)
T cd04171          71 GAGGIDLVLLVVAADEGIMPQTREHLEILEL-LGI---KRGLVVLTKADLVD  118 (164)
T ss_pred             hhhcCCEEEEEEECCCCccHhHHHHHHHHHH-hCC---CcEEEEEECccccC
Confidence            5578899999999975444444444443332 232   37999999999875

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

>cd01895 EngA2 EngA2 subfamily

Probab=99.66  E-value=5.5e-15  Score=114.94  Aligned_cols=125  Identities=19%  Similarity=0.186  Sum_probs=80.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH-HHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV-KCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~-~~~   97 (253)
                      .++|+++|.+|+|||||+|+|++......... .+.+......... ..+..+.+|||||+.+........ ..+. ...
T Consensus         2 ~~~i~i~G~~~~GKstli~~l~~~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~iiDtpG~~~~~~~~~~~-e~~~~~~~   78 (174)
T cd01895           2 PIRIAIIGRPNVGKSSLVNALLGEERVIVSDI-AGTTRDSIDVPFE-YDGKKYTLIDTAGIRRKGKVEEGI-EKYSVLRT   78 (174)
T ss_pred             CcEEEEEcCCCCCHHHHHHHHhCccceeccCC-CCCccCceeeEEE-ECCeeEEEEECCCCccccchhccH-HHHHHHHH
Confidence            47999999999999999999998764332222 2222222222222 356789999999997653221111 1111 111


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++|++++|+|++.+.+.....++..+...     ..|+++++||+|...
T Consensus        79 ~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~~~~~-----~~~~iiv~nK~Dl~~  127 (174)
T cd01895          79 LKAIERADVVLLVIDATEGITEQDLRIAGLILEE-----GKALVIVVNKWDLVE  127 (174)
T ss_pred             HHHHhhcCeEEEEEeCCCCcchhHHHHHHHHHhc-----CCCEEEEEeccccCC
Confidence            2334678999999999877776665554444331     248999999999876

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.66  E-value=3.5e-15  Score=133.21  Aligned_cols=121  Identities=26%  Similarity=0.297  Sum_probs=91.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+|||++|+|||||+|+|++....... ...+.|..+...... +.+..+.+|||||+...   .......+......+
T Consensus         1 ~i~ivG~~nvGKStL~n~l~~~~~~~v~-~~~g~t~d~~~~~~~-~~~~~~~liDTpG~~~~---~~~~~~~~~~~~~~~   75 (429)
T TIGR03594         1 VVAIVGRPNVGKSTLFNRLTGKRDAIVS-DTPGVTRDRKYGDAE-WGGREFILIDTGGIEED---DDGLDKQIREQAEIA   75 (429)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCCcceec-CCCCcccCceEEEEE-ECCeEEEEEECCCCCCc---chhHHHHHHHHHHHH
Confidence            5899999999999999999997642222 234556655555554 47889999999998642   223345555556666


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+|++++|+|+++.++..+..+.+++++. +    .|+++|+||+|...
T Consensus        76 ~~~ad~vl~vvD~~~~~~~~d~~i~~~l~~~-~----~piilVvNK~D~~~  121 (429)
T TIGR03594        76 IEEADVILFVVDGREGLTPEDEEIAKWLRKS-G----KPVILVANKIDGKK  121 (429)
T ss_pred             HhhCCEEEEEEeCCCCCCHHHHHHHHHHHHh-C----CCEEEEEECccCCc
Confidence            6788999999999988999998888888763 3    47999999999875

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.

>cd04113 Rab4 Rab4 subfamily

Probab=99.66  E-value=2.6e-15  Score=116.05  Aligned_cols=118  Identities=19%  Similarity=0.197  Sum_probs=74.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||++.|++...........+.........+. .....+.+|||||...           +......
T Consensus         1 ~ki~v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~l~D~~G~~~-----------~~~~~~~   68 (161)
T cd04113           1 FKFIIIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVG-GKRVKLQIWDTAGQER-----------FRSVTRS   68 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEEC-CEEEEEEEEECcchHH-----------HHHhHHH
Confidence            489999999999999999999876432222222211111111111 1235788999999732           2333445


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+..+|++++|+|++++.+... ..++..+.....  ...|+++|+||.|...
T Consensus        69 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iivv~nK~D~~~  119 (161)
T cd04113          69 YYRGAAGALLVYDITNRTSFEALPTWLSDARALAS--PNIVVILVGNKSDLAD  119 (161)
T ss_pred             HhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEEchhcch
Confidence            5678899999999986555443 334444433322  2358999999999874

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.66  E-value=3.3e-15  Score=116.11  Aligned_cols=117  Identities=12%  Similarity=0.086  Sum_probs=74.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|++|+|||||++++++.........+.+..  .....+.. .....+.+|||||..           .+.....
T Consensus         2 ~ki~i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~l~Dt~g~~-----------~~~~~~~   68 (165)
T cd01865           2 FKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGID--FKVKTVFRNDKRVKLQIWDTAGQE-----------RYRTITT   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeE--EEEEEEEECCEEEEEEEEECCChH-----------HHHHHHH
Confidence            689999999999999999999876422222221211  11111211 123578899999963           2334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++++|+|.+++-+... ..+++.+.....  ...|+++|+||+|...
T Consensus        69 ~~~~~~~~~l~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piivv~nK~Dl~~  120 (165)
T cd01865          69 AYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW--DNAQVILVGNKCDMED  120 (165)
T ss_pred             HHccCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCCEEEEEECcccCc
Confidence            66789999999999875433322 333444433221  2358999999999864

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

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.66  E-value=4.9e-15  Score=128.23  Aligned_cols=126  Identities=22%  Similarity=0.170  Sum_probs=82.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+|+|.+|||||||+|+|++...+..  ...+.|.......+...++..+.+|||||+.... + ......+...+.
T Consensus       189 ~~~ValvG~~NvGKSSLln~L~~~~~~v~--~~~~tT~d~~~~~i~~~~~~~i~l~DT~G~~~~l-~-~~lie~f~~tle  264 (351)
T TIGR03156       189 VPTVALVGYTNAGKSTLFNALTGADVYAA--DQLFATLDPTTRRLDLPDGGEVLLTDTVGFIRDL-P-HELVAAFRATLE  264 (351)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCCceeec--cCCccccCCEEEEEEeCCCceEEEEecCcccccC-C-HHHHHHHHHHHH
Confidence            47999999999999999999999864222  2223344444444444457789999999984321 1 122233433333


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHH-HHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~-~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ....+|++|+|+|++++.+..... +...+.. ++. ...|+++|+||+|...
T Consensus       265 -~~~~ADlil~VvD~s~~~~~~~~~~~~~~L~~-l~~-~~~piIlV~NK~Dl~~  315 (351)
T TIGR03156       265 -EVREADLLLHVVDASDPDREEQIEAVEKVLEE-LGA-EDIPQLLVYNKIDLLD  315 (351)
T ss_pred             -HHHhCCEEEEEEECCCCchHHHHHHHHHHHHH-hcc-CCCCEEEEEEeecCCC
Confidence             346789999999998666554432 2333433 332 1358999999999975

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).

>cd04109 Rab28 Rab28 subfamily

Probab=99.65  E-value=2.9e-15  Score=121.56  Aligned_cols=119  Identities=19%  Similarity=0.130  Sum_probs=76.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee--CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ++|+++|.+|+|||||++.+++........  ...+.......+...  ....+.+|||||..           .....+
T Consensus         1 ~Ki~ivG~~~vGKSsLi~~l~~~~~~~~~~--~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~-----------~~~~l~   67 (215)
T cd04109           1 FKIVVLGDGAVGKTSLCRRFAKEGFGKSYK--QTIGLDFFSKRVTLPGNLNVTLQVWDIGGQS-----------IGGKML   67 (215)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCC--CceeEEEEEEEEEeCCCCEEEEEEEECCCcH-----------HHHHHH
Confidence            489999999999999999999875422111  111112111222221  23578899999963           223445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc-cccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~-~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++-+... ..++..+.+..+. ....|+++|.||.|...
T Consensus        68 ~~~~~~ad~iilV~D~t~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~  123 (215)
T cd04109          68 DKYIYGAHAVFLVYDVTNSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEH  123 (215)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhccccCCCceEEEEEECccccc
Confidence            556788999999999986544443 3455555555432 12347899999999864

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

>cd01861 Rab6 Rab6 subfamily

Probab=99.65  E-value=3.5e-15  Score=115.17  Aligned_cols=116  Identities=14%  Similarity=0.129  Sum_probs=75.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++++++.......  ....+.......+.. .+  ..+.+|||||..           .....+
T Consensus         1 ~ki~liG~~~~GKSsli~~l~~~~~~~~~--~~~~~~~~~~~~~~~-~~~~~~l~~~D~~G~~-----------~~~~~~   66 (161)
T cd01861           1 HKLVFLGDQSVGKTSIITRFMYDTFDNQY--QATIGIDFLSKTMYL-EDKTVRLQLWDTAGQE-----------RFRSLI   66 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccC--CCceeeeEEEEEEEE-CCEEEEEEEEECCCcH-----------HHHHHH
Confidence            38999999999999999999988653322  122222222222222 23  468999999963           233445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+..+|++++|+|++++-+... ..++..+....+.  ..|+++|+||.|...
T Consensus        67 ~~~~~~~~~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilv~nK~D~~~  119 (161)
T cd01861          67 PSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGN--DVIIVLVGNKTDLSD  119 (161)
T ss_pred             HHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCEEEEEEEChhccc
Confidence            556678899999999985544433 3344444333332  358999999999953

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.65  E-value=4.3e-15  Score=115.34  Aligned_cols=117  Identities=12%  Similarity=0.131  Sum_probs=76.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++|+++|++|+|||||++++.+.........+  .........+. ..+  ..+.+|||||..           .+...
T Consensus         3 ~~kv~vvG~~~~GKTsli~~l~~~~~~~~~~~t--~~~~~~~~~~~-~~~~~~~l~i~D~~G~~-----------~~~~~   68 (165)
T cd01864           3 LFKIILIGDSNVGKTCVVQRFKSGTFSERQGNT--IGVDFTMKTLE-IEGKRVKLQIWDTAGQE-----------RFRTI   68 (165)
T ss_pred             eeEEEEECCCCCCHHHHHHHHhhCCCcccCCCc--cceEEEEEEEE-ECCEEEEEEEEECCChH-----------HHHHH
Confidence            489999999999999999999876542222111  11122222222 233  478999999962           33444


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+..+|++++|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        69 ~~~~~~~~d~~llv~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ivv~nK~Dl~~  122 (165)
T cd01864          69 TQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGA--SNVVLLLIGNKCDLEE  122 (165)
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHhHHHHHHHHHHhCC--CCCcEEEEEECccccc
Confidence            5556678899999999986544433 345555544322  2358999999999875

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.65  E-value=4.3e-15  Score=115.42  Aligned_cols=117  Identities=17%  Similarity=0.173  Sum_probs=73.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|++|+|||||++.+++.........+  .+.......+... ....+.+|||||..           .+.....
T Consensus         3 ~ki~i~G~~~vGKSsli~~~~~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------~~~~~~~   69 (166)
T cd01869           3 FKLLLIGDSGVGKSCLLLRFADDTYTESYIST--IGVDFKIRTIELDGKTIKLQIWDTAGQE-----------RFRTITS   69 (166)
T ss_pred             EEEEEECCCCCCHHHHHHHHhcCCCCCCCCCc--cceeEEEEEEEECCEEEEEEEEECCCcH-----------hHHHHHH
Confidence            79999999999999999999987543221111  1212221222211 13468899999963           2334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++|+|+|++++-+... ..++..+.....  ...|+++|.||.|...
T Consensus        70 ~~~~~~~~ii~v~d~~~~~s~~~l~~~~~~~~~~~~--~~~~~iiv~nK~Dl~~  121 (166)
T cd01869          70 SYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYAS--ENVNKLLVGNKCDLTD  121 (166)
T ss_pred             HHhCcCCEEEEEEECcCHHHHHhHHHHHHHHHHhCC--CCCcEEEEEEChhccc
Confidence            56678899999999985443333 233344433321  2358999999999764

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

>cd01887 IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryotic initiation factor 5B) subfamily

Probab=99.65  E-value=6.9e-15  Score=114.25  Aligned_cols=114  Identities=15%  Similarity=0.148  Sum_probs=78.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee--CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.|+|+|.+|+|||||+|+|++......  ...+.|...........  .+..+.+|||||...           +....
T Consensus         1 ~~i~iiG~~~~GKtsli~~l~~~~~~~~--~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~-----------~~~~~   67 (168)
T cd01887           1 PVVTVMGHVDHGKTTLLDKIRKTNVAAG--EAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEA-----------FTNMR   67 (168)
T ss_pred             CEEEEEecCCCCHHHHHHHHHhcccccc--cCCCeEEeeccEEEecccCCcceEEEEeCCCcHH-----------HHHHH
Confidence            3699999999999999999998754222  22234444433333321  367899999999742           22333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+..+|++++|+|+++.........+..+.. ++    .|+++|+||+|...
T Consensus        68 ~~~~~~~d~il~v~d~~~~~~~~~~~~~~~~~~-~~----~p~ivv~NK~Dl~~  116 (168)
T cd01887          68 ARGASLTDIAILVVAADDGVMPQTIEAIKLAKA-AN----VPFIVALNKIDKPN  116 (168)
T ss_pred             HHHHhhcCEEEEEEECCCCccHHHHHHHHHHHH-cC----CCEEEEEEceeccc
Confidence            344567899999999986666555555555543 22    47999999999874

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.65  E-value=5.3e-15  Score=114.38  Aligned_cols=118  Identities=19%  Similarity=0.125  Sum_probs=75.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||+|++++.........+.+.+......... .....+.+|||||..           ++......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~-~~~~~~~i~D~~G~~-----------~~~~~~~~   69 (163)
T cd01860           2 FKLVLLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLD-DTTVKFEIWDTAGQE-----------RYRSLAPM   69 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCchH-----------HHHHHHHH
Confidence            689999999999999999999887543222222221211111111 123578899999963           23333445


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.++|++++|+|+++.-+... ..++..+.....  ...|++++.||.|...
T Consensus        70 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iivv~nK~D~~~  120 (163)
T cd01860          70 YYRGAAAAIVVYDITSEESFEKAKSWVKELQRNAS--PNIIIALVGNKADLES  120 (163)
T ss_pred             HhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccc
Confidence            5678899999999984433322 444455554432  2358999999999873

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

>cd01868 Rab11_like Rab11-like

Probab=99.64  E-value=5.4e-15  Score=114.69  Aligned_cols=117  Identities=19%  Similarity=0.176  Sum_probs=74.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|++|+|||||++++++..........  .+.......+.. .+  ..+.+|||||..           .+...
T Consensus         3 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~~~l~D~~g~~-----------~~~~~   68 (165)
T cd01868           3 LFKIVLIGDSGVGKSNLLSRFTRNEFNLDSKST--IGVEFATRSIQI-DGKTIKAQIWDTAGQE-----------RYRAI   68 (165)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCc--cceEEEEEEEEE-CCEEEEEEEEeCCChH-----------HHHHH
Confidence            379999999999999999999987642222111  222222222222 23  468899999963           23344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+..++++|+|+|+++..+... ..++..+......  ..|+++|+||.|...
T Consensus        69 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~pi~vv~nK~Dl~~  122 (165)
T cd01868          69 TSAYYRGAVGALLVYDITKKQTFENVERWLKELRDHADS--NIVIMLVGNKSDLRH  122 (165)
T ss_pred             HHHHHCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECccccc
Confidence            4555678899999999985444433 2333434333221  258999999999864

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.64  E-value=4.3e-15  Score=115.48  Aligned_cols=119  Identities=23%  Similarity=0.192  Sum_probs=77.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|.+|+|||||++++++........++.+.+. ....... .....+.+|||||...+.           .....
T Consensus         2 ~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~-~~~~~l~i~Dt~G~~~~~-----------~~~~~   68 (165)
T cd04140           2 YRVVVFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCS-KNICTLQITDTTGSHQFP-----------AMQRL   68 (165)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEEC-CEEEEEEEEECCCCCcch-----------HHHHH
Confidence            6899999999999999999998764322222222111 1111111 134578899999986432           22334


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc-ccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~  151 (253)
                      ++.++|++++|+|++++.+... ..++..+....+.. ...|+++|.||.|...
T Consensus        69 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  122 (165)
T cd04140          69 SISKGHAFILVYSVTSKQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESH  122 (165)
T ss_pred             HhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccc
Confidence            5567899999999986665544 44556666554322 3468999999999864

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.64  E-value=6.2e-15  Score=113.84  Aligned_cols=118  Identities=19%  Similarity=0.135  Sum_probs=74.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||+++|++...........+.+......... .....+.+|||||...           +......
T Consensus         1 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~D~~g~~~-----------~~~~~~~   68 (161)
T cd01863           1 LKILLIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVD-GKKVKLAIWDTAGQER-----------FRTLTSS   68 (161)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEEC-CEEEEEEEEECCCchh-----------hhhhhHH
Confidence            489999999999999999999876432222222222221111111 1235789999999642           2233344


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ++..+|++++|+|++++.+... ..++..+.... .....|+++|+||.|..
T Consensus        69 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~~~~~iv~nK~D~~  119 (161)
T cd01863          69 YYRGAQGVILVYDVTRRDTFTNLETWLNELETYS-TNNDIVKMLVGNKIDKE  119 (161)
T ss_pred             HhCCCCEEEEEEECCCHHHHHhHHHHHHHHHHhC-CCCCCcEEEEEECCccc
Confidence            5578899999999985554443 33444444432 23346899999999997

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.64  E-value=6.4e-15  Score=115.98  Aligned_cols=121  Identities=12%  Similarity=0.021  Sum_probs=75.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe---------eCCeEEEEEeCCCCCCCCCCcHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---------KDGQVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~---------~~~~~~~liDtpG~~~~~~~~~~~   89 (253)
                      .++|+++|++|+|||||++.+++.........+.+............         .....+.+|||||.          
T Consensus         4 ~~ki~ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~----------   73 (180)
T cd04127           4 LIKFLALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQ----------   73 (180)
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCCh----------
Confidence            48999999999999999999988754222111111111111111100         12357889999995          


Q ss_pred             HHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .++......++.++|++++|+|++++-+... ..++..+..... ....|+++|.||+|...
T Consensus        74 -~~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~  134 (180)
T cd04127          74 -ERFRSLTTAFFRDAMGFLLIFDLTNEQSFLNVRNWMSQLQTHAY-CENPDIVLCGNKADLED  134 (180)
T ss_pred             -HHHHHHHHHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEeCccchh
Confidence             3344555666788999999999985444333 333333433211 12358999999999864

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

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.64  E-value=7.7e-15  Score=126.08  Aligned_cols=126  Identities=19%  Similarity=0.177  Sum_probs=81.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||.++||||||+|+|++...- . ......|.......+...++..++++||||+.+.......+...+.+.+  
T Consensus       159 adVglVG~PNaGKSTLln~ls~a~~~-v-a~ypfTT~~p~~G~v~~~~~~~~~i~D~PGli~ga~~~~gLg~~flrhi--  234 (335)
T PRK12299        159 ADVGLVGLPNAGKSTLISAVSAAKPK-I-ADYPFTTLHPNLGVVRVDDYKSFVIADIPGLIEGASEGAGLGHRFLKHI--  234 (335)
T ss_pred             CCEEEEcCCCCCHHHHHHHHHcCCCc-c-CCCCCceeCceEEEEEeCCCcEEEEEeCCCccCCCCccccHHHHHHHHh--
Confidence            36899999999999999999986532 1 1222345555555554435678999999999764433223333333333  


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                        .+++++|+|+|+++.-+..+ ..+...+......-..+|++||+||+|...
T Consensus       235 --e~a~vlI~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~  285 (335)
T PRK12299        235 --ERTRLLLHLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLD  285 (335)
T ss_pred             --hhcCEEEEEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCC
Confidence              45689999999985444444 334444444311112468999999999875

>cd04110 Rab35 Rab35 subfamily

Probab=99.64  E-value=5.2e-15  Score=118.67  Aligned_cols=118  Identities=19%  Similarity=0.179  Sum_probs=74.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..++|+++|++|+|||||++.+++.........+.+.  ......+... ....+.+|||||...           +...
T Consensus         5 ~~~kivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~--~~~~~~~~~~~~~~~l~l~D~~G~~~-----------~~~~   71 (199)
T cd04110           5 HLFKLLIIGDSGVGKSSLLLRFADNTFSGSYITTIGV--DFKIRTVEINGERVKLQIWDTAGQER-----------FRTI   71 (199)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCcCccccc--eeEEEEEEECCEEEEEEEEeCCCchh-----------HHHH
Confidence            3589999999999999999999987542211111111  1111222211 234688999999632           2234


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.+++++++|+|++++-+... ..++..+....   ...|++||+||.|...
T Consensus        72 ~~~~~~~a~~iilv~D~~~~~s~~~~~~~~~~i~~~~---~~~piivVgNK~Dl~~  124 (199)
T cd04110          72 TSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNC---DDVCKVLVGNKNDDPE  124 (199)
T ss_pred             HHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECccccc
Confidence            4556678899999999986544333 33344443332   2358999999999864

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

>cd04145 M_R_Ras_like M-Ras/R-Ras-like subfamily

Probab=99.64  E-value=5.8e-15  Score=114.19  Aligned_cols=117  Identities=23%  Similarity=0.193  Sum_probs=73.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|++|+|||||++++++...........+   ........ ..+  ..+.+|||||..+.           ...
T Consensus         2 ~~ki~i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~---~~~~~~~~-~~~~~~~~~i~Dt~G~~~~-----------~~~   66 (164)
T cd04145           2 TYKLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIE---DSYTKQCE-IDGQWAILDILDTAGQEEF-----------SAM   66 (164)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCcccCCCcc---ceEEEEEE-ECCEEEEEEEEECCCCcch-----------hHH
Confidence            47999999999999999999998654221111111   11111111 233  46889999997543           233


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|+++.-+... ..++..+..... ....|+++|+||+|...
T Consensus        67 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piiiv~NK~Dl~~  121 (164)
T cd04145          67 REQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKD-RDEFPMILVGNKADLEH  121 (164)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC-CCCCCEEEEeeCccccc
Confidence            4455577899999999985444333 333333433321 12358999999999864

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.64  E-value=7e-15  Score=116.87  Aligned_cols=150  Identities=14%  Similarity=0.073  Sum_probs=93.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+++|..|+|||||+.++.+.... ... ....+.......+. .++  ..+.+|||||..           .+..
T Consensus         5 ~~~KivviG~~~vGKTsll~~~~~~~~~-~~~-~~t~~~~~~~~~i~-~~~~~~~l~iwDt~G~~-----------~~~~   70 (189)
T cd04121           5 YLLKFLLVGDSDVGKGEILASLQDGSTE-SPY-GYNMGIDYKTTTIL-LDGRRVKLQLWDTSGQG-----------RFCT   70 (189)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCC-CCC-CCcceeEEEEEEEE-ECCEEEEEEEEeCCCcH-----------HHHH
Confidence            3489999999999999999999875431 111 11112222222222 233  578899999984           3334


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhh
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKK  171 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~  171 (253)
                      ....++.++|++|+|+|++++.+... ..++..+....   ...|++||.||.|+...   .......+.......+++.
T Consensus        71 l~~~~~~~ad~illVfD~t~~~Sf~~~~~w~~~i~~~~---~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~  147 (189)
T cd04121          71 IFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA---PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEV  147 (189)
T ss_pred             HHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEe
Confidence            55566789999999999997766655 44555554433   24689999999998531   1234445554333345555


Q ss_pred             hHHHhhhHHHHHH
Q 025391          172 GATKLRDQQFEVD  184 (253)
Q Consensus       172 ~~~~~~~~~~~~~  184 (253)
                      +......++..+.
T Consensus       148 SAk~g~~V~~~F~  160 (189)
T cd04121         148 SPLCNFNITESFT  160 (189)
T ss_pred             cCCCCCCHHHHHH
Confidence            5555555555554

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

>cd04120 Rab12 Rab12 subfamily

Probab=99.64  E-value=5.7e-15  Score=118.53  Aligned_cols=149  Identities=11%  Similarity=0.096  Sum_probs=90.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.|+++|..|+|||||++.++..........+  .+.......+. .++  ..+.+|||+|..           ++....
T Consensus         1 ~~vvvlG~~gVGKTSli~r~~~~~f~~~~~~T--i~~~~~~~~i~-~~~~~v~l~iwDtaGqe-----------~~~~l~   66 (202)
T cd04120           1 LQVIIIGSRGVGKTSLMRRFTDDTFCEACKSG--VGVDFKIKTVE-LRGKKIRLQIWDTAGQE-----------RFNSIT   66 (202)
T ss_pred             CEEEEECcCCCCHHHHHHHHHhCCCCCcCCCc--ceeEEEEEEEE-ECCEEEEEEEEeCCCch-----------hhHHHH
Confidence            36899999999999999999876542211111  11122122222 233  578899999974           344555


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHccc-CCchhhhh
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRE-CPKPLKKG  172 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~-~~~~l~~~  172 (253)
                      ..++.++|++|+|+|++++-+... ..++..+....+.  ..|+++|.||.|.....   .....++.... ...+++.+
T Consensus        67 ~~y~~~ad~iIlVfDvtd~~Sf~~l~~w~~~i~~~~~~--~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etS  144 (202)
T cd04120          67 SAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASE--DAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEAS  144 (202)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEec
Confidence            677789999999999997666555 3444444443322  35899999999985311   12223333221 22345555


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      +.....+.+++.
T Consensus       145 Aktg~gV~e~F~  156 (202)
T cd04120         145 AKDNFNVDEIFL  156 (202)
T ss_pred             CCCCCCHHHHHH
Confidence            555555555554

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.64  E-value=1.8e-14  Score=113.97  Aligned_cols=120  Identities=13%  Similarity=0.069  Sum_probs=74.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|.+|+|||||++++++...... ..+.+.+............+..+.+|||||..           .+.....
T Consensus         3 ~~kv~~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~-----------~~~~~~~   70 (183)
T cd04152           3 SLHIVMLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQE-----------KLRPLWK   70 (183)
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcH-----------hHHHHHH
Confidence            47999999999999999999987654221 11112222111111111245689999999973           2334455


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++++|+|+++.-+... ..++..+..... ....|++||+||+|...
T Consensus        71 ~~~~~~d~ii~v~D~~~~~~~~~~~~~~~~i~~~~~-~~~~p~iiv~NK~D~~~  123 (183)
T cd04152          71 SYTRCTDGIVFVVDSVDVERMEEAKTELHKITRFSE-NQGVPVLVLANKQDLPN  123 (183)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHhhhh-cCCCcEEEEEECcCccc
Confidence            56778899999999885422222 222232333211 12468999999999864

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.

>cd00154 Rab Rab family

Probab=99.64  E-value=6.1e-15  Score=112.78  Aligned_cols=117  Identities=20%  Similarity=0.156  Sum_probs=74.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +||+++|++|+|||||+|.|++...........+.+......... .....+.+||+||..           .+......
T Consensus         1 ~~i~~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~D~~g~~-----------~~~~~~~~   68 (159)
T cd00154           1 FKIVLIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEID-GKTVKLQIWDTAGQE-----------RFRSITPS   68 (159)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEEC-CEEEEEEEEecCChH-----------HHHHHHHH
Confidence            489999999999999999999887644322222222211111111 124678899999973           33344555


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ++..+|++++|+|++++-+... ..++..+.....  ...|+++++||.|..
T Consensus        69 ~~~~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~  118 (159)
T cd00154          69 YYRGAHGAILVYDITNRESFENLDKWLKELKEYAP--ENIPIILVGNKIDLE  118 (159)
T ss_pred             HhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEEccccc
Confidence            6678899999999975322222 333444444321  235899999999996

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.63  E-value=7.1e-15  Score=113.62  Aligned_cols=116  Identities=19%  Similarity=0.207  Sum_probs=74.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .||+++|++|+|||||++.+++.........  ..+.......... .+  ..+.+|||||..           .+....
T Consensus         1 ~kv~v~G~~~~GKTtli~~l~~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~l~D~~G~~-----------~~~~~~   66 (164)
T smart00175        1 FKIILIGDSGVGKSSLLSRFTDGKFSEQYKS--TIGVDFKTKTIEV-DGKRVKLQIWDTAGQE-----------RFRSIT   66 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--ceeeEEEEEEEEE-CCEEEEEEEEECCChH-----------HHHHHH
Confidence            4899999999999999999998765222211  2222222222222 33  478899999963           233444


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++++|+|+++..+... ..++..+....+  ...|+++|+||.|...
T Consensus        67 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~l~~~~~~~~--~~~pivvv~nK~D~~~  119 (164)
T smart00175       67 SSYYRGAVGALLVYDITNRESFENLKNWLKELREYAD--PNVVIMLVGNKSDLED  119 (164)
T ss_pred             HHHhCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEEchhccc
Confidence            556678899999999985444433 223333333322  2369999999999764

Rab GTPases are implicated in vesicle trafficking.

>cd04112 Rab26 Rab26 subfamily

Probab=99.63  E-value=9.2e-15  Score=116.46  Aligned_cols=118  Identities=14%  Similarity=0.146  Sum_probs=74.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||++.+++........ .+.+.........+. .....+.||||||..           .+.....
T Consensus         1 ~Ki~vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~-----------~~~~~~~   68 (191)
T cd04112           1 FKVMLLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVD-GVKVKLQIWDTAGQE-----------RFRSVTH   68 (191)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEEC-CEEEEEEEEeCCCcH-----------HHHHhhH
Confidence            489999999999999999998875422111 111111111111111 123578899999962           3334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|++++.+... ..++..+.+....  ..|+++|+||.|...
T Consensus        69 ~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~NK~Dl~~  120 (191)
T cd04112          69 AYYRDAHALLLLYDITNKASFDNIRAWLTEIKEYAQE--DVVIMLLGNKADMSG  120 (191)
T ss_pred             HHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCcEEEEEEcccchh
Confidence            56678899999999986544433 3445555554322  358999999999863

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.

>cd04142 RRP22 RRP22 subfamily

Probab=99.63  E-value=1e-14  Score=116.83  Aligned_cols=126  Identities=15%  Similarity=0.119  Sum_probs=76.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+|+|.+|+|||||++.+++........+.  .+.......+. .++  ..+.+|||||...+.....   .+.....
T Consensus         1 ~kI~ivG~~~vGKTsLi~~~~~~~f~~~~~pt--~~~~~~~~~i~-~~~~~~~l~i~Dt~G~~~~~~~~~---~e~~~~~   74 (198)
T cd04142           1 VRVAVLGAPGVGKTAIVRQFLAQEFPEEYIPT--EHRRLYRPAVV-LSGRVYDLHILDVPNMQRYPGTAG---QEWMDPR   74 (198)
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCCCcccCCc--cccccceeEEE-ECCEEEEEEEEeCCCcccCCccch---hHHHHHH
Confidence            48999999999999999999987542221111  11111111222 244  4678999999865432211   2222223


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhc-ccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g-~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+... ..+.+.+..... .....|+++|.||+|...
T Consensus        75 ~~~~~~ad~iilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~  130 (198)
T cd04142          75 FRGLRNSRAFILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQR  130 (198)
T ss_pred             HhhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccc
Confidence            334578899999999986544443 333444444321 122368999999999964

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.

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.63  E-value=8.1e-15  Score=113.51  Aligned_cols=118  Identities=14%  Similarity=0.103  Sum_probs=73.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC-CCccccC-CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR-RAFKSRA-SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~-~~~~~~~-~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ++|+++|++|+|||||++++.+. ..+.... ...+.................+.+|||||.           ..+....
T Consensus         1 ~ki~vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~-----------~~~~~~~   69 (164)
T cd04101           1 LRCAVVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQ-----------ELYSDMV   69 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCH-----------HHHHHHH
Confidence            48999999999999999999854 2222221 111111111111121123468999999996           3333445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+..+|++++|+|++++.+... ..++..+....   ...|+++|+||.|...
T Consensus        70 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~  121 (164)
T cd04101          70 SNYWESPSVFILVYDVSNKASFENCSRWVNKVRTAS---KHMPGVLVGNKMDLAD  121 (164)
T ss_pred             HHHhCCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECccccc
Confidence            556678899999999985544332 23333333321   2368999999999864

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.63  E-value=3.9e-14  Score=113.01  Aligned_cols=125  Identities=18%  Similarity=0.304  Sum_probs=79.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +..++|+++|.+|+|||||+|+|++...........+.|.......    .+..+.+|||||+........ ....+...
T Consensus        22 ~~~~~v~ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~----~~~~l~l~DtpG~~~~~~~~~-~~~~~~~~   96 (196)
T PRK00454         22 DDGPEIAFAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFE----VNDKLRLVDLPGYGYAKVSKE-EKEKWQKL   96 (196)
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEe----cCCeEEEeCCCCCCCcCCCch-HHHHHHHH
Confidence            3458999999999999999999998652111122233443333222    246899999999865433221 12233333


Q ss_pred             HHhhc---CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAK---DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~---~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++   ...+++++|+|.+.+.+..+..+.+++.. .+    .|+++++||+|.+.
T Consensus        97 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~i~~~l~~-~~----~~~iiv~nK~Dl~~  149 (196)
T PRK00454         97 IEEYLRTRENLKGVVLLIDSRHPLKELDLQMIEWLKE-YG----IPVLIVLTKADKLK  149 (196)
T ss_pred             HHHHHHhCccceEEEEEEecCCCCCHHHHHHHHHHHH-cC----CcEEEEEECcccCC
Confidence            32222   34578888888877777766666666543 22    47899999999986

>cd04154 Arl2 Arl2 subfamily

Probab=99.63  E-value=1.5e-14  Score=113.28  Aligned_cols=126  Identities=15%  Similarity=0.191  Sum_probs=79.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|++|+|||||+++|++......     ..|.......+. ..+..+.+|||||...           +...
T Consensus        12 ~~~~kv~ivG~~~~GKTsL~~~l~~~~~~~~-----~~t~g~~~~~~~-~~~~~l~l~D~~G~~~-----------~~~~   74 (173)
T cd04154          12 EREMRILILGLDNAGKTTILKKLLGEDIDTI-----SPTLGFQIKTLE-YEGYKLNIWDVGGQKT-----------LRPY   74 (173)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCCCc-----CCccccceEEEE-ECCEEEEEEECCCCHH-----------HHHH
Confidence            4458999999999999999999998743211     112222222233 2567899999999742           3344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCCC-hhhHHHHH
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELEDN-DETLEDYL  161 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~~-~~~~~~~~  161 (253)
                      ...++.++|++++|+|++++-+...  ...++...+..  ....|+++|+||+|..... ...+.+++
T Consensus        75 ~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~  140 (173)
T cd04154          75 WRNYFESTDALIWVVDSSDRLRLDD--CKRELKELLQEERLAGATLLILANKQDLPGALSEEEIREAL  140 (173)
T ss_pred             HHHHhCCCCEEEEEEECCCHHHHHH--HHHHHHHHHhChhhcCCCEEEEEECcccccCCCHHHHHHHh
Confidence            4556788899999999985533322  12222222211  1246899999999986421 23444444

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.62  E-value=1.4e-14  Score=114.53  Aligned_cols=116  Identities=16%  Similarity=0.079  Sum_probs=78.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +...+|+++|.+|+|||||++.+++........    .|....+. .+.. .....+.+|||+|..           ++.
T Consensus         3 ~~~~KivvvGd~~vGKTsli~~~~~~~f~~~~~----pT~~~~~~~~~~~~~~~~~l~iwDtaG~e-----------~~~   67 (182)
T cd04172           3 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV----PTVFENYTASFEIDTQRIELSLWDTSGSP-----------YYD   67 (182)
T ss_pred             cceEEEEEECCCCCCHHHHHHHHHhCCCCCccC----CceeeeeEEEEEECCEEEEEEEEECCCch-----------hhH
Confidence            345899999999999999999998765422211    12211111 1111 123478899999973           233


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .....++.++|++|+|+|++++.+...  ..++..+....+   ..|++||.||.|+.
T Consensus        68 ~~~~~~~~~ad~~ilvyDit~~~Sf~~~~~~w~~~i~~~~~---~~piilVgNK~DL~  122 (182)
T cd04172          68 NVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLR  122 (182)
T ss_pred             hhhhhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEeEChhhh
Confidence            445567789999999999997766555  355566655432   35899999999974

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.62  E-value=6e-15  Score=117.42  Aligned_cols=116  Identities=19%  Similarity=0.188  Sum_probs=73.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|.+|+|||||++.+++.........+.+..  . ..... ..+  ..+.+|||||...           +.....
T Consensus         1 ki~ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~--~-~~~~~-~~~~~~~l~i~Dt~G~~~-----------~~~~~~   65 (190)
T cd04144           1 KLVVLGDGGVGKTALTIQLCLNHFVETYDPTIEDS--Y-RKQVV-VDGQPCMLEVLDTAGQEE-----------YTALRD   65 (190)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccCCCchHhh--E-EEEEE-ECCEEEEEEEEECCCchh-----------hHHHHH
Confidence            58999999999999999998654322111111111  1 11111 233  3588999999743           233444


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc-cccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~-~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|+++..+... ..++..+...... ....|+++|+||+|...
T Consensus        66 ~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~  120 (190)
T cd04144          66 QWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVY  120 (190)
T ss_pred             HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccc
Confidence            56678899999999986554443 4445555544321 13468999999999863

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.62  E-value=1.3e-14  Score=127.02  Aligned_cols=125  Identities=19%  Similarity=0.182  Sum_probs=79.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      -|+|||.++||||||+|+|++... .. ......|.......+...++..++++||||+....+....+...+.+.    
T Consensus       161 dValVG~PNaGKSTLln~Lt~~k~-~v-s~~p~TT~~p~~Giv~~~~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~----  234 (390)
T PRK12298        161 DVGLLGLPNAGKSTFIRAVSAAKP-KV-ADYPFTTLVPNLGVVRVDDERSFVVADIPGLIEGASEGAGLGIRFLKH----  234 (390)
T ss_pred             cEEEEcCCCCCHHHHHHHHhCCcc-cc-cCCCCCccCcEEEEEEeCCCcEEEEEeCCCccccccchhhHHHHHHHH----
Confidence            799999999999999999998764 11 222334555555544443356799999999986443322233333333    


Q ss_pred             cCCccEEEEEEeCCCC--CCH--HHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSR--FSQ--EEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~--~~~--~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+|++++|+|++..  .++  ....+++.+......-...|.++|+||+|...
T Consensus       235 i~radvlL~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~  289 (390)
T PRK12298        235 LERCRVLLHLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLD  289 (390)
T ss_pred             HHhCCEEEEEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCC
Confidence            3566899999998611  111  12444455544321112368999999999875

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.62  E-value=9.3e-15  Score=112.87  Aligned_cols=116  Identities=22%  Similarity=0.145  Sum_probs=72.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe---eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+|+++|.+|+|||||++.+++.........  ..........+..   .....+.+|||||..           .+...
T Consensus         1 ~kv~~vG~~~~GKTsl~~~~~~~~~~~~~~~--t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----------~~~~~   67 (162)
T cd04106           1 IKVIVVGNGNVGKSSMIQRFVKGIFTKDYKK--TIGVDFLEKQIFLRQSDEDVRLMLWDTAGQE-----------EFDAI   67 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCC--cEEEEEEEEEEEEcCCCCEEEEEEeeCCchH-----------HHHHh
Confidence            3799999999999999999998654221111  1111111111111   124578999999963           33344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+++++|++++|++++++-+... ..++..+....   ...|+++|+||.|...
T Consensus        68 ~~~~~~~~~~~v~v~d~~~~~s~~~l~~~~~~~~~~~---~~~p~iiv~nK~Dl~~  120 (162)
T cd04106          68 TKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAEC---GDIPMVLVQTKIDLLD  120 (162)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhccc
Confidence            4566788999999999985443332 22333333322   2358999999999875

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

>cd04125 RabA_like RabA-like subfamily

Probab=99.62  E-value=1.3e-14  Score=115.28  Aligned_cols=117  Identities=20%  Similarity=0.203  Sum_probs=74.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||++.+++.........+.+..  .....+.. .....+.+|||||..           .+.....
T Consensus         1 ~ki~v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~i~Dt~g~~-----------~~~~~~~   67 (188)
T cd04125           1 FKVVIIGDYGVGKSSLLKRFTEDEFSESTKSTIGVD--FKIKTVYIENKIIKLQIWDTNGQE-----------RFRSLNN   67 (188)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeeE--EEEEEEEECCEEEEEEEEECCCcH-----------HHHhhHH
Confidence            489999999999999999999876532111121211  21122221 113467899999963           2333445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.++|++|+|+|++++.+... ..++..+....+.  ..|+++|+||.|...
T Consensus        68 ~~~~~~d~iilv~d~~~~~s~~~i~~~~~~i~~~~~~--~~~~ivv~nK~Dl~~  119 (188)
T cd04125          68 SYYRGAHGYLLVYDVTDQESFENLKFWINEINRYARE--NVIKVIVANKSDLVN  119 (188)
T ss_pred             HHccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECCCCcc
Confidence            66788999999999985544333 3344444443322  258999999999874

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.

>cd00877 Ran Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.62  E-value=6.9e-15  Score=114.57  Aligned_cols=147  Identities=18%  Similarity=0.096  Sum_probs=85.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe---eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+|+++|++|||||||+++++.......    ...|..........   .....+.+|||||...+.           ..
T Consensus         1 ~ki~vvG~~~vGKTsli~~~~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----------~~   65 (166)
T cd00877           1 FKLVLVGDGGTGKTTFVKRHLTGEFEKK----YVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFG-----------GL   65 (166)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCC----CCCceeeEEEEEEEEECCEEEEEEEEECCCChhhc-----------cc
Confidence            4899999999999999999986543211    11222222222111   123578899999985432           12


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC-hhhHHHHHcccCCchhhhhHH
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN-DETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~-~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      ....+.++|++|+|+|++++.+... ..++..+.+..+   ..|+++|+||+|..... ......+.......+++.+..
T Consensus        66 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~e~Sa~  142 (166)
T cd00877          66 RDGYYIGGQCAIIMFDVTSRVTYKNVPNWHRDLVRVCG---NIPIVLCGNKVDIKDRKVKAKQITFHRKKNLQYYEISAK  142 (166)
T ss_pred             cHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC---CCcEEEEEEchhcccccCCHHHHHHHHHcCCEEEEEeCC
Confidence            2334578899999999985544433 334455555433   46899999999986311 111222332223334444444


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ....++.+++
T Consensus       143 ~~~~v~~~f~  152 (166)
T cd00877         143 SNYNFEKPFL  152 (166)
T ss_pred             CCCChHHHHH
Confidence            4445554444

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.62  E-value=9.8e-15  Score=118.81  Aligned_cols=151  Identities=13%  Similarity=0.023  Sum_probs=89.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      .+..+|++||.+|+|||||++.++..........+.+.+...  ..+.. .....+.+|||||...+           ..
T Consensus        11 ~~~~Ki~vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~--~~~~~~~~~~~l~i~Dt~G~~~~-----------~~   77 (219)
T PLN03071         11 YPSFKLVIVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHP--LDFFTNCGKIRFYCWDTAGQEKF-----------GG   77 (219)
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhhCCCCCccCCccceeEEE--EEEEECCeEEEEEEEECCCchhh-----------hh
Confidence            556899999999999999999987654322111122222211  11111 12458899999997542           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC--hhhHHHHHcccCCchhhhh
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN--DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~--~~~~~~~~~~~~~~~l~~~  172 (253)
                      ....++.++|++|+|+|++++.+... ..++..+.+..   ...|+++|+||+|.....  ...+ .+.......+++.+
T Consensus        78 ~~~~~~~~~~~~ilvfD~~~~~s~~~i~~w~~~i~~~~---~~~piilvgNK~Dl~~~~v~~~~~-~~~~~~~~~~~e~S  153 (219)
T PLN03071         78 LRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLCRVC---ENIPIVLCGNKVDVKNRQVKAKQV-TFHRKKNLQYYEIS  153 (219)
T ss_pred             hhHHHcccccEEEEEEeCCCHHHHHHHHHHHHHHHHhC---CCCcEEEEEEchhhhhccCCHHHH-HHHHhcCCEEEEcC
Confidence            34456788899999999986655544 34444454432   235899999999985311  1122 33322223344554


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      ......+.+++.
T Consensus       154 Ak~~~~i~~~f~  165 (219)
T PLN03071        154 AKSNYNFEKPFL  165 (219)
T ss_pred             CCCCCCHHHHHH
Confidence            444445554443

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.61  E-value=2.4e-14  Score=112.19  Aligned_cols=117  Identities=17%  Similarity=0.141  Sum_probs=76.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|..|+|||||++.+.+........    .|....+......++  ..+.+|||||...           +...
T Consensus         2 ~~ki~vvG~~~vGKTsL~~~~~~~~f~~~~~----~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~l   66 (172)
T cd04141           2 EYKIVMLGAGGVGKSAVTMQFISHSFPDYHD----PTIEDAYKQQARIDNEPALLDILDTAGQAE-----------FTAM   66 (172)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHhCCCCCCcC----CcccceEEEEEEECCEEEEEEEEeCCCchh-----------hHHH
Confidence            3699999999999999999998765432211    111111111111233  4688999999743           3344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|++++.+... ..+...+.... .....|+++|.||+|...
T Consensus        67 ~~~~~~~~d~~ilv~d~~~~~Sf~~~~~~~~~i~~~~-~~~~~piilvgNK~Dl~~  121 (172)
T cd04141          67 RDQYMRCGEGFIICYSVTDRHSFQEASEFKKLITRVR-LTEDIPLVLVGNKVDLES  121 (172)
T ss_pred             hHHHhhcCCEEEEEEECCchhHHHHHHHHHHHHHHhc-CCCCCCEEEEEEChhhhh
Confidence            5566678899999999987777665 33444454432 122468999999999753

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.61  E-value=1.6e-14  Score=112.75  Aligned_cols=119  Identities=15%  Similarity=0.099  Sum_probs=74.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHH-HH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIV-KC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~-~~   96 (253)
                      ..+|+++|++|+|||||++++++..........  .........+.. .....+.+|||||...           +. ..
T Consensus         2 ~~ki~vvG~~~vGKTsli~~~~~~~~~~~~~~t--~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~-----------~~~~~   68 (170)
T cd04115           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPERTEAT--IGVDFRERTVEIDGERIKVQLWDTAGQER-----------FRKSM   68 (170)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCccccc--eeEEEEEEEEEECCeEEEEEEEeCCChHH-----------HHHhh
Confidence            479999999999999999999876542221111  111111112221 1235788999999642           22 23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++-+... ..++..+.... .....|+++|.||.|...
T Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~p~iiv~nK~Dl~~  123 (170)
T cd04115          69 VQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHS-LPNEVPRILVGNKCDLRE  123 (170)
T ss_pred             HHHhhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhc-CCCCCCEEEEEECccchh
Confidence            4556688899999999986555444 33333444332 122368999999999864

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

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.61  E-value=1.6e-14  Score=112.21  Aligned_cols=117  Identities=14%  Similarity=0.068  Sum_probs=75.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc--CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR--ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|++|+|||||++.|++......+  ......|.......+. ..+..+.+|||||...           +.....
T Consensus         1 ~i~~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~~~~l~Dt~G~~~-----------~~~~~~   68 (167)
T cd04160           1 SVLILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIGTIE-VGNARLKFWDLGGQES-----------LRSLWD   68 (167)
T ss_pred             CEEEEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceEEEE-ECCEEEEEEECCCChh-----------hHHHHH
Confidence            5899999999999999999875432111  1122234344444444 3578999999999843           334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.++|++++|+|+++..+...  ...++...+..  ....|+++++||+|...
T Consensus        69 ~~~~~~~~~v~vvd~~~~~~~~~--~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~  121 (167)
T cd04160          69 KYYAECHAIIYVIDSTDRERFEE--SKSALEKVLRNEALEGVPLLILANKQDLPD  121 (167)
T ss_pred             HHhCCCCEEEEEEECchHHHHHH--HHHHHHHHHhChhhcCCCEEEEEEcccccc
Confidence            56788899999999874332222  22333333221  12358999999999865

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.

>cd04123 Rab21 Rab21 subfamily

Probab=99.61  E-value=1.8e-14  Score=110.95  Aligned_cols=117  Identities=14%  Similarity=0.085  Sum_probs=73.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|++|+|||||+|++++.........  ..+.......... .....+.+|||||...           +.....
T Consensus         1 ~ki~i~G~~~~GKStli~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~-----------~~~~~~   67 (162)
T cd04123           1 FKVVLLGEGRVGKTSLVLRYVENKFNEKHES--TTQASFFQKTVNIGGKRIDLAIWDTAGQER-----------YHALGP   67 (162)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCcCC--ccceeEEEEEEEECCEEEEEEEEECCchHH-----------HHHhhH
Confidence            4899999999999999999998765322111  1111111111211 1234688999999632           223334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++++|+|+++.-+... ..++..+......  ..|+++|+||+|...
T Consensus        68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piiiv~nK~D~~~  119 (162)
T cd04123          68 IYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGN--NISLVIVGNKIDLER  119 (162)
T ss_pred             HHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECccccc
Confidence            45578899999999875544333 3334444444332  358999999999874

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

>cd04131 Rnd Rnd subfamily

Probab=99.61  E-value=1.9e-14  Score=113.37  Aligned_cols=114  Identities=15%  Similarity=0.060  Sum_probs=76.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|.+|+|||||++.+++........    .|....+. .+.. .....+.+|||||...           +....
T Consensus         2 ~Kiv~vG~~~vGKTsli~~~~~~~f~~~~~----~t~~~~~~~~~~~~~~~~~l~iwDt~G~~~-----------~~~~~   66 (178)
T cd04131           2 CKIVVVGDVQCGKTALLQVFAKDCYPETYV----PTVFENYTASFEIDEQRIELSLWDTSGSPY-----------YDNVR   66 (178)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCcCCCCcC----CceEEEEEEEEEECCEEEEEEEEECCCchh-----------hhhcc
Confidence            689999999999999999999875422211    12211111 1111 1235688999999743           22334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+++++|++|+|+|++++-+...  ..++..+.+..+   ..|+++|.||.|+..
T Consensus        67 ~~~~~~a~~~ilvfdit~~~Sf~~~~~~w~~~i~~~~~---~~~iilVgnK~DL~~  119 (178)
T cd04131          67 PLCYPDSDAVLICFDISRPETLDSVLKKWRGEIQEFCP---NTKVLLVGCKTDLRT  119 (178)
T ss_pred             hhhcCCCCEEEEEEECCChhhHHHHHHHHHHHHHHHCC---CCCEEEEEEChhhhc
Confidence            456789999999999987766655  345556655432   358999999999753

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.61  E-value=3.4e-14  Score=127.13  Aligned_cols=127  Identities=22%  Similarity=0.224  Sum_probs=87.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|++|+|||||+|+|+|......+. ..+.|......... .++..+.+|||||+.....-.+..........
T Consensus       172 ~~~~v~ivG~~n~GKStlin~ll~~~~~~~~~-~~gtt~~~~~~~~~-~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~  249 (435)
T PRK00093        172 EPIKIAIIGRPNVGKSSLINALLGEERVIVSD-IAGTTRDSIDTPFE-RDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRT  249 (435)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCceeecC-CCCceEEEEEEEEE-ECCeeEEEEECCCCCCCcchhhHHHHHHHHHH
Confidence            45899999999999999999999987543332 23444444333333 46788999999998654332221111111111


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+...+|++|+|+|++.+.+..+..++..+.+. +    .|+++|+||+|...
T Consensus       250 ~~~~~~ad~~ilViD~~~~~~~~~~~i~~~~~~~-~----~~~ivv~NK~Dl~~  298 (435)
T PRK00093        250 LKAIERADVVLLVIDATEGITEQDLRIAGLALEA-G----RALVIVVNKWDLVD  298 (435)
T ss_pred             HHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHc-C----CcEEEEEECccCCC
Confidence            2344677999999999988998888777666543 3    47999999999984

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.61  E-value=1.1e-14  Score=116.56  Aligned_cols=117  Identities=21%  Similarity=0.237  Sum_probs=79.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc---ceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGV---TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~---t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ++|+++|++|+|||||+|+|+|...+..+..+.+.   +.....  +.......+.+|||||+.+.....+    ++.. 
T Consensus         2 ~kI~i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~--~~~~~~~~l~l~DtpG~~~~~~~~~----~~l~-   74 (197)
T cd04104           2 LNIAVTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTP--YPHPKFPNVTLWDLPGIGSTAFPPD----DYLE-   74 (197)
T ss_pred             eEEEEECCCCCCHHHHHHHHhccCCCCCCccccCccccccCcee--eecCCCCCceEEeCCCCCcccCCHH----HHHH-
Confidence            68999999999999999999996544333222221   222111  1111245789999999976543322    2211 


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ...+.+.|++|+|.+  .+++..+..+++.+... +    .++++|+||+|...
T Consensus        75 -~~~~~~~d~~l~v~~--~~~~~~d~~~~~~l~~~-~----~~~ilV~nK~D~~~  121 (197)
T cd04104          75 -EMKFSEYDFFIIISS--TRFSSNDVKLAKAIQCM-G----KKFYFVRTKVDRDL  121 (197)
T ss_pred             -HhCccCcCEEEEEeC--CCCCHHHHHHHHHHHHh-C----CCEEEEEecccchh
Confidence             123467788888854  47898898888888775 4    37899999999975

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

>PLN03118 Rab family protein; Provisional

Probab=99.61  E-value=2e-14  Score=116.33  Aligned_cols=123  Identities=15%  Similarity=0.129  Sum_probs=75.5

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      +......+|+|+|++|+|||||+++|++...... ..+.+  .......+... ....+.+|||||...           
T Consensus         9 ~~~~~~~kv~ivG~~~vGKTsli~~l~~~~~~~~-~~t~~--~~~~~~~~~~~~~~~~l~l~Dt~G~~~-----------   74 (211)
T PLN03118          9 SGYDLSFKILLIGDSGVGKSSLLVSFISSSVEDL-APTIG--VDFKIKQLTVGGKRLKLTIWDTAGQER-----------   74 (211)
T ss_pred             cccCcceEEEEECcCCCCHHHHHHHHHhCCCCCc-CCCce--eEEEEEEEEECCEEEEEEEEECCCchh-----------
Confidence            3344558999999999999999999998754211 11111  11111222211 134788999999743           


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHH--HHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA--ALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~--~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +......++..+|++|+|+|++++.+.....  +...+.. +......|+++|+||.|...
T Consensus        75 ~~~~~~~~~~~~d~~vlv~D~~~~~sf~~~~~~~~~~~~~-~~~~~~~~~ilv~NK~Dl~~  134 (211)
T PLN03118         75 FRTLTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVEL-YSTNQDCVKMLVGNKVDRES  134 (211)
T ss_pred             hHHHHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hcCCCCCCEEEEEECccccc
Confidence            2233445567889999999998554444321  2222322 22222347899999999864

>COG5019 CDC3 Septin family protein [Cell division and chromosome partitioning / Cytoskeleton]

Probab=99.61  E-value=3.3e-14  Score=119.94  Aligned_cols=136  Identities=25%  Similarity=0.352  Sum_probs=92.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc----CCC--CccceeeeeeeeEee-CC--eEEEEEeCCCCCCCCCCcH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR----ASS--SGVTSTCEMQRTVLK-DG--QVVNVIDTPGLFDFSAGSE   87 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~----~~~--~~~t~~~~~~~~~~~-~~--~~~~liDtpG~~~~~~~~~   87 (253)
                      +-.++|++||++|.|||||+|+|++.......    ..+  ...+........... ++  .+++|+||||++|+-.. .
T Consensus        21 Gi~f~im~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idN-s   99 (373)
T COG5019          21 GIDFTIMVVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDN-S   99 (373)
T ss_pred             CCceEEEEecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccc-c
Confidence            45689999999999999999999998543221    111  112332333222221 22  37899999999986533 4


Q ss_pred             HHHHHHHHHHHhhc------------------CCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           88 FVGKEIVKCIGMAK------------------DGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        88 ~~~~~~~~~~~~~~------------------~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+..+...+...+                  .++|++||++.++ +.+++.+..+++.+.+.      .++|+|+.|+|
T Consensus       100 ~~we~I~~yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~l~~~DIe~Mk~ls~~------vNlIPVI~KaD  173 (373)
T COG5019         100 KCWEPIVDYIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHGLKPLDIEAMKRLSKR------VNLIPVIAKAD  173 (373)
T ss_pred             ccHHHHHHHHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCCCCHHHHHHHHHHhcc------cCeeeeeeccc
Confidence            44544444432211                  5679999999874 57999999998888775      37999999999


Q ss_pred             CCCCChhhHHHHH
Q 025391          149 ELEDNDETLEDYL  161 (253)
Q Consensus       149 ~~~~~~~~~~~~~  161 (253)
                      .+.  ...+..|-
T Consensus       174 ~lT--~~El~~~K  184 (373)
T COG5019         174 TLT--DDELAEFK  184 (373)
T ss_pred             cCC--HHHHHHHH
Confidence            998  55444443

>PLN03110 Rab GTPase; Provisional

Probab=99.61  E-value=2.3e-14  Score=116.38  Aligned_cols=119  Identities=17%  Similarity=0.141  Sum_probs=77.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...+|+++|++|+|||||++.+++.........+.+.....  ..+.. .....+.+|||||.           .++...
T Consensus        11 ~~~Ki~ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~--~~v~~~~~~~~l~l~Dt~G~-----------~~~~~~   77 (216)
T PLN03110         11 YLFKIVLIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFAT--RTLQVEGKTVKAQIWDTAGQ-----------ERYRAI   77 (216)
T ss_pred             ceeEEEEECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEE--EEEEECCEEEEEEEEECCCc-----------HHHHHH
Confidence            44899999999999999999999876432222222222111  22221 12347889999996           334455


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.+++++|+|+|+++..+... ..++..+....+  ...|+++|+||+|...
T Consensus        78 ~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~piiiv~nK~Dl~~  131 (216)
T PLN03110         78 TSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHAD--SNIVIMMAGNKSDLNH  131 (216)
T ss_pred             HHHHhCCCCEEEEEEECCChHHHHHHHHHHHHHHHhCC--CCCeEEEEEEChhccc
Confidence            5666788999999999985544433 334444444332  2358999999999753

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.61  E-value=2.2e-14  Score=113.34  Aligned_cols=114  Identities=18%  Similarity=0.154  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCC--------------CCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   86 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~   86 (253)
                      +|+++|.+|+|||||+|+|++.........              ..+.+......... ..+..+.+|||||..+     
T Consensus         1 ~v~v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~liDtpG~~~-----   74 (189)
T cd00881           1 NVGIAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFE-WPDRRVNFIDTPGHED-----   74 (189)
T ss_pred             CEEEEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEe-eCCEEEEEEeCCCcHH-----
Confidence            589999999999999999998865432211              11233333333333 2567899999999753     


Q ss_pred             HHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           87 EFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                            +......++..+|++++|+|++...+......+..+..     ...|+++|+||+|...
T Consensus        75 ------~~~~~~~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~-----~~~~i~iv~nK~D~~~  128 (189)
T cd00881          75 ------FSSEVIRGLSVSDGAILVVDANEGVQPQTREHLRIARE-----GGLPIIVAINKIDRVG  128 (189)
T ss_pred             ------HHHHHHHHHHhcCEEEEEEECCCCCcHHHHHHHHHHHH-----CCCCeEEEEECCCCcc
Confidence                  22333344457799999999987777766666655544     2358999999999985

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.

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.61  E-value=2e-14  Score=113.91  Aligned_cols=114  Identities=13%  Similarity=0.044  Sum_probs=73.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEee--CCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ++|+++|++|+|||||++++++.......    ..|....+. .+...  ....+.+|||||...           +...
T Consensus         1 ~ki~vvG~~~vGKTsli~~l~~~~~~~~~----~~t~~~~~~~~i~~~~~~~~~l~i~Dt~G~~~-----------~~~~   65 (187)
T cd04132           1 KKIVVVGDGGCGKTCLLIVYSQGKFPEEY----VPTVFENYVTNIQGPNGKIIELALWDTAGQEE-----------YDRL   65 (187)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhCcCCCCC----CCeeeeeeEEEEEecCCcEEEEEEEECCCchh-----------HHHH
Confidence            48999999999999999999987643221    112212111 12211  234688999999632           2334


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+.++|++|+|+|.+++.+....  .++..+... .  ...|+++|+||.|...
T Consensus        66 ~~~~~~~ad~ii~v~d~~~~~s~~~~~~~~~~~~~~~-~--~~~piilv~nK~Dl~~  119 (187)
T cd04132          66 RPLSYPDVDVLLICYAVDNPTSLDNVEDKWFPEVNHF-C--PGTPIMLVGLKTDLRK  119 (187)
T ss_pred             HHHhCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHh-C--CCCCEEEEEeChhhhh
Confidence            44566889999999999865554442  233333332 2  2358999999999864

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.

>cd04138 H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily

Probab=99.61  E-value=2.1e-14  Score=110.58  Aligned_cols=116  Identities=21%  Similarity=0.188  Sum_probs=72.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||+|++++.........+.+...   ..... ..+  ..+.+|||||...           +....
T Consensus         2 ~ki~iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~i~Dt~G~~~-----------~~~l~   66 (162)
T cd04138           2 YKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY---RKQVV-IDGETCLLDILDTAGQEE-----------YSAMR   66 (162)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCcCCcCCcchheE---EEEEE-ECCEEEEEEEEECCCCcc-----------hHHHH
Confidence            6899999999999999999998754222111111111   11111 233  3577899999743           22344


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|++++++-+..+ ..++..+.+... ....|+++|+||.|...
T Consensus        67 ~~~~~~~~~~i~v~~~~~~~s~~~~~~~~~~i~~~~~-~~~~piivv~nK~Dl~~  120 (162)
T cd04138          67 DQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKD-SDDVPMVLVGNKCDLAA  120 (162)
T ss_pred             HHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence            456677899999999985443333 223344444321 22458999999999864

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.61  E-value=1.4e-14  Score=112.16  Aligned_cols=116  Identities=19%  Similarity=0.140  Sum_probs=72.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++++++........ +....  ....... ..  ...+.+|||||.....           ...
T Consensus         1 ~ki~v~G~~~~GKTsli~~~~~~~~~~~~~-~t~~~--~~~~~~~-~~~~~~~l~i~Dt~g~~~~~-----------~~~   65 (164)
T smart00173        1 YKLVVLGSGGVGKSALTIQFVQGHFVDDYD-PTIED--SYRKQIE-IDGEVCLLDILDTAGQEEFS-----------AMR   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCcCCcccC-Cchhh--hEEEEEE-ECCEEEEEEEEECCCcccch-----------HHH
Confidence            389999999999999999999875422211 11111  1111111 23  3467899999986432           233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++...|++++|+|++++-+... ..+...+.+.... ...|+++|.||+|...
T Consensus        66 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~pii~v~nK~Dl~~  119 (164)
T smart00173       66 DQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDR-DDVPIVLVGNKCDLES  119 (164)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCCEEEEEECccccc
Confidence            344567799999999985444333 2333444443221 2358999999999864

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

>cd04117 Rab15 Rab15 subfamily

Probab=99.61  E-value=2.6e-14  Score=110.71  Aligned_cols=116  Identities=18%  Similarity=0.186  Sum_probs=73.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++.+++.........+.+.  ......+.. .+  ..+.+|||||...           +....
T Consensus         1 ~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~--~~~~~~~~~-~~~~~~l~i~D~~g~~~-----------~~~~~   66 (161)
T cd04117           1 FRLLLIGDSGVGKTCLLCRFTDNEFHSSHISTIGV--DFKMKTIEV-DGIKVRIQIWDTAGQER-----------YQTIT   66 (161)
T ss_pred             CEEEEECcCCCCHHHHHHHHhcCCCCCCCCCceee--EEEEEEEEE-CCEEEEEEEEeCCCcHh-----------HHhhH
Confidence            37999999999999999999877543221111111  111112221 23  4678999999643           23444


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++++|+|++++-+... ..++..+.....  ...|+++|.||.|...
T Consensus        67 ~~~~~~~~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~--~~~~iilvgnK~Dl~~  119 (161)
T cd04117          67 KQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAP--EGVQKILIGNKADEEQ  119 (161)
T ss_pred             HHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccc
Confidence            556678899999999986544433 233333333321  2358999999999864

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

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.60  E-value=1.7e-14  Score=115.09  Aligned_cols=117  Identities=17%  Similarity=0.238  Sum_probs=82.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      ..+|+++|+.++|||||+++|++......              .....+.|......... .++..++++||||+.    
T Consensus         2 ~~ni~iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~-~~~~~i~~iDtPG~~----   76 (195)
T cd01884           2 HVNVGTIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYE-TANRHYAHVDCPGHA----   76 (195)
T ss_pred             cEEEEEECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEec-CCCeEEEEEECcCHH----
Confidence            37899999999999999999986411000              01134555555544444 367789999999984    


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                             .+..........+|++++|+|+.......+...+..+... |.   +++++++||+|...
T Consensus        77 -------~~~~~~~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-~~---~~iIvviNK~D~~~  132 (195)
T cd01884          77 -------DYIKNMITGAAQMDGAILVVSATDGPMPQTREHLLLARQV-GV---PYIVVFLNKADMVD  132 (195)
T ss_pred             -------HHHHHHHHHhhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CcEEEEEeCCCCCC
Confidence                   2333334445678999999999877888888888776653 42   24789999999974

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.

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.60  E-value=8.9e-15  Score=118.88  Aligned_cols=126  Identities=24%  Similarity=0.216  Sum_probs=86.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+.+|.|+|.+|+|||||+|+|++.......  ..+.+.....+.....++..+++|||||+.+....+    +++++.
T Consensus        37 ~~pvnvLi~G~TG~GKSSliNALF~~~~~~v~--~vg~~t~~~~~~~~~~~~~~l~lwDtPG~gdg~~~D----~~~r~~  110 (296)
T COG3596          37 KEPVNVLLMGATGAGKSSLINALFQGEVKEVS--KVGVGTDITTRLRLSYDGENLVLWDTPGLGDGKDKD----AEHRQL  110 (296)
T ss_pred             cCceeEEEecCCCCcHHHHHHHHHhccCceee--ecccCCCchhhHHhhccccceEEecCCCcccchhhh----HHHHHH
Confidence            34578889999999999999999965432222  122222222222333467889999999998744322    456677


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +....+..|.+|+++++.++.=.-+..+++.+.-...   ..++++++|.+|...
T Consensus       111 ~~d~l~~~DLvL~l~~~~draL~~d~~f~~dVi~~~~---~~~~i~~VtQ~D~a~  162 (296)
T COG3596         111 YRDYLPKLDLVLWLIKADDRALGTDEDFLRDVIILGL---DKRVLFVVTQADRAE  162 (296)
T ss_pred             HHHHhhhccEEEEeccCCCccccCCHHHHHHHHHhcc---CceeEEEEehhhhhc
Confidence            7777788899999999987755555556655544322   258999999999987

>cd04111 Rab39 Rab39 subfamily

Probab=99.60  E-value=2.6e-14  Score=115.67  Aligned_cols=119  Identities=17%  Similarity=0.087  Sum_probs=74.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|++|+|||||++.+++.........  ..........+....  ...+.+|||||..           .+...
T Consensus         2 ~~KIvvvG~~~vGKTsLi~~l~~~~~~~~~~~--ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~-----------~~~~~   68 (211)
T cd04111           2 QFRLIVIGDSTVGKSSLLKRFTEGRFAEVSDP--TVGVDFFSRLIEIEPGVRIKLQLWDTAGQE-----------RFRSI   68 (211)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCc--eeceEEEEEEEEECCCCEEEEEEEeCCcch-----------hHHHH
Confidence            37999999999999999999998764322211  111111111122112  3478899999963           23334


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++-+... ..++..+..... ....+++||.||.|...
T Consensus        69 ~~~~~~~~d~iilv~D~~~~~Sf~~l~~~~~~i~~~~~-~~~~~iilvgNK~Dl~~  123 (211)
T cd04111          69 TRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQ-PHRPVFILVGHKCDLES  123 (211)
T ss_pred             HHHHhcCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCeEEEEEEcccccc
Confidence            4556678899999999986544333 333444433322 12346889999999864

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.

>cd01881 Obg_like The Obg-like subfamily consists of five well-delimited, ancient subfamilies, namely Obg, DRG, YyaF/YchF, Ygr210, and NOG1

Probab=99.60  E-value=1.5e-14  Score=113.15  Aligned_cols=121  Identities=19%  Similarity=0.110  Sum_probs=72.8

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC-CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcC
Q 025391           24 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKD  102 (253)
Q Consensus        24 lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~  102 (253)
                      |+|++|||||||+|+|++.... .. ...+.|..+...... .. +..+.+|||||+.+.....+.....+    ...+.
T Consensus         1 iiG~~~~GKStll~~l~~~~~~-~~-~~~~~t~~~~~~~~~-~~~~~~~~i~DtpG~~~~~~~~~~~~~~~----~~~~~   73 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPK-VA-NYPFTTLEPNLGVVE-VPDGARIQVADIPGLIEGASEGRGLGNQF----LAHIR   73 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCcc-cc-CCCceeecCcceEEE-cCCCCeEEEEeccccchhhhcCCCccHHH----HHHHh
Confidence            5899999999999999998641 11 122334444444333 35 78899999999864322222111222    22335


Q ss_pred             CccEEEEEEeCCCCC-----CHH-H-HHHHHHHHHHhcc-----cccCeEEEEEeCCCCCC
Q 025391          103 GIHAVLVVFSVRSRF-----SQE-E-EAALHSLQTLFGK-----KIFDYMIVVFTGGDELE  151 (253)
Q Consensus       103 ~~~~~l~v~d~~~~~-----~~~-~-~~~l~~l~~~~g~-----~~~~~~ivv~~k~D~~~  151 (253)
                      ++|++++|+|+++..     +.. + ..+...+......     ....|+++|+||+|...
T Consensus        74 ~~d~ii~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~  134 (176)
T cd01881          74 RADAILHVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDD  134 (176)
T ss_pred             ccCEEEEEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCc
Confidence            679999999998553     222 2 2233333322110     12368999999999986

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.60  E-value=4.8e-14  Score=125.92  Aligned_cols=126  Identities=21%  Similarity=0.232  Sum_probs=86.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|.+|+|||||+|+|+|........ ..+.|.......+. ..+..+.+|||||+.....-.+..........
T Consensus       171 ~~~~v~ivG~~~~GKSsLin~l~~~~~~~~~~-~~gtt~~~~~~~~~-~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~  248 (429)
T TIGR03594       171 GPIKIAIIGRPNVGKSTLVNALLGEERVIVSD-IAGTTRDSIDIPFE-RNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRT  248 (429)
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCeeecCC-CCCceECcEeEEEE-ECCcEEEEEECCCccccccchhhHHHHHHHHH
Confidence            34799999999999999999999986432222 23344443333333 36778999999998764432221111111111


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..++..+|++|+|+|++++.+..+..++..+.+. +    .|+++|+||+|..
T Consensus       249 ~~~~~~ad~~ilV~D~~~~~~~~~~~~~~~~~~~-~----~~iiiv~NK~Dl~  296 (429)
T TIGR03594       249 LKAIERADVVLLVLDATEGITEQDLRIAGLILEA-G----KALVIVVNKWDLV  296 (429)
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHHHHHHHHHc-C----CcEEEEEECcccC
Confidence            2345678999999999988998887777665542 2    4799999999998

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.60  E-value=2.4e-14  Score=111.58  Aligned_cols=119  Identities=15%  Similarity=0.102  Sum_probs=71.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ++|+++|++|+|||||+|++++...........+...  ........ ....+.+|||||...           +.....
T Consensus         1 ~ki~viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~--~~~~~~~~~~~~~~~~~D~~g~~~-----------~~~~~~   67 (172)
T cd01862           1 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADF--LTKEVTVDDKLVTLQIWDTAGQER-----------FQSLGV   67 (172)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCcCcCCccceEE--EEEEEEECCEEEEEEEEeCCChHH-----------HHhHHH
Confidence            4899999999999999999998764222211111111  11112211 124577999999743           223344


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|++++.+... ..+...+......  ....|+++|+||.|...
T Consensus        68 ~~~~~~d~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  123 (172)
T cd01862          68 AFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEE  123 (172)
T ss_pred             HHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECccccc
Confidence            55678899999999985544332 1222222222221  12468999999999983

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-

>KOG0098 consensus GTPase Rab2, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.60  E-value=6.5e-14  Score=107.05  Aligned_cols=154  Identities=15%  Similarity=0.104  Sum_probs=107.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++++++|.+|+|||+|+...+.....+....+.++..-.....+. .+..++.+|||.|+           +.++...
T Consensus         5 ~~fKyIiiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id-~k~IKlqiwDtaGq-----------e~frsv~   72 (216)
T KOG0098|consen    5 YLFKYIIIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTID-GKQIKLQIWDTAGQ-----------ESFRSVT   72 (216)
T ss_pred             ceEEEEEECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEc-CceEEEEEEecCCc-----------HHHHHHH
Confidence            45899999999999999999999877644444444443333333333 24568999999998           5566777


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.++.++|+|.|++.+-+... ..+|.-++.....+  ..++++.||+|+-..   ..+.-+.|-+...--+.+++.
T Consensus        73 ~syYr~a~GalLVydit~r~sF~hL~~wL~D~rq~~~~N--mvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSa  150 (216)
T KOG0098|consen   73 RSYYRGAAGALLVYDITRRESFNHLTSWLEDARQHSNEN--MVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSA  150 (216)
T ss_pred             HHHhccCcceEEEEEccchhhHHHHHHHHHHHHHhcCCC--cEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhh
Confidence            888899999999999996655544 44555555543233  468899999998732   245666777755555566777


Q ss_pred             HHhhhHHHHHHH
Q 025391          174 TKLRDQQFEVDS  185 (253)
Q Consensus       174 ~~~~~~~~~~~~  185 (253)
                      +..+.+++++.+
T Consensus       151 kt~~~VEEaF~n  162 (216)
T KOG0098|consen  151 KTAENVEEAFIN  162 (216)
T ss_pred             hhhhhHHHHHHH
Confidence            777777777653

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.60  E-value=3.4e-14  Score=125.19  Aligned_cols=124  Identities=20%  Similarity=0.175  Sum_probs=80.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      .|+|||.++||||||+|+|++...- . ......|.......+....+..++++||||+....+....+...+.+.+   
T Consensus       160 dVglVG~pNaGKSTLLn~Lt~ak~k-I-a~ypfTTl~PnlG~v~~~~~~~~~laD~PGliega~~~~gLg~~fLrhi---  234 (424)
T PRK12297        160 DVGLVGFPNVGKSTLLSVVSNAKPK-I-ANYHFTTLVPNLGVVETDDGRSFVMADIPGLIEGASEGVGLGHQFLRHI---  234 (424)
T ss_pred             cEEEEcCCCCCHHHHHHHHHcCCCc-c-ccCCcceeceEEEEEEEeCCceEEEEECCCCcccccccchHHHHHHHHH---
Confidence            8999999999999999999987632 1 1223445555555555433778999999999753332222333333333   


Q ss_pred             cCCccEEEEEEeCCCC--CCH-HH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          101 KDGIHAVLVVFSVRSR--FSQ-EE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~--~~~-~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                       .+++++|+|+|+++.  .++ .+ ..+.+.+..+......+|.+||+||+|..
T Consensus       235 -er~~llI~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~  287 (424)
T PRK12297        235 -ERTRVIVHVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLP  287 (424)
T ss_pred             -hhCCEEEEEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCc
Confidence             455899999999732  122 22 34445555432222347899999999964

>PTZ00369 Ras-like protein; Provisional

Probab=99.60  E-value=4.2e-14  Score=112.49  Aligned_cols=120  Identities=22%  Similarity=0.153  Sum_probs=74.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +..+|+++|.+|+|||||++++++.........+.+.+. .....+. .....+.+|||||..++.           ...
T Consensus         4 ~~~Ki~iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~l~i~Dt~G~~~~~-----------~l~   70 (189)
T PTZ00369          4 TEYKLVVVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVID-EETCLLDILDTAGQEEYS-----------AMR   70 (189)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEEC-CEEEEEEEEeCCCCccch-----------hhH
Confidence            348999999999999999999997654222111111111 1111111 123467889999986532           334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.+.|++++|+|++++-+... ..+...+.+... ....|+++|.||.|...
T Consensus        71 ~~~~~~~d~iilv~D~s~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~Dl~~  124 (189)
T PTZ00369         71 DQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKD-KDRVPMILVGNKCDLDS  124 (189)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence            455678899999999986554333 334444444322 12358999999999753

>cd04149 Arf6 Arf6 subfamily

Probab=99.60  E-value=3.9e-14  Score=110.58  Aligned_cols=126  Identities=16%  Similarity=0.178  Sum_probs=80.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +..+|+++|.+|+|||||++.|....... ..    .|......... .....+.+|||||..           .+....
T Consensus         8 ~~~kv~i~G~~~~GKTsli~~l~~~~~~~-~~----~t~g~~~~~~~-~~~~~~~l~Dt~G~~-----------~~~~~~   70 (168)
T cd04149           8 KEMRILMLGLDAAGKTTILYKLKLGQSVT-TI----PTVGFNVETVT-YKNVKFNVWDVGGQD-----------KIRPLW   70 (168)
T ss_pred             CccEEEEECcCCCCHHHHHHHHccCCCcc-cc----CCcccceEEEE-ECCEEEEEEECCCCH-----------HHHHHH
Confidence            34799999999999999999998654321 11    12222222233 356789999999973           233445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      ..++.++|++|+|+|++++.+...  ..+++.+.+...  ...|++||+||+|.... ....+.+++.
T Consensus        71 ~~~~~~a~~ii~v~D~t~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~i~~~~~  136 (168)
T cd04149          71 RHYYTGTQGLIFVVDSADRDRIDE--ARQELHRIINDREMRDALLLVFANKQDLPDAMKPHEIQEKLG  136 (168)
T ss_pred             HHHhccCCEEEEEEeCCchhhHHH--HHHHHHHHhcCHhhcCCcEEEEEECcCCccCCCHHHHHHHcC
Confidence            566788999999999986544332  233343333221  23589999999998631 1344555543

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

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.60  E-value=8.9e-15  Score=126.73  Aligned_cols=137  Identities=22%  Similarity=0.306  Sum_probs=96.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHH-HHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG-KEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~-~~~~~~   96 (253)
                      ...+|+|||.+++|||||+|+|+|+.....+. ..|.|...-..... ++++.+.++||+|+-....-.+.+. ....+.
T Consensus       177 ~~ikiaiiGrPNvGKSsLiN~ilgeeR~Iv~~-~aGTTRD~I~~~~e-~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt  254 (444)
T COG1160         177 DPIKIAIIGRPNVGKSSLINAILGEERVIVSD-IAGTTRDSIDIEFE-RDGRKYVLIDTAGIRRKGKITESVEKYSVART  254 (444)
T ss_pred             CceEEEEEeCCCCCchHHHHHhccCceEEecC-CCCccccceeeeEE-ECCeEEEEEECCCCCcccccccceEEEeehhh
Confidence            45899999999999999999999998755443 33455555444444 5899999999999964332212110 011111


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      + .+...++++++|+|++.+++..+...+..+.+. |    ++++||+||||.+..+....+++..
T Consensus       255 ~-~aI~~a~vvllviDa~~~~~~qD~~ia~~i~~~-g----~~~vIvvNKWDl~~~~~~~~~~~k~  314 (444)
T COG1160         255 L-KAIERADVVLLVIDATEGISEQDLRIAGLIEEA-G----RGIVIVVNKWDLVEEDEATMEEFKK  314 (444)
T ss_pred             H-hHHhhcCEEEEEEECCCCchHHHHHHHHHHHHc-C----CCeEEEEEccccCCchhhHHHHHHH
Confidence            1 222456899999999999999999998888775 4    3699999999999743345555543

>cd04157 Arl6 Arl6 subfamily

Probab=99.59  E-value=3.9e-14  Score=109.29  Aligned_cols=116  Identities=15%  Similarity=0.079  Sum_probs=73.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|.+|+|||||++.|++...+.....   .|......... ..+..+.+|||||...           +......+
T Consensus         1 ~i~~vG~~~~GKTsl~~~l~~~~~~~~~~~---~t~g~~~~~~~-~~~~~~~l~Dt~G~~~-----------~~~~~~~~   65 (162)
T cd04157           1 NILVVGLDNSGKTTIINQLKPENAQSQIIV---PTVGFNVESFE-KGNLSFTAFDMSGQGK-----------YRGLWEHY   65 (162)
T ss_pred             CEEEECCCCCCHHHHHHHHcccCCCcceec---CccccceEEEE-ECCEEEEEEECCCCHh-----------hHHHHHHH
Confidence            589999999999999999998643222111   11111112222 3577899999999743           33444556


Q ss_pred             cCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhc-ccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g-~~~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++|+|+|++++.+... ...+..+..... .....|+++|+||.|...
T Consensus        66 ~~~~d~ii~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~  118 (162)
T cd04157          66 YKNIQGIIFVIDSSDRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPD  118 (162)
T ss_pred             HccCCEEEEEEeCCcHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccC
Confidence            688999999999985544322 223333322111 012468999999999875

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

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.59  E-value=3e-14  Score=115.06  Aligned_cols=115  Identities=14%  Similarity=0.150  Sum_probs=77.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------------------CCCCccceeeeeeeeEeeCCeEE
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR-----------------------------ASSSGVTSTCEMQRTVLKDGQVV   71 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~-----------------------------~~~~~~t~~~~~~~~~~~~~~~~   71 (253)
                      ||+|+|++|+|||||++.|++.......                             ....+.|.......+. +++..+
T Consensus         1 ~i~iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~-~~~~~~   79 (208)
T cd04166           1 RFLTCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFS-TPKRKF   79 (208)
T ss_pred             CEEEEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEe-cCCceE
Confidence            6899999999999999999875432210                             0013455555555444 478899


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           72 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        72 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+|||||+.+           +...+..+...+|++|+|+|++.............+.. ++.   +++++|+||+|...
T Consensus        80 ~liDTpG~~~-----------~~~~~~~~~~~ad~~llVvD~~~~~~~~~~~~~~~~~~-~~~---~~iIvviNK~D~~~  144 (208)
T cd04166          80 IIADTPGHEQ-----------YTRNMVTGASTADLAILLVDARKGVLEQTRRHSYILSL-LGI---RHVVVAVNKMDLVD  144 (208)
T ss_pred             EEEECCcHHH-----------HHHHHHHhhhhCCEEEEEEECCCCccHhHHHHHHHHHH-cCC---CcEEEEEEchhccc
Confidence            9999999732           22223334567899999999987766665554444433 332   35788999999874

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.

>KOG2655 consensus Septin family protein (P-loop GTPase) [Cell cycle control, cell division, chromosome partitioning; Cytoskeleton; Intracellular trafficking, secretion, and vesicular transport]

Probab=99.59  E-value=3.1e-14  Score=120.88  Aligned_cols=136  Identities=24%  Similarity=0.285  Sum_probs=89.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-----CCCCccceeeeeeeeEe-eCC--eEEEEEeCCCCCCCCCCcHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-----ASSSGVTSTCEMQRTVL-KDG--QVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-----~~~~~~t~~~~~~~~~~-~~~--~~~~liDtpG~~~~~~~~~~~   89 (253)
                      -.++++++|++|.|||||+|+|++.......     ......|.......... .+|  .+++|+||||++|.-.. ...
T Consensus        20 ~~ftlmvvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdn-s~~   98 (366)
T KOG2655|consen   20 FDFTLMVVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDN-SNC   98 (366)
T ss_pred             CceEEEEecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccc-ccc
Confidence            3489999999999999999999988543221     11111122222222221 123  37899999999976533 333


Q ss_pred             HHHHHHHHH----hhc-------------CCccEEEEEEeCCCC-CCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GKEIVKCIG----MAK-------------DGIHAVLVVFSVRSR-FSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~~~~~~~~----~~~-------------~~~~~~l~v~d~~~~-~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.+...+.    .++             .++|++||+++++.+ +++.|..+++.+...+      ++|.|+.|+|.+.
T Consensus        99 w~pi~~yi~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghgL~p~Di~~Mk~l~~~v------NiIPVI~KaD~lT  172 (366)
T KOG2655|consen   99 WRPIVNYIDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHGLKPLDIEFMKKLSKKV------NLIPVIAKADTLT  172 (366)
T ss_pred             chhhhHHHHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCCCcHhhHHHHHHHhccc------cccceeeccccCC
Confidence            333333322    111             367999999998655 9999999988887653      7999999999998


Q ss_pred             CChhhHHHHHc
Q 025391          152 DNDETLEDYLG  162 (253)
Q Consensus       152 ~~~~~~~~~~~  162 (253)
                        ...+..+..
T Consensus       173 --~~El~~~K~  181 (366)
T KOG2655|consen  173 --KDELNQFKK  181 (366)
T ss_pred             --HHHHHHHHH
Confidence              655544443

>PLN03108 Rab family protein; Provisional

Probab=99.59  E-value=4.3e-14  Score=114.31  Aligned_cols=119  Identities=16%  Similarity=0.114  Sum_probs=74.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|++|+|||||++.|++.........+.+.+.......+. .....+.+|||||..           .+.....
T Consensus         6 ~~kivivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~-~~~i~l~l~Dt~G~~-----------~~~~~~~   73 (210)
T PLN03108          6 LFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITID-NKPIKLQIWDTAGQE-----------SFRSITR   73 (210)
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEEC-CEEEEEEEEeCCCcH-----------HHHHHHH
Confidence            4899999999999999999999875432222222222212111111 112467899999963           2223344


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.++|++++|+|++++-+... ..++..+.....  ...|+++|+||+|...
T Consensus        74 ~~~~~ad~~vlv~D~~~~~s~~~l~~~~~~~~~~~~--~~~piiiv~nK~Dl~~  125 (210)
T PLN03108         74 SYYRGAAGALLVYDITRRETFNHLASWLEDARQHAN--ANMTIMLIGNKCDLAH  125 (210)
T ss_pred             HHhccCCEEEEEEECCcHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccCcc
Confidence            55577899999999985444333 233443433322  2358999999999864

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.59  E-value=5.6e-14  Score=114.90  Aligned_cols=114  Identities=14%  Similarity=0.050  Sum_probs=76.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|++||..|+|||||++.+++........    .|....+. .+.. .....+.+|||||..           .+...
T Consensus        13 ~~KIvvvGd~~VGKTsLi~r~~~~~F~~~y~----pTi~~~~~~~i~~~~~~v~l~iwDTaG~e-----------~~~~~   77 (232)
T cd04174          13 RCKLVLVGDVQCGKTAMLQVLAKDCYPETYV----PTVFENYTAGLETEEQRVELSLWDTSGSP-----------YYDNV   77 (232)
T ss_pred             eEEEEEECCCCCcHHHHHHHHhcCCCCCCcC----CceeeeeEEEEEECCEEEEEEEEeCCCch-----------hhHHH
Confidence            4799999999999999999998765422211    12111111 1111 123578899999973           33344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ...++.++|++|+|+|++++-+...  ..|+..+....+   ..|+++|.||.|+.
T Consensus        78 ~~~~~~~ad~vIlVyDit~~~Sf~~~~~~w~~~i~~~~~---~~piilVgNK~DL~  130 (232)
T cd04174          78 RPLCYSDSDAVLLCFDISRPETVDSALKKWKAEIMDYCP---STRILLIGCKTDLR  130 (232)
T ss_pred             HHHHcCCCcEEEEEEECCChHHHHHHHHHHHHHHHHhCC---CCCEEEEEECcccc
Confidence            5567789999999999997666553  345555655432   35899999999974

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.

>cd04175 Rap1 Rap1 subgroup

Probab=99.59  E-value=2.6e-14  Score=110.75  Aligned_cols=115  Identities=17%  Similarity=0.152  Sum_probs=72.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeee-eeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCE-MQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~-~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+|+++|.+|+|||||+++++..... ....   .|.... ..... ..  ...+.+|||||...+           ...
T Consensus         2 ~ki~~~G~~~~GKTsli~~~~~~~~~-~~~~---~t~~~~~~~~~~-~~~~~~~l~i~Dt~G~~~~-----------~~~   65 (164)
T cd04175           2 YKLVVLGSGGVGKSALTVQFVQGIFV-EKYD---PTIEDSYRKQVE-VDGQQCMLEILDTAGTEQF-----------TAM   65 (164)
T ss_pred             cEEEEECCCCCCHHHHHHHHHhCCCC-cccC---CcchheEEEEEE-ECCEEEEEEEEECCCcccc-----------hhH
Confidence            68999999999999999999855331 1111   111111 11122 23  346679999998532           234


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.+.|++++|+|.++.-+... ..++..+..... ....|+++|+||+|...
T Consensus        66 ~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  120 (164)
T cd04175          66 RDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDLED  120 (164)
T ss_pred             HHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECCcchh
Confidence            4456678899999999875544433 334444443321 23468999999999864

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

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.59  E-value=6.2e-14  Score=120.39  Aligned_cols=126  Identities=21%  Similarity=0.219  Sum_probs=78.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||.++||||||+|+|++.... . ......|.......+...++..+.++||||+.+.......+...+.+.+  
T Consensus       158 adV~lvG~pnaGKSTLl~~lt~~~~~-v-a~y~fTT~~p~ig~v~~~~~~~~~i~D~PGli~~a~~~~gLg~~flrhi--  233 (329)
T TIGR02729       158 ADVGLVGLPNAGKSTLISAVSAAKPK-I-ADYPFTTLVPNLGVVRVDDGRSFVIADIPGLIEGASEGAGLGHRFLKHI--  233 (329)
T ss_pred             ccEEEEcCCCCCHHHHHHHHhcCCcc-c-cCCCCCccCCEEEEEEeCCceEEEEEeCCCcccCCcccccHHHHHHHHH--
Confidence            46899999999999999999987531 1 1112334445555454433488999999999754433222333333333  


Q ss_pred             hcCCccEEEEEEeCCCCC--CH-HH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRF--SQ-EE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~--~~-~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                        .+++++|+|+|+++.-  ++ .+ ..+.+.+..+...-..+|++||+||+|...
T Consensus       234 --erad~ll~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~  287 (329)
T TIGR02729       234 --ERTRVLLHLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLD  287 (329)
T ss_pred             --HhhCEEEEEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCC
Confidence              4558999999987431  22 22 333344443311113468999999999975

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.

>cd04118 Rab24 Rab24 subfamily

Probab=99.59  E-value=2.9e-14  Score=113.60  Aligned_cols=114  Identities=20%  Similarity=0.212  Sum_probs=72.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee--eeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~--~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +||+++|.+|+|||||++++++.......   ...|....+  ..+. ..+  ..+.+|||||...+           ..
T Consensus         1 ~ki~vvG~~~vGKSsLi~~~~~~~~~~~~---~~~t~~~~~~~~~~~-~~~~~~~l~i~D~~G~~~~-----------~~   65 (193)
T cd04118           1 VKVVMLGKESVGKTSLVERYVHHRFLVGP---YQNTIGAAFVAKRMV-VGERVVTLGIWDTAGSERY-----------EA   65 (193)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCcCCcC---cccceeeEEEEEEEE-ECCEEEEEEEEECCCchhh-----------hh
Confidence            48999999999999999999986542211   111221111  1122 233  35679999997432           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++|++++|+|+++.-+... ..++..+...   ....|+++|+||+|...
T Consensus        66 ~~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~---~~~~piilv~nK~Dl~~  119 (193)
T cd04118          66 MSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQNL---EEHCKIYLCGTKSDLIE  119 (193)
T ss_pred             hhHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHhc---CCCCCEEEEEEcccccc
Confidence            33455678899999999985543332 3344444432   12358999999999764

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.59  E-value=3.4e-14  Score=111.12  Aligned_cols=115  Identities=19%  Similarity=0.107  Sum_probs=72.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee--eeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~--~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +|++||.+|+|||||++++++.......    ..|....+  ..+.. .....+.+|||||...           +....
T Consensus         2 ki~ivG~~~vGKTsli~~~~~~~f~~~~----~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~-----------~~~~~   66 (170)
T cd04108           2 KVIVVGDLSVGKTCLINRFCKDVFDKNY----KATIGVDFEMERFEILGVPFSLQLWDTAGQER-----------FKCIA   66 (170)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCCCCC----CCceeeEEEEEEEEECCEEEEEEEEeCCChHH-----------HHhhH
Confidence            7999999999999999999987542221    12222221  11211 1235789999999742           33444


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|+|++++-+... ..++..+.+... +-..|+++|.||.|...
T Consensus        67 ~~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~~iilVgnK~Dl~~  120 (170)
T cd04108          67 STYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKEND-PSSVLLFLVGTKKDLSS  120 (170)
T ss_pred             HHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCCeEEEEEEChhcCc
Confidence            566788999999999975433332 334444333211 11247899999999754

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

>cd01891 TypA_BipA TypA (tyrosine phosphorylated protein A)/BipA subfamily

Probab=99.58  E-value=6.2e-14  Score=111.97  Aligned_cols=115  Identities=17%  Similarity=0.251  Sum_probs=76.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCC-CccccC-------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRR-AFKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~-~~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~   85 (253)
                      ++|+++|.+|+|||||++.|++.. .+....             ...+.+.......+. .++..+.+|||||..+    
T Consensus         3 r~i~ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~-~~~~~~~l~DtpG~~~----   77 (194)
T cd01891           3 RNIAIIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVT-YKDTKINIVDTPGHAD----   77 (194)
T ss_pred             cEEEEEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEE-ECCEEEEEEECCCcHH----
Confidence            689999999999999999998631 111110             112334433333343 3678899999999853    


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                             +......++.++|++++|+|+++........++..+..     ...|+++|+||+|...
T Consensus        78 -------~~~~~~~~~~~~d~~ilV~d~~~~~~~~~~~~~~~~~~-----~~~p~iiv~NK~Dl~~  131 (194)
T cd01891          78 -------FGGEVERVLSMVDGVLLLVDASEGPMPQTRFVLKKALE-----LGLKPIVVINKIDRPD  131 (194)
T ss_pred             -------HHHHHHHHHHhcCEEEEEEECCCCccHHHHHHHHHHHH-----cCCCEEEEEECCCCCC
Confidence                   33444556678899999999986554444444443332     1247999999999864

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.58  E-value=5.1e-14  Score=109.56  Aligned_cols=117  Identities=15%  Similarity=0.098  Sum_probs=73.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|++|+|||||++.+++.........  ..+.......+. ..+  ..+.+|||||...           +...
T Consensus         7 ~~~v~v~G~~~~GKSsli~~l~~~~~~~~~~~--t~~~~~~~~~~~-~~~~~~~~~~~D~~g~~~-----------~~~~   72 (169)
T cd04114           7 LFKIVLIGNAGVGKTCLVRRFTQGLFPPGQGA--TIGVDFMIKTVE-IKGEKIKLQIWDTAGQER-----------FRSI   72 (169)
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCCCCC--ceeeEEEEEEEE-ECCEEEEEEEEECCCcHH-----------HHHH
Confidence            38999999999999999999986543222111  111112122222 233  4578899999632           3344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|+++..+... ..++..+......  ..|+++|+||.|...
T Consensus        73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~l~~~~~~--~~~~i~v~NK~D~~~  126 (169)
T cd04114          73 TQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANN--KVITILVGNKIDLAE  126 (169)
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCeEEEEEECccccc
Confidence            4556778899999999875433322 2344444443322  257899999999864

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.

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.58  E-value=6.4e-14  Score=109.18  Aligned_cols=113  Identities=16%  Similarity=0.098  Sum_probs=73.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|.+|||||||++.+.+..  .....   .|.......+. ..+..+.+|||||..           .+......+
T Consensus         1 ~i~~~G~~~~GKTsl~~~l~~~~--~~~~~---~t~g~~~~~~~-~~~~~~~i~D~~G~~-----------~~~~~~~~~   63 (167)
T cd04161           1 TLLTVGLDNAGKTTLVSALQGEI--PKKVA---PTVGFTPTKLR-LDKYEVCIFDLGGGA-----------NFRGIWVNY   63 (167)
T ss_pred             CEEEECCCCCCHHHHHHHHhCCC--Ccccc---CcccceEEEEE-ECCEEEEEEECCCcH-----------HHHHHHHHH
Confidence            48999999999999999999872  22211   12112222333 367889999999963           333445566


Q ss_pred             cCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++++|+|++++.+... ..++..+.... .....|++||+||.|...
T Consensus        64 ~~~a~~ii~V~D~s~~~s~~~~~~~l~~l~~~~-~~~~~piliv~NK~Dl~~  114 (167)
T cd04161          64 YAEAHGLVFVVDSSDDDRVQEVKEILRELLQHP-RVSGKPILVLANKQDKKN  114 (167)
T ss_pred             HcCCCEEEEEEECCchhHHHHHHHHHHHHHcCc-cccCCcEEEEEeCCCCcC
Confidence            788999999999985543332 22333332211 112468999999999865

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.

>cd04136 Rap_like Rap-like subfamily

Probab=99.58  E-value=2.9e-14  Score=110.16  Aligned_cols=116  Identities=18%  Similarity=0.182  Sum_probs=73.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|.+|||||||++++++.........+.+   ......+. .++  ..+.+|||||...+.           ...
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~---~~~~~~~~-~~~~~~~l~i~Dt~G~~~~~-----------~~~   66 (163)
T cd04136           2 YKVVVLGSGGVGKSALTVQFVQGIFVEKYDPTIE---DSYRKQIE-VDGQQCMLEILDTAGTEQFT-----------AMR   66 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCCchh---hhEEEEEE-ECCEEEEEEEEECCCccccc-----------hHH
Confidence            6899999999999999999987653221111111   11111122 233  467789999975432           334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|+|++++-+... ..++..+..... ....|+++|+||+|...
T Consensus        67 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  120 (163)
T cd04136          67 DLYIKNGQGFVLVYSITSQSSFNDLQDLREQILRVKD-TENVPMVLVGNKCDLED  120 (163)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence            455678899999999985544433 334444544322 22468999999999864

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.

>KOG0080 consensus GTPase Rab18, small G protein superfamily [General function prediction only]

Probab=99.58  E-value=1.6e-14  Score=107.72  Aligned_cols=121  Identities=17%  Similarity=0.172  Sum_probs=86.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|||.+|+|||||+-++.....-+..+.+.++......-.+. .+..++.+|||+|.           ++++..
T Consensus         9 ~~t~KiLlIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vd-g~~~KlaiWDTAGq-----------ErFRtL   76 (209)
T KOG0080|consen    9 DTTFKILLIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVD-GKRLKLAIWDTAGQ-----------ERFRTL   76 (209)
T ss_pred             ceeEEEEEEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEc-CceEEEEEEeccch-----------Hhhhcc
Confidence            345899999999999999999988766544444445555555444433 24558899999998           667777


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .+.+++++.++|+|.|++.+-+... .-|++.+.. +......-.++|.||.|.-
T Consensus        77 TpSyyRgaqGiIlVYDVT~Rdtf~kLd~W~~Eld~-Ystn~diikmlVgNKiDke  130 (209)
T KOG0080|consen   77 TPSYYRGAQGIILVYDVTSRDTFVKLDIWLKELDL-YSTNPDIIKMLVGNKIDKE  130 (209)
T ss_pred             CHhHhccCceeEEEEEccchhhHHhHHHHHHHHHh-hcCCccHhHhhhcccccch
Confidence            8899999999999999997666554 334444444 3333334567899999975

>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=99.58  E-value=1.6e-14  Score=114.84  Aligned_cols=116  Identities=22%  Similarity=0.332  Sum_probs=84.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc----------------CCCCccceeeeeeeeE-eeCCeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR----------------ASSSGVTSTCEMQRTV-LKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~----------------~~~~~~t~~~~~~~~~-~~~~~~~~liDtpG~~~   81 (253)
                      .++|+++|+.|+|||||+++|++.......                ....+.|......... ...+..++++||||..+
T Consensus         3 ~~~I~i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~   82 (188)
T PF00009_consen    3 IRNIAIIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHED   82 (188)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHH
T ss_pred             EEEEEEECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccc
Confidence            479999999999999999999866432110                0112344444444443 24788999999999742


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                                 +..........+|++|+|+|+...+.......+..+... +    .|++||+||+|..
T Consensus        83 -----------f~~~~~~~~~~~D~ailvVda~~g~~~~~~~~l~~~~~~-~----~p~ivvlNK~D~~  135 (188)
T PF00009_consen   83 -----------FIKEMIRGLRQADIAILVVDANDGIQPQTEEHLKILREL-G----IPIIVVLNKMDLI  135 (188)
T ss_dssp             -----------HHHHHHHHHTTSSEEEEEEETTTBSTHHHHHHHHHHHHT-T-----SEEEEEETCTSS
T ss_pred             -----------eeecccceecccccceeeeeccccccccccccccccccc-c----cceEEeeeeccch
Confidence                       334444445778999999999888999888888887664 3    3699999999998

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 ....

>KOG1547 consensus Septin CDC10 and related P-loop GTPases [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms; Cytoskeleton]

Probab=99.58  E-value=5e-14  Score=112.02  Aligned_cols=127  Identities=23%  Similarity=0.283  Sum_probs=89.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC-----CCccceeeeeeeeEe-eCC--eEEEEEeCCCCCCCCCCcHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRAS-----SSGVTSTCEMQRTVL-KDG--QVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~-----~~~~t~~~~~~~~~~-~~~--~~~~liDtpG~~~~~~~~~~~   89 (253)
                      -.++|++||.+|.|||||+|+|+......++..     +...|+......... .++  .+++++||||+.|. ..++.+
T Consensus        45 F~FNIMVVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDq-InN~nc  123 (336)
T KOG1547|consen   45 FDFNIMVVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQ-INNDNC  123 (336)
T ss_pred             CceEEEEEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccc-cCccch
Confidence            348999999999999999999987665443222     222333322222111 233  37889999999874 455666


Q ss_pred             HHHHHHHHHhhc------------------CCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           90 GKEIVKCIGMAK------------------DGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        90 ~~~~~~~~~~~~------------------~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      |+.+...+...+                  .++|+++|.++++ ..+.+.+.++++.+.+..      +++.|+.|+|.+
T Consensus       124 WePI~kyIneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhsLrplDieflkrLt~vv------NvvPVIakaDtl  197 (336)
T KOG1547|consen  124 WEPIEKYINEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHSLRPLDIEFLKRLTEVV------NVVPVIAKADTL  197 (336)
T ss_pred             hHHHHHHHHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCccCcccHHHHHHHhhhh------eeeeeEeecccc
Confidence            666655553222                  4679999999885 568899999999888873      799999999999


Q ss_pred             C
Q 025391          151 E  151 (253)
Q Consensus       151 ~  151 (253)
                      .
T Consensus       198 T  198 (336)
T KOG1547|consen  198 T  198 (336)
T ss_pred             c
Confidence            7

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.58  E-value=4.3e-14  Score=109.84  Aligned_cols=112  Identities=15%  Similarity=0.194  Sum_probs=73.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  101 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (253)
                      |+++|.+|+|||||++.+.+.........+.+.    ....+. ..+..+.+|||||...+           ......++
T Consensus         2 i~ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~----~~~~i~-~~~~~l~i~Dt~G~~~~-----------~~~~~~~~   65 (164)
T cd04162           2 ILVLGLDGAGKTSLLHSLSSERSLESVVPTTGF----NSVAIP-TQDAIMELLEIGGSQNL-----------RKYWKRYL   65 (164)
T ss_pred             EEEECCCCCCHHHHHHHHhcCCCcccccccCCc----ceEEEe-eCCeEEEEEECCCCcch-----------hHHHHHHH
Confidence            789999999999999999987542221111121    122233 35778999999997542           23344566


Q ss_pred             CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++|++++|+|.+++.+...  ...++.+........|+++|.||.|...
T Consensus        66 ~~ad~ii~V~D~t~~~s~~~--~~~~l~~~~~~~~~~piilv~NK~Dl~~  113 (164)
T cd04162          66 SGSQGLIFVVDSADSERLPL--ARQELHQLLQHPPDLPLVVLANKQDLPA  113 (164)
T ss_pred             hhCCEEEEEEECCCHHHHHH--HHHHHHHHHhCCCCCcEEEEEeCcCCcC
Confidence            78899999999985543322  2233333332223468999999999865

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.58  E-value=5.8e-14  Score=124.35  Aligned_cols=125  Identities=22%  Similarity=0.139  Sum_probs=81.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|.+|||||||+|.|++...+..  ...+.|.......+.......+.+|||||+....  .......+...+. 
T Consensus       198 p~ValVG~~NaGKSSLlN~Lt~~~~~v~--~~~~tTld~~~~~i~l~~~~~~~l~DTaG~~r~l--p~~lve~f~~tl~-  272 (426)
T PRK11058        198 PTVSLVGYTNAGKSTLFNRITEARVYAA--DQLFATLDPTLRRIDVADVGETVLADTVGFIRHL--PHDLVAAFKATLQ-  272 (426)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCceeec--cCCCCCcCCceEEEEeCCCCeEEEEecCcccccC--CHHHHHHHHHHHH-
Confidence            6899999999999999999999875422  1223344444444443344588999999985421  1222333444333 


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHH-HHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~-l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+|++|+|+|++++.+...... ..++... +. ...|+++|+||+|...
T Consensus       273 ~~~~ADlIL~VvDaS~~~~~e~l~~v~~iL~el-~~-~~~pvIiV~NKiDL~~  323 (426)
T PRK11058        273 ETRQATLLLHVVDAADVRVQENIEAVNTVLEEI-DA-HEIPTLLVMNKIDMLD  323 (426)
T ss_pred             HhhcCCEEEEEEeCCCccHHHHHHHHHHHHHHh-cc-CCCCEEEEEEcccCCC
Confidence            3468899999999986655444332 3334433 32 1358999999999875

>KOG0095 consensus GTPase Rab30, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.58  E-value=7.4e-14  Score=102.92  Aligned_cols=151  Identities=16%  Similarity=0.137  Sum_probs=102.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|||..|+|||.|++.++....+++...+.++........+. ....++.+|||+|.           ++++.....
T Consensus         8 fkivlvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~-gekiklqiwdtagq-----------erfrsitqs   75 (213)
T KOG0095|consen    8 FKIVLVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVN-GEKIKLQIWDTAGQ-----------ERFRSITQS   75 (213)
T ss_pred             EEEEEEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEEC-CeEEEEEEeeccch-----------HHHHHHHHH
Confidence            799999999999999999998776655554444544444333332 23457899999997           667777788


Q ss_pred             hcCCccEEEEEEeCCCCCCHH-HHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQE-EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~-~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      +++.+|++|+|.|++...+.. -..|++.+..+....+  -.++|.||.|..+..   ...-++|......-+|+++..+
T Consensus        76 yyrsahalilvydiscqpsfdclpewlreie~yan~kv--lkilvgnk~d~~drrevp~qigeefs~~qdmyfletsake  153 (213)
T KOG0095|consen   76 YYRSAHALILVYDISCQPSFDCLPEWLREIEQYANNKV--LKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKE  153 (213)
T ss_pred             HhhhcceEEEEEecccCcchhhhHHHHHHHHHHhhcce--EEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccc
Confidence            889999999999997544433 2667777777654443  578999999987521   1122444443344445555555


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ....++++.
T Consensus       154 a~nve~lf~  162 (213)
T KOG0095|consen  154 ADNVEKLFL  162 (213)
T ss_pred             hhhHHHHHH
Confidence            555555554

>PRK04213 GTP-binding protein; Provisional

Probab=99.57  E-value=1.2e-13  Score=110.72  Aligned_cols=123  Identities=22%  Similarity=0.195  Sum_probs=75.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+++|.+|+|||||+|+|+|... ..+. ..+.|.....  ..   ...+.+|||||+.............+...
T Consensus         7 ~~~~~i~i~G~~~~GKSsLin~l~~~~~-~~~~-~~~~t~~~~~--~~---~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~   79 (201)
T PRK04213          7 DRKPEIVFVGRSNVGKSTLVRELTGKKV-RVGK-RPGVTRKPNH--YD---WGDFILTDLPGFGFMSGVPKEVQEKIKDE   79 (201)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCC-ccCC-CCceeeCceE--Ee---ecceEEEeCCccccccccCHHHHHHHHHH
Confidence            4458999999999999999999998763 2222 2233433222  22   12689999999865443333223334333


Q ss_pred             H----HhhcCCccEEEEEEeCCCCCCH-----------HHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 I----GMAKDGIHAVLVVFSVRSRFSQ-----------EEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~----~~~~~~~~~~l~v~d~~~~~~~-----------~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +    ......++++++|+|+++....           .+..++..+.. .    ..|+++|+||+|...
T Consensus        80 ~~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~-~----~~p~iiv~NK~Dl~~  144 (201)
T PRK04213         80 IVRYIEDNADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE-L----GIPPIVAVNKMDKIK  144 (201)
T ss_pred             HHHHHHhhhhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH-c----CCCeEEEEECccccC
Confidence            2    2233456899999988643221           22333343332 1    258999999999865

>cd04128 Spg1 Spg1p

Probab=99.57  E-value=5.1e-14  Score=111.36  Aligned_cols=115  Identities=14%  Similarity=0.106  Sum_probs=73.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ++|+++|.+|+|||||++++++.........+.+.....  ..+. .++  ..+.+|||+|...           +....
T Consensus         1 ~Ki~vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~--~~i~-~~~~~~~l~iwDt~G~~~-----------~~~~~   66 (182)
T cd04128           1 LKIGLLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFME--KTIS-IRGTEITFSIWDLGGQRE-----------FINML   66 (182)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEE--EEEE-ECCEEEEEEEEeCCCchh-----------HHHhh
Confidence            489999999999999999998765422111111111111  1222 133  5788999999743           33455


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+++++|++++|+|++++.+..+ ..++..+....+.  ..| ++|+||+|...
T Consensus        67 ~~~~~~a~~iilv~D~t~~~s~~~i~~~~~~~~~~~~~--~~p-ilVgnK~Dl~~  118 (182)
T cd04128          67 PLVCNDAVAILFMFDLTRKSTLNSIKEWYRQARGFNKT--AIP-ILVGTKYDLFA  118 (182)
T ss_pred             HHHCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCCC--CCE-EEEEEchhccc
Confidence            567789999999999986655544 3444444443221  235 67899999863

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

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.57  E-value=6.3e-14  Score=124.77  Aligned_cols=123  Identities=19%  Similarity=0.156  Sum_probs=81.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +..+|+|+|++|+|||||+|.|++........ ..+.|.......+. .++..+.+|||||+.++....+.  ..+.. .
T Consensus       202 ~g~kVvIvG~~nvGKSSLiN~L~~~~~aivs~-~pgtTrd~~~~~i~-~~g~~v~l~DTaG~~~~~~~ie~--~gi~~-~  276 (442)
T TIGR00450       202 DGFKLAIVGSPNVGKSSLLNALLKQDRAIVSD-IKGTTRDVVEGDFE-LNGILIKLLDTAGIREHADFVER--LGIEK-S  276 (442)
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCCcccCC-CCCcEEEEEEEEEE-ECCEEEEEeeCCCcccchhHHHH--HHHHH-H
Confidence            45899999999999999999999975422222 23444444444444 47888999999999754321111  11111 2


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+..+. ++..+..     ...|+++|+||.|...
T Consensus       277 ~~~~~~aD~il~V~D~s~~~s~~~~-~l~~~~~-----~~~piIlV~NK~Dl~~  324 (442)
T TIGR00450       277 FKAIKQADLVIYVLDASQPLTKDDF-LIIDLNK-----SKKPFILVLNKIDLKI  324 (442)
T ss_pred             HHHHhhCCEEEEEEECCCCCChhHH-HHHHHhh-----CCCCEEEEEECccCCC
Confidence            2345678999999999877776554 3333321     1248999999999864

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.57  E-value=5.3e-14  Score=108.47  Aligned_cols=113  Identities=13%  Similarity=0.100  Sum_probs=72.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|++|+|||||++.+++...... .    .|.......+.......+.+|||||...           +.......
T Consensus         1 ~i~i~G~~~~GKTsl~~~~~~~~~~~~-~----~t~~~~~~~~~~~~~~~l~i~D~~G~~~-----------~~~~~~~~   64 (160)
T cd04156           1 QVLLLGLDSAGKSTLLYKLKHAELVTT-I----PTVGFNVEMLQLEKHLSLTVWDVGGQEK-----------MRTVWKCY   64 (160)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCcccc-c----CccCcceEEEEeCCceEEEEEECCCCHh-----------HHHHHHHH
Confidence            589999999999999999998765322 1    1221222223323456899999999742           33344455


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      +..+|++++|+|+++..+...  ...++...+...  ...|+++|+||+|...
T Consensus        65 ~~~~~~iv~v~D~~~~~~~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (160)
T cd04156          65 LENTDGLVYVVDSSDEARLDE--SQKELKHILKNEHIKGVPVVLLANKQDLPG  115 (160)
T ss_pred             hccCCEEEEEEECCcHHHHHH--HHHHHHHHHhchhhcCCCEEEEEECccccc
Confidence            678899999999975443222  222233222111  2368999999999854

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

>cd00879 Sar1 Sar1 subfamily

Probab=99.57  E-value=9.2e-14  Score=110.39  Aligned_cols=127  Identities=13%  Similarity=0.089  Sum_probs=79.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|++|+|||||+++|.+......     ..|.......+. ..+..+.+|||||...           ....
T Consensus        17 ~~~~ki~ilG~~~~GKStLi~~l~~~~~~~~-----~~T~~~~~~~i~-~~~~~~~l~D~~G~~~-----------~~~~   79 (190)
T cd00879          17 NKEAKILFLGLDNAGKTTLLHMLKDDRLAQH-----VPTLHPTSEELT-IGNIKFKTFDLGGHEQ-----------ARRL   79 (190)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhcCCCccc-----CCccCcceEEEE-ECCEEEEEEECCCCHH-----------HHHH
Confidence            4458999999999999999999998654211     112222222333 3577899999999632           2233


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      ...+++++|++++|+|.++.-+...  ...++...++.  ....|+++++||.|.... ....+.+++.
T Consensus        80 ~~~~~~~ad~iilV~D~~~~~s~~~--~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~~~~~~~~~~~~~  146 (190)
T cd00879          80 WKDYFPEVDGIVFLVDAADPERFQE--SKEELDSLLSDEELANVPFLILGNKIDLPGAVSEEELRQALG  146 (190)
T ss_pred             HHHHhccCCEEEEEEECCcHHHHHH--HHHHHHHHHcCccccCCCEEEEEeCCCCCCCcCHHHHHHHhC
Confidence            4455678899999999874422221  22333333321  133689999999998631 2345555554

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.

>cd04116 Rab9 Rab9 subfamily

Probab=99.57  E-value=6e-14  Score=109.39  Aligned_cols=154  Identities=15%  Similarity=0.062  Sum_probs=88.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...+|+++|++|+|||||++.+++...........+.  ......+.. .....+.+|||||..           ++...
T Consensus         4 ~~~ki~vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~i~D~~G~~-----------~~~~~   70 (170)
T cd04116           4 SLLKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGV--EFLNKDLEVDGHFVTLQIWDTAGQE-----------RFRSL   70 (170)
T ss_pred             eEEEEEEECCCCCCHHHHHHHHHcCCCCcCcCCceee--EEEEEEEEECCeEEEEEEEeCCChH-----------HHHHh
Confidence            3489999999999999999999876543222111111  111111211 123467889999963           33445


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC--ChhhHHHHHcccC-Cchhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDELED--NDETLEDYLGREC-PKPLK  170 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~--~~~~~~~~~~~~~-~~~l~  170 (253)
                      ...++.++|++++|++++++-+... ..+...+......  ....|+++|.||.|....  ....+.++..... ..++.
T Consensus        71 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e  150 (170)
T cd04116          71 RTPFYRGSDCCLLTFAVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIPERQVSTEEAQAWCRENGDYPYFE  150 (170)
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECccccccccCHHHHHHHHHHCCCCeEEE
Confidence            5566788899999999985544333 2333333333221  123589999999998531  1234445554322 23444


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+.....++..++.
T Consensus       151 ~Sa~~~~~v~~~~~  164 (170)
T cd04116         151 TSAKDATNVAAAFE  164 (170)
T ss_pred             EECCCCCCHHHHHH
Confidence            44444444444443

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.57  E-value=3.2e-13  Score=121.77  Aligned_cols=126  Identities=19%  Similarity=0.199  Sum_probs=84.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|.+|+|||||+|+|++........ ..+.|.......+. .++..+.+|||||+........ ....+....
T Consensus       210 ~~~kI~iiG~~nvGKSSLin~l~~~~~~~~s~-~~gtT~d~~~~~~~-~~~~~~~l~DTaG~~~~~~~~~-~~e~~~~~~  286 (472)
T PRK03003        210 GPRRVALVGKPNVGKSSLLNKLAGEERSVVDD-VAGTTVDPVDSLIE-LGGKTWRFVDTAGLRRRVKQAS-GHEYYASLR  286 (472)
T ss_pred             cceEEEEECCCCCCHHHHHHHHhCCCcccccC-CCCccCCcceEEEE-ECCEEEEEEECCCccccccccc-hHHHHHHHH
Confidence            45899999999999999999999986532222 23344433333333 3677889999999853221110 011222111


Q ss_pred             -HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 -GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 -~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..++.++|++++|+|++++.+..+..++..+...     ..|++||+||+|+..
T Consensus       287 ~~~~i~~ad~vilV~Da~~~~s~~~~~~~~~~~~~-----~~piIiV~NK~Dl~~  336 (472)
T PRK03003        287 THAAIEAAEVAVVLIDASEPISEQDQRVLSMVIEA-----GRALVLAFNKWDLVD  336 (472)
T ss_pred             HHHHHhcCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCEEEEEECcccCC
Confidence             2345788999999999988888887666655442     258999999999975

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.57  E-value=7.8e-14  Score=111.84  Aligned_cols=121  Identities=15%  Similarity=0.118  Sum_probs=78.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe----eCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL----KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~----~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      .+|+++|.+|+|||||++.+++.........+.+............    .....+.+|||+|...           +..
T Consensus         1 vKIvlvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~-----------~~~   69 (202)
T cd04102           1 VRVLVVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSES-----------VKS   69 (202)
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchh-----------HHH
Confidence            3799999999999999999998764332222222222111111110    1234688999999843           345


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhc-----------------ccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG-----------------KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g-----------------~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++|++|+|+|++++-+... ..|+..+....+                 .....|++||.||.|+..
T Consensus        70 l~~~~yr~ad~iIlVyDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~  143 (202)
T cd04102          70 TRAVFYNQVNGIILVHDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIP  143 (202)
T ss_pred             HHHHHhCcCCEEEEEEECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchh
Confidence            55667889999999999997766554 344454543211                 012369999999999875

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.

>KOG0092 consensus GTPase Rab5/YPT51 and related small G protein superfamily GTPases [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.57  E-value=2e-14  Score=110.58  Aligned_cols=153  Identities=19%  Similarity=0.131  Sum_probs=102.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+|+|.+|+|||||+-+...........++.+.........+.. ....+.+|||+|..           ++....
T Consensus         4 ~~~KvvLLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~-~~ikfeIWDTAGQE-----------Ry~sla   71 (200)
T KOG0092|consen    4 REFKVVLLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDD-NTIKFEIWDTAGQE-----------RYHSLA   71 (200)
T ss_pred             ceEEEEEECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCC-cEEEEEEEEcCCcc-----------cccccc
Confidence            348999999999999999988766554333344444444443333321 34678899999985           344667


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      +.++++++++|+|+|+++.-|... +.+++.|.+..+.+  ..+.+|.||+|+...-   -+....|-....--+++++.
T Consensus        72 pMYyRgA~AAivvYDit~~~SF~~aK~WvkeL~~~~~~~--~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSA  149 (200)
T KOG0092|consen   72 PMYYRGANAAIVVYDITDEESFEKAKNWVKELQRQASPN--IVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSA  149 (200)
T ss_pred             cceecCCcEEEEEEecccHHHHHHHHHHHHHHHhhCCCC--eEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEec
Confidence            889999999999999995544443 66666666654422  3455799999998621   24556666654455556666


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      +...++..++.
T Consensus       150 KTg~Nv~~if~  160 (200)
T KOG0092|consen  150 KTGENVNEIFQ  160 (200)
T ss_pred             ccccCHHHHHH
Confidence            66666655554

>cd04155 Arl3 Arl3 subfamily

Probab=99.56  E-value=1.5e-13  Score=107.40  Aligned_cols=117  Identities=18%  Similarity=0.120  Sum_probs=74.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|+|||||++.|.+.......     .|.......+. ..+..+.+|||||..           .+...
T Consensus        12 ~~~~~v~i~G~~g~GKStLl~~l~~~~~~~~~-----~t~g~~~~~i~-~~~~~~~~~D~~G~~-----------~~~~~   74 (173)
T cd04155          12 SEEPRILILGLDNAGKTTILKQLASEDISHIT-----PTQGFNIKTVQ-SDGFKLNVWDIGGQR-----------AIRPY   74 (173)
T ss_pred             CCccEEEEEccCCCCHHHHHHHHhcCCCcccC-----CCCCcceEEEE-ECCEEEEEEECCCCH-----------HHHHH
Confidence            34689999999999999999999987542211     11112222233 357889999999973           33345


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++.++|++++|+|+++.-+... ...+..+.+.. .....|+++++||+|...
T Consensus        75 ~~~~~~~~~~ii~v~D~~~~~~~~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~  129 (173)
T cd04155          75 WRNYFENTDCLIYVIDSADKKRLEEAGAELVELLEEE-KLAGVPVLVFANKQDLAT  129 (173)
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHHHHHHHHHHHHHhCh-hhcCCCEEEEEECCCCcc
Confidence            5556678899999999874322221 11222221111 012358999999999875

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.

>cd00878 Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-like) small GTPases

Probab=99.56  E-value=9.1e-14  Score=106.99  Aligned_cols=113  Identities=15%  Similarity=0.073  Sum_probs=72.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|.+|+|||||++++++... ...    ..|......... ..+..+.+|||||...           +......+
T Consensus         1 ki~iiG~~~~GKssli~~~~~~~~-~~~----~~t~~~~~~~~~-~~~~~~~i~D~~G~~~-----------~~~~~~~~   63 (158)
T cd00878           1 RILILGLDGAGKTTILYKLKLGEV-VTT----IPTIGFNVETVE-YKNVSFTVWDVGGQDK-----------IRPLWKHY   63 (158)
T ss_pred             CEEEEcCCCCCHHHHHHHHhcCCC-CCC----CCCcCcceEEEE-ECCEEEEEEECCCChh-----------hHHHHHHH
Confidence            589999999999999999998863 111    112222222233 3567899999999743           23344455


Q ss_pred             cCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++++|+|++++-+... ...+..+..... ....|+++|+||+|...
T Consensus        64 ~~~~~~~i~v~D~~~~~~~~~~~~~~~~~~~~~~-~~~~piiiv~nK~D~~~  114 (158)
T cd00878          64 YENTNGIIFVVDSSDRERIEEAKEELHKLLNEEE-LKGVPLLIFANKQDLPG  114 (158)
T ss_pred             hccCCEEEEEEECCCHHHHHHHHHHHHHHHhCcc-cCCCcEEEEeeccCCcc
Confidence            677899999999984422222 222222222111 12358999999999875

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.56  E-value=1.1e-13  Score=130.34  Aligned_cols=124  Identities=23%  Similarity=0.225  Sum_probs=91.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+|+|.+|+|||||+|+|+|....... ...++|......... +.+..+.+|||||+....   ......+....
T Consensus       274 ~~~~V~IvG~~nvGKSSL~n~l~~~~~~iv~-~~pGvT~d~~~~~~~-~~~~~~~liDT~G~~~~~---~~~~~~~~~~~  348 (712)
T PRK09518        274 AVGVVAIVGRPNVGKSTLVNRILGRREAVVE-DTPGVTRDRVSYDAE-WAGTDFKLVDTGGWEADV---EGIDSAIASQA  348 (712)
T ss_pred             cCcEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCeeEEEEEEEEE-ECCEEEEEEeCCCcCCCC---ccHHHHHHHHH
Confidence            3478999999999999999999987642222 234555555444333 467889999999986422   12334555555


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++..++..+..+.+.+...     ..|+++|+||+|...
T Consensus       349 ~~~~~~aD~iL~VvDa~~~~~~~d~~i~~~Lr~~-----~~pvIlV~NK~D~~~  397 (712)
T PRK09518        349 QIAVSLADAVVFVVDGQVGLTSTDERIVRMLRRA-----GKPVVLAVNKIDDQA  397 (712)
T ss_pred             HHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHhc-----CCCEEEEEECccccc
Confidence            6667788999999999888888887777777642     358999999999864

>cd00157 Rho Rho (Ras homology) family

Probab=99.56  E-value=6.4e-14  Score=109.10  Aligned_cols=116  Identities=17%  Similarity=0.096  Sum_probs=72.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||+++|++........ +............. .....+.+|||||.....           .....
T Consensus         1 iki~i~G~~~~GKSsli~~l~~~~~~~~~~-~~~~~~~~~~~~~~-~~~~~l~~~D~~g~~~~~-----------~~~~~   67 (171)
T cd00157           1 IKIVVVGDGAVGKTCLLISYTTGKFPTEYV-PTVFDNYSATVTVD-GKQVNLGLWDTAGQEEYD-----------RLRPL   67 (171)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC-CceeeeeEEEEEEC-CEEEEEEEEeCCCccccc-----------ccchh
Confidence            489999999999999999999876522211 11111111111111 124468999999986532           12223


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+..+|++++|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        68 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ivv~nK~Dl~~  118 (171)
T cd00157          68 SYPNTDVFLICFSVDSPSSFENVKTKWIPEIRHYCP---NVPIILVGTKIDLRD  118 (171)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEEccHHhhh
Confidence            4467899999999985444332  334444444322   368999999999876

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

>smart00174 RHO Rho (Ras homology) subfamily of Ras-like small GTPases

Probab=99.56  E-value=5.6e-14  Score=109.93  Aligned_cols=112  Identities=24%  Similarity=0.170  Sum_probs=72.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      |+++|++|+|||||++++++........ +   +....+......++  ..+.+|||||.....           .....
T Consensus         1 i~i~G~~~vGKTsli~~~~~~~~~~~~~-~---~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~-----------~~~~~   65 (174)
T smart00174        1 LVVVGDGAVGKTCLLISYTTNAFPEDYV-P---TVFENYSADVEVDGKPVELGLWDTAGQEDYD-----------RLRPL   65 (174)
T ss_pred             CEEECCCCCCHHHHHHHHHhCCCCCCCC-C---cEEeeeeEEEEECCEEEEEEEEECCCCcccc-----------hhchh
Confidence            6899999999999999999876422211 1   11111111111233  368899999975432           23344


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+.++|++|+|+|++++-+...  ..++..+....   ...|+++|.||.|...
T Consensus        66 ~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~i~~~~---~~~piilv~nK~Dl~~  116 (174)
T smart00174       66 SYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC---PNTPIILVGTKLDLRE  116 (174)
T ss_pred             hcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEecChhhhh
Confidence            5678899999999985544433  23455554432   2468999999999875

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

>cd04158 ARD1 ARD1 subfamily

Probab=99.56  E-value=1.1e-13  Score=108.13  Aligned_cols=112  Identities=17%  Similarity=0.103  Sum_probs=73.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+++|.+|+|||||++++.+....  .   ...|......... ..+..+.+|||||....           ......+
T Consensus         1 ~vvlvG~~~~GKTsl~~~l~~~~~~--~---~~~T~~~~~~~~~-~~~~~i~l~Dt~G~~~~-----------~~~~~~~   63 (169)
T cd04158           1 RVVTLGLDGAGKTTILFKLKQDEFM--Q---PIPTIGFNVETVE-YKNLKFTIWDVGGKHKL-----------RPLWKHY   63 (169)
T ss_pred             CEEEECCCCCCHHHHHHHHhcCCCC--C---cCCcCceeEEEEE-ECCEEEEEEECCCChhc-----------chHHHHH
Confidence            6899999999999999999987431  1   1223333333333 36778999999998532           2344455


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      +.++|+++||+|.+++-+..+  ...++...+...  ...|++||+||.|...
T Consensus        64 ~~~ad~ii~V~D~s~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  114 (169)
T cd04158          64 YLNTQAVVFVVDSSHRDRVSE--AHSELAKLLTEKELRDALLLIFANKQDVAG  114 (169)
T ss_pred             hccCCEEEEEEeCCcHHHHHH--HHHHHHHHhcChhhCCCCEEEEEeCcCccc
Confidence            678899999999985433322  223333333211  1258999999999864

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.56  E-value=1.2e-13  Score=105.76  Aligned_cols=112  Identities=22%  Similarity=0.200  Sum_probs=71.4

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  101 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (253)
                      |+|+|++|+|||||+|.|.+........    .|......... ..+..+.+|||||..           .+......++
T Consensus         2 i~i~G~~~~GKssl~~~l~~~~~~~~~~----~t~~~~~~~~~-~~~~~~~~~D~~g~~-----------~~~~~~~~~~   65 (159)
T cd04159           2 ITLVGLQNSGKTTLVNVIAGGQFSEDTI----PTVGFNMRKVT-KGNVTLKVWDLGGQP-----------RFRSMWERYC   65 (159)
T ss_pred             EEEEcCCCCCHHHHHHHHccCCCCcCcc----CCCCcceEEEE-ECCEEEEEEECCCCH-----------hHHHHHHHHH
Confidence            7999999999999999999986432221    12222222233 245789999999973           2334455566


Q ss_pred             CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ..+|++++|+|++...+...  ...++...+..  ....|+++|+||.|...
T Consensus        66 ~~~d~ii~v~d~~~~~~~~~--~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~  115 (159)
T cd04159          66 RGVNAIVYVVDAADRTALEA--AKNELHDLLEKPSLEGIPLLVLGNKNDLPG  115 (159)
T ss_pred             hcCCEEEEEEECCCHHHHHH--HHHHHHHHHcChhhcCCCEEEEEeCccccC
Confidence            78899999999874322211  11222222211  12358999999999875

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.56  E-value=2.6e-13  Score=104.90  Aligned_cols=120  Identities=22%  Similarity=0.306  Sum_probs=76.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh-
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA-  100 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~-  100 (253)
                      |+++|++|+|||||+|.|++...........+.|.......    ....+.+|||||+.....+ ......+...+..+ 
T Consensus         2 i~l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~----~~~~~~~~D~~g~~~~~~~-~~~~~~~~~~~~~~~   76 (170)
T cd01876           2 IAFAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFN----VNDKFRLVDLPGYGYAKVS-KEVKEKWGKLIEEYL   76 (170)
T ss_pred             EEEEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEE----ccCeEEEecCCCccccccC-HHHHHHHHHHHHHHH
Confidence            89999999999999999995433222222223333332221    2238899999998765432 21222333332222 


Q ss_pred             --cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 --KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 --~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                        ....+++++++|.+...+.....+++++... +    .|+++|+||+|...
T Consensus        77 ~~~~~~~~~~~v~d~~~~~~~~~~~~~~~l~~~-~----~~vi~v~nK~D~~~  124 (170)
T cd01876          77 ENRENLKGVVLLIDSRHGPTEIDLEMLDWLEEL-G----IPFLVVLTKADKLK  124 (170)
T ss_pred             HhChhhhEEEEEEEcCcCCCHhHHHHHHHHHHc-C----CCEEEEEEchhcCC
Confidence              2345788999998866666666677777653 2    47999999999975

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.

>cd01890 LepA LepA subfamily

Probab=99.56  E-value=6.1e-14  Score=110.21  Aligned_cols=116  Identities=19%  Similarity=0.210  Sum_probs=72.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccc------cC-------CCCccceeeeeeeeEe----eCCeEEEEEeCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKS------RA-------SSSGVTSTCEMQRTVL----KDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~------~~-------~~~~~t~~~~~~~~~~----~~~~~~~liDtpG~~~~   82 (253)
                      ++|+++|.+|+|||||+++|++......      ..       ...+.+.........+    ..+..+.+|||||+.++
T Consensus         1 rni~~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~   80 (179)
T cd01890           1 RNFSIIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDF   80 (179)
T ss_pred             CcEEEEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhh
Confidence            4799999999999999999987431100      00       0112232222221211    23567889999998643


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                 ......++.++|++|+|+|+++..+..+...+..+..     ...|+++|+||+|...
T Consensus        81 -----------~~~~~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~~-----~~~~iiiv~NK~Dl~~  133 (179)
T cd01890          81 -----------SYEVSRSLAACEGALLLVDATQGVEAQTLANFYLALE-----NNLEIIPVINKIDLPS  133 (179)
T ss_pred             -----------HHHHHHHHHhcCeEEEEEECCCCccHhhHHHHHHHHH-----cCCCEEEEEECCCCCc
Confidence                       2333345567899999999987666655444433322     1247999999999753

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.

>smart00177 ARF ARF-like small GTPases; ARF, ADP-ribosylation factor

Probab=99.56  E-value=1.8e-13  Score=107.57  Aligned_cols=114  Identities=15%  Similarity=0.112  Sum_probs=74.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|.+|+|||||++.+...... ..    ..|......... ..+..+.+|||||...           +.....
T Consensus        13 ~~ki~l~G~~~~GKTsL~~~~~~~~~~-~~----~~t~~~~~~~~~-~~~~~l~l~D~~G~~~-----------~~~~~~   75 (175)
T smart00177       13 EMRILMVGLDAAGKTTILYKLKLGESV-TT----IPTIGFNVETVT-YKNISFTVWDVGGQDK-----------IRPLWR   75 (175)
T ss_pred             ccEEEEEcCCCCCHHHHHHHHhcCCCC-Cc----CCccccceEEEE-ECCEEEEEEECCCChh-----------hHHHHH
Confidence            489999999999999999999643321 11    122222222233 3567899999999743           334455


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|++++.+...  ..+++...+...  ...|++||+||.|...
T Consensus        76 ~~~~~ad~ii~v~D~t~~~s~~~--~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  128 (175)
T smart00177       76 HYYTNTQGLIFVVDSNDRDRIDE--AREELHRMLNEDELRDAVILVFANKQDLPD  128 (175)
T ss_pred             HHhCCCCEEEEEEECCCHHHHHH--HHHHHHHHhhCHhhcCCcEEEEEeCcCccc
Confidence            66788999999999985533322  223333332211  2358999999999864

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).

>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=99.56  E-value=8.5e-15  Score=107.46  Aligned_cols=116  Identities=20%  Similarity=0.193  Sum_probs=69.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcc--ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFK--SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~--~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ||+++|+.|+|||||+++|++.....  ......+.+......... .....+.+||++|.........       .+  
T Consensus         1 kI~V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~~~~~-------~~--   70 (119)
T PF08477_consen    1 KIVVLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVD-GDRQSLQFWDFGGQEEFYSQHQ-------FF--   70 (119)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEET-TEEEEEEEEEESSSHCHHCTSH-------HH--
T ss_pred             CEEEECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEec-CCceEEEEEecCccceeccccc-------ch--
Confidence            79999999999999999999887541  111122223222222211 1233588999999843221111       11  


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                        ...+|++++|+|++++.+... ..++.++....+.....|++||.||.|
T Consensus        71 --~~~~d~~ilv~D~s~~~s~~~~~~~~~~l~~~~~~~~~~piilv~nK~D  119 (119)
T PF08477_consen   71 --LKKADAVILVYDLSDPESLEYLSQLLKWLKNIRKRDKNIPIILVGNKSD  119 (119)
T ss_dssp             --HHHSCEEEEEEECCGHHHHHHHHHHHHHHHHHHHHSSCSEEEEEEE-TC
T ss_pred             --hhcCcEEEEEEcCCChHHHHHHHHHHHHHHHHHccCCCCCEEEEEeccC
Confidence              345689999999985544444 345556666543233469999999998

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.

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.56  E-value=5.2e-14  Score=122.30  Aligned_cols=124  Identities=24%  Similarity=0.289  Sum_probs=91.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+++|+|+|+++||||||+|+|++.+...... ..|+|.+.-...+. .+|..+.++||+|+-++..--|..  -+.+.
T Consensus       215 r~G~kvvIiG~PNvGKSSLLNaL~~~d~AIVTd-I~GTTRDviee~i~-i~G~pv~l~DTAGiRet~d~VE~i--GIeRs  290 (454)
T COG0486         215 REGLKVVIIGRPNVGKSSLLNALLGRDRAIVTD-IAGTTRDVIEEDIN-LNGIPVRLVDTAGIRETDDVVERI--GIERA  290 (454)
T ss_pred             hcCceEEEECCCCCcHHHHHHHHhcCCceEecC-CCCCccceEEEEEE-ECCEEEEEEecCCcccCccHHHHH--HHHHH
Confidence            356899999999999999999999998754432 34556666555555 589999999999998765544432  22333


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .... ..+|.+|+|+|++.+++..+...+..+      +..+|+++|.||.|...
T Consensus       291 ~~~i-~~ADlvL~v~D~~~~~~~~d~~~~~~~------~~~~~~i~v~NK~DL~~  338 (454)
T COG0486         291 KKAI-EEADLVLFVLDASQPLDKEDLALIELL------PKKKPIIVVLNKADLVS  338 (454)
T ss_pred             HHHH-HhCCEEEEEEeCCCCCchhhHHHHHhc------ccCCCEEEEEechhccc
Confidence            3332 567999999999977788887776611      12358999999999987

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.56  E-value=3.2e-14  Score=110.45  Aligned_cols=117  Identities=19%  Similarity=0.217  Sum_probs=70.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|++|+|||||++++++.... ....+.......  .... .++  ..+.+|||||......          ....
T Consensus         1 ki~vvG~~~~GKtsli~~~~~~~~~-~~~~~t~~~~~~--~~~~-~~~~~~~~~i~D~~g~~~~~~----------~~~~   66 (165)
T cd04146           1 KIAVLGASGVGKSALVVRFLTKRFI-GEYDPNLESLYS--RQVT-IDGEQVSLEILDTAGQQQADT----------EQLE   66 (165)
T ss_pred             CEEEECCCCCcHHHHHHHHHhCccc-cccCCChHHhce--EEEE-ECCEEEEEEEEECCCCccccc----------chHH
Confidence            5899999999999999998865431 111111111111  1111 233  3678999999863111          1122


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++|+|+|+++.-+... ..++.++..........|+++|+||+|...
T Consensus        67 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  120 (165)
T cd04146          67 RSIRWADGFVLVYSITDRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLH  120 (165)
T ss_pred             HHHHhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHH
Confidence            33456799999999986544443 334555555321122368999999999753

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

>smart00178 SAR Sar1p-like members of the Ras-family of small GTPases

Probab=99.56  E-value=1.8e-13  Score=108.35  Aligned_cols=127  Identities=12%  Similarity=0.090  Sum_probs=79.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|.+|||||||++.+++...... .    .|......... ..+..+.++||||...           ....
T Consensus        15 ~~~~~i~ivG~~~~GKTsli~~l~~~~~~~~-~----~t~~~~~~~~~-~~~~~~~~~D~~G~~~-----------~~~~   77 (184)
T smart00178       15 NKHAKILFLGLDNAGKTTLLHMLKNDRLAQH-Q----PTQHPTSEELA-IGNIKFTTFDLGGHQQ-----------ARRL   77 (184)
T ss_pred             cccCEEEEECCCCCCHHHHHHHHhcCCCccc-C----CccccceEEEE-ECCEEEEEEECCCCHH-----------HHHH
Confidence            3458999999999999999999998754211 1    12222222232 3677899999999742           2344


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      ...++.++|++++|+|++++-+...  ...++.+.+..  ....|+++|+||.|.... ....+.+.+.
T Consensus        78 ~~~~~~~ad~ii~vvD~~~~~~~~~--~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~l~  144 (184)
T smart00178       78 WKDYFPEVNGIVYLVDAYDKERFAE--SKRELDALLSDEELATVPFLILGNKIDAPYAASEDELRYALG  144 (184)
T ss_pred             HHHHhCCCCEEEEEEECCcHHHHHH--HHHHHHHHHcChhhcCCCEEEEEeCccccCCCCHHHHHHHcC
Confidence            4566788999999999974322211  11223333221  123589999999998531 1334444443

Yeast SAR1 is an essential gene required for transport of secretory proteins from the endoplasmic reticulum to the Golgi apparatus.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.56  E-value=2.2e-13  Score=106.87  Aligned_cols=114  Identities=16%  Similarity=0.123  Sum_probs=74.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|++|+|||||++.|++......     ..|......... ..+..+.+|||||...           +.....
T Consensus        15 ~~kv~~~G~~~~GKTsl~~~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~l~D~~G~~~-----------~~~~~~   77 (174)
T cd04153          15 EYKVIIVGLDNAGKTTILYQFLLGEVVHT-----SPTIGSNVEEIV-YKNIRFLMWDIGGQES-----------LRSSWN   77 (174)
T ss_pred             ccEEEEECCCCCCHHHHHHHHccCCCCCc-----CCccccceEEEE-ECCeEEEEEECCCCHH-----------HHHHHH
Confidence            47999999999999999999987654221     122222233333 3577899999999742           334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++++|+|++++-+...  ...++...+...  ...|+++++||.|...
T Consensus        78 ~~~~~~d~vi~V~D~s~~~~~~~--~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~  130 (174)
T cd04153          78 TYYTNTDAVILVIDSTDRERLPL--TKEELYKMLAHEDLRKAVLLVLANKQDLKG  130 (174)
T ss_pred             HHhhcCCEEEEEEECCCHHHHHH--HHHHHHHHHhchhhcCCCEEEEEECCCCCC
Confidence            56678999999999985432222  112222222211  2368999999999864

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.

>cd01875 RhoG RhoG subfamily

Probab=99.56  E-value=1.3e-13  Score=109.94  Aligned_cols=114  Identities=18%  Similarity=0.038  Sum_probs=74.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|.+|+|||||+..+.........    ..|....+. .+.. .....+.+|||||...           +....
T Consensus         4 ~ki~~vG~~~vGKTsli~~~~~~~f~~~~----~~t~~~~~~~~~~~~~~~~~l~i~Dt~G~e~-----------~~~l~   68 (191)
T cd01875           4 IKCVVVGDGAVGKTCLLICYTTNAFPKEY----IPTVFDNYSAQTAVDGRTVSLNLWDTAGQEE-----------YDRLR   68 (191)
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCcCC----CCceEeeeEEEEEECCEEEEEEEEECCCchh-----------hhhhh
Confidence            79999999999999999999876432221    122211111 1111 1235688999999843           33445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++-+....  .+...+....   ...|++||.||.|+..
T Consensus        69 ~~~~~~a~~~ilvydit~~~Sf~~~~~~w~~~i~~~~---~~~piilvgNK~DL~~  121 (191)
T cd01875          69 TLSYPQTNVFIICFSIASPSSYENVRHKWHPEVCHHC---PNVPILLVGTKKDLRN  121 (191)
T ss_pred             hhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEEeChhhhc
Confidence            5677899999999999866554442  2344444322   2368999999999853

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

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.56  E-value=6.1e-14  Score=125.39  Aligned_cols=122  Identities=25%  Similarity=0.281  Sum_probs=80.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+++|.+|+|||||+|+|++........ ..+.|.......+. .++..+.+|||||+.++....+.  ..+.+..
T Consensus       214 ~~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~-~~gtT~d~~~~~i~-~~g~~i~l~DT~G~~~~~~~ie~--~gi~~~~  289 (449)
T PRK05291        214 EGLKVVIAGRPNVGKSSLLNALLGEERAIVTD-IAGTTRDVIEEHIN-LDGIPLRLIDTAGIRETDDEVEK--IGIERSR  289 (449)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHhCCCCcccCC-CCCcccccEEEEEE-ECCeEEEEEeCCCCCCCccHHHH--HHHHHHH
Confidence            34799999999999999999999976422222 22344444333343 36788999999998653211111  1122222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..+..+|++++|+|++++.+..+...+..    .   ...|+++|+||+|...
T Consensus       290 -~~~~~aD~il~VvD~s~~~s~~~~~~l~~----~---~~~piiiV~NK~DL~~  335 (449)
T PRK05291        290 -EAIEEADLVLLVLDASEPLTEEDDEILEE----L---KDKPVIVVLNKADLTG  335 (449)
T ss_pred             -HHHHhCCEEEEEecCCCCCChhHHHHHHh----c---CCCCcEEEEEhhhccc
Confidence             34467899999999987776665443322    1   1258999999999975

>cd01893 Miro1 Miro1 subfamily

Probab=99.55  E-value=8.6e-14  Score=108.24  Aligned_cols=114  Identities=18%  Similarity=0.103  Sum_probs=72.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|.+|||||||++++++...... .......... .... ......+.+|||||.....           ..+...
T Consensus         2 kv~ivG~~~vGKTsl~~~l~~~~~~~~-~~~~~~~~~~-~~~~-~~~~~~~~i~Dt~G~~~~~-----------~~~~~~   67 (166)
T cd01893           2 RIVLIGDEGVGKSSLIMSLVSEEFPEN-VPRVLPEITI-PADV-TPERVPTTIVDTSSRPQDR-----------ANLAAE   67 (166)
T ss_pred             EEEEECCCCCCHHHHHHHHHhCcCCcc-CCCcccceEe-eeee-cCCeEEEEEEeCCCchhhh-----------HHHhhh
Confidence            899999999999999999998764322 1111111110 0111 1245678999999975421           122233


Q ss_pred             cCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..+|++++|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        68 ~~~ad~~ilv~d~~~~~s~~~~~~~~~~~i~~~~~---~~pviiv~nK~Dl~~  117 (166)
T cd01893          68 IRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGV---KVPIILVGNKSDLRD  117 (166)
T ss_pred             cccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEchhccc
Confidence            477899999999985555444  234455554322   358999999999975

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.

>cd04133 Rop_like Rop subfamily

Probab=99.55  E-value=7.3e-14  Score=109.80  Aligned_cols=115  Identities=17%  Similarity=0.101  Sum_probs=76.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||+..++..........+.+....   ..+.. .....+.+|||+|...+.           ....
T Consensus         2 ~kivv~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~---~~~~~~~~~v~l~i~Dt~G~~~~~-----------~~~~   67 (176)
T cd04133           2 IKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNFS---ANVSVDGNTVNLGLWDTAGQEDYN-----------RLRP   67 (176)
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCCCcceeeeE---EEEEECCEEEEEEEEECCCCcccc-----------ccch
Confidence            58999999999999999999876542221111111111   11111 123578899999986533           3334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|++++-+....  .++..+....+   ..|++||.||+|+..
T Consensus        68 ~~~~~a~~~ilvyd~~~~~Sf~~~~~~w~~~i~~~~~---~~piilvgnK~Dl~~  119 (176)
T cd04133          68 LSYRGADVFVLAFSLISRASYENVLKKWVPELRHYAP---NVPIVLVGTKLDLRD  119 (176)
T ss_pred             hhcCCCcEEEEEEEcCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEeChhhcc
Confidence            567889999999999977776652  45555554322   358999999999854

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,

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.55  E-value=1.8e-13  Score=105.83  Aligned_cols=112  Identities=15%  Similarity=0.098  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+++|.+|+|||||++.+...... ...    +|.......+. .....+.+|||||...           +......+
T Consensus         2 kv~~~G~~~~GKTsli~~l~~~~~~-~~~----pt~g~~~~~~~-~~~~~~~l~D~~G~~~-----------~~~~~~~~   64 (159)
T cd04150           2 RILMVGLDAAGKTTILYKLKLGEIV-TTI----PTIGFNVETVE-YKNISFTVWDVGGQDK-----------IRPLWRHY   64 (159)
T ss_pred             EEEEECCCCCCHHHHHHHHhcCCCc-ccC----CCCCcceEEEE-ECCEEEEEEECCCCHh-----------HHHHHHHH
Confidence            7999999999999999999654332 111    12212222222 3567899999999742           33444566


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++|||+|++++.+...  ..+++.......  ...|++|++||.|...
T Consensus        65 ~~~ad~~i~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  115 (159)
T cd04150          65 FQNTQGLIFVVDSNDRERIGE--AREELQRMLNEDELRDAVLLVFANKQDLPN  115 (159)
T ss_pred             hcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhcHHhcCCCEEEEEECCCCCC
Confidence            788999999999985433222  223333332211  1258999999999864

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.55  E-value=1.4e-13  Score=106.27  Aligned_cols=116  Identities=19%  Similarity=0.172  Sum_probs=71.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++.+++...........+..    +......+  ...+.+|||||....           ....
T Consensus         1 ~ki~~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~i~D~~g~~~~-----------~~~~   65 (164)
T cd04139           1 YKVIVVGAGGVGKSALTLQFMYDEFVEDYEPTKADS----YRKKVVLDGEDVQLNILDTAGQEDY-----------AAIR   65 (164)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCccccCCcchhh----EEEEEEECCEEEEEEEEECCChhhh-----------hHHH
Confidence            489999999999999999999765422111111111    11111122  357889999997542           2333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++...|++++|++++++-+... ..+...+..... ....|+++|+||+|...
T Consensus        66 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piiiv~NK~D~~~  119 (164)
T cd04139          66 DNYHRSGEGFLLVFSITDMESFTATAEFREQILRVKD-DDNVPLLLVGNKCDLED  119 (164)
T ss_pred             HHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEEcccccc
Confidence            445567799999999874332222 333333433311 23468999999999875

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

>cd01888 eIF2_gamma eIF2-gamma (gamma subunit of initiation factor 2)

Probab=99.55  E-value=1.2e-13  Score=111.09  Aligned_cols=117  Identities=15%  Similarity=0.178  Sum_probs=75.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeeeeeeEee--------------------------------
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLK--------------------------------   66 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~~~~~~~~~--------------------------------   66 (253)
                      .+|+++|++|+|||||+.+|++... ...+....+.+..+.+....+.                                
T Consensus         1 ~~i~~~g~~~~GKttL~~~l~~~~~~~~~~e~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (203)
T cd01888           1 INIGTIGHVAHGKSTLVKALSGVWTVRFKEELERNITIKLGYANAKIYKCPNCGCPRPYCYRSKEDSPECECPGCGGETK   80 (203)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCCeeEEcCCceeecccccccccccCcCCCCccccccccccccccccccCCccc
Confidence            3799999999999999999988732 1122223334444433332211                                


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-CCHHHHHHHHHHHHHhcccccCeEEEEEe
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FSQEEEAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-~~~~~~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ....+.+|||||.           ..+...+......+|++++|+|++.+ ........+..+.. .+.   +|++||+|
T Consensus        81 ~~~~i~~iDtPG~-----------~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~-~~~---~~iiivvN  145 (203)
T cd01888          81 LVRHVSFVDCPGH-----------EILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEI-MGL---KHIIIVQN  145 (203)
T ss_pred             cccEEEEEECCCh-----------HHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHH-cCC---CcEEEEEE
Confidence            1267999999996           23444444455678999999999853 33444445544433 232   36899999


Q ss_pred             CCCCCC
Q 025391          146 GGDELE  151 (253)
Q Consensus       146 k~D~~~  151 (253)
                      |+|...
T Consensus       146 K~Dl~~  151 (203)
T cd01888         146 KIDLVK  151 (203)
T ss_pred             chhccC
Confidence            999975

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.55  E-value=2.9e-13  Score=106.97  Aligned_cols=116  Identities=15%  Similarity=0.079  Sum_probs=76.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|..|+|||||++.+....... .    ..|.......+. ..+..+.+|||||..           .+...
T Consensus        15 ~~~~ki~ivG~~~~GKTsl~~~l~~~~~~~-~----~pt~g~~~~~~~-~~~~~~~i~D~~Gq~-----------~~~~~   77 (181)
T PLN00223         15 KKEMRILMVGLDAAGKTTILYKLKLGEIVT-T----IPTIGFNVETVE-YKNISFTVWDVGGQD-----------KIRPL   77 (181)
T ss_pred             CCccEEEEECCCCCCHHHHHHHHccCCCcc-c----cCCcceeEEEEE-ECCEEEEEEECCCCH-----------HHHHH
Confidence            344899999999999999999997544321 1    122222222333 367789999999963           34455


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++|+|+|++++.+...  ...++...+...  ...|++||+||.|...
T Consensus        78 ~~~~~~~a~~iI~V~D~s~~~s~~~--~~~~l~~~l~~~~~~~~piilv~NK~Dl~~  132 (181)
T PLN00223         78 WRHYFQNTQGLIFVVDSNDRDRVVE--ARDELHRMLNEDELRDAVLLVFANKQDLPN  132 (181)
T ss_pred             HHHHhccCCEEEEEEeCCcHHHHHH--HHHHHHHHhcCHhhCCCCEEEEEECCCCCC
Confidence            5666788999999999985443322  223344333221  2358999999999764

>cd04151 Arl1 Arl1 subfamily

Probab=99.55  E-value=1.7e-13  Score=105.67  Aligned_cols=112  Identities=13%  Similarity=0.040  Sum_probs=72.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+++|++|+|||||++.|........     ..|......... ..+..+.+|||||...           +......+
T Consensus         1 kv~lvG~~~~GKTsl~~~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~i~Dt~G~~~-----------~~~~~~~~   63 (158)
T cd04151           1 RILILGLDNAGKTTILYRLQLGEVVTT-----IPTIGFNVETVT-YKNLKFQVWDLGGQTS-----------IRPYWRCY   63 (158)
T ss_pred             CEEEECCCCCCHHHHHHHHccCCCcCc-----CCccCcCeEEEE-ECCEEEEEEECCCCHH-----------HHHHHHHH
Confidence            689999999999999999976654221     112222222333 3567899999999843           33444556


Q ss_pred             cCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++|+|+|++++.+...  ..+...+... . ....|+++|+||+|...
T Consensus        64 ~~~~~~ii~v~d~~~~~~~~~~~~~~~~~~~~~-~-~~~~piiiv~nK~Dl~~  114 (158)
T cd04151          64 YSNTDAIIYVVDSTDRDRLGTAKEELHAMLEEE-E-LKGAVLLVFANKQDMPG  114 (158)
T ss_pred             hcCCCEEEEEEECCCHHHHHHHHHHHHHHHhch-h-hcCCcEEEEEeCCCCCC
Confidence            678999999999885432221  2222222211 1 12368999999999864

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.

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.55  E-value=2e-13  Score=107.16  Aligned_cols=115  Identities=17%  Similarity=0.053  Sum_probs=73.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||+.++++........++.+....   ..+.. .....+.+|||||....           .....
T Consensus         2 ~ki~iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~~~~---~~~~~~~~~~~l~i~Dt~G~~~~-----------~~~~~   67 (174)
T cd01871           2 IKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYS---ANVMVDGKPVNLGLWDTAGQEDY-----------DRLRP   67 (174)
T ss_pred             eEEEEECCCCCCHHHHHHHHhcCCCCCcCCCcceeeeE---EEEEECCEEEEEEEEECCCchhh-----------hhhhh
Confidence            58999999999999999999875432211111111111   11111 12357889999997432           23334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.++|++|+|+|++++-+....  .++..+....   ...|++||.||.|...
T Consensus        68 ~~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~---~~~piilvgnK~Dl~~  119 (174)
T cd01871          68 LSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC---PNTPIILVGTKLDLRD  119 (174)
T ss_pred             hhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEeeChhhcc
Confidence            566789999999999865554442  3445454432   2358999999999853

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

>KOG0094 consensus GTPase Rab6/YPT6/Ryh1, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.55  E-value=1.2e-13  Score=106.35  Aligned_cols=121  Identities=13%  Similarity=0.122  Sum_probs=91.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|..++||||||+..+-......-..+.|+........+. ....++.+|||+|+           ++++..+
T Consensus        21 k~~KlVflGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~-d~~vrLQlWDTAGQ-----------ERFrsli   88 (221)
T KOG0094|consen   21 KKYKLVFLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLE-DRTVRLQLWDTAGQ-----------ERFRSLI   88 (221)
T ss_pred             eEEEEEEEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEc-CcEEEEEEEecccH-----------HHHhhhh
Confidence            44799999999999999999998765533333444444444433333 23568999999998           6777888


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.+.+++.++|+|+|++++-+.+. ..|++-+...-|.. ...+++|.||.|+.+
T Consensus        89 psY~Rds~vaviVyDit~~~Sfe~t~kWi~dv~~e~gs~-~viI~LVGnKtDL~d  142 (221)
T KOG0094|consen   89 PSYIRDSSVAVIVYDITDRNSFENTSKWIEDVRRERGSD-DVIIFLVGNKTDLSD  142 (221)
T ss_pred             hhhccCCeEEEEEEeccccchHHHHHHHHHHHHhccCCC-ceEEEEEcccccccc
Confidence            999999999999999998888776 66777666655543 246889999999997

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.54  E-value=3.2e-14  Score=107.67  Aligned_cols=101  Identities=19%  Similarity=0.249  Sum_probs=65.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|++|+|||||+|++++....      ...|..     ..+ ..   .+|||||....       ...+.+.+...
T Consensus         2 kv~liG~~~vGKSsL~~~l~~~~~~------~~~t~~-----~~~-~~---~~iDt~G~~~~-------~~~~~~~~~~~   59 (142)
T TIGR02528         2 RIMFIGSVGCGKTTLTQALQGEEIL------YKKTQA-----VEY-ND---GAIDTPGEYVE-------NRRLYSALIVT   59 (142)
T ss_pred             eEEEECCCCCCHHHHHHHHcCCccc------ccccee-----EEE-cC---eeecCchhhhh-------hHHHHHHHHHH
Confidence            7999999999999999999987531      111221     111 12   68999997321       11222222234


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.++|++|+|+|++++.+.....++.    .++    .|+++|+||+|...
T Consensus        60 ~~~ad~vilv~d~~~~~s~~~~~~~~----~~~----~p~ilv~NK~Dl~~  102 (142)
T TIGR02528        60 AADADVIALVQSATDPESRFPPGFAS----IFV----KPVIGLVTKIDLAE  102 (142)
T ss_pred             hhcCCEEEEEecCCCCCcCCChhHHH----hcc----CCeEEEEEeeccCC
Confidence            68899999999998776654433322    222    37999999999864

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.

>cd04176 Rap2 Rap2 subgroup

Probab=99.54  E-value=8.8e-14  Score=107.64  Aligned_cols=116  Identities=18%  Similarity=0.180  Sum_probs=73.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|.+|+|||||++.+++.........+.+   ......+. ..+  ..+.+|||||...+.           ...
T Consensus         2 ~ki~i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~---~~~~~~~~-~~~~~~~l~i~Dt~G~~~~~-----------~~~   66 (163)
T cd04176           2 YKVVVLGSGGVGKSALTVQFVSGTFIEKYDPTIE---DFYRKEIE-VDSSPSVLEILDTAGTEQFA-----------SMR   66 (163)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCCCCCchh---heEEEEEE-ECCEEEEEEEEECCCccccc-----------chH
Confidence            6899999999999999999987654322111111   11111222 233  357789999975432           233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|+|++++-+..+ ..++..+....+ ....|+++|+||+|...
T Consensus        67 ~~~~~~ad~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piviv~nK~Dl~~  120 (163)
T cd04176          67 DLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKG-YEKVPIILVGNKVDLES  120 (163)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccchh
Confidence            345577899999999985544333 334444544322 13468999999999854

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

>cd04148 RGK RGK subfamily

Probab=99.54  E-value=1.3e-13  Score=112.45  Aligned_cols=117  Identities=20%  Similarity=0.070  Sum_probs=71.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||++.+++.... .....+.+.........+. .....+.+|||||...             ....
T Consensus         1 ~KI~lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~i~Dt~G~~~-------------~~~~   66 (221)
T cd04148           1 YRVVMLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVD-GEESTLVVIDHWEQEM-------------WTED   66 (221)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEEC-CEEEEEEEEeCCCcch-------------HHHh
Confidence            48999999999999999999765442 1111111111111111111 1345789999999851             0111


Q ss_pred             hhcC-CccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKD-GIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~-~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++. ++|++++|+|++++-+... ..++..+... ......|+++|+||+|...
T Consensus        67 ~~~~~~ad~iilV~d~td~~S~~~~~~~~~~l~~~-~~~~~~piilV~NK~Dl~~  120 (221)
T cd04148          67 SCMQYQGDAFVVVYSVTDRSSFERASELRIQLRRN-RQLEDRPIILVGNKSDLAR  120 (221)
T ss_pred             HHhhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHh-cCCCCCCEEEEEEChhccc
Confidence            2334 7899999999986544432 3444444443 2123468999999999864

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.54  E-value=1.6e-13  Score=107.78  Aligned_cols=113  Identities=20%  Similarity=0.107  Sum_probs=74.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+|+++|.+|+|||||++.+........    ...|....+. .+. ..+  ..+.+|||||...+.           ..
T Consensus         2 ~ki~vvG~~~vGKTsl~~~~~~~~f~~~----~~pt~~~~~~~~~~-~~~~~~~l~i~Dt~G~~~~~-----------~~   65 (175)
T cd01874           2 IKCVVVGDGAVGKTCLLISYTTNKFPSE----YVPTVFDNYAVTVM-IGGEPYTLGLFDTAGQEDYD-----------RL   65 (175)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCC----CCCceeeeeEEEEE-ECCEEEEEEEEECCCccchh-----------hh
Confidence            6899999999999999999987654221    1122222111 122 233  578899999985432           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++|+|+|++++-+....  .++..+....+   ..|++||.||.|...
T Consensus        66 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~w~~~i~~~~~---~~piilvgnK~Dl~~  119 (175)
T cd01874          66 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCP---KTPFLLVGTQIDLRD  119 (175)
T ss_pred             hhhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEECHhhhh
Confidence            34466788999999999866555442  35555544322   358999999999864

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

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.54  E-value=3.3e-13  Score=106.73  Aligned_cols=115  Identities=12%  Similarity=0.077  Sum_probs=74.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|++|+|||||++.+.......  .   ..|.......+. ..+..+.+|||||..           .+....
T Consensus        16 ~~~kv~lvG~~~vGKTsli~~~~~~~~~~--~---~~T~~~~~~~~~-~~~~~~~l~D~~G~~-----------~~~~~~   78 (182)
T PTZ00133         16 KEVRILMVGLDAAGKTTILYKLKLGEVVT--T---IPTIGFNVETVE-YKNLKFTMWDVGGQD-----------KLRPLW   78 (182)
T ss_pred             CccEEEEEcCCCCCHHHHHHHHhcCCccc--c---CCccccceEEEE-ECCEEEEEEECCCCH-----------hHHHHH
Confidence            34899999999999999999996543321  1   112222223333 367789999999973           233455


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++-+...  ..+++...+...  ...|++||+||.|...
T Consensus        79 ~~~~~~ad~iI~v~D~t~~~s~~~--~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  132 (182)
T PTZ00133         79 RHYYQNTNGLIFVVDSNDRERIGD--AREELERMLSEDELRDAVLLVFANKQDLPN  132 (182)
T ss_pred             HHHhcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhCHhhcCCCEEEEEeCCCCCC
Confidence            667789999999999985433222  222333333221  2358999999999754

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.54  E-value=2.4e-13  Score=121.42  Aligned_cols=125  Identities=18%  Similarity=0.129  Sum_probs=78.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||.++||||||+|.|++.....  ......|.......+. ..+..++++||||+.+..+....+...+.+.+  
T Consensus       160 adV~LVG~PNAGKSTLln~Ls~akpkI--adypfTTl~P~lGvv~-~~~~~f~laDtPGliegas~g~gLg~~fLrhi--  234 (500)
T PRK12296        160 ADVGLVGFPSAGKSSLISALSAAKPKI--ADYPFTTLVPNLGVVQ-AGDTRFTVADVPGLIPGASEGKGLGLDFLRHI--  234 (500)
T ss_pred             ceEEEEEcCCCCHHHHHHHHhcCCccc--cccCcccccceEEEEE-ECCeEEEEEECCCCccccchhhHHHHHHHHHH--
Confidence            479999999999999999999875421  2223445555555444 36678999999999754333333333333333  


Q ss_pred             hcCCccEEEEEEeCCCCC---CH-HH-HHHHHHHHHHhc---------ccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRF---SQ-EE-EAALHSLQTLFG---------KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~---~~-~~-~~~l~~l~~~~g---------~~~~~~~ivv~~k~D~~~  151 (253)
                        ..+|++|+|+|+++..   ++ .+ ..+.+.+..+..         ....+|.+||+||+|...
T Consensus       235 --eradvLv~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~d  298 (500)
T PRK12296        235 --ERCAVLVHVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPD  298 (500)
T ss_pred             --HhcCEEEEEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchh
Confidence              4568999999987321   11 12 222233333221         123468999999999864

>cd00876 Ras Ras family

Probab=99.54  E-value=1.8e-13  Score=105.08  Aligned_cols=115  Identities=18%  Similarity=0.151  Sum_probs=72.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|++|+|||||++++++... .....+.  +......... ..  ...+.+||+||...           +.....
T Consensus         1 ki~i~G~~~~GKTsli~~l~~~~~-~~~~~~~--~~~~~~~~~~-~~~~~~~~~l~D~~g~~~-----------~~~~~~   65 (160)
T cd00876           1 KVVVLGAGGVGKSAITIQFVKGTF-VEEYDPT--IEDSYRKTIV-VDGETYTLDILDTAGQEE-----------FSAMRD   65 (160)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCC-CcCcCCC--hhHeEEEEEE-ECCEEEEEEEEECCChHH-----------HHHHHH
Confidence            589999999999999999998763 2221111  1111112222 23  35688999999743           223334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+...|++++|+|++++-+..+ ..+...+....+. ...|+++|+||+|...
T Consensus        66 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~  118 (160)
T cd00876          66 LYIRQGDGFILVYSITDRESFEEIKGYREQILRVKDD-EDIPIVLVGNKCDLEN  118 (160)
T ss_pred             HHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC-CCCcEEEEEECCcccc
Confidence            45567799999999875433332 3333444443331 2468999999999975

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

>cd01886 EF-G Elongation factor G (EF-G) subfamily

Probab=99.54  E-value=2.3e-13  Score=113.92  Aligned_cols=114  Identities=18%  Similarity=0.231  Sum_probs=81.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc----------------cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      +|+++|+.|+|||||+++|+.......                .....+.|.......+. +.+..+++|||||+.++. 
T Consensus         1 nv~ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~-~~~~~i~liDTPG~~df~-   78 (270)
T cd01886           1 NIGIIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCF-WKDHRINIIDTPGHVDFT-   78 (270)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEE-ECCEEEEEEECCCcHHHH-
Confidence            489999999999999999974321100                01133556666556555 478899999999986522 


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                .....+...+|++|+|+|+.......+..+++.+... +    .|.++++||+|...
T Consensus        79 ----------~~~~~~l~~aD~ailVVDa~~g~~~~t~~~~~~~~~~-~----~p~ivviNK~D~~~  130 (270)
T cd01886          79 ----------IEVERSLRVLDGAVAVFDAVAGVEPQTETVWRQADRY-N----VPRIAFVNKMDRTG  130 (270)
T ss_pred             ----------HHHHHHHHHcCEEEEEEECCCCCCHHHHHHHHHHHHc-C----CCEEEEEECCCCCC
Confidence                      2233445566999999999878888777777766543 3    47899999999874

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

>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=99.54  E-value=1.4e-13  Score=107.72  Aligned_cols=123  Identities=16%  Similarity=0.101  Sum_probs=91.7

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +....++|++||.+|+|||+++-++...........+.++.........+ .....+.+|||.|.           +++.
T Consensus         8 ~~d~~~kvlliGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~-g~~i~lQiWDtaGQ-----------erf~   75 (207)
T KOG0078|consen    8 DYDYLFKLLLIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELD-GKKIKLQIWDTAGQ-----------ERFR   75 (207)
T ss_pred             CcceEEEEEEECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeC-CeEEEEEEEEcccc-----------hhHH
Confidence            34455899999999999999999998766544434444444444333332 13457889999998           5666


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+..++.+++++++|+|+++.-+.+. ..|++++.+.-..  ..+.++|.||+|+..
T Consensus        76 ti~~sYyrgA~gi~LvyDitne~Sfeni~~W~~~I~e~a~~--~v~~~LvGNK~D~~~  131 (207)
T KOG0078|consen   76 TITTAYYRGAMGILLVYDITNEKSFENIRNWIKNIDEHASD--DVVKILVGNKCDLEE  131 (207)
T ss_pred             HHHHHHHhhcCeeEEEEEccchHHHHHHHHHHHHHHhhCCC--CCcEEEeeccccccc
Confidence            788888899999999999987666555 6688888887544  358999999999975

>cd01879 FeoB Ferrous iron transport protein B (FeoB) subfamily

Probab=99.53  E-value=1.5e-13  Score=105.50  Aligned_cols=115  Identities=22%  Similarity=0.236  Sum_probs=72.5

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCC
Q 025391           24 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDG  103 (253)
Q Consensus        24 lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (253)
                      |+|.+|+|||||+|+|+|.......  ..+.|.......+. ..+..+.+|||||+.+.......  ..+....... ++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~--~~~~t~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~--~~~~~~~~~~-~~   74 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGN--WPGVTVEKKEGRFK-LGGKEIEIVDLPGTYSLSPYSED--EKVARDFLLG-EK   74 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccC--CCCcccccceEEEe-eCCeEEEEEECCCccccCCCChh--HHHHHHHhcC-CC
Confidence            5899999999999999998632221  23344444444444 35678999999999765432111  1222221111 68


Q ss_pred             ccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          104 IHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       104 ~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +|++++|+|+++. .. ...+...+.. .    ..|+++|+||+|...
T Consensus        75 ~d~vi~v~d~~~~-~~-~~~~~~~~~~-~----~~~~iiv~NK~Dl~~  115 (158)
T cd01879          75 PDLIVNVVDATNL-ER-NLYLTLQLLE-L----GLPVVVALNMIDEAE  115 (158)
T ss_pred             CcEEEEEeeCCcc-hh-HHHHHHHHHH-c----CCCEEEEEehhhhcc
Confidence            8999999999743 22 2233333333 2    258999999999975

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.

>KOG0087 consensus GTPase Rab11/YPT3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.53  E-value=4.8e-14  Score=109.98  Aligned_cols=121  Identities=18%  Similarity=0.124  Sum_probs=91.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+++|.+|+|||-|+-+.+.........++.++........+. .+-.+..+|||+|+           ++++..
T Consensus        12 dylFKiVliGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd-~k~vkaqIWDTAGQ-----------ERyrAi   79 (222)
T KOG0087|consen   12 DYLFKIVLIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVD-GKTVKAQIWDTAGQ-----------ERYRAI   79 (222)
T ss_pred             ceEEEEEEeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeec-CcEEEEeeecccch-----------hhhccc
Confidence            345899999999999999999998877655556666666555544443 24457889999998           566677


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+.+++++.+.|+|.|++.+.+.+. ..||+.|+....  ...++++|.||+|+..
T Consensus        80 tSaYYrgAvGAllVYDITr~~Tfenv~rWL~ELRdhad--~nivimLvGNK~DL~~  133 (222)
T KOG0087|consen   80 TSAYYRGAVGALLVYDITRRQTFENVERWLKELRDHAD--SNIVIMLVGNKSDLNH  133 (222)
T ss_pred             cchhhcccceeEEEEechhHHHHHHHHHHHHHHHhcCC--CCeEEEEeecchhhhh
Confidence            7899999999999999997777765 444455554432  3468999999999974

>cd04126 Rab20 Rab20 subfamily

Probab=99.52  E-value=2.1e-13  Score=110.81  Aligned_cols=113  Identities=23%  Similarity=0.135  Sum_probs=74.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+++|.+|+|||||++.+++......     ..|....+.... .....+.+|||||...+.           .....
T Consensus         1 ~KIvivG~~~vGKTSLi~r~~~~~f~~~-----~~Tig~~~~~~~-~~~~~l~iwDt~G~e~~~-----------~l~~~   63 (220)
T cd04126           1 LKVVLLGDMNVGKTSLLHRYMERRFKDT-----VSTVGGAFYLKQ-WGPYNISIWDTAGREQFH-----------GLGSM   63 (220)
T ss_pred             CEEEEECCCCCcHHHHHHHHhcCCCCCC-----CCccceEEEEEE-eeEEEEEEEeCCCcccch-----------hhHHH
Confidence            4899999999999999999998764321     112222222222 245678999999975432           23344


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.++|++|+|+|++++.+.... .++..+.+..+.  ..|++||.||.|+..
T Consensus        64 ~~~~ad~~IlV~Dvt~~~Sf~~l~~~~~~l~~~~~~--~~piIlVgNK~DL~~  114 (220)
T cd04126          64 YCRGAAAVILTYDVSNVQSLEELEDRFLGLTDTANE--DCLFAVVGNKLDLTE  114 (220)
T ss_pred             HhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCcEEEEEECccccc
Confidence            56788999999999866555542 233333333222  358999999999864

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

>cd01889 SelB_euk SelB subfamily

Probab=99.52  E-value=2.7e-13  Score=108.10  Aligned_cols=116  Identities=16%  Similarity=0.267  Sum_probs=73.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCC---cccc--CCCCccceeeeeeeeEe-------------eCCeEEEEEeCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRA---FKSR--ASSSGVTSTCEMQRTVL-------------KDGQVVNVIDTPGLFD   81 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~---~~~~--~~~~~~t~~~~~~~~~~-------------~~~~~~~liDtpG~~~   81 (253)
                      .+|+++|++|+|||||+++|++...   +...  ....+.|..........             ..+..+.+|||||+. 
T Consensus         1 ~~i~i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~-   79 (192)
T cd01889           1 VNVGVLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHA-   79 (192)
T ss_pred             CeEEEEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcH-
Confidence            3799999999999999999997311   0000  01123344433333322             125689999999973 


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                .+...+......+|++++|+|++...+..+...+... ...+    .|+++|+||+|...
T Consensus        80 ----------~~~~~~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~~~-~~~~----~~~iiv~NK~Dl~~  134 (192)
T cd01889          80 ----------SLIRTIIGGAQIIDLMLLVVDATKGIQTQTAECLVIG-EILC----KKLIVVLNKIDLIP  134 (192)
T ss_pred             ----------HHHHHHHHHHhhCCEEEEEEECCCCccHHHHHHHHHH-HHcC----CCEEEEEECcccCC
Confidence                      2222232334567999999999866666554444433 2223    47999999999975

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.52  E-value=7.4e-14  Score=107.89  Aligned_cols=114  Identities=18%  Similarity=0.252  Sum_probs=68.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|.+|+|||||+|.|.|.....      ..+..+     .+ ...  .+|||||.....       .++.+.+..
T Consensus         2 ~~i~~iG~~~~GKstl~~~l~~~~~~~------~~~~~v-----~~-~~~--~~iDtpG~~~~~-------~~~~~~~~~   60 (158)
T PRK15467          2 KRIAFVGAVGAGKTTLFNALQGNYTLA------RKTQAV-----EF-NDK--GDIDTPGEYFSH-------PRWYHALIT   60 (158)
T ss_pred             cEEEEECCCCCCHHHHHHHHcCCCccC------ccceEE-----EE-CCC--CcccCCccccCC-------HHHHHHHHH
Confidence            379999999999999999999874211      111111     11 111  269999986432       112222223


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  161 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~  161 (253)
                      .+.++|++|+|+|++...+....    ++... +.  ..|+++++||+|....+...+.+++
T Consensus        61 ~~~~ad~il~v~d~~~~~s~~~~----~~~~~-~~--~~~ii~v~nK~Dl~~~~~~~~~~~~  115 (158)
T PRK15467         61 TLQDVDMLIYVHGANDPESRLPA----GLLDI-GV--SKRQIAVISKTDMPDADVAATRKLL  115 (158)
T ss_pred             HHhcCCEEEEEEeCCCcccccCH----HHHhc-cC--CCCeEEEEEccccCcccHHHHHHHH
Confidence            35788999999999855443222    22222 11  2479999999998542233334444

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.52  E-value=3.4e-13  Score=123.69  Aligned_cols=117  Identities=19%  Similarity=0.261  Sum_probs=83.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++|+++|+.++|||||+++|.+......  ..++.|.......+...++..+++|||||+.++.           ..
T Consensus        85 ~r~p~V~I~Ghvd~GKTSLl~~l~~~~v~~~--e~~GIT~~ig~~~v~~~~~~~i~~iDTPGhe~F~-----------~~  151 (587)
T TIGR00487        85 ERPPVVTIMGHVDHGKTSLLDSIRKTKVAQG--EAGGITQHIGAYHVENEDGKMITFLDTPGHEAFT-----------SM  151 (587)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHhCCcccc--cCCceeecceEEEEEECCCcEEEEEECCCCcchh-----------hH
Confidence            3558999999999999999999998765332  2345565555554543234489999999986532           33


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+..+|++++|+++++...+.....+..+.. .+    .|+++++||+|...
T Consensus       152 r~rga~~aDiaILVVda~dgv~~qT~e~i~~~~~-~~----vPiIVviNKiDl~~  201 (587)
T TIGR00487       152 RARGAKVTDIVVLVVAADDGVMPQTIEAISHAKA-AN----VPIIVAINKIDKPE  201 (587)
T ss_pred             HHhhhccCCEEEEEEECCCCCCHhHHHHHHHHHH-cC----CCEEEEEECccccc
Confidence            3345577899999999987777666666554433 22    47999999999864

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.

>cd04134 Rho3 Rho3 subfamily

Probab=99.52  E-value=1.5e-13  Score=109.36  Aligned_cols=114  Identities=19%  Similarity=0.116  Sum_probs=74.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++.+++........    .|....+. .+.. .....+.+|||||...+.           ...
T Consensus         1 ~kivivG~~~vGKTsli~~~~~~~~~~~~~----~t~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~-----------~l~   65 (189)
T cd04134           1 RKVVVLGDGACGKTSLLNVFTRGYFPQVYE----PTVFENYVHDIFVDGLHIELSLWDTAGQEEFD-----------RLR   65 (189)
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCCccC----CcceeeeEEEEEECCEEEEEEEEECCCChhcc-----------ccc
Confidence            489999999999999999999875432211    12111111 1111 123578999999975422           233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|++++++-+....  .++..+....   ...|+++|.||.|+..
T Consensus        66 ~~~~~~a~~~ilv~dv~~~~sf~~~~~~~~~~i~~~~---~~~piilvgNK~Dl~~  118 (189)
T cd04134          66 SLSYADTDVIMLCFSVDSPDSLENVESKWLGEIREHC---PGVKLVLVALKCDLRE  118 (189)
T ss_pred             cccccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEEChhhcc
Confidence            3456788999999999866555432  3555555432   2358999999999875

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.

>cd00880 Era_like Era (E

Probab=99.52  E-value=6.4e-13  Score=101.28  Aligned_cols=118  Identities=25%  Similarity=0.206  Sum_probs=76.4

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCC
Q 025391           24 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDG  103 (253)
Q Consensus        24 lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (253)
                      |+|++|+|||||+|+|++........ ..+.+...............+.+|||||+.+........    ..........
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~Dt~g~~~~~~~~~~~----~~~~~~~~~~   75 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSP-VPGTTTDPVEYVWELGPLGPVVLIDTPGIDEAGGLGRER----EELARRVLER   75 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCC-CCCcEECCeEEEEEecCCCcEEEEECCCCCccccchhhH----HHHHHHHHHh
Confidence            58999999999999999986543222 222333333333332226789999999998765433211    1223334467


Q ss_pred             ccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          104 IHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       104 ~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +|++++|+++....+.....+......     ...|+++|+||.|...
T Consensus        76 ~d~il~v~~~~~~~~~~~~~~~~~~~~-----~~~~~ivv~nK~D~~~  118 (163)
T cd00880          76 ADLILFVVDADLRADEEEEKLLELLRE-----RGKPVLLVLNKIDLLP  118 (163)
T ss_pred             CCEEEEEEeCCCCCCHHHHHHHHHHHh-----cCCeEEEEEEccccCC
Confidence            799999999986666655542222221     2358999999999987

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

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.52  E-value=3.3e-13  Score=109.74  Aligned_cols=115  Identities=18%  Similarity=0.059  Sum_probs=74.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+|||.+|+|||||++.+++...+....++.+....   ..+.. .....+.+|||+|..           .+.....
T Consensus         2 ~KIvvvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~---~~~~~~~~~v~L~iwDt~G~e-----------~~~~l~~   67 (222)
T cd04173           2 CKIVVVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT---ASFEIDKRRIELNMWDTSGSS-----------YYDNVRP   67 (222)
T ss_pred             eEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccceE---EEEEECCEEEEEEEEeCCCcH-----------HHHHHhH
Confidence            68999999999999999999976543221111111111   11111 123578899999974           2334455


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+++++|++|+|+|++++-+...  ..+...+....   ...|++||.||.|+..
T Consensus        68 ~~~~~~d~illvfdis~~~Sf~~i~~~w~~~~~~~~---~~~piiLVgnK~DL~~  119 (222)
T cd04173          68 LAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC---PNAKVVLVGCKLDMRT  119 (222)
T ss_pred             HhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEEECccccc
Confidence            67889999999999986644433  22333333322   2358999999999864

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

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=99.52  E-value=1.5e-13  Score=101.18  Aligned_cols=150  Identities=17%  Similarity=0.142  Sum_probs=102.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+.+|+|.+|+|||+|+-.+.......+...+.++........+. .....+.+|||+|.           +.++....-
T Consensus         9 fkllIigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~-G~~VkLqIwDtAGq-----------ErFrtitst   76 (198)
T KOG0079|consen    9 FKLLIIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDIN-GDRVKLQIWDTAGQ-----------ERFRTITST   76 (198)
T ss_pred             HHHHeecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecC-CcEEEEEEeecccH-----------HHHHHHHHH
Confidence            567899999999999998887664321212222333333222222 23457889999997           677788888


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ++.++|++++|.|+++.-+... ..||+.+.....   ..|-++|.||.|.....   ......|-....-..++++.++
T Consensus        77 yyrgthgv~vVYDVTn~ESF~Nv~rWLeei~~ncd---sv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe  153 (198)
T KOG0079|consen   77 YYRGTHGVIVVYDVTNGESFNNVKRWLEEIRNNCD---SVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKE  153 (198)
T ss_pred             HccCCceEEEEEECcchhhhHhHHHHHHHHHhcCc---cccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhh
Confidence            9999999999999997666655 555555555433   46899999999987521   2334445544555667777777


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      .+..+.|+.
T Consensus       154 ~~NvE~mF~  162 (198)
T KOG0079|consen  154 NENVEAMFH  162 (198)
T ss_pred             cccchHHHH
Confidence            777777765

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.52  E-value=2.8e-13  Score=106.65  Aligned_cols=116  Identities=21%  Similarity=0.185  Sum_probs=71.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+|+|.+|+|||||++.+++...............   ..... ..  ...+.+|||||..+           +....
T Consensus         2 ~kv~l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~l~D~~g~~~-----------~~~~~   66 (180)
T cd04137           2 RKIAVLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF---SKIIR-YKGQDYHLEIVDTAGQDE-----------YSILP   66 (180)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCccccCcchhhhE---EEEEE-ECCEEEEEEEEECCChHh-----------hHHHH
Confidence            6899999999999999999997754221111111111   11111 22  34678999999743           22333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++...|++++|+|.++..+... ..+...+.+..+ ....|+++|+||+|...
T Consensus        67 ~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~ilv~NK~Dl~~  120 (180)
T cd04137          67 QKYSIGIHGYILVYSVTSRKSFEVVKVIYDKILDMLG-KESVPIVLVGNKSDLHT  120 (180)
T ss_pred             HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEEchhhhh
Confidence            445567899999999985443333 233334433322 12358999999999864

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.51  E-value=6e-13  Score=125.50  Aligned_cols=124  Identities=22%  Similarity=0.211  Sum_probs=83.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH-
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI-   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~-   97 (253)
                      .++|+|+|.+|+|||||+|+|++....... ...+.|......... .++..+.+|||||+........  ..+....+ 
T Consensus       450 ~~kI~ivG~~nvGKSSLin~l~~~~~~~v~-~~~gtT~d~~~~~~~-~~~~~~~liDTaG~~~~~~~~~--~~e~~~~~r  525 (712)
T PRK09518        450 LRRVALVGRPNVGKSSLLNQLTHEERAVVN-DLAGTTRDPVDEIVE-IDGEDWLFIDTAGIKRRQHKLT--GAEYYSSLR  525 (712)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhCccccccC-CCCCCCcCcceeEEE-ECCCEEEEEECCCcccCcccch--hHHHHHHHH
Confidence            479999999999999999999998642222 122334333323233 4677889999999864322111  11111111 


Q ss_pred             -HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 -GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 -~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..++..+|++++|+|++...+..+..++..+...     ..|++||+||+|...
T Consensus       526 ~~~~i~~advvilViDat~~~s~~~~~i~~~~~~~-----~~piIiV~NK~DL~~  575 (712)
T PRK09518        526 TQAAIERSELALFLFDASQPISEQDLKVMSMAVDA-----GRALVLVFNKWDLMD  575 (712)
T ss_pred             HHHHhhcCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEEchhcCC
Confidence             2345778999999999988988887766655442     258999999999975

>PLN00023 GTP-binding protein; Provisional

Probab=99.51  E-value=3.9e-13  Score=113.58  Aligned_cols=124  Identities=18%  Similarity=0.158  Sum_probs=79.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe------------eCCeEEEEEeCCCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL------------KDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~------------~~~~~~~liDtpG~~~~~~   84 (253)
                      ....+|+|||.+|||||||++.+++.........+.+.+.......+..            .....+.||||+|..    
T Consensus        19 ~~~iKIVLLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqE----   94 (334)
T PLN00023         19 CGQVRVLVVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHE----   94 (334)
T ss_pred             ccceEEEEECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCCh----
Confidence            3448999999999999999999997654222222222222211111110            023468899999974    


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc----------cccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK----------KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~----------~~~~~~ivv~~k~D~~~  151 (253)
                             .+..+...++.+++++|+|+|++++-+... ..+++.+....+.          ....+++||.||+|+..
T Consensus        95 -------rfrsL~~~yyr~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~  165 (334)
T PLN00023         95 -------RYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAP  165 (334)
T ss_pred             -------hhhhhhHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccc
Confidence                   344566677899999999999986555444 3455555543210          01258999999999864

>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=99.51  E-value=7.6e-13  Score=108.60  Aligned_cols=88  Identities=19%  Similarity=0.205  Sum_probs=58.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+|+|.+|+|||||+|.|+|......  .....|..+....+. ..+..+.+|||||+.+.......    +...+...
T Consensus         2 ~v~lvG~~~~GKStLl~~Ltg~~~~v~--~~~~tT~~~~~g~~~-~~~~~i~l~DtpG~~~~~~~~~~----~~~~~l~~   74 (233)
T cd01896           2 RVALVGFPSVGKSTLLSKLTNTKSEVA--AYEFTTLTCVPGVLE-YKGAKIQLLDLPGIIEGAADGKG----RGRQVIAV   74 (233)
T ss_pred             EEEEECCCCCCHHHHHHHHHCCCcccc--CCCCccccceEEEEE-ECCeEEEEEECCCcccccccchh----HHHHHHHh
Confidence            789999999999999999999864221  122334334333333 47788999999998654321111    11222334


Q ss_pred             cCCccEEEEEEeCCC
Q 025391          101 KDGIHAVLVVFSVRS  115 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~  115 (253)
                      +..+|++++|+|+++
T Consensus        75 ~~~ad~il~V~D~t~   89 (233)
T cd01896          75 ARTADLILMVLDATK   89 (233)
T ss_pred             hccCCEEEEEecCCc
Confidence            577899999999864

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.

>cd01892 Miro2 Miro2 subfamily

Probab=99.51  E-value=4.2e-13  Score=104.82  Aligned_cols=117  Identities=13%  Similarity=-0.028  Sum_probs=72.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~-~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +..+|+++|.+|+|||||++++++.... .....+.+....  ...+. ..+  ..+.+||++|...+.           
T Consensus         3 ~~~kv~~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~--~~~~~-~~~~~~~l~~~d~~g~~~~~-----------   68 (169)
T cd01892           3 NVFLCFVLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYA--VNTVE-VYGQEKYLILREVGEDEVAI-----------   68 (169)
T ss_pred             eEEEEEEECCCCCcHHHHHHHHhCCCCCcccCCCccCcceE--EEEEE-ECCeEEEEEEEecCCccccc-----------
Confidence            4589999999999999999999987643 111111111111  11122 133  467899999975432           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++.++|++|+|+|++++.+..  .+..++... ......|+++|+||+|...
T Consensus        69 ~~~~~~~~~~d~~llv~d~~~~~s~~--~~~~~~~~~-~~~~~~p~iiv~NK~Dl~~  122 (169)
T cd01892          69 LLNDAELAACDVACLVYDSSDPKSFS--YCAEVYKKY-FMLGEIPCLFVAAKADLDE  122 (169)
T ss_pred             ccchhhhhcCCEEEEEEeCCCHHHHH--HHHHHHHHh-ccCCCCeEEEEEEcccccc
Confidence            22234457889999999997543222  222333332 1122468999999999864

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.

>cd04169 RF3 RF3 subfamily

Probab=99.51  E-value=5e-13  Score=111.72  Aligned_cols=115  Identities=18%  Similarity=0.219  Sum_probs=76.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC--C------------------CCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA--S------------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~--~------------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ++|+|+|+.|+|||||+++|+.........  .                  ..+.+.......+. +++..+.+|||||.
T Consensus         3 Rni~ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~-~~~~~i~liDTPG~   81 (267)
T cd04169           3 RTFAIISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFE-YRDCVINLLDTPGH   81 (267)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEe-eCCEEEEEEECCCc
Confidence            689999999999999999998543211110  0                  11233333334444 47889999999998


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.           .....++..+|++|+|+|++.........+++.... .+    .|+++++||+|...
T Consensus        82 ~df~-----------~~~~~~l~~aD~~IlVvda~~g~~~~~~~i~~~~~~-~~----~P~iivvNK~D~~~  137 (267)
T cd04169          82 EDFS-----------EDTYRTLTAVDSAVMVIDAAKGVEPQTRKLFEVCRL-RG----IPIITFINKLDREG  137 (267)
T ss_pred             hHHH-----------HHHHHHHHHCCEEEEEEECCCCccHHHHHHHHHHHh-cC----CCEEEEEECCccCC
Confidence            6432           222233456799999999987776665555544433 22    47999999999865

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.

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.51  E-value=4e-13  Score=110.44  Aligned_cols=114  Identities=18%  Similarity=0.230  Sum_probs=79.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc----------------CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR----------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~----------------~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      +|+++|+.|+|||||+++|+........                ....+.+.......+. +.+..+.+|||||+.++. 
T Consensus         1 ni~i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~-~~~~~i~liDTPG~~~f~-   78 (237)
T cd04168           1 NIGILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQ-WEDTKVNLIDTPGHMDFI-   78 (237)
T ss_pred             CEEEEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEE-ECCEEEEEEeCCCccchH-
Confidence            4899999999999999999865321110                0112334444444444 478899999999997542 


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                .....++..+|++++|+|+++........+++.+.+. +    .|.++++||+|...
T Consensus        79 ----------~~~~~~l~~aD~~IlVvd~~~g~~~~~~~~~~~~~~~-~----~P~iivvNK~D~~~  130 (237)
T cd04168          79 ----------AEVERSLSVLDGAILVISAVEGVQAQTRILWRLLRKL-N----IPTIIFVNKIDRAG  130 (237)
T ss_pred             ----------HHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc-C----CCEEEEEECccccC
Confidence                      2223344566999999999888777666666665542 3    47899999999874

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.

>CHL00071 tufA elongation factor Tu

Probab=99.51  E-value=3.5e-13  Score=119.44  Aligned_cols=119  Identities=15%  Similarity=0.216  Sum_probs=83.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      .+.++|+++|+.++|||||+++|++.......              ....+.|.......+. .++..+.++||||+.  
T Consensus        10 ~~~~~i~i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~-~~~~~~~~iDtPGh~--   86 (409)
T CHL00071         10 KPHVNIGTIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYE-TENRHYAHVDCPGHA--   86 (409)
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEc-cCCeEEEEEECCChH--
Confidence            45589999999999999999999975321110              1124555555444443 356789999999963  


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               .+...+......+|++++|+|+...+...+...+..+... |.   +++++++||+|...
T Consensus        87 ---------~~~~~~~~~~~~~D~~ilVvda~~g~~~qt~~~~~~~~~~-g~---~~iIvvvNK~D~~~  142 (409)
T CHL00071         87 ---------DYVKNMITGAAQMDGAILVVSAADGPMPQTKEHILLAKQV-GV---PNIVVFLNKEDQVD  142 (409)
T ss_pred             ---------HHHHHHHHHHHhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CEEEEEEEccCCCC
Confidence                     2333333444677999999999878888888888776543 42   24778999999975

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.50  E-value=3e-13  Score=105.92  Aligned_cols=114  Identities=20%  Similarity=0.095  Sum_probs=72.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ++|+++|++|+|||||++++++.... ....+..  ......... .+  ...+.+|||||.....           ...
T Consensus         1 ~k~~i~G~~~~GKtsl~~~~~~~~~~-~~~~~t~--~~~~~~~~~-~~~~~~~~~i~Dt~G~~~~~-----------~~~   65 (173)
T cd04130           1 LKCVLVGDGAVGKTSLIVSYTTNGYP-TEYVPTA--FDNFSVVVL-VDGKPVRLQLCDTAGQDEFD-----------KLR   65 (173)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCC-CCCCCce--eeeeeEEEE-ECCEEEEEEEEECCCChhhc-----------ccc
Confidence            47999999999999999999875432 2222211  111111121 22  3467899999984322           223


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++.+...  ..++..+....   ...|+++|.||.|...
T Consensus        66 ~~~~~~a~~~i~v~d~~~~~sf~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~  118 (173)
T cd04130          66 PLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHN---PKAPIILVGTQADLRT  118 (173)
T ss_pred             ccccCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhhC---CCCCEEEEeeChhhcc
Confidence            446678899999999986655443  23455554432   1358999999999864

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,

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.50  E-value=5e-13  Score=107.47  Aligned_cols=115  Identities=15%  Similarity=0.148  Sum_probs=71.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe---eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ++|+|+|++|+|||||++.|.+........+     +.........   ..+..+.+|||||...           ++..
T Consensus         1 ~~vll~G~~~sGKTsL~~~l~~~~~~~t~~s-----~~~~~~~~~~~~~~~~~~~~l~D~pG~~~-----------~~~~   64 (203)
T cd04105           1 PTVLLLGPSDSGKTALFTKLTTGKYRSTVTS-----IEPNVATFILNSEGKGKKFRLVDVPGHPK-----------LRDK   64 (203)
T ss_pred             CeEEEEcCCCCCHHHHHHHHhcCCCCCccCc-----EeecceEEEeecCCCCceEEEEECCCCHH-----------HHHH
Confidence            3799999999999999999998754222111     1111111111   1356899999999843           3344


Q ss_pred             HHhhcCCc-cEEEEEEeCCCCCCHHHHHHHHHHHHHhc----ccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGI-HAVLVVFSVRSRFSQEEEAALHSLQTLFG----KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~-~~~l~v~d~~~~~~~~~~~~l~~l~~~~g----~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++... +++|||+|+++... .-.....++...+.    .....|++|+.||.|...
T Consensus        65 ~~~~~~~~~~~vV~VvD~~~~~~-~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~~  123 (203)
T cd04105          65 LLETLKNSAKGIVFVVDSATFQK-NLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLFT  123 (203)
T ss_pred             HHHHHhccCCEEEEEEECccchh-HHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhcc
Confidence            44445565 99999999984422 22222333322211    112468999999999875

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.50  E-value=4.8e-13  Score=110.67  Aligned_cols=150  Identities=17%  Similarity=0.140  Sum_probs=85.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|..|+|||||++.+++..... ...+.........  +. .++  ..+.+|||||..++           ....
T Consensus         1 ~KVvvlG~~gvGKTSLi~r~~~~~f~~-~y~pTi~d~~~k~--~~-i~~~~~~l~I~Dt~G~~~~-----------~~~~   65 (247)
T cd04143           1 YRMVVLGASKVGKTAIVSRFLGGRFEE-QYTPTIEDFHRKL--YS-IRGEVYQLDILDTSGNHPF-----------PAMR   65 (247)
T ss_pred             CEEEEECcCCCCHHHHHHHHHcCCCCC-CCCCChhHhEEEE--EE-ECCEEEEEEEEECCCChhh-----------hHHH
Confidence            379999999999999999998765422 1111111111111  11 233  46789999997542           1222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHh-------cccccCeEEEEEeCCCCCCC---ChhhHHHHHccc-C
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLF-------GKKIFDYMIVVFTGGDELED---NDETLEDYLGRE-C  165 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~-------g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~-~  165 (253)
                      ..++..+|++|+|+|++++-+... ..+++.+....       ......|++||+||+|....   ....+..++... .
T Consensus        66 ~~~~~~ad~iIlVfdv~~~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~  145 (247)
T cd04143          66 RLSILTGDVFILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDEN  145 (247)
T ss_pred             HHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCC
Confidence            344567899999999986544433 33444444321       01234689999999998631   123344444321 1


Q ss_pred             CchhhhhHHHhhhHHHHHH
Q 025391          166 PKPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       166 ~~~l~~~~~~~~~~~~~~~  184 (253)
                      ..++..+......+++++.
T Consensus       146 ~~~~evSAktg~gI~elf~  164 (247)
T cd04143         146 CAYFEVSAKKNSNLDEMFR  164 (247)
T ss_pred             CEEEEEeCCCCCCHHHHHH
Confidence            2344444444444444443

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

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.50  E-value=5.3e-13  Score=124.35  Aligned_cols=117  Identities=15%  Similarity=0.212  Sum_probs=82.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee---CCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      .+.++|+|+|+.|+|||||+++|++......  ..++.|.....+.....   .+..++||||||+.           .+
T Consensus       242 ~r~p~V~IvGhvdvGKTSLld~L~~~~~~~~--e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe-----------~F  308 (742)
T CHL00189        242 NRPPIVTILGHVDHGKTTLLDKIRKTQIAQK--EAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHE-----------AF  308 (742)
T ss_pred             ccCCEEEEECCCCCCHHHHHHHHHhccCccc--cCCccccccceEEEEEEecCCceEEEEEECCcHH-----------HH
Confidence            4558999999999999999999988755322  22344444333333321   35789999999973           33


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .......+..+|++|+|+++++...+.....+..+.. .    ..|++|++||+|...
T Consensus       309 ~~mr~rg~~~aDiaILVVDA~dGv~~QT~E~I~~~k~-~----~iPiIVViNKiDl~~  361 (742)
T CHL00189        309 SSMRSRGANVTDIAILIIAADDGVKPQTIEAINYIQA-A----NVPIIVAINKIDKAN  361 (742)
T ss_pred             HHHHHHHHHHCCEEEEEEECcCCCChhhHHHHHHHHh-c----CceEEEEEECCCccc
Confidence            3444455577899999999987777777666665543 2    258999999999875

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.50  E-value=5.8e-13  Score=125.13  Aligned_cols=117  Identities=17%  Similarity=0.231  Sum_probs=86.0

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..+.++|+|+|+.++|||||+++|.+..+...  ..+++|.....+.+. +.+..++||||||+.++.           .
T Consensus       287 ~~R~pvV~ImGhvd~GKTSLl~~Lr~~~v~~~--e~~GIT~~iga~~v~-~~~~~ItfiDTPGhe~F~-----------~  352 (787)
T PRK05306        287 VPRPPVVTIMGHVDHGKTSLLDAIRKTNVAAG--EAGGITQHIGAYQVE-TNGGKITFLDTPGHEAFT-----------A  352 (787)
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHhCCcccc--ccCceeeeccEEEEE-ECCEEEEEEECCCCccch-----------h
Confidence            34668999999999999999999987665322  234566666555555 367889999999987643           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +....+..+|++|+|+++++...+.....+..+.. ++    .|++|++||+|...
T Consensus       353 m~~rga~~aDiaILVVdAddGv~~qT~e~i~~a~~-~~----vPiIVviNKiDl~~  403 (787)
T PRK05306        353 MRARGAQVTDIVVLVVAADDGVMPQTIEAINHAKA-AG----VPIIVAINKIDKPG  403 (787)
T ss_pred             HHHhhhhhCCEEEEEEECCCCCCHhHHHHHHHHHh-cC----CcEEEEEECccccc
Confidence            33344567799999999987777777666655443 22    47999999999964

>smart00053 DYNc Dynamin, GTPase

Probab=99.50  E-value=1.7e-12  Score=106.22  Aligned_cols=138  Identities=17%  Similarity=0.174  Sum_probs=84.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--CCc----------ccee-----------------------------
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--SSG----------VTST-----------------------------   57 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--~~~----------~t~~-----------------------------   57 (253)
                      .+.|++||++|+||||++++|+|...++.+..  +.-          ....                             
T Consensus        26 ~p~i~vvG~~~~GKSt~l~~i~g~~~~~~~~g~~t~~p~~i~l~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~~~~~  105 (240)
T smart00053       26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLILQLINSSTEYAEFLHCKGKKFTDFDEVRNEIEAETDRVTG  105 (240)
T ss_pred             CCeEEEEcCCCccHHHHHHHHhCCCccccCCCcccccceEEEccCCCCcceEEEecCCcccCCHHHHHHHHHHHHHHhcC
Confidence            36899999999999999999999853222211  000          0000                             


Q ss_pred             --------eeeeeeEeeCCeEEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhhcCCc-cEEEEEEeCCCCCCHHH-HHHH
Q 025391           58 --------CEMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGKEIVKCIGMAKDGI-HAVLVVFSVRSRFSQEE-EAAL  125 (253)
Q Consensus        58 --------~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~l~v~d~~~~~~~~~-~~~l  125 (253)
                              .-...+.......++++||||+......  .......+...+..+...+ +.+|+|++++..+...+ ..+.
T Consensus       106 ~~~~~s~~~i~l~i~~p~~~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia  185 (240)
T smart00053      106 TNKGISPVPINLRVYSPHVLNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLA  185 (240)
T ss_pred             CCCcccCcceEEEEeCCCCCceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHH
Confidence                    0000011112357999999999754221  2334456666666666644 58888889876777665 4555


Q ss_pred             HHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391          126 HSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       126 ~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      +++...     ..++++|+||.|.... +..+.+.+.
T Consensus       186 ~~ld~~-----~~rti~ViTK~D~~~~-~~~~~~~~~  216 (240)
T smart00053      186 KEVDPQ-----GERTIGVITKLDLMDE-GTDARDILE  216 (240)
T ss_pred             HHHHHc-----CCcEEEEEECCCCCCc-cHHHHHHHh
Confidence            555442     3579999999999863 223555554

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>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=99.50  E-value=1.2e-13  Score=107.60  Aligned_cols=115  Identities=19%  Similarity=0.210  Sum_probs=72.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee--------------------------------------------
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST--------------------------------------------   57 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~--------------------------------------------   57 (253)
                      |+++|..++|||||+|+|+|....+.+..+......                                            
T Consensus         1 V~v~G~~ssGKSTliNaLlG~~ilp~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (168)
T PF00350_consen    1 VAVVGQFSSGKSTLINALLGRPILPSGVGPCTAVPTEISYGDEPEIEHEEAIIEFKDGSEEFEELNELREQIDEEFDSIE   80 (168)
T ss_dssp             EEEEEBTTSSHHHHHHHHHTSS-SSSSSSSTTSSEEEEEEEESSSCCTSEEEECEEEETEEBCCHHHHHHHHHHHHHHHH
T ss_pred             CEEEcCCCCCHHHHHHHHHhcccCcccccccccceeEEEecccCccccccccccccccccchhhHHHHHHhhhccccccc
Confidence            789999999999999999999865555432211000                                            


Q ss_pred             ---------eeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHH
Q 025391           58 ---------CEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSL  128 (253)
Q Consensus        58 ---------~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l  128 (253)
                               .............+.|+||||+.+......       ..+..+.+..|++|+|++++..++..+...+...
T Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~lvDtPG~~~~~~~~~-------~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~  153 (168)
T PF00350_consen   81 GKLEQISSKVIVISISSPLLRNLTLVDTPGLNSTNSEHT-------EITEEYLPKADVVIFVVDANQDLTESDMEFLKQM  153 (168)
T ss_dssp             TSSS-S-SSEEEEEEEETTSCSEEEEEEEEBHSSHTTTS-------HHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHH
T ss_pred             ccccccccceeEEeeccccccceEEEeCCccccchhhhH-------HHHHHhhccCCEEEEEeccCcccchHHHHHHHHH
Confidence                     000111111234689999999976433222       3344444778999999999877776665555544


Q ss_pred             HHHhcccccCeEEEEEeCC
Q 025391          129 QTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus       129 ~~~~g~~~~~~~ivv~~k~  147 (253)
                      .....    ..+++|+||+
T Consensus       154 ~~~~~----~~~i~V~nk~  168 (168)
T PF00350_consen  154 LDPDK----SRTIFVLNKA  168 (168)
T ss_dssp             HTTTC----SSEEEEEE-G
T ss_pred             hcCCC----CeEEEEEcCC
Confidence            44322    3589999884

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 ....

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.50  E-value=4.6e-13  Score=107.25  Aligned_cols=115  Identities=22%  Similarity=0.233  Sum_probs=72.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +|+++|.+|+|||||++.+++....... .+......  ...+. ..+  ..+.+|||||...+           .....
T Consensus         1 kv~vvG~~~vGKTsll~~~~~~~~~~~~-~~t~~~~~--~~~~~-~~~~~~~l~i~D~~G~~~~-----------~~~~~   65 (198)
T cd04147           1 RLVFMGAAGVGKTALIQRFLYDTFEPKY-RRTVEEMH--RKEYE-VGGVSLTLDILDTSGSYSF-----------PAMRK   65 (198)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCCCccC-CCchhhhe--eEEEE-ECCEEEEEEEEECCCchhh-----------hHHHH
Confidence            5899999999999999999987542211 11111111  11122 233  57889999997542           22333


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++|+|+|+++..+... ..++..+..... ....|+++|+||.|...
T Consensus        66 ~~~~~ad~vilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~NK~Dl~~  118 (198)
T cd04147          66 LSIQNSDAFALVYAVDDPESFEEVERLREEILEVKE-DKFVPIVVVGNKADSLE  118 (198)
T ss_pred             HHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEEcccccc
Confidence            45678899999999985444333 233334444322 22368999999999864

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.49  E-value=1.9e-13  Score=105.52  Aligned_cols=150  Identities=18%  Similarity=0.152  Sum_probs=89.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+++|+.|+|||||++.+.+.........+.+........... .....+.+||+||....           .......
T Consensus         1 Ki~vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~D~~g~~~~-----------~~~~~~~   68 (162)
T PF00071_consen    1 KIVVVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSID-GKPVNLEIWDTSGQERF-----------DSLRDIF   68 (162)
T ss_dssp             EEEEEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEET-TEEEEEEEEEETTSGGG-----------HHHHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHhhcccccccccccccccccccccc-ccccccccccccccccc-----------ccccccc
Confidence            69999999999999999999875432222222222222111111 12346889999996431           1223345


Q ss_pred             cCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHHHh
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGATKL  176 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~~~  176 (253)
                      +.++|++|+|+|++++-+... ..++..+....+.  ..|++||.||.|.....   ......+.......+++.+....
T Consensus        69 ~~~~~~~ii~fd~~~~~S~~~~~~~~~~i~~~~~~--~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~  146 (162)
T PF00071_consen   69 YRNSDAIIIVFDVTDEESFENLKKWLEEIQKYKPE--DIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNG  146 (162)
T ss_dssp             HTTESEEEEEEETTBHHHHHTHHHHHHHHHHHSTT--TSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTT
T ss_pred             ccccccccccccccccccccccccccccccccccc--cccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCC
Confidence            678899999999985444333 4555555555441  35899999999987411   22344555544445555554444


Q ss_pred             hhHHHHHH
Q 025391          177 RDQQFEVD  184 (253)
Q Consensus       177 ~~~~~~~~  184 (253)
                      ..+...+.
T Consensus       147 ~~v~~~f~  154 (162)
T PF00071_consen  147 ENVKEIFQ  154 (162)
T ss_dssp             TTHHHHHH
T ss_pred             CCHHHHHH
Confidence            45544443

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 ....

>cd04177 RSR1 RSR1 subgroup

Probab=99.48  E-value=5e-13  Score=104.11  Aligned_cols=117  Identities=20%  Similarity=0.156  Sum_probs=73.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|.+|+|||||++++++...... ..+.....  ....... .....+.+|||||...+.           ....
T Consensus         2 ~ki~liG~~~~GKTsli~~~~~~~~~~~-~~~t~~~~--~~~~~~~~~~~~~~~i~Dt~G~~~~~-----------~~~~   67 (168)
T cd04177           2 YKIVVLGAGGVGKSALTVQFVQNVFIES-YDPTIEDS--YRKQVEIDGRQCDLEILDTAGTEQFT-----------AMRE   67 (168)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcc-cCCcchhe--EEEEEEECCEEEEEEEEeCCCcccch-----------hhhH
Confidence            6899999999999999999997754222 11111111  1111111 123577899999986532           3334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.+++++++|++++++-+... ..+...+..... ....|+++++||.|...
T Consensus        68 ~~~~~~~~~vlv~~~~~~~s~~~~~~~~~~i~~~~~-~~~~piiiv~nK~D~~~  120 (168)
T cd04177          68 LYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKD-SDNVPMVLVGNKADLED  120 (168)
T ss_pred             HHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCCEEEEEEChhccc
Confidence            45567799999999885444333 333444444332 22468999999999864

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

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.47  E-value=5.6e-13  Score=109.67  Aligned_cols=129  Identities=19%  Similarity=0.199  Sum_probs=91.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHH-HHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF-VGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~-~~~~~~~   95 (253)
                      ...+.|++||.+++|||||.|.+.|..+++..  ....|+.+....+...+...++|+||||+......... ....+..
T Consensus        70 ~k~L~vavIG~PNvGKStLtN~mig~kv~~vS--~K~~TTr~~ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq  147 (379)
T KOG1423|consen   70 QKSLYVAVIGAPNVGKSTLTNQMIGQKVSAVS--RKVHTTRHRILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQ  147 (379)
T ss_pred             ceEEEEEEEcCCCcchhhhhhHhhCCcccccc--ccccceeeeeeEEEecCceEEEEecCCcccccchhhhHHHHHHhhh
Confidence            34589999999999999999999999985543  34455555555555557789999999999865543221 1222233


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.+...+|.+++|+|+++.-......++..+.++..    .|.++|.||.|.+.
T Consensus       148 ~~~~a~q~AD~vvVv~Das~tr~~l~p~vl~~l~~ys~----ips~lvmnkid~~k  199 (379)
T KOG1423|consen  148 NPRDAAQNADCVVVVVDASATRTPLHPRVLHMLEEYSK----IPSILVMNKIDKLK  199 (379)
T ss_pred             CHHHHHhhCCEEEEEEeccCCcCccChHHHHHHHHHhc----CCceeeccchhcch
Confidence            34555677899999999975333334556666666532    37999999999985

>cd04135 Tc10 TC10 subfamily

Probab=99.47  E-value=8.4e-13  Score=103.21  Aligned_cols=113  Identities=19%  Similarity=0.099  Sum_probs=72.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee-eeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~-~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ++|+++|++|+|||||++.+++........    .+....+ ..+. ..+  ..+.+|||||...+..           .
T Consensus         1 ~ki~i~G~~~~GKTsl~~~~~~~~~~~~~~----~t~~~~~~~~~~-~~~~~~~~~i~Dt~G~~~~~~-----------~   64 (174)
T cd04135           1 LKCVVVGDGAVGKTCLLMSYANDAFPEEYV----PTVFDHYAVSVT-VGGKQYLLGLYDTAGQEDYDR-----------L   64 (174)
T ss_pred             CEEEEECCCCCCHHHHHHHHHhCCCCCCCC----CceeeeeEEEEE-ECCEEEEEEEEeCCCcccccc-----------c
Confidence            489999999999999999998875422211    1111111 1122 233  3577999999865431           2


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+.+.|++++|++.+++-+...  ..++..+...   ....|+++|+||.|...
T Consensus        65 ~~~~~~~~~~~ilv~~~~~~~s~~~~~~~~~~~l~~~---~~~~piivv~nK~Dl~~  118 (174)
T cd04135          65 RPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY---APNVPYLLVGTQIDLRD  118 (174)
T ss_pred             ccccCCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhh---CCCCCEEEEeEchhhhc
Confidence            2245678899999999985544433  2344555443   22368999999999864

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.47  E-value=6.8e-13  Score=103.84  Aligned_cols=115  Identities=17%  Similarity=0.115  Sum_probs=71.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+|+++|++|+|||||++.+++...............   ...+... ....+.+|||||.....           ....
T Consensus         2 ~ki~iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~l~i~Dt~G~~~~~-----------~~~~   67 (175)
T cd01870           2 KKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENY---VADIEVDGKQVELALWDTAGQEDYD-----------RLRP   67 (175)
T ss_pred             cEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccce---EEEEEECCEEEEEEEEeCCCchhhh-----------hccc
Confidence            5899999999999999999998654222111111111   1112211 23467899999975321           2223


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.+.|++++|++++++-+...  ..++..+....+   ..|+++|.||.|...
T Consensus        68 ~~~~~~d~~i~v~~~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  119 (175)
T cd01870          68 LSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP---NVPIILVGNKKDLRN  119 (175)
T ss_pred             cccCCCCEEEEEEECCCHHHHHHHHHHHHHHHHhhCC---CCCEEEEeeChhccc
Confidence            44578899999999985543333  223444443322   358999999999864

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

>PRK12735 elongation factor Tu; Reviewed

Probab=99.47  E-value=1e-12  Score=116.02  Aligned_cols=119  Identities=17%  Similarity=0.217  Sum_probs=80.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc--------------ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      .+..+|+++|+.++|||||+++|++.....              ......+.|......... .++..++++||||+.  
T Consensus        10 ~~~~~i~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~-~~~~~i~~iDtPGh~--   86 (396)
T PRK12735         10 KPHVNVGTIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYE-TANRHYAHVDCPGHA--   86 (396)
T ss_pred             CCeEEEEEECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEc-CCCcEEEEEECCCHH--
Confidence            345899999999999999999999631100              001134566665444443 356789999999973  


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               .+..........+|++++|+|+...........+..+.. .|.   +++++++||+|...
T Consensus        87 ---------~f~~~~~~~~~~aD~~llVvda~~g~~~qt~e~l~~~~~-~gi---~~iivvvNK~Dl~~  142 (396)
T PRK12735         87 ---------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQ-VGV---PYIVVFLNKCDMVD  142 (396)
T ss_pred             ---------HHHHHHHhhhccCCEEEEEEECCCCCchhHHHHHHHHHH-cCC---CeEEEEEEecCCcc
Confidence                     333333344567899999999987777777767665543 342   23556899999974

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.46  E-value=1.6e-12  Score=109.11  Aligned_cols=114  Identities=25%  Similarity=0.307  Sum_probs=75.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc--CCC--------------CccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR--ASS--------------SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~--~~~--------------~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      +|+|+|++|+|||||+++|++.......  ...              .+.+......... +.+..+++|||||..++  
T Consensus         1 ni~ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~-~~~~~i~liDtPG~~~f--   77 (268)
T cd04170           1 NIALVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLE-WKGHKINLIDTPGYADF--   77 (268)
T ss_pred             CEEEECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEE-ECCEEEEEEECcCHHHH--
Confidence            5899999999999999999864321110  000              1222223333333 46789999999998532  


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               ......++..+|++++|++++..........++.+... +    .|.++++||+|...
T Consensus        78 ---------~~~~~~~l~~aD~~i~Vvd~~~g~~~~~~~~~~~~~~~-~----~p~iivvNK~D~~~  130 (268)
T cd04170          78 ---------VGETRAALRAADAALVVVSAQSGVEVGTEKLWEFADEA-G----IPRIIFINKMDRER  130 (268)
T ss_pred             ---------HHHHHHHHHHCCEEEEEEeCCCCCCHHHHHHHHHHHHc-C----CCEEEEEECCccCC
Confidence                     12233344566999999999877776666666655432 3    47999999999875

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

>COG2262 HflX GTPases [General function prediction only]

Probab=99.46  E-value=1.7e-12  Score=111.07  Aligned_cols=129  Identities=23%  Similarity=0.194  Sum_probs=86.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...+.|+|+|.++||||||+|+|+|...+...  .-..|.......+...++..+.+.||-||.+.-.  ..+..-+.+-
T Consensus       190 ~~~p~vaLvGYTNAGKSTL~N~LT~~~~~~~d--~LFATLdpttR~~~l~~g~~vlLtDTVGFI~~LP--~~LV~AFksT  265 (411)
T COG2262         190 SGIPLVALVGYTNAGKSTLFNALTGADVYVAD--QLFATLDPTTRRIELGDGRKVLLTDTVGFIRDLP--HPLVEAFKST  265 (411)
T ss_pred             cCCCeEEEEeeccccHHHHHHHHhccCeeccc--cccccccCceeEEEeCCCceEEEecCccCcccCC--hHHHHHHHHH
Confidence            45589999999999999999999998764332  3334555555555555689999999999986332  2222333333


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +... ..+|.+|.|+|++++.-.........+..-.|-. ..|+++|+||.|.+.
T Consensus       266 LEE~-~~aDlllhVVDaSdp~~~~~~~~v~~vL~el~~~-~~p~i~v~NKiD~~~  318 (411)
T COG2262         266 LEEV-KEADLLLHVVDASDPEILEKLEAVEDVLAEIGAD-EIPIILVLNKIDLLE  318 (411)
T ss_pred             HHHh-hcCCEEEEEeecCChhHHHHHHHHHHHHHHcCCC-CCCEEEEEecccccC
Confidence            3332 5679999999998663333333333333333322 269999999999987

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.46  E-value=1e-12  Score=106.82  Aligned_cols=115  Identities=22%  Similarity=0.313  Sum_probs=77.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeeeeeeEee---------CCeEEEEEeC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK---------DGQVVNVIDT   76 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~--------------~~~~~t~~~~~~~~~~~---------~~~~~~liDt   76 (253)
                      ++|+++|+.++|||||+++|+.........              ...+.|.........+.         .+..+.+|||
T Consensus         1 RNvaiiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDT   80 (222)
T cd01885           1 RNICIIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDS   80 (222)
T ss_pred             CeEEEECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECC
Confidence            479999999999999999998654211100              01233333322222221         1567899999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ||+.++.           .....++..+|++++|+|++...+......++..... +    .|+++++||+|..
T Consensus        81 PG~~~f~-----------~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l~~~~~~-~----~p~ilviNKiD~~  138 (222)
T cd01885          81 PGHVDFS-----------SEVTAALRLCDGALVVVDAVEGVCVQTETVLRQALKE-R----VKPVLVINKIDRL  138 (222)
T ss_pred             CCccccH-----------HHHHHHHHhcCeeEEEEECCCCCCHHHHHHHHHHHHc-C----CCEEEEEECCCcc
Confidence            9997643           3334445677999999999988888777676655442 2    3799999999986

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.46  E-value=2e-12  Score=98.43  Aligned_cols=116  Identities=23%  Similarity=0.243  Sum_probs=71.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|.+|+|||||++.|++... .... ..+.+......... ..+  ..+.+|||||..+..           ...
T Consensus         2 ~ki~~~G~~~~GKstl~~~l~~~~~-~~~~-~~~~~~~~~~~~~~-~~~~~~~~~~~D~~G~~~~~-----------~~~   67 (161)
T TIGR00231         2 IKIVIVGDPNVGKSTLLNRLLGNKF-ITEY-KPGTTRNYVTTVIE-EDGKTYKFNLLDTAGQEDYR-----------AIR   67 (161)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCC-cCcC-CCCceeeeeEEEEE-ECCEEEEEEEEECCCcccch-----------HHH
Confidence            6999999999999999999999873 2222 22333333332233 345  678899999964421           222


Q ss_pred             HhhcCCccEEEEEEeCCCC-CCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSR-FSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~-~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .......+++++++|.... .+...  ......+......  ..|+++++||.|...
T Consensus        68 ~~~~~~~~~~i~~~d~~~~v~~~~~~~~~~~~~~~~~~~~--~~p~ivv~nK~D~~~  122 (161)
T TIGR00231        68 RLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAES--NVPIILVGNKIDLRD  122 (161)
T ss_pred             HHHHhhhhEEEEEEEEeeeehhhhhHhHHHHHHHHHhccc--CCcEEEEEEcccCCc
Confidence            2333455677777777544 22222  2333444443221  358999999999975

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.

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.46  E-value=1.1e-12  Score=120.12  Aligned_cols=116  Identities=17%  Similarity=0.221  Sum_probs=78.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-----------------CCeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~liDtpG~~   80 (253)
                      +.+.|+++|+.++|||||+|+|++......  .+++.|.+.....+...                 ....+.+|||||+.
T Consensus         3 r~piV~IiG~~d~GKTSLln~l~~~~v~~~--e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e   80 (590)
T TIGR00491         3 RSPIVSVLGHVDHGKTTLLDKIRGSAVAKR--EAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHE   80 (590)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccccccc--cCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcH
Confidence            346899999999999999999998865322  22333332222111110                 01248899999974


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .           +.......+..+|++++|+|+++...+.+...+..+... +    .|+++++||+|...
T Consensus        81 ~-----------f~~l~~~~~~~aD~~IlVvD~~~g~~~qt~e~i~~l~~~-~----vpiIVv~NK~Dl~~  135 (590)
T TIGR00491        81 A-----------FTNLRKRGGALADLAILIVDINEGFKPQTQEALNILRMY-K----TPFVVAANKIDRIP  135 (590)
T ss_pred             h-----------HHHHHHHHHhhCCEEEEEEECCcCCCHhHHHHHHHHHHc-C----CCEEEEEECCCccc
Confidence            3           223334455788999999999877777777777665542 2    47999999999874

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.46  E-value=1.6e-12  Score=105.40  Aligned_cols=119  Identities=20%  Similarity=0.111  Sum_probs=71.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHH-HhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNS-ILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~-l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      .+..+|+++|++|+|||||++. +.|... .....+.+.......... ......+.+|||||...+           ..
T Consensus         7 ~~~~kv~liG~~g~GKTtLi~~~~~~~~~-~~~~~t~~~~~~~~~~~~-~~~~i~i~~~Dt~g~~~~-----------~~   73 (215)
T PTZ00132          7 VPEFKLILVGDGGVGKTTFVKRHLTGEFE-KKYIPTLGVEVHPLKFYT-NCGPICFNVWDTAGQEKF-----------GG   73 (215)
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHhCCCC-CCCCCccceEEEEEEEEE-CCeEEEEEEEECCCchhh-----------hh
Confidence            3458999999999999999975 444421 111112222221111111 123467889999996432           12


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++...+++++|+|++++.+... ..++..+.....   ..|+++++||+|...
T Consensus        74 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~i~lv~nK~Dl~~  127 (215)
T PTZ00132         74 LRDGYYIKGQCAIIMFDVTSRITYKNVPNWHRDIVRVCE---NIPIVLVGNKVDVKD  127 (215)
T ss_pred             hhHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC---CCCEEEEEECccCcc
Confidence            22344567799999999986665544 334444444322   247889999999753

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.45  E-value=9.2e-13  Score=117.48  Aligned_cols=118  Identities=19%  Similarity=0.257  Sum_probs=82.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c---------------CCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|+.++|||||++.|++......              +               ....+.|.......+. .++
T Consensus         5 ~~~~v~iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~-~~~   83 (425)
T PRK12317          5 PHLNLAVIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFE-TDK   83 (425)
T ss_pred             CEEEEEEECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEe-cCC
Confidence            458999999999999999999985432211              0               0135667777666665 367


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC--CCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS--RFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~--~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ..+.+|||||+.++.           ..+......+|++|+|+|+++  .+.......+..+.. ++.   ++++|++||
T Consensus        84 ~~i~liDtpG~~~~~-----------~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~-~~~---~~iivviNK  148 (425)
T PRK12317         84 YYFTIVDCPGHRDFV-----------KNMITGASQADAAVLVVAADDAGGVMPQTREHVFLART-LGI---NQLIVAINK  148 (425)
T ss_pred             eEEEEEECCCcccch-----------hhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHH-cCC---CeEEEEEEc
Confidence            899999999975432           112222467899999999987  555555555555443 342   368999999


Q ss_pred             CCCCC
Q 025391          147 GDELE  151 (253)
Q Consensus       147 ~D~~~  151 (253)
                      +|...
T Consensus       149 ~Dl~~  153 (425)
T PRK12317        149 MDAVN  153 (425)
T ss_pred             ccccc
Confidence            99874

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.45  E-value=9e-13  Score=105.64  Aligned_cols=108  Identities=17%  Similarity=0.040  Sum_probs=71.1

Q ss_pred             EcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee--eeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc
Q 025391           25 VGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ--RTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK  101 (253)
Q Consensus        25 vG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~--~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~  101 (253)
                      ||..|+|||||+++++..... ..   ...|......  .+.. .....+.+|||||...           +..+...++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~-~~---~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~-----------~~~l~~~~~   65 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFE-KK---YVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEK-----------FGGLRDGYY   65 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCC-CC---CCCceeEEEEEEEEEECCEEEEEEEEECCCchh-----------hhhhhHHHh
Confidence            699999999999999865431 11   1122222221  1111 1346889999999843           334555677


Q ss_pred             CCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .++|++|+|+|++++.+... ..++..+.+..   ...|+++|+||+|..
T Consensus        66 ~~ad~~ilV~D~t~~~S~~~i~~w~~~i~~~~---~~~piilvgNK~Dl~  112 (200)
T smart00176       66 IQGQCAIIMFDVTARVTYKNVPNWHRDLVRVC---ENIPIVLCGNKVDVK  112 (200)
T ss_pred             cCCCEEEEEEECCChHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccc
Confidence            89999999999997666554 34455555542   235899999999975

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

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=99.45  E-value=6.8e-13  Score=119.86  Aligned_cols=76  Identities=14%  Similarity=0.129  Sum_probs=56.4

Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhhhHHHhhhH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQ  179 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  179 (253)
                      .+..|| +|++++||++++.....||+.....+.     .++||+||++.+.  +..+..++..+.++            
T Consensus       168 L~~~pD-lLLLDEPTNHLD~~~i~WLe~~L~~~~-----gtviiVSHDR~FL--d~V~t~I~~ld~g~------------  227 (530)
T COG0488         168 LLEEPD-LLLLDEPTNHLDLESIEWLEDYLKRYP-----GTVIVVSHDRYFL--DNVATHILELDRGK------------  227 (530)
T ss_pred             HhcCCC-EEEEcCCCcccCHHHHHHHHHHHHhCC-----CcEEEEeCCHHHH--HHHhhheEEecCCc------------
Confidence            345565 677889999999998888876665442     4899999999998  88888888876665            


Q ss_pred             HHHHHHcCC-CCHHHHHHHH
Q 025391          180 QFEVDSLKG-YSKREISELK  198 (253)
Q Consensus       180 ~~~~~~~~g-y~~~~~~~~~  198 (253)
                         +..++| |+.+..++..
T Consensus       228 ---l~~y~Gny~~~~~~r~~  244 (530)
T COG0488         228 ---LTPYKGNYSSYLEQKAE  244 (530)
T ss_pred             ---eeEecCCHHHHHHHHHH
Confidence               566666 7766555443

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.45  E-value=3e-12  Score=118.30  Aligned_cols=116  Identities=22%  Similarity=0.304  Sum_probs=83.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .|+++|+.++|||||+++|+|...... .....++|....+......++..+.+|||||+.           .+......
T Consensus         2 ii~~~GhvdhGKTtLi~aLtg~~~dr~~eE~~rGiTI~l~~~~~~~~~g~~i~~IDtPGhe-----------~fi~~m~~   70 (614)
T PRK10512          2 IIATAGHVDHGKTTLLQAITGVNADRLPEEKKRGMTIDLGYAYWPQPDGRVLGFIDVPGHE-----------KFLSNMLA   70 (614)
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCccchhcccCCceEEeeeEEEecCCCcEEEEEECCCHH-----------HHHHHHHH
Confidence            689999999999999999998642111 112346777666555544456788999999973           23333334


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++|++++|+|++....+.+...+..+.. +|.   ++++||+||+|...
T Consensus        71 g~~~~D~~lLVVda~eg~~~qT~ehl~il~~-lgi---~~iIVVlNKiDlv~  118 (614)
T PRK10512         71 GVGGIDHALLVVACDDGVMAQTREHLAILQL-TGN---PMLTVALTKADRVD  118 (614)
T ss_pred             HhhcCCEEEEEEECCCCCcHHHHHHHHHHHH-cCC---CeEEEEEECCccCC
Confidence            4578899999999988888888888776544 342   24689999999975

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.44  E-value=2e-12  Score=96.91  Aligned_cols=115  Identities=17%  Similarity=0.221  Sum_probs=86.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...||.++|..||||||+++.++|...     ....+|....+....+ ++..+++||..|.           ..++.++
T Consensus        15 rE~riLiLGLdNsGKTti~~kl~~~~~-----~~i~pt~gf~Iktl~~-~~~~L~iwDvGGq-----------~~lr~~W   77 (185)
T KOG0073|consen   15 REVRILILGLDNSGKTTIVKKLLGEDT-----DTISPTLGFQIKTLEY-KGYTLNIWDVGGQ-----------KTLRSYW   77 (185)
T ss_pred             heeEEEEEecCCCCchhHHHHhcCCCc-----cccCCccceeeEEEEe-cceEEEEEEcCCc-----------chhHHHH
Confidence            458999999999999999999999863     3344566666666664 7889999999997           5677888


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      ..+|...|++|+|+|..++....+  ....+.+.+...  +..+++|+.||.|...
T Consensus        78 ~nYfestdglIwvvDssD~~r~~e--~~~~L~~lL~eerlaG~~~Lvlank~dl~~  131 (185)
T KOG0073|consen   78 KNYFESTDGLIWVVDSSDRMRMQE--CKQELTELLVEERLAGAPLLVLANKQDLPG  131 (185)
T ss_pred             HHhhhccCeEEEEEECchHHHHHH--HHHHHHHHHhhhhhcCCceEEEEecCcCcc
Confidence            999999999999999876666555  222233222211  3358999999999873

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.44  E-value=3.8e-12  Score=117.16  Aligned_cols=115  Identities=22%  Similarity=0.267  Sum_probs=82.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .|+++|+.++|||||+++|+|...... .....++|....+..+.. .+..+.+|||||+.           .+......
T Consensus         2 ~I~iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~-~~~~v~~iDtPGhe-----------~f~~~~~~   69 (581)
T TIGR00475         2 IIATAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPL-PDYRLGFIDVPGHE-----------KFISNAIA   69 (581)
T ss_pred             EEEEECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEe-CCEEEEEEECCCHH-----------HHHHHHHh
Confidence            699999999999999999998542111 112345666666655554 56889999999963           33344444


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+.++|++++|+|+++...+.....+..+.. +|-   ++++||+||+|...
T Consensus        70 g~~~aD~aILVVDa~~G~~~qT~ehl~il~~-lgi---~~iIVVlNK~Dlv~  117 (581)
T TIGR00475        70 GGGGIDAALLVVDADEGVMTQTGEHLAVLDL-LGI---PHTIVVITKADRVN  117 (581)
T ss_pred             hhccCCEEEEEEECCCCCcHHHHHHHHHHHH-cCC---CeEEEEEECCCCCC
Confidence            5578899999999987777777766665543 342   24999999999976

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.44  E-value=1.9e-12  Score=97.45  Aligned_cols=116  Identities=20%  Similarity=0.155  Sum_probs=69.8

Q ss_pred             EEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCC
Q 025391           24 LVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDG  103 (253)
Q Consensus        24 lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~  103 (253)
                      ++|++|+|||||+|.|++.........+............. ..+..+.+||+||.....           .......+.
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~l~D~~g~~~~~-----------~~~~~~~~~   68 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTIIDFYSKTIEVD-GKKVKLQIWDTAGQERFR-----------SLRRLYYRG   68 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccchhheeeEEEEEC-CEEEEEEEEecCChHHHH-----------hHHHHHhcC
Confidence            58999999999999999876521221111111111111111 125689999999986422           222445578


Q ss_pred             ccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          104 IHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       104 ~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +|++++|+|++...+....................|+++|+||.|...
T Consensus        69 ~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~  116 (157)
T cd00882          69 ADGIILVYDVTDRESFENVKEWLLLILINKEGENIPIILVGNKIDLPE  116 (157)
T ss_pred             CCEEEEEEECcCHHHHHHHHHHHHHHHHhhccCCCcEEEEEecccccc
Confidence            899999999985444444332211111111233468999999999986

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

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.44  E-value=2.2e-12  Score=103.07  Aligned_cols=116  Identities=18%  Similarity=0.030  Sum_probs=71.0

Q ss_pred             eEEEEEcCCCCCHHHHHH-HHhCCCCcccc-CCCCccceee-e-ee-e---------eEeeCCeEEEEEeCCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGN-SILGRRAFKSR-ASSSGVTSTC-E-MQ-R---------TVLKDGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n-~l~g~~~~~~~-~~~~~~t~~~-~-~~-~---------~~~~~~~~~~liDtpG~~~~~~~   85 (253)
                      .+|+++|..|+|||||+. .+.+....... .....+|... . +. .         ........+.+|||||....   
T Consensus         3 ~Kiv~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~---   79 (195)
T cd01873           3 IKCVVVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK---   79 (195)
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh---
Confidence            699999999999999996 55443211010 0111122210 0 00 0         01112457889999998531   


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                ....+++++|++|+|+|++++.+....  .++..+.....   ..|+++|.||.|+..
T Consensus        80 ----------~~~~~~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~~---~~piilvgNK~DL~~  134 (195)
T cd01873          80 ----------DRRFAYGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFCP---RVPVILVGCKLDLRY  134 (195)
T ss_pred             ----------hhcccCCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhCC---CCCEEEEEEchhccc
Confidence                      112467899999999999877666553  35565655432   358999999999753

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.44  E-value=2.4e-12  Score=113.54  Aligned_cols=118  Identities=14%  Similarity=0.211  Sum_probs=81.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      +..+|+++|+.++|||||+++|++......              .....+.|.......+. .++..+.+|||||+.   
T Consensus        11 ~~~ni~i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~-~~~~~i~~iDtPGh~---   86 (394)
T PRK12736         11 PHVNIGTIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYE-TEKRHYAHVDCPGHA---   86 (394)
T ss_pred             CeeEEEEEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEec-CCCcEEEEEECCCHH---
Confidence            448999999999999999999987421100              01134566665444433 256789999999963   


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                              ++..........+|++++|+|++......+...+..+... |.   +++++++||+|...
T Consensus        87 --------~f~~~~~~~~~~~d~~llVvd~~~g~~~~t~~~~~~~~~~-g~---~~~IvviNK~D~~~  142 (394)
T PRK12736         87 --------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLARQV-GV---PYLVVFLNKVDLVD  142 (394)
T ss_pred             --------HHHHHHHHHHhhCCEEEEEEECCCCCchhHHHHHHHHHHc-CC---CEEEEEEEecCCcc
Confidence                    2223333334677999999999877888888888776553 42   24778999999874

>cd04167 Snu114p Snu114p subfamily

Probab=99.43  E-value=1.4e-12  Score=105.78  Aligned_cols=115  Identities=21%  Similarity=0.281  Sum_probs=73.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------CCCCccceeeeeeeeEe----eCCeEEEEEeCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR-----------------ASSSGVTSTCEMQRTVL----KDGQVVNVIDTPG   78 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-----------------~~~~~~t~~~~~~~~~~----~~~~~~~liDtpG   78 (253)
                      ++|+++|+.|+|||||+++|++.......                 ....+.+..........    .....+.+|||||
T Consensus         1 rnv~iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG   80 (213)
T cd04167           1 RNVAIAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPG   80 (213)
T ss_pred             CcEEEEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCC
Confidence            36999999999999999999875432210                 00112332222222211    1246789999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           79 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..++.           .....++..+|++++|+|++...+.....+++.+... +    .|+++|+||+|.+
T Consensus        81 ~~~f~-----------~~~~~~~~~aD~~llVvD~~~~~~~~~~~~~~~~~~~-~----~p~iiviNK~D~~  136 (213)
T cd04167          81 HVNFM-----------DEVAAALRLSDGVVLVVDVVEGVTSNTERLIRHAILE-G----LPIVLVINKIDRL  136 (213)
T ss_pred             CcchH-----------HHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-C----CCEEEEEECcccC
Confidence            87542           2233344567999999999877766655554443321 2    4799999999987

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.

>PRK00049 elongation factor Tu; Reviewed

Probab=99.43  E-value=4.2e-12  Score=112.03  Aligned_cols=117  Identities=16%  Similarity=0.190  Sum_probs=82.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS--------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      +..+|+++|+.++|||||+++|++......              .....+.|......... .++..++++||||+.   
T Consensus        11 ~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~-~~~~~i~~iDtPG~~---   86 (396)
T PRK00049         11 PHVNVGTIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYE-TEKRHYAHVDCPGHA---   86 (396)
T ss_pred             CEEEEEEEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEc-CCCeEEEEEECCCHH---
Confidence            448999999999999999999997421000              01134556555444433 356789999999973   


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeE-EEEEeCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM-IVVFTGGDELE  151 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~-ivv~~k~D~~~  151 (253)
                              .+..........+|++++|+|+.......+...+..+... +.    |. ++++||+|...
T Consensus        87 --------~f~~~~~~~~~~aD~~llVVDa~~g~~~qt~~~~~~~~~~-g~----p~iiVvvNK~D~~~  142 (396)
T PRK00049         87 --------DYVKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-GV----PYIVVFLNKCDMVD  142 (396)
T ss_pred             --------HHHHHHHhhhccCCEEEEEEECCCCCchHHHHHHHHHHHc-CC----CEEEEEEeecCCcc
Confidence                    3333344445788999999999878888888888776653 42    45 46899999974

>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=99.43  E-value=1.8e-12  Score=101.88  Aligned_cols=127  Identities=15%  Similarity=0.189  Sum_probs=84.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|..||||||+++.|.......     ..+|.......+.. .+..+.+||.+|...           ++..
T Consensus        12 ~~~~~ililGl~~sGKTtll~~l~~~~~~~-----~~pT~g~~~~~i~~-~~~~~~~~d~gG~~~-----------~~~~   74 (175)
T PF00025_consen   12 KKEIKILILGLDGSGKTTLLNRLKNGEISE-----TIPTIGFNIEEIKY-KGYSLTIWDLGGQES-----------FRPL   74 (175)
T ss_dssp             TSEEEEEEEESTTSSHHHHHHHHHSSSEEE-----EEEESSEEEEEEEE-TTEEEEEEEESSSGG-----------GGGG
T ss_pred             CcEEEEEEECCCccchHHHHHHhhhccccc-----cCcccccccceeee-CcEEEEEEecccccc-----------cccc
Confidence            456899999999999999999998754322     22233344444443 788999999999732           3355


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      +..+++++|++|||+|.+++-...  +..+.+...+...  ...|++|++||.|.... ....+..++.
T Consensus        75 w~~y~~~~~~iIfVvDssd~~~l~--e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~~~~~~~i~~~l~  141 (175)
T PF00025_consen   75 WKSYFQNADGIIFVVDSSDPERLQ--EAKEELKELLNDPELKDIPILILANKQDLPDAMSEEEIKEYLG  141 (175)
T ss_dssp             GGGGHTTESEEEEEEETTGGGGHH--HHHHHHHHHHTSGGGTTSEEEEEEESTTSTTSSTHHHHHHHTT
T ss_pred             ceeeccccceeEEEEecccceeec--ccccchhhhcchhhcccceEEEEeccccccCcchhhHHHhhhh
Confidence            667788999999999987433222  2233333433322  24699999999998642 1334444443

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 ....

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.42  E-value=2.9e-12  Score=113.08  Aligned_cols=119  Identities=16%  Similarity=0.229  Sum_probs=81.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCC------cc----cc----CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRA------FK----SR----ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~------~~----~~----~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      .+..+|+++|+.++|||||+++|++...      +.    ..    ....+.|......... ..+..+.+|||||+.+ 
T Consensus        10 ~~~~~i~i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~-~~~~~~~liDtpGh~~-   87 (394)
T TIGR00485        10 KPHVNIGTIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYE-TENRHYAHVDCPGHAD-   87 (394)
T ss_pred             CceEEEEEEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEc-CCCEEEEEEECCchHH-
Confidence            4558999999999999999999985311      00    00    1124566665444443 3567899999999843 


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                +..........+|++++|+|++......+...+..+... +.   +++++++||+|...
T Consensus        88 ----------f~~~~~~~~~~~D~~ilVvda~~g~~~qt~e~l~~~~~~-gi---~~iIvvvNK~Dl~~  142 (394)
T TIGR00485        88 ----------YVKNMITGAAQMDGAILVVSATDGPMPQTREHILLARQV-GV---PYIVVFLNKCDMVD  142 (394)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CEEEEEEEecccCC
Confidence                      222222333577999999999877777777777776543 42   24567899999875

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.

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.42  E-value=2.6e-12  Score=115.55  Aligned_cols=126  Identities=12%  Similarity=0.153  Sum_probs=84.1

Q ss_pred             CCCCCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------C-----------------CCCccceee
Q 025391           10 WELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------A-----------------SSSGVTSTC   58 (253)
Q Consensus        10 ~~~~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~--------------~-----------------~~~~~t~~~   58 (253)
                      |...+...+.++|+++|+.++|||||++.|+........              .                 ...++|...
T Consensus        18 ~~~~~~~~~~~~i~iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~   97 (474)
T PRK05124         18 YLHAQQHKSLLRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDV   97 (474)
T ss_pred             HHhhccccCceEEEEECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEe
Confidence            333444566699999999999999999999866432111              0                 013455666


Q ss_pred             eeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccC
Q 025391           59 EMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFD  138 (253)
Q Consensus        59 ~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~  138 (253)
                      ...... .++..+++|||||+.+           +..........+|++|+|+|++......+...+..+.. ++.   +
T Consensus        98 ~~~~~~-~~~~~i~~iDTPGh~~-----------f~~~~~~~l~~aD~allVVDa~~G~~~qt~~~~~l~~~-lg~---~  161 (474)
T PRK05124         98 AYRYFS-TEKRKFIIADTPGHEQ-----------YTRNMATGASTCDLAILLIDARKGVLDQTRRHSFIATL-LGI---K  161 (474)
T ss_pred             eEEEec-cCCcEEEEEECCCcHH-----------HHHHHHHHHhhCCEEEEEEECCCCccccchHHHHHHHH-hCC---C
Confidence            555554 3677899999999632           22222223477899999999987776655554444333 342   3


Q ss_pred             eEEEEEeCCCCCC
Q 025391          139 YMIVVFTGGDELE  151 (253)
Q Consensus       139 ~~ivv~~k~D~~~  151 (253)
                      +++|++||+|...
T Consensus       162 ~iIvvvNKiD~~~  174 (474)
T PRK05124        162 HLVVAVNKMDLVD  174 (474)
T ss_pred             ceEEEEEeecccc
Confidence            7899999999974

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.41  E-value=3.7e-13  Score=117.15  Aligned_cols=134  Identities=21%  Similarity=0.235  Sum_probs=95.0

Q ss_pred             CCCCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHH
Q 025391           11 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (253)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~   90 (253)
                      ++++.+....+++|||.+++|||||+|.++...+   ...+...|+..-+......+..+|.++||||+.+.......+.
T Consensus       160 rlPsIDp~trTlllcG~PNVGKSSf~~~vtradv---evqpYaFTTksL~vGH~dykYlrwQViDTPGILD~plEdrN~I  236 (620)
T KOG1490|consen  160 RLPAIDPNTRTLLVCGYPNVGKSSFNNKVTRADD---EVQPYAFTTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNII  236 (620)
T ss_pred             cCCCCCCCcCeEEEecCCCCCcHhhccccccccc---ccCCcccccchhhhhhhhhheeeeeecCCccccCcchhhhhHH
Confidence            4678888889999999999999999999987764   4556667777666665556788999999999987543222221


Q ss_pred             HHHHHHHHhhcCCccEEEEEEeCCCCCC--HHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           91 KEIVKCIGMAKDGIHAVLVVFSVRSRFS--QEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        91 ~~~~~~~~~~~~~~~~~l~v~d~~~~~~--~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                       ++ ..+.....-..++||++|++..|.  ..+ ..+...++..|..   +++|+|+||+|.+..
T Consensus       237 -Em-qsITALAHLraaVLYfmDLSe~CGySva~QvkLfhsIKpLFaN---K~~IlvlNK~D~m~~  296 (620)
T KOG1490|consen  237 -EM-QIITALAHLRSAVLYFMDLSEMCGYSVAAQVKLYHSIKPLFAN---KVTILVLNKIDAMRP  296 (620)
T ss_pred             -HH-HHHHHHHHhhhhheeeeechhhhCCCHHHHHHHHHHhHHHhcC---CceEEEeecccccCc
Confidence             11 222222233358999999975544  333 4555667777754   589999999999853

>PRK09866 hypothetical protein; Provisional

Probab=99.41  E-value=5.6e-12  Score=114.00  Aligned_cols=74  Identities=19%  Similarity=0.210  Sum_probs=53.6

Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..++++||||+......  .+...+..    ....+|++|||+|++...+..+..+++.+.+. +.  ..|+++|+||+|
T Consensus       230 ~QIIFVDTPGIhk~~~~--~L~k~M~e----qL~eADvVLFVVDat~~~s~~DeeIlk~Lkk~-~K--~~PVILVVNKID  300 (741)
T PRK09866        230 GQLTLLDTPGPNEAGQP--HLQKMLNQ----QLARASAVLAVLDYTQLKSISDEEVREAILAV-GQ--SVPLYVLVNKFD  300 (741)
T ss_pred             CCEEEEECCCCCCccch--HHHHHHHH----HHhhCCEEEEEEeCCCCCChhHHHHHHHHHhc-CC--CCCEEEEEEccc
Confidence            47899999999854321  12222332    45677999999999877888888888887764 32  137999999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       301 l~d  303 (741)
T PRK09866        301 QQD  303 (741)
T ss_pred             CCC
Confidence            874

>PLN03127 Elongation factor Tu; Provisional

Probab=99.41  E-value=4.7e-12  Score=113.02  Aligned_cols=120  Identities=15%  Similarity=0.197  Sum_probs=82.7

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCC------c----cc----cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRA------F----KS----RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~------~----~~----~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ..+..+|+++|+.++|||||++.|++...      .    ..    .....+.|.......+.. ++..++++||||+.+
T Consensus        58 ~k~~~ni~iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~-~~~~i~~iDtPGh~~  136 (447)
T PLN03127         58 TKPHVNVGTIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYET-AKRHYAHVDCPGHAD  136 (447)
T ss_pred             CCceEEEEEECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcC-CCeEEEEEECCCccc
Confidence            34558999999999999999999974310      0    00    011246666665555443 567899999999853


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +          +...+. ....+|++++|+|++......+...+..+... |.   +.+++++||+|...
T Consensus       137 f----------~~~~~~-g~~~aD~allVVda~~g~~~qt~e~l~~~~~~-gi---p~iIvviNKiDlv~  191 (447)
T PLN03127        137 Y----------VKNMIT-GAAQMDGGILVVSAPDGPMPQTKEHILLARQV-GV---PSLVVFLNKVDVVD  191 (447)
T ss_pred             h----------HHHHHH-HHhhCCEEEEEEECCCCCchhHHHHHHHHHHc-CC---CeEEEEEEeeccCC
Confidence            1          222222 22458999999999878888888888776653 42   13678899999975

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.41  E-value=4.3e-12  Score=119.72  Aligned_cols=121  Identities=21%  Similarity=0.219  Sum_probs=80.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH--HHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~~~~~   97 (253)
                      .+|+++|.+|+|||||+|.|+|..... +. ..+.|......... ..+..+.++||||..+......  ...+.+.+. 
T Consensus         4 ~~IaLvG~pNvGKSTLfN~Ltg~~~~v-gn-~pGvTve~k~g~~~-~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~-   79 (772)
T PRK09554          4 LTIGLIGNPNSGKTTLFNQLTGARQRV-GN-WAGVTVERKEGQFS-TTDHQVTLVDLPGTYSLTTISSQTSLDEQIACH-   79 (772)
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCcc-CC-CCCceEeeEEEEEE-cCceEEEEEECCCccccccccccccHHHHHHHH-
Confidence            689999999999999999999986532 22 24566655555444 4677899999999987653211  111222222 


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ......+|++++|+|+++ +... ..+...+.+. |    .|+++++||+|...
T Consensus        80 ~l~~~~aD~vI~VvDat~-ler~-l~l~~ql~e~-g----iPvIvVlNK~Dl~~  126 (772)
T PRK09554         80 YILSGDADLLINVVDASN-LERN-LYLTLQLLEL-G----IPCIVALNMLDIAE  126 (772)
T ss_pred             HHhccCCCEEEEEecCCc-chhh-HHHHHHHHHc-C----CCEEEEEEchhhhh
Confidence            122357899999999984 3332 2233344332 3    58999999999874

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.41  E-value=5e-12  Score=116.19  Aligned_cols=116  Identities=18%  Similarity=0.215  Sum_probs=77.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-----------------CCeEEEEEeCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------------DGQVVNVIDTPGL   79 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-----------------~~~~~~liDtpG~   79 (253)
                      .+++.|+++|+.|+|||||+|+|.|......  .+++.|.+......+..                 .-..+++|||||+
T Consensus         4 ~R~p~V~i~Gh~~~GKTSLl~~l~~~~v~~~--~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~   81 (586)
T PRK04004          4 LRQPIVVVLGHVDHGKTTLLDKIRGTAVAAK--EAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGH   81 (586)
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccC--CCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCCh
Confidence            3457999999999999999999998754222  22333322221111100                 0013789999998


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .++           ..........+|++++|+|+++.+.+.....+..+...     ..|+++++||+|..
T Consensus        82 e~f-----------~~~~~~~~~~aD~~IlVvDa~~g~~~qt~e~i~~~~~~-----~vpiIvviNK~D~~  136 (586)
T PRK04004         82 EAF-----------TNLRKRGGALADIAILVVDINEGFQPQTIEAINILKRR-----KTPFVVAANKIDRI  136 (586)
T ss_pred             HHH-----------HHHHHHhHhhCCEEEEEEECCCCCCHhHHHHHHHHHHc-----CCCEEEEEECcCCc
Confidence            543           22333344678999999999877777777777665442     24799999999986

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.40  E-value=9.3e-12  Score=101.03  Aligned_cols=118  Identities=19%  Similarity=0.172  Sum_probs=78.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|+.|+|||||++++.+...........+ ................+.+|||+|+           .++......
T Consensus         6 ~kivv~G~~g~GKTtl~~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~~~~Dt~gq-----------~~~~~~~~~   73 (219)
T COG1100           6 FKIVVLGDGGVGKTTLLNRLVGDEFPEGYPPTIG-NLDPAKTIEPYRRNIKLQLWDTAGQ-----------EEYRSLRPE   73 (219)
T ss_pred             EEEEEEcCCCccHHHHHHHHhcCcCcccCCCcee-eeeEEEEEEeCCCEEEEEeecCCCH-----------HHHHHHHHH
Confidence            7999999999999999999998865433221111 1111111111111456889999998           556677778


Q ss_pred             hcCCccEEEEEEeCCCCCC--HHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFS--QEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~--~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.++++++++++.+..-+  .....+...+....+  ...|+++|.||.|...
T Consensus        74 y~~~~~~~l~~~d~~~~~~~~~~~~~~~~~l~~~~~--~~~~iilv~nK~Dl~~  125 (219)
T COG1100          74 YYRGANGILIVYDSTLRESSDELTEEWLEELRELAP--DDVPILLVGNKIDLFD  125 (219)
T ss_pred             HhcCCCEEEEEEecccchhhhHHHHHHHHHHHHhCC--CCceEEEEeccccccc
Confidence            8899999999999874222  222444444454432  1358999999999997

>PLN03126 Elongation factor Tu; Provisional

Probab=99.40  E-value=3.8e-12  Score=114.20  Aligned_cols=119  Identities=15%  Similarity=0.203  Sum_probs=83.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc--------------ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      .+.++|+++|+.++|||||++.|++.....              ......+.|.......+. .++..+++|||||+.+ 
T Consensus        79 k~~~ni~iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~-~~~~~i~liDtPGh~~-  156 (478)
T PLN03126         79 KPHVNIGTIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYE-TENRHYAHVDCPGHAD-  156 (478)
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEe-cCCcEEEEEECCCHHH-
Confidence            455899999999999999999999632110              111234556655555444 3678999999999842 


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                +..........+|++++|+|+........+..+..+... |.   +++++++||+|...
T Consensus       157 ----------f~~~~~~g~~~aD~ailVVda~~G~~~qt~e~~~~~~~~-gi---~~iIvvvNK~Dl~~  211 (478)
T PLN03126        157 ----------YVKNMITGAAQMDGAILVVSGADGPMPQTKEHILLAKQV-GV---PNMVVFLNKQDQVD  211 (478)
T ss_pred             ----------HHHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CeEEEEEecccccC
Confidence                      323333334578999999999878888887777765543 43   24788999999975

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.40  E-value=7.9e-12  Score=114.98  Aligned_cols=115  Identities=21%  Similarity=0.327  Sum_probs=82.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCC-ccc-c------------CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRA-FKS-R------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~-~~~-~------------~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~   85 (253)
                      ++|+|+|+.++|||||++.|+.... +.. +            ....++|.......+. +++..+++|||||+.++.  
T Consensus         2 RNIaIiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~-~~~~kinlIDTPGh~DF~--   78 (594)
T TIGR01394         2 RNIAIIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIR-YNGTKINIVDTPGHADFG--   78 (594)
T ss_pred             cEEEEEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEE-ECCEEEEEEECCCHHHHH--
Confidence            5899999999999999999985421 101 0            1123566666666565 478999999999986532  


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               ..+..++..+|++++|+|++.........++..+... +    .|.+|++||+|...
T Consensus        79 ---------~ev~~~l~~aD~alLVVDa~~G~~~qT~~~l~~a~~~-~----ip~IVviNKiD~~~  130 (594)
T TIGR01394        79 ---------GEVERVLGMVDGVLLLVDASEGPMPQTRFVLKKALEL-G----LKPIVVINKIDRPS  130 (594)
T ss_pred             ---------HHHHHHHHhCCEEEEEEeCCCCCcHHHHHHHHHHHHC-C----CCEEEEEECCCCCC
Confidence                     2333444567999999999877777777777666552 3    36899999999864

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.

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.40  E-value=6.1e-12  Score=118.36  Aligned_cols=119  Identities=19%  Similarity=0.224  Sum_probs=84.7

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccc---cCC-------------CCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKS---RAS-------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~---~~~-------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ....++|+|+|+.++|||||+|+|++......   ...             ..++|.......+. +++..+++|||||+
T Consensus         7 ~~~irni~iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~-~~~~~i~liDTPG~   85 (689)
T TIGR00484         7 LNRFRNIGISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVF-WKGHRINIIDTPGH   85 (689)
T ss_pred             cccccEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEE-ECCeEEEEEECCCC
Confidence            34457999999999999999999975332110   000             23556666555555 47889999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..           .+..++..+|++++|+|++......+..++..+... +    .|+++++||+|...
T Consensus        86 ~~~~~-----------~~~~~l~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-~----~p~ivviNK~D~~~  141 (689)
T TIGR00484        86 VDFTV-----------EVERSLRVLDGAVAVLDAVGGVQPQSETVWRQANRY-E----VPRIAFVNKMDKTG  141 (689)
T ss_pred             cchhH-----------HHHHHHHHhCEEEEEEeCCCCCChhHHHHHHHHHHc-C----CCEEEEEECCCCCC
Confidence            76431           122334556999999999888887777777665543 2    47899999999985

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.40  E-value=3.1e-12  Score=101.49  Aligned_cols=113  Identities=19%  Similarity=0.128  Sum_probs=70.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+|+|++|+|||||++.|+....... ..   .|....+.......+  ..+.+|||||......           ..
T Consensus         2 ~Ki~ivG~~g~GKStLl~~l~~~~~~~~-~~---~t~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~-----------~~   66 (187)
T cd04129           2 RKLVIVGDGACGKTSLLSVFTLGEFPEE-YH---PTVFENYVTDCRVDGKPVQLALWDTAGQEEYER-----------LR   66 (187)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcc-cC---CcccceEEEEEEECCEEEEEEEEECCCChhccc-----------cc
Confidence            5899999999999999999985433221 11   121111111111232  4578999999754321           11


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ...+..+|++++++++++.-+...  ..++..+....+   ..|+++|.||.|..
T Consensus        67 ~~~~~~a~~~llv~~i~~~~s~~~~~~~~~~~i~~~~~---~~piilvgnK~Dl~  118 (187)
T cd04129          67 PLSYSKAHVILIGFAVDTPDSLENVRTKWIEEVRRYCP---NVPVILVGLKKDLR  118 (187)
T ss_pred             hhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEeeChhhh
Confidence            234467899999999975544333  235555554433   36899999999974

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).

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.40  E-value=1.1e-11  Score=101.04  Aligned_cols=113  Identities=20%  Similarity=0.157  Sum_probs=74.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCC-------------CCcccee------------------------eeeeee
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRAS-------------SSGVTST------------------------CEMQRT   63 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~-------------~~~~t~~------------------------~~~~~~   63 (253)
                      +|+++|+.|+|||||++.+....... +..             ..+.|..                        .... .
T Consensus         1 ~v~~~G~~~~GKttl~~~~~~~~~~~-~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~-~   78 (224)
T cd04165           1 RVAVVGNVDAGKSTLLGVLTQGELDN-GRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIE-I   78 (224)
T ss_pred             CEEEECCCCCCHHHHHHHHHhCCcCC-CCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccce-e
Confidence            58999999999999999998533211 100             0111110                        0001 1


Q ss_pred             EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc--CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEE
Q 025391           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK--DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        64 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ....+..++++||||+.+           +.+......  ..+|++++|++++..+...+...+.++... +    .|++
T Consensus        79 ~~~~~~~i~liDtpG~~~-----------~~~~~~~~~~~~~~D~~llVvda~~g~~~~d~~~l~~l~~~-~----ip~i  142 (224)
T cd04165          79 CEKSSKLVTFIDLAGHER-----------YLKTTLFGLTGYAPDYAMLVVAANAGIIGMTKEHLGLALAL-N----IPVF  142 (224)
T ss_pred             eeeCCcEEEEEECCCcHH-----------HHHHHHHhhcccCCCEEEEEEECCCCCcHHHHHHHHHHHHc-C----CCEE
Confidence            113467899999999743           222222222  367999999999888898888888887764 3    3689


Q ss_pred             EEEeCCCCCC
Q 025391          142 VVFTGGDELE  151 (253)
Q Consensus       142 vv~~k~D~~~  151 (253)
                      +|+||+|...
T Consensus       143 vvvNK~D~~~  152 (224)
T cd04165         143 VVVTKIDLAP  152 (224)
T ss_pred             EEEECccccC
Confidence            9999999875

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

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.39  E-value=3.5e-12  Score=103.82  Aligned_cols=115  Identities=18%  Similarity=0.239  Sum_probs=73.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc-----------------------------cCCCCccceeeeeeeeEeeCCeEE
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKDGQVV   71 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~~~~~   71 (253)
                      +|+++|+.|+|||||+.+|+.......                             .....+.|.......+. +.+..+
T Consensus         1 nv~i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~-~~~~~i   79 (219)
T cd01883           1 NLVVIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFE-TEKYRF   79 (219)
T ss_pred             CEEEecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEe-eCCeEE
Confidence            489999999999999999964321100                             01123455555555554 478899


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           72 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        72 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                      .+|||||+.+           +...+......+|++|+|+|+++.       ........+.... .++.   +|++|++
T Consensus        80 ~liDtpG~~~-----------~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~-~~~~---~~iiivv  144 (219)
T cd01883          80 TILDAPGHRD-----------FVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLAR-TLGV---KQLIVAV  144 (219)
T ss_pred             EEEECCChHH-----------HHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHH-HcCC---CeEEEEE
Confidence            9999999742           222222344678999999999853       2223333333332 2332   4789999


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||+|...
T Consensus       145 NK~Dl~~  151 (219)
T cd01883         145 NKMDDVT  151 (219)
T ss_pred             Ecccccc
Confidence            9999984

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

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.38  E-value=5.3e-12  Score=104.48  Aligned_cols=126  Identities=20%  Similarity=0.155  Sum_probs=87.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||-++||||||+|+|+....  .-.....+|....+..+.+.+...++|-|.||+....+.+.-+...+.+.+.+
T Consensus       197 advGLVG~PNAGKSTLL~als~AKp--kVa~YaFTTL~P~iG~v~yddf~q~tVADiPGiI~GAh~nkGlG~~FLrHiER  274 (366)
T KOG1489|consen  197 ADVGLVGFPNAGKSTLLNALSRAKP--KVAHYAFTTLRPHIGTVNYDDFSQITVADIPGIIEGAHMNKGLGYKFLRHIER  274 (366)
T ss_pred             cccceecCCCCcHHHHHHHhhccCC--cccccceeeeccccceeeccccceeEeccCccccccccccCcccHHHHHHHHh
Confidence            3689999999999999999998765  11222334555555555554455699999999998776666677788888877


Q ss_pred             hcCCccEEEEEEeCCCCC--CHHH-HHHHHHHHHHhccc-ccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRF--SQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~--~~~~-~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~  151 (253)
                      |    ..++||+|+....  ++-+ .+.|..=.+.+... ..+|.+||.||+|..+
T Consensus       275 ~----~~l~fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~e  326 (366)
T KOG1489|consen  275 C----KGLLFVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPE  326 (366)
T ss_pred             h----ceEEEEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchh
Confidence            7    6999999997441  3322 22222212223222 4568999999999964

>PRK12739 elongation factor G; Reviewed

Probab=99.38  E-value=1e-11  Score=116.79  Aligned_cols=118  Identities=22%  Similarity=0.296  Sum_probs=84.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccc--c-C-------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKS--R-A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--~-~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~   80 (253)
                      ...++|+|+|+.++|||||+++|+.......  + .             ...++|......... +++..++++||||+.
T Consensus         6 ~~irni~iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~-~~~~~i~liDTPG~~   84 (691)
T PRK12739          6 EKTRNIGIMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCF-WKGHRINIIDTPGHV   84 (691)
T ss_pred             cCeeEEEEECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEE-ECCEEEEEEcCCCHH
Confidence            3457999999999999999999975321100  0 0             134566666555555 478899999999985


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++           ...+..+...+|++|+|+|+.......+..++..+... +    .|.++++||+|...
T Consensus        85 ~f-----------~~e~~~al~~~D~~ilVvDa~~g~~~qt~~i~~~~~~~-~----~p~iv~iNK~D~~~  139 (691)
T PRK12739         85 DF-----------TIEVERSLRVLDGAVAVFDAVSGVEPQSETVWRQADKY-G----VPRIVFVNKMDRIG  139 (691)
T ss_pred             HH-----------HHHHHHHHHHhCeEEEEEeCCCCCCHHHHHHHHHHHHc-C----CCEEEEEECCCCCC
Confidence            42           12233444566999999999888888888777776553 3    47899999999985

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.37  E-value=8.7e-12  Score=96.31  Aligned_cols=109  Identities=23%  Similarity=0.177  Sum_probs=70.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .+|+++|++|+|||||++.++....... ..+.....   ...+. .++  ..+.+|||+|...         .      
T Consensus         1 ~ki~vvG~~gvGKTsli~~~~~~~f~~~-~~~~~~~~---~~~i~-~~~~~~~l~i~D~~g~~~---------~------   60 (158)
T cd04103           1 LKLGIVGNLQSGKSALVHRYLTGSYVQL-ESPEGGRF---KKEVL-VDGQSHLLLIRDEGGAPD---------A------   60 (158)
T ss_pred             CEEEEECCCCCcHHHHHHHHHhCCCCCC-CCCCccce---EEEEE-ECCEEEEEEEEECCCCCc---------h------
Confidence            4799999999999999998776543221 11111111   11122 244  4688999999853         1      


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                       .++..+|++++|+|.+++-+... ..++..+....+ ....|+++|.||+|..
T Consensus        61 -~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~  112 (158)
T cd04103          61 -QFASWVDAVIFVFSLENEASFQTVYNLYHQLSSYRN-ISEIPLILVGTQDAIS  112 (158)
T ss_pred             -hHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeeHHHhh
Confidence             12356799999999997776666 455555554422 1235899999998864

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.

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.37  E-value=1.3e-11  Score=113.74  Aligned_cols=117  Identities=22%  Similarity=0.228  Sum_probs=77.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc------C-------CCCccceeeeeeeeEee--C--CeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR------A-------SSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------~-------~~~~~t~~~~~~~~~~~--~--~~~~~liDtpG~~~   81 (253)
                      .++|+|+|+.|+|||||+++|+........      .       ...++|.........+.  +  ...+++|||||+.+
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            478999999999999999999875321110      0       11255555444433321  2  25789999999965


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.           ..+..++..+|++|+|+|+++..+..+...+..... .    ..|+++|+||+|...
T Consensus        83 F~-----------~~v~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~-~----~ipiIiViNKiDl~~  136 (595)
T TIGR01393        83 FS-----------YEVSRSLAACEGALLLVDAAQGIEAQTLANVYLALE-N----DLEIIPVINKIDLPS  136 (595)
T ss_pred             HH-----------HHHHHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH-c----CCCEEEEEECcCCCc
Confidence            32           333345567799999999987777766544433322 1    247999999999864

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.

>PRK00007 elongation factor G; Reviewed

Probab=99.37  E-value=1.5e-11  Score=115.68  Aligned_cols=119  Identities=19%  Similarity=0.234  Sum_probs=84.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCC---ccccC-------------CCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRA---FKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~---~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ....++|+|+|+.++|||||+++|+....   .....             ...+.|......... +.+..++++||||+
T Consensus         7 ~~~Irni~iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~-~~~~~~~liDTPG~   85 (693)
T PRK00007          7 LERYRNIGIMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCF-WKDHRINIIDTPGH   85 (693)
T ss_pred             ccceeEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEE-ECCeEEEEEeCCCc
Confidence            34558999999999999999999973221   10000             133556655555554 47889999999998


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.       .+    +..+...+|++++|+|+.......+...+..+.+. +    .|.++++||+|...
T Consensus        86 ~~f~-------~e----v~~al~~~D~~vlVvda~~g~~~qt~~~~~~~~~~-~----~p~iv~vNK~D~~~  141 (693)
T PRK00007         86 VDFT-------IE----VERSLRVLDGAVAVFDAVGGVEPQSETVWRQADKY-K----VPRIAFVNKMDRTG  141 (693)
T ss_pred             HHHH-------HH----HHHHHHHcCEEEEEEECCCCcchhhHHHHHHHHHc-C----CCEEEEEECCCCCC
Confidence            6422       12    33333455899999999888888888888877664 3    36889999999985

>PRK10218 GTP-binding protein; Provisional

Probab=99.37  E-value=1.8e-11  Score=112.58  Aligned_cols=116  Identities=21%  Similarity=0.271  Sum_probs=83.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC-cccc-------------CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA-FKSR-------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~-------------~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      .++|+|+|+.++|||||+++|++... +...             ....+.|.......+. +++..+.+|||||+.++. 
T Consensus         5 iRnIaIiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~-~~~~~inliDTPG~~df~-   82 (607)
T PRK10218          5 LRNIAIIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIK-WNDYRINIVDTPGHADFG-   82 (607)
T ss_pred             ceEEEEECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEe-cCCEEEEEEECCCcchhH-
Confidence            47999999999999999999996422 1110             1124556555555555 478899999999987653 


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                ..+..++..+|++|+|+|+++.........+..+... +    .|.++++||+|...
T Consensus        83 ----------~~v~~~l~~aDg~ILVVDa~~G~~~qt~~~l~~a~~~-g----ip~IVviNKiD~~~  134 (607)
T PRK10218         83 ----------GEVERVMSMVDSVLLVVDAFDGPMPQTRFVTKKAFAY-G----LKPIVVINKVDRPG  134 (607)
T ss_pred             ----------HHHHHHHHhCCEEEEEEecccCccHHHHHHHHHHHHc-C----CCEEEEEECcCCCC
Confidence                      2333445677999999999877777776666665442 3    36899999999864

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.37  E-value=8.5e-12  Score=110.47  Aligned_cols=116  Identities=14%  Similarity=0.158  Sum_probs=80.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------------------------CCCCccceeeeeeeeEeeCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR-------------------------------ASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------------------------------~~~~~~t~~~~~~~~~~~~~   68 (253)
                      ++|+++|+.++|||||++.|+........                               ....+.|......... +++
T Consensus         1 ~~~~~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~-~~~   79 (406)
T TIGR02034         1 LRFLTCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFS-TDK   79 (406)
T ss_pred             CeEEEECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEc-cCC
Confidence            48999999999999999999754321110                               0123455666555554 367


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+.++||||+.+           +..........+|++|+|+|+.......+...+..+.. ++.   ++++|++||+|
T Consensus        80 ~~~~liDtPGh~~-----------f~~~~~~~~~~aD~allVVda~~G~~~qt~~~~~~~~~-~~~---~~iivviNK~D  144 (406)
T TIGR02034        80 RKFIVADTPGHEQ-----------YTRNMATGASTADLAVLLVDARKGVLEQTRRHSYIASL-LGI---RHVVLAVNKMD  144 (406)
T ss_pred             eEEEEEeCCCHHH-----------HHHHHHHHHhhCCEEEEEEECCCCCccccHHHHHHHHH-cCC---CcEEEEEEecc
Confidence            8999999999642           22223334467899999999987777777666655444 342   36899999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       145 ~~~  147 (406)
T TIGR02034       145 LVD  147 (406)
T ss_pred             ccc
Confidence            974

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).

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.37  E-value=7.4e-12  Score=116.79  Aligned_cols=121  Identities=12%  Similarity=0.134  Sum_probs=81.8

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------cC-----------------CCCccceeeeeeee
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKS--------------RA-----------------SSSGVTSTCEMQRT   63 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~~-----------------~~~~~t~~~~~~~~   63 (253)
                      ...+..+|+++|+.++|||||++.|+.......              +.                 ...+.|........
T Consensus        20 ~~~~~~~i~iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~   99 (632)
T PRK05506         20 ERKSLLRFITCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYF   99 (632)
T ss_pred             cCCCeeEEEEECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEE
Confidence            444558999999999999999999987543211              00                 01244555544444


Q ss_pred             EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEE
Q 025391           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  143 (253)
Q Consensus        64 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv  143 (253)
                      . .++..++++||||+.+           +..........+|++|+|+|++......+...+..+.. ++.   ++++|+
T Consensus       100 ~-~~~~~~~liDtPG~~~-----------f~~~~~~~~~~aD~~llVvda~~g~~~~t~e~~~~~~~-~~~---~~iivv  163 (632)
T PRK05506        100 A-TPKRKFIVADTPGHEQ-----------YTRNMVTGASTADLAIILVDARKGVLTQTRRHSFIASL-LGI---RHVVLA  163 (632)
T ss_pred             c-cCCceEEEEECCChHH-----------HHHHHHHHHHhCCEEEEEEECCCCccccCHHHHHHHHH-hCC---CeEEEE
Confidence            4 3677899999999632           22222234467899999999987777666555555444 342   478899


Q ss_pred             EeCCCCCC
Q 025391          144 FTGGDELE  151 (253)
Q Consensus       144 ~~k~D~~~  151 (253)
                      +||+|...
T Consensus       164 vNK~D~~~  171 (632)
T PRK05506        164 VNKMDLVD  171 (632)
T ss_pred             EEeccccc
Confidence            99999974

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.36  E-value=3.4e-12  Score=95.46  Aligned_cols=101  Identities=23%  Similarity=0.293  Sum_probs=68.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+|||++|+|||||+++|.|...      ....|....+.     +    .+|||||-+--.       ..+.+.+..
T Consensus         2 krimliG~~g~GKTTL~q~L~~~~~------~~~KTq~i~~~-----~----~~IDTPGEyiE~-------~~~y~aLi~   59 (143)
T PF10662_consen    2 KRIMLIGPSGSGKTTLAQALNGEEI------RYKKTQAIEYY-----D----NTIDTPGEYIEN-------PRFYHALIV   59 (143)
T ss_pred             ceEEEECCCCCCHHHHHHHHcCCCC------CcCccceeEec-----c----cEEECChhheeC-------HHHHHHHHH
Confidence            5899999999999999999998753      11223222211     1    359999976321       334445544


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ....+|.+++|.|++++.+.-...+.    ..|.    +|+|=|+||.|..
T Consensus        60 ta~dad~V~ll~dat~~~~~~pP~fa----~~f~----~pvIGVITK~Dl~  102 (143)
T PF10662_consen   60 TAQDADVVLLLQDATEPRSVFPPGFA----SMFN----KPVIGVITKIDLP  102 (143)
T ss_pred             HHhhCCEEEEEecCCCCCccCCchhh----cccC----CCEEEEEECccCc
Confidence            45678999999999865554333333    2333    4799999999998

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

>TIGR00503 prfC peptide chain release factor 3

Probab=99.36  E-value=1.9e-11  Score=111.14  Aligned_cols=118  Identities=17%  Similarity=0.182  Sum_probs=79.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc--ccCC------------------CCccceeeeeeeeEeeCCeEEEEEeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK--SRAS------------------SSGVTSTCEMQRTVLKDGQVVNVIDT   76 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~--~~~~------------------~~~~t~~~~~~~~~~~~~~~~~liDt   76 (253)
                      ...++|+|+|+.|+|||||++.|+......  .+..                  ..+.+.......+. +++..+++|||
T Consensus         9 ~~~RniaiiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~-~~~~~inliDT   87 (527)
T TIGR00503         9 DKRRTFAIISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFP-YRDCLVNLLDT   87 (527)
T ss_pred             ccCCEEEEEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEe-eCCeEEEEEEC
Confidence            455899999999999999999986322111  0000                  12344444444444 47889999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ||+.++.           .....++..+|++|+|+|++..+......+++.+.. .    ..|+++++||+|...
T Consensus        88 PG~~df~-----------~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-~----~~PiivviNKiD~~~  146 (527)
T TIGR00503        88 PGHEDFS-----------EDTYRTLTAVDNCLMVIDAAKGVETRTRKLMEVTRL-R----DTPIFTFMNKLDRDI  146 (527)
T ss_pred             CChhhHH-----------HHHHHHHHhCCEEEEEEECCCCCCHHHHHHHHHHHh-c----CCCEEEEEECccccC
Confidence            9985432           223334467799999999987777766666654433 2    248999999999864

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.

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.36  E-value=3.6e-11  Score=92.26  Aligned_cols=130  Identities=17%  Similarity=0.239  Sum_probs=97.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccc-----cCCCCc---cceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKS-----RASSSG---VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVG   90 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-----~~~~~~---~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~   90 (253)
                      ..+|+++|+.|+||||+++.++-......     .....+   .|+...+.......+..+.++||||+           
T Consensus        10 ~~KIvv~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~~~~~~~~~v~LfgtPGq-----------   78 (187)
T COG2229          10 ETKIVVIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTGVHLFGTPGQ-----------   78 (187)
T ss_pred             ceeEEEEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccceEEcCcceEEEecCCCc-----------
Confidence            36999999999999999999987764322     122223   66666777777656689999999998           


Q ss_pred             HHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC-hhhHHHHHcc
Q 025391           91 KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN-DETLEDYLGR  163 (253)
Q Consensus        91 ~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~-~~~~~~~~~~  163 (253)
                      .++.-++.....++.++++++|.+...+......+..+.....    .|++|..||.|..... ++.+.+++..
T Consensus        79 ~RF~fm~~~l~~ga~gaivlVDss~~~~~~a~~ii~f~~~~~~----ip~vVa~NK~DL~~a~ppe~i~e~l~~  148 (187)
T COG2229          79 ERFKFMWEILSRGAVGAIVLVDSSRPITFHAEEIIDFLTSRNP----IPVVVAINKQDLFDALPPEKIREALKL  148 (187)
T ss_pred             HHHHHHHHHHhCCcceEEEEEecCCCcchHHHHHHHHHhhccC----CCEEEEeeccccCCCCCHHHHHHHHHh
Confidence            5566667777789999999999887777777777777766432    5899999999998642 4566677763

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.36  E-value=1.3e-11  Score=110.10  Aligned_cols=118  Identities=19%  Similarity=0.252  Sum_probs=77.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc--------------c---------------CCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS--------------R---------------ASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--------------~---------------~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|+.++|||||++.|+.......              +               ....+.|.......+. ..+
T Consensus         6 ~~~~v~i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~-~~~   84 (426)
T TIGR00483         6 EHINVAFIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFE-TDK   84 (426)
T ss_pred             ceeEEEEEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEc-cCC
Confidence            448999999999999999999985321100              0               0123566666665554 367


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC---CCHHHHHHHHHHHHHhcccccCeEEEEEe
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR---FSQEEEAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~---~~~~~~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ..+.+|||||+.           .+.......+..+|++++|+|+++.   ........+... ..++.   .+++|++|
T Consensus        85 ~~i~iiDtpGh~-----------~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~~~-~~~~~---~~iIVviN  149 (426)
T TIGR00483        85 YEVTIVDCPGHR-----------DFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAFLA-RTLGI---NQLIVAIN  149 (426)
T ss_pred             eEEEEEECCCHH-----------HHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHHHH-HHcCC---CeEEEEEE
Confidence            899999999963           2323333345678999999999866   333333323222 33342   47999999


Q ss_pred             CCCCCC
Q 025391          146 GGDELE  151 (253)
Q Consensus       146 k~D~~~  151 (253)
                      |+|...
T Consensus       150 K~Dl~~  155 (426)
T TIGR00483       150 KMDSVN  155 (426)
T ss_pred             ChhccC
Confidence            999974

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.

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.36  E-value=3.1e-11  Score=89.01  Aligned_cols=119  Identities=12%  Similarity=0.084  Sum_probs=84.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..++.++|.+.+|||||+.+.++....+.-.++.|+.......... .+..++.+|||.|.           +.++....
T Consensus        21 mfKlliiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~-~kRiklQiwDTagq-----------EryrtiTT   88 (193)
T KOG0093|consen   21 MFKLLIIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRS-DKRIKLQIWDTAGQ-----------ERYRTITT   88 (193)
T ss_pred             eeeEEEEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeec-ccEEEEEEEecccc-----------hhhhHHHH
Confidence            3699999999999999999999887644444444555444433222 24468999999998           44566677


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++++++++|++.|+++.-+... ..+.-.++.+ .. -..++|+|.||||+-.
T Consensus        89 ayyRgamgfiLmyDitNeeSf~svqdw~tqIkty-sw-~naqvilvgnKCDmd~  140 (193)
T KOG0093|consen   89 AYYRGAMGFILMYDITNEESFNSVQDWITQIKTY-SW-DNAQVILVGNKCDMDS  140 (193)
T ss_pred             HHhhccceEEEEEecCCHHHHHHHHHHHHHheee-ec-cCceEEEEecccCCcc
Confidence            88899999999999985544444 3344444433 21 1358999999999975

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.35  E-value=2.5e-12  Score=110.73  Aligned_cols=117  Identities=21%  Similarity=0.210  Sum_probs=68.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcc---ceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGV---TSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~---t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ..++|+|+|.+|+|||||+|+|.|-..-..+..+.|+   |.....  +...+..++++||.||.+......+.    +.
T Consensus        34 ~~l~IaV~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~--Y~~p~~pnv~lWDlPG~gt~~f~~~~----Yl  107 (376)
T PF05049_consen   34 APLNIAVTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTP--YPHPKFPNVTLWDLPGIGTPNFPPEE----YL  107 (376)
T ss_dssp             --EEEEEEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EE--EE-SS-TTEEEEEE--GGGSS--HHH----HH
T ss_pred             CceEEEEECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCee--CCCCCCCCCeEEeCCCCCCCCCCHHH----HH
Confidence            4589999999999999999999886443333333333   232322  33345668999999999754433332    22


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      ..  .-+...|.||++.+  .+++..+..+.+.+.++ |    +++++|-||.|.
T Consensus       108 ~~--~~~~~yD~fiii~s--~rf~~ndv~La~~i~~~-g----K~fyfVRTKvD~  153 (376)
T PF05049_consen  108 KE--VKFYRYDFFIIISS--ERFTENDVQLAKEIQRM-G----KKFYFVRTKVDS  153 (376)
T ss_dssp             HH--TTGGG-SEEEEEES--SS--HHHHHHHHHHHHT-T-----EEEEEE--HHH
T ss_pred             HH--ccccccCEEEEEeC--CCCchhhHHHHHHHHHc-C----CcEEEEEecccc
Confidence            21  12345587777654  48999999999888875 4    479999999886

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.

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.33  E-value=2.6e-11  Score=101.49  Aligned_cols=124  Identities=20%  Similarity=0.173  Sum_probs=88.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      -|+|||-++||||||++.++....  .-.....+|.......+....+..+++-|.||+.+..+.+.-+..++.+.+.+|
T Consensus       161 DVGLVG~PNaGKSTlls~vS~AkP--KIadYpFTTL~PnLGvV~~~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt  238 (369)
T COG0536         161 DVGLVGLPNAGKSTLLSAVSAAKP--KIADYPFTTLVPNLGVVRVDGGESFVVADIPGLIEGASEGVGLGLRFLRHIERT  238 (369)
T ss_pred             ccccccCCCCcHHHHHHHHhhcCC--cccCCccccccCcccEEEecCCCcEEEecCcccccccccCCCccHHHHHHHHhh
Confidence            378999999999999999998765  222333455555555555446778999999999987776666778888888888


Q ss_pred             cCCccEEEEEEeCCCCCC---HH-H-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFS---QE-E-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~---~~-~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                          .+++.|+|++ +.+   +. + ..+...+..+-..-..+|.+||+||+|...
T Consensus       239 ----~vL~hviD~s-~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~  289 (369)
T COG0536         239 ----RVLLHVIDLS-PIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPL  289 (369)
T ss_pred             ----heeEEEEecC-cccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCc
Confidence                4999999987 333   33 2 333344444322224578999999999664

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.32  E-value=3.9e-11  Score=109.01  Aligned_cols=118  Identities=15%  Similarity=0.202  Sum_probs=79.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCc--cccC------------------CCCccceeeeeeeeEeeCCeEEEEEeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAF--KSRA------------------SSSGVTSTCEMQRTVLKDGQVVNVIDT   76 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~--~~~~------------------~~~~~t~~~~~~~~~~~~~~~~~liDt   76 (253)
                      ...++|+|+|+.|+|||||++.|+.....  ..+.                  ...+.+.......+. +++..+++|||
T Consensus         8 ~~~Rni~IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~-~~~~~inliDT   86 (526)
T PRK00741          8 AKRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFP-YRDCLINLLDT   86 (526)
T ss_pred             hcCCEEEEECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEE-ECCEEEEEEEC
Confidence            34579999999999999999999632110  0000                  011333334334444 47889999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ||+.++.           .....++..+|++|+|+|+++........+++.... .+    .|+++++||+|...
T Consensus        87 PG~~df~-----------~~~~~~l~~aD~aIlVvDa~~gv~~~t~~l~~~~~~-~~----iPiiv~iNK~D~~~  145 (526)
T PRK00741         87 PGHEDFS-----------EDTYRTLTAVDSALMVIDAAKGVEPQTRKLMEVCRL-RD----TPIFTFINKLDRDG  145 (526)
T ss_pred             CCchhhH-----------HHHHHHHHHCCEEEEEEecCCCCCHHHHHHHHHHHh-cC----CCEEEEEECCcccc
Confidence            9986543           222233456799999999987777766666655443 22    47999999999875

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.32  E-value=2.3e-11  Score=107.81  Aligned_cols=119  Identities=15%  Similarity=0.217  Sum_probs=74.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeE--------------e-----------eCCeEE
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTV--------------L-----------KDGQVV   71 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~--------------~-----------~~~~~~   71 (253)
                      +..+|+++|..++|||||++.|++...... .....+.|....+....              .           ..+..+
T Consensus         3 ~~~~i~iiG~~~~GKSTL~~~Lt~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   82 (406)
T TIGR03680         3 PEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELKRGISIRLGYADAEIYKCPECDGPECYTTEPVCPNCGSETELLRRV   82 (406)
T ss_pred             ceEEEEEEccCCCCHHHHHHHHhCeecccCHhHHHcCceeEecccccccccccccCccccccccccccccccccccccEE
Confidence            458999999999999999999987532110 01112233332211110              0           014679


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           72 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        72 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ++|||||+.           .+...+......+|++++|+|++... .......+..+ ..++.   +++++++||+|..
T Consensus        83 ~liDtPGh~-----------~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l-~~~gi---~~iIVvvNK~Dl~  147 (406)
T TIGR03680        83 SFVDAPGHE-----------TLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMAL-EIIGI---KNIVIVQNKIDLV  147 (406)
T ss_pred             EEEECCCHH-----------HHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHH-HHcCC---CeEEEEEEccccC
Confidence            999999973           23233333345679999999998665 55555555544 33342   3689999999997


Q ss_pred             C
Q 025391          151 E  151 (253)
Q Consensus       151 ~  151 (253)
                      .
T Consensus       148 ~  148 (406)
T TIGR03680       148 S  148 (406)
T ss_pred             C
Confidence            5

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.31  E-value=2.2e-11  Score=106.16  Aligned_cols=128  Identities=20%  Similarity=0.226  Sum_probs=85.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCC-CCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD-FSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~-~~~~~~~~~~~~~~~   96 (253)
                      .++.|+|+|++++|||||+|+|+..+....++. .|.|.+.--..+. .+|..+.++||+|+-. +....+.  .-+.++
T Consensus       267 ~gl~iaIvGrPNvGKSSLlNaL~~~drsIVSpv-~GTTRDaiea~v~-~~G~~v~L~DTAGiRe~~~~~iE~--~gI~rA  342 (531)
T KOG1191|consen  267 SGLQIAIVGRPNVGKSSLLNALSREDRSIVSPV-PGTTRDAIEAQVT-VNGVPVRLSDTAGIREESNDGIEA--LGIERA  342 (531)
T ss_pred             cCCeEEEEcCCCCCHHHHHHHHhcCCceEeCCC-CCcchhhheeEee-cCCeEEEEEeccccccccCChhHH--HhHHHH
Confidence            448999999999999999999999987544433 3445544444444 6999999999999987 2222232  222233


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--cc------CeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IF------DYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~------~~~ivv~~k~D~~~  151 (253)
                      ... ...+|++++|+|+....+..+....+.+... +..  +.      .+.+++.||.|...
T Consensus       343 ~k~-~~~advi~~vvda~~~~t~sd~~i~~~l~~~-~~g~~~~~~~~~~~~~i~~~nk~D~~s  403 (531)
T KOG1191|consen  343 RKR-IERADVILLVVDAEESDTESDLKIARILETE-GVGLVVIVNKMEKQRIILVANKSDLVS  403 (531)
T ss_pred             HHH-HhhcCEEEEEecccccccccchHHHHHHHHh-ccceEEEeccccccceEEEechhhccC
Confidence            222 3567999999999544554454444444332 221  22      68999999999986

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=99.31  E-value=8e-12  Score=95.52  Aligned_cols=154  Identities=12%  Similarity=0.069  Sum_probs=94.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+++|.+|+|||||+|.+...+.......+.+......-..+. ..-..+.+|||+|..           ++.+.-.
T Consensus         9 lLKViiLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd-~~~vtlQiWDTAGQE-----------RFqsLg~   76 (210)
T KOG0394|consen    9 LLKVIILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVD-DRSVTLQIWDTAGQE-----------RFQSLGV   76 (210)
T ss_pred             ceEEEEeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEc-CeEEEEEEEecccHH-----------Hhhhccc
Confidence            3899999999999999999998876543333344433333333332 233467899999984           3334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhccc-ccCeEEEEEeCCCCCCCC-----hhhHHHHHcc-cCCchh
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKK-IFDYMIVVFTGGDELEDN-----DETLEDYLGR-ECPKPL  169 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~~~-----~~~~~~~~~~-~~~~~l  169 (253)
                      .+++++|++++|.|++.+-+.+.  ...-+.+...-... -.-|++|+.||.|.-...     ......++.. .+..|+
T Consensus        77 aFYRgaDcCvlvydv~~~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyf  156 (210)
T KOG0394|consen   77 AFYRGADCCVLVYDVNNPKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYF  156 (210)
T ss_pred             ceecCCceEEEEeecCChhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeE
Confidence            67899999999999875444333  33333343332222 235899999999996421     2244555543 223355


Q ss_pred             hhhHHHhhhHHHHHH
Q 025391          170 KKGATKLRDQQFEVD  184 (253)
Q Consensus       170 ~~~~~~~~~~~~~~~  184 (253)
                      +.+.+..-+....++
T Consensus       157 EtSAK~~~NV~~AFe  171 (210)
T KOG0394|consen  157 ETSAKEATNVDEAFE  171 (210)
T ss_pred             EecccccccHHHHHH
Confidence            555555555554444

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.31  E-value=3.8e-11  Score=107.32  Aligned_cols=117  Identities=18%  Similarity=0.218  Sum_probs=78.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc-----------------------------cCCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|+.++|||||+..|+.......                             .....+.|......... +++
T Consensus         6 ~~~nv~i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~-~~~   84 (446)
T PTZ00141          6 THINLVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFE-TPK   84 (446)
T ss_pred             ceEEEEEEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEc-cCC
Confidence            448999999999999999998875221000                             01123566666555554 467


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-------CHHHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-------SQEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-------~~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..++++||||+.+           +..........+|++++|+|++...       ....+..+..+.. +|-   ++++
T Consensus        85 ~~i~lIDtPGh~~-----------f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~-~gi---~~ii  149 (446)
T PTZ00141         85 YYFTIIDAPGHRD-----------FIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT-LGV---KQMI  149 (446)
T ss_pred             eEEEEEECCChHH-----------HHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH-cCC---CeEE
Confidence            8999999999743           3333444456789999999997654       3455666655444 343   2578


Q ss_pred             EEEeCCCCC
Q 025391          142 VVFTGGDEL  150 (253)
Q Consensus       142 vv~~k~D~~  150 (253)
                      |++||+|..
T Consensus       150 v~vNKmD~~  158 (446)
T PTZ00141        150 VCINKMDDK  158 (446)
T ss_pred             EEEEccccc
Confidence            999999953

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.31  E-value=3.1e-11  Score=89.51  Aligned_cols=118  Identities=18%  Similarity=0.164  Sum_probs=78.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++++++|+.|+|||.|+..+.....-.....+.++.....+..+. .+..++.+|||+|.           ++++.....
T Consensus        10 fKfl~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVG-gK~vKLQIWDTAGQ-----------ErFRSVtRs   77 (214)
T KOG0086|consen   10 FKFLVIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVG-GKTVKLQIWDTAGQ-----------ERFRSVTRS   77 (214)
T ss_pred             heeEEeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeec-CcEEEEEEeecccH-----------HHHHHHHHH
Confidence            699999999999999999987654422222222333333333322 23458899999997           677788889


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +++++.+.++|.|++++-+... ..|+.-.+.+.+.  ...++++.||.|+-.
T Consensus        78 YYRGAAGAlLVYD~TsrdsfnaLtnWL~DaR~lAs~--nIvviL~GnKkDL~~  128 (214)
T KOG0086|consen   78 YYRGAAGALLVYDITSRDSFNALTNWLTDARTLASP--NIVVILCGNKKDLDP  128 (214)
T ss_pred             HhccccceEEEEeccchhhHHHHHHHHHHHHhhCCC--cEEEEEeCChhhcCh
Confidence            9999999999999997666554 2333333333222  234566789988864

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=99.31  E-value=4.3e-11  Score=89.76  Aligned_cols=122  Identities=15%  Similarity=0.069  Sum_probs=85.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..|+.+||.+-+|||+|++..+....+....++.++...............++.+|||+|.           ++++....
T Consensus         8 qfrlivigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagq-----------erfrsitk   76 (213)
T KOG0091|consen    8 QFRLIVIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQ-----------ERFRSITK   76 (213)
T ss_pred             EEEEEEEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccch-----------HHHHHHHH
Confidence            4799999999999999999998776644443333333322222222223457899999998           56677777


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++++.-++++|.|++++-+.+. ..+++......+.+...-+.+|.+|+|+..
T Consensus        77 syyrnsvgvllvyditnr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~S  130 (213)
T KOG0091|consen   77 SYYRNSVGVLLVYDITNRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQS  130 (213)
T ss_pred             HHhhcccceEEEEeccchhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhh
Confidence            88888889999999998877766 455555555455444445667789999874

>PRK13351 elongation factor G; Reviewed

Probab=99.30  E-value=3e-11  Score=113.88  Aligned_cols=117  Identities=19%  Similarity=0.252  Sum_probs=81.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc--c-C-------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS--R-A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--~-~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ..++|+|+|+.|+|||||+++|+.......  + .             ...+.|......... +.+..+.+|||||..+
T Consensus         7 ~irni~iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~-~~~~~i~liDtPG~~d   85 (687)
T PRK13351          7 QIRNIGILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCD-WDNHRINLIDTPGHID   85 (687)
T ss_pred             cccEEEEECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEE-ECCEEEEEEECCCcHH
Confidence            458999999999999999999985421100  0 0             013445555445454 4788999999999864


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.           .....++..+|++++|+|++..........+..+... +    .|+++++||+|...
T Consensus        86 f~-----------~~~~~~l~~aD~~ilVvd~~~~~~~~~~~~~~~~~~~-~----~p~iiviNK~D~~~  139 (687)
T PRK13351         86 FT-----------GEVERSLRVLDGAVVVFDAVTGVQPQTETVWRQADRY-G----IPRLIFINKMDRVG  139 (687)
T ss_pred             HH-----------HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHhc-C----CCEEEEEECCCCCC
Confidence            32           2334445667999999999878777776666655442 2    47899999999875

>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=99.30  E-value=6.9e-12  Score=97.92  Aligned_cols=119  Identities=15%  Similarity=0.238  Sum_probs=67.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeee-eEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR-TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...|+|+|++|+|||+|+..|.......+-.     ........ .....+..+.+||+||+..-.       ..+...+
T Consensus         3 ~~~vlL~Gps~SGKTaLf~~L~~~~~~~T~t-----S~e~n~~~~~~~~~~~~~~lvD~PGH~rlr-------~~~~~~~   70 (181)
T PF09439_consen    3 RPTVLLVGPSGSGKTALFSQLVNGKTVPTVT-----SMENNIAYNVNNSKGKKLRLVDIPGHPRLR-------SKLLDEL   70 (181)
T ss_dssp             --EEEEE-STTSSHHHHHHHHHHSS---B--------SSEEEECCGSSTCGTCECEEEETT-HCCC-------HHHHHHH
T ss_pred             CceEEEEcCCCCCHHHHHHHHhcCCcCCeec-----cccCCceEEeecCCCCEEEEEECCCcHHHH-------HHHHHhh
Confidence            3689999999999999999998764322211     11111111 111245689999999986533       2222221


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc----cccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK----KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~----~~~~~~ivv~~k~D~~~  151 (253)
                      . +.+.+.++|||+|.+ .+...-+...+.|...+-.    ....|++|+.||.|.+.
T Consensus        71 ~-~~~~~k~IIfvvDSs-~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~~  126 (181)
T PF09439_consen   71 K-YLSNAKGIIFVVDSS-TDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLFT  126 (181)
T ss_dssp             H-HHGGEEEEEEEEETT-THHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTSTT
T ss_pred             h-chhhCCEEEEEEeCc-cchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCccccc
Confidence            1 235678999999986 3333334555555444321    23479999999999986

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.30  E-value=3.8e-11  Score=108.87  Aligned_cols=119  Identities=23%  Similarity=0.297  Sum_probs=86.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|.+++|||||+|.|+|....-+.  -.|+|.......... .+..+.++|.||..+......+  +.+++-+-.
T Consensus         4 ~~valvGNPNvGKTtlFN~LTG~~q~VgN--wpGvTVEkkeg~~~~-~~~~i~ivDLPG~YSL~~~S~D--E~Var~~ll   78 (653)
T COG0370           4 LTVALVGNPNVGKTTLFNALTGANQKVGN--WPGVTVEKKEGKLKY-KGHEIEIVDLPGTYSLTAYSED--EKVARDFLL   78 (653)
T ss_pred             ceEEEecCCCccHHHHHHHHhccCceecC--CCCeeEEEEEEEEEe-cCceEEEEeCCCcCCCCCCCch--HHHHHHHHh
Confidence            57999999999999999999998763332  346777777666664 7788999999999876543221  333332222


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ...||+++-|+|++ .+...-.-+++.+.  +|    .|+++++|..|...
T Consensus        79 -~~~~D~ivnVvDAt-nLeRnLyltlQLlE--~g----~p~ilaLNm~D~A~  122 (653)
T COG0370          79 -EGKPDLIVNVVDAT-NLERNLYLTLQLLE--LG----IPMILALNMIDEAK  122 (653)
T ss_pred             -cCCCCEEEEEcccc-hHHHHHHHHHHHHH--cC----CCeEEEeccHhhHH
Confidence             36789999999998 67666655555443  24    47999999999875

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.30  E-value=4.8e-11  Score=110.15  Aligned_cols=118  Identities=20%  Similarity=0.222  Sum_probs=77.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------CCCCccceeeeeeeeEee----CCeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-------------ASSSGVTSTCEMQRTVLK----DGQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------------~~~~~~t~~~~~~~~~~~----~~~~~~liDtpG~~   80 (253)
                      ..++|+|+|+.++|||||+.+|+........             ....++|.........+.    .+..+++|||||+.
T Consensus         6 ~iRNi~IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~   85 (600)
T PRK05433          6 NIRNFSIIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHV   85 (600)
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcH
Confidence            3479999999999999999999764321100             012345544433333321    24679999999996


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.           ..+..++..+|++|+|+|+++.....+...+..+.. .    ..|+++|+||+|...
T Consensus        86 dF~-----------~~v~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~-~----~lpiIvViNKiDl~~  140 (600)
T PRK05433         86 DFS-----------YEVSRSLAACEGALLVVDASQGVEAQTLANVYLALE-N----DLEIIPVLNKIDLPA  140 (600)
T ss_pred             HHH-----------HHHHHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH-C----CCCEEEEEECCCCCc
Confidence            542           223344556799999999987777666544444332 1    247999999999864

>cd01882 BMS1 Bms1

Probab=99.28  E-value=9.5e-11  Score=95.71  Aligned_cols=112  Identities=20%  Similarity=0.208  Sum_probs=74.3

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++..|+++|++|+|||||+|.|++...........+.   .   .+....+.+++++||||..          ..+..
T Consensus        36 ~~~~~~i~ivG~~~~GKstl~~~l~~~~~~~~~~~~~g~---i---~i~~~~~~~i~~vDtPg~~----------~~~l~   99 (225)
T cd01882          36 EPPPLVVAVVGPPGVGKTTLIKSLVKNYTKQNISDIKGP---I---TVVTGKKRRLTFIECPNDI----------NAMID   99 (225)
T ss_pred             cCCCCEEEEECCCCCCHHHHHHHHHhhcccCcccccccc---E---EEEecCCceEEEEeCCchH----------HHHHH
Confidence            455688999999999999999999876321111111111   0   1111367889999999842          12222


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .    ...+|++++|+|++..+...+..++..+... |.   +.+++|+||+|.+.
T Consensus       100 ~----ak~aDvVllviDa~~~~~~~~~~i~~~l~~~-g~---p~vi~VvnK~D~~~  147 (225)
T cd01882         100 I----AKVADLVLLLIDASFGFEMETFEFLNILQVH-GF---PRVMGVLTHLDLFK  147 (225)
T ss_pred             H----HHhcCEEEEEEecCcCCCHHHHHHHHHHHHc-CC---CeEEEEEeccccCC
Confidence            2    2456999999999878887777777766553 32   13556999999984

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.

>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=99.28  E-value=3.6e-11  Score=97.86  Aligned_cols=124  Identities=15%  Similarity=0.152  Sum_probs=74.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+|+|+.|+||||..+.|.+...+.. ...-+.|.......+.......+.+||+||..+.....      +.......
T Consensus         1 KiLLmG~~~SGKTSi~~vIF~~~~p~d-T~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~------~~~~~~~i   73 (232)
T PF04670_consen    1 KILLMGPRRSGKTSIRSVIFHKYSPRD-TLRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENY------FNSQREEI   73 (232)
T ss_dssp             EEEEEESTTSSHHHHHHHHHS---GGG-GGG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTT------HTCCHHHH
T ss_pred             CEEEEcCCCCChhhHHHHHHcCCCchh-ccccCCcCCceEEEEecCCCcEEEEEEcCCcccccccc------ccccHHHH
Confidence            799999999999999999997754322 33345666666555554456799999999998654220      00111234


Q ss_pred             cCCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++++|||+|+. ......-..+...+..+....+...+.|++.|.|.+.
T Consensus        74 f~~v~~LIyV~D~qs~~~~~~l~~~~~~i~~l~~~sp~~~v~vfiHK~D~l~  125 (232)
T PF04670_consen   74 FSNVGVLIYVFDAQSDDYDEDLAYLSDCIEALRQYSPNIKVFVFIHKMDLLS  125 (232)
T ss_dssp             HCTESEEEEEEETT-STCHHHHHHHHHHHHHHHHHSTT-EEEEEEE-CCCS-
T ss_pred             HhccCEEEEEEEcccccHHHHHHHHHHHHHHHHHhCCCCeEEEEEeecccCC
Confidence            57778999999997 3333333333333433332234458999999999986

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.

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.27  E-value=1.7e-10  Score=101.77  Aligned_cols=121  Identities=16%  Similarity=0.208  Sum_probs=96.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+++.|-|+|+-..|||||+.+|-+..+.  ....+|+|.+...+.+....|..++|+||||+.           -+..+
T Consensus       151 ~RpPVVTiMGHVDHGKTTLLD~lRks~VA--A~E~GGITQhIGAF~V~~p~G~~iTFLDTPGHa-----------AF~aM  217 (683)
T KOG1145|consen  151 PRPPVVTIMGHVDHGKTTLLDALRKSSVA--AGEAGGITQHIGAFTVTLPSGKSITFLDTPGHA-----------AFSAM  217 (683)
T ss_pred             CCCCeEEEeecccCChhhHHHHHhhCcee--hhhcCCccceeceEEEecCCCCEEEEecCCcHH-----------HHHHH
Confidence            35689999999999999999999988773  344688999999988888889999999999983           23333


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  155 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~  155 (253)
                      -.+-....|.+++|+.+++..-++..+.++..+..     ..|++|.+||+|....+++
T Consensus       218 RaRGA~vtDIvVLVVAadDGVmpQT~EaIkhAk~A-----~VpiVvAinKiDkp~a~pe  271 (683)
T KOG1145|consen  218 RARGANVTDIVVLVVAADDGVMPQTLEAIKHAKSA-----NVPIVVAINKIDKPGANPE  271 (683)
T ss_pred             HhccCccccEEEEEEEccCCccHhHHHHHHHHHhc-----CCCEEEEEeccCCCCCCHH
Confidence            34444556999999999988888887777665553     3589999999998754444

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.27  E-value=8.3e-11  Score=104.24  Aligned_cols=120  Identities=16%  Similarity=0.238  Sum_probs=75.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc-ccCCCCccceeeeeeeeEee-------------------------CCeE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLK-------------------------DGQV   70 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-~~~~~~~~t~~~~~~~~~~~-------------------------~~~~   70 (253)
                      .+..+|+++|+.|+|||||+..|++..... ......+.|....+......                         ....
T Consensus         7 ~~~~ni~v~Gh~d~GKSTL~~~L~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   86 (411)
T PRK04000          7 QPEVNIGMVGHVDHGKTTLVQALTGVWTDRHSEELKRGITIRLGYADATIRKCPDCEEPEAYTTEPKCPNCGSETELLRR   86 (411)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHhhCeecccCHhHHhcCcEEEecccccccccccccCccccccccccccccccccccccE
Confidence            344899999999999999999997742110 11112344444332111100                         0257


Q ss_pred             EEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           71 VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        71 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      +++|||||..           .+...+......+|++++|+|++... .......+..+.. .+.   +++++|+||+|.
T Consensus        87 i~liDtPG~~-----------~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~-~~i---~~iiVVlNK~Dl  151 (411)
T PRK04000         87 VSFVDAPGHE-----------TLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDI-IGI---KNIVIVQNKIDL  151 (411)
T ss_pred             EEEEECCCHH-----------HHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHH-cCC---CcEEEEEEeecc
Confidence            8999999963           22233333335679999999998665 5555555555433 332   368999999999


Q ss_pred             CC
Q 025391          150 LE  151 (253)
Q Consensus       150 ~~  151 (253)
                      ..
T Consensus       152 ~~  153 (411)
T PRK04000        152 VS  153 (411)
T ss_pred             cc
Confidence            75

>PTZ00416 elongation factor 2; Provisional

Probab=99.24  E-value=9e-11  Score=112.31  Aligned_cols=119  Identities=19%  Similarity=0.241  Sum_probs=82.1

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--------------CCccceeeeeeeeEee---------CCeEEE
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVLK---------DGQVVN   72 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--------------~~~~t~~~~~~~~~~~---------~~~~~~   72 (253)
                      ....++|+++|+.++|||||+++|++.........              ..++|.........+.         .+..++
T Consensus        16 ~~~irni~iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~   95 (836)
T PTZ00416         16 PDQIRNMSVIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLIN   95 (836)
T ss_pred             ccCcCEEEEECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEE
Confidence            44567999999999999999999987543211111              1123333222222221         145799


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           73 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        73 liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ++||||+.++.           ..+..+...+|++|+|+|+...+...+..+++.+.+. +    .|+++++||+|..
T Consensus        96 liDtPG~~~f~-----------~~~~~al~~~D~ailVvda~~g~~~~t~~~~~~~~~~-~----~p~iv~iNK~D~~  157 (836)
T PTZ00416         96 LIDSPGHVDFS-----------SEVTAALRVTDGALVVVDCVEGVCVQTETVLRQALQE-R----IRPVLFINKVDRA  157 (836)
T ss_pred             EEcCCCHHhHH-----------HHHHHHHhcCCeEEEEEECCCCcCccHHHHHHHHHHc-C----CCEEEEEEChhhh
Confidence            99999996532           3334455677999999999988988888887776653 2    4799999999997

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.24  E-value=1.1e-10  Score=107.74  Aligned_cols=113  Identities=20%  Similarity=0.208  Sum_probs=71.6

Q ss_pred             cCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCcc
Q 025391           26 GRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIH  105 (253)
Q Consensus        26 G~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (253)
                      |.+|+|||||+|+|+|... ..+ ...+.|......... .++..+.+|||||..+.......  +.+.+... ....+|
T Consensus         1 G~pNvGKSSL~N~Ltg~~~-~v~-n~pG~Tv~~~~~~i~-~~~~~i~lvDtPG~~~~~~~s~~--e~v~~~~l-~~~~aD   74 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQ-TVG-NWPGVTVEKKEGKLG-FQGEDIEIVDLPGIYSLTTFSLE--EEVARDYL-LNEKPD   74 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCC-eec-CCCCeEEEEEEEEEE-ECCeEEEEEECCCccccCccchH--HHHHHHHH-hhcCCC
Confidence            8999999999999999864 222 233455555544444 36778999999999875432211  22222211 125789


Q ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          106 AVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++++|+|++ .+... ......+.+     ...|+++|+||+|...
T Consensus        75 vvI~VvDat-~ler~-l~l~~ql~~-----~~~PiIIVlNK~Dl~~  113 (591)
T TIGR00437        75 LVVNVVDAS-NLERN-LYLTLQLLE-----LGIPMILALNLVDEAE  113 (591)
T ss_pred             EEEEEecCC-cchhh-HHHHHHHHh-----cCCCEEEEEehhHHHH
Confidence            999999998 34322 222222222     1258999999999864

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.

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.23  E-value=1.3e-10  Score=111.33  Aligned_cols=119  Identities=18%  Similarity=0.233  Sum_probs=81.7

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--------------CCccceeeeeeeeEee---------------
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVLK---------------   66 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--------------~~~~t~~~~~~~~~~~---------------   66 (253)
                      ....++|+|+|+.++|||||+++|+..........              ..+.|.........+.               
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            44568999999999999999999986543211111              1233333333223221               


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      .+..++++||||+.++.           ..+..+...+|++|+|+|+...+......+++.+... +    .|+++++||
T Consensus        96 ~~~~inliDtPGh~dF~-----------~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~~~~-~----~p~i~~iNK  159 (843)
T PLN00116         96 NEYLINLIDSPGHVDFS-----------SEVTAALRITDGALVVVDCIEGVCVQTETVLRQALGE-R----IRPVLTVNK  159 (843)
T ss_pred             CceEEEEECCCCHHHHH-----------HHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHHHHC-C----CCEEEEEEC
Confidence            25678999999996543           2233344566999999999988888888777766553 2    478999999


Q ss_pred             CCCC
Q 025391          147 GDEL  150 (253)
Q Consensus       147 ~D~~  150 (253)
                      +|..
T Consensus       160 ~D~~  163 (843)
T PLN00116        160 MDRC  163 (843)
T ss_pred             Cccc
Confidence            9998

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.23  E-value=5.5e-11  Score=98.92  Aligned_cols=89  Identities=19%  Similarity=0.319  Sum_probs=61.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .-+|+|||.+++|||||+|.|++...   .......|+......+..+++..+.++|+||+....+.+....+++.    
T Consensus        63 da~v~lVGfPsvGKStLL~~LTnt~s---eva~y~FTTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vl----  135 (365)
T COG1163          63 DATVALVGFPSVGKSTLLNKLTNTKS---EVADYPFTTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVL----  135 (365)
T ss_pred             CeEEEEEcCCCccHHHHHHHHhCCCc---cccccCceecccccceEeecCceEEEEcCcccccCcccCCCCcceee----
Confidence            37999999999999999999999863   33344445444445555568999999999999765543332222222    


Q ss_pred             hhcCCccEEEEEEeCC
Q 025391           99 MAKDGIHAVLVVFSVR  114 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~  114 (253)
                      ...+.+|++++|+|+.
T Consensus       136 sv~R~ADlIiiVld~~  151 (365)
T COG1163         136 SVARNADLIIIVLDVF  151 (365)
T ss_pred             eeeccCCEEEEEEecC
Confidence            2335668888888843

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=99.23  E-value=3.4e-11  Score=89.83  Aligned_cols=152  Identities=16%  Similarity=0.119  Sum_probs=100.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+|+|..-+|||||+=......+.....++...........+. .....+.+|||+|..           ++-..=+
T Consensus        13 ~FK~VLLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~e-d~ra~L~IWDTAGQE-----------rfHALGP   80 (218)
T KOG0088|consen   13 KFKIVLLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVE-DCRADLHIWDTAGQE-----------RFHALGP   80 (218)
T ss_pred             eeEEEEEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccc-cceeeeeeeeccchH-----------hhhccCc
Confidence            4899999999999999987766443311111111111111111222 134578999999974           3333335


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      -++++.+++|+|+|++++-+... +.|+..++.++|..+  -.+||.||.|+-...   -+..+.|-+.-...+..++.+
T Consensus        81 IYYRgSnGalLVyDITDrdSFqKVKnWV~Elr~mlGnei--~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk  158 (218)
T KOG0088|consen   81 IYYRGSNGALLVYDITDRDSFQKVKNWVLELRTMLGNEI--ELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAK  158 (218)
T ss_pred             eEEeCCCceEEEEeccchHHHHHHHHHHHHHHHHhCCee--EEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccc
Confidence            67889999999999997777665 777888888888774  688999999986421   234556666545556666666


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ....+.++|+
T Consensus       159 ~N~Gi~elFe  168 (218)
T KOG0088|consen  159 DNVGISELFE  168 (218)
T ss_pred             cccCHHHHHH
Confidence            6666666665

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.22  E-value=2.9e-10  Score=100.49  Aligned_cols=120  Identities=17%  Similarity=0.213  Sum_probs=94.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee--CCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +++.|.++|+-..|||||+..|-+..+  .....+++|.+...+.++..  ....++|+||||+..           +..
T Consensus         4 R~PvVtimGHVDHGKTtLLD~IR~t~V--a~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeA-----------Ft~   70 (509)
T COG0532           4 RPPVVTIMGHVDHGKTTLLDKIRKTNV--AAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEA-----------FTA   70 (509)
T ss_pred             CCCEEEEeCcccCCccchhhhHhcCcc--ccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHH-----------HHH
Confidence            457999999999999999999998887  44456889999999888865  347999999999842           222


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChh
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  155 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~  155 (253)
                      +-..-..-.|.++||+++++.+-++..+.++.++.. +    .|++|.+||+|....++.
T Consensus        71 mRaRGa~vtDIaILVVa~dDGv~pQTiEAI~hak~a-~----vP~iVAiNKiDk~~~np~  125 (509)
T COG0532          71 MRARGASVTDIAILVVAADDGVMPQTIEAINHAKAA-G----VPIVVAINKIDKPEANPD  125 (509)
T ss_pred             HHhcCCccccEEEEEEEccCCcchhHHHHHHHHHHC-C----CCEEEEEecccCCCCCHH
Confidence            222222344899999999999999998888777664 3    489999999999965443

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.22  E-value=5.5e-11  Score=112.30  Aligned_cols=119  Identities=18%  Similarity=0.235  Sum_probs=77.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc----------ccC----CCCccceeeeeee---eEeeCCeEEEEEeCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK----------SRA----SSSGVTSTCEMQR---TVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~----------~~~----~~~~~t~~~~~~~---~~~~~~~~~~liDtpG~   79 (253)
                      ...++|+++|+.|+|||||++.|+......          ...    ...+.|.......   ...+.+..+++|||||+
T Consensus        17 ~~irnI~ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~   96 (720)
T TIGR00490        17 KFIRNIGIVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGH   96 (720)
T ss_pred             ccccEEEEEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCc
Confidence            345899999999999999999987431100          000    0123333332211   11245678999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++.           ..+..++..+|++|+|+|+.......+...++.+.+. +    .|.++++||+|...
T Consensus        97 ~~f~-----------~~~~~al~~aD~~llVvda~~g~~~~t~~~~~~~~~~-~----~p~ivviNKiD~~~  152 (720)
T TIGR00490        97 VDFG-----------GDVTRAMRAVDGAIVVVCAVEGVMPQTETVLRQALKE-N----VKPVLFINKVDRLI  152 (720)
T ss_pred             cccH-----------HHHHHHHHhcCEEEEEEecCCCCCccHHHHHHHHHHc-C----CCEEEEEEChhccc
Confidence            7743           1223344566999999999877777766666554332 2    36789999999973

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.

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=99.19  E-value=8e-10  Score=90.09  Aligned_cols=128  Identities=18%  Similarity=0.210  Sum_probs=77.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC---ccceeeeeeeeEeeC-CeEEEEEeCCCCCCCCCCcHH---H
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS---GVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEF---V   89 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~---~~t~~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~---~   89 (253)
                      +-.++|+-||.+|.|||||+++|++...- ..+.+.   ++......+.....+ ...++++||.|+.|.-.-.+.   +
T Consensus        40 GF~FNilCvGETg~GKsTLmdtLFNt~f~-~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvGfGDQinK~~Syk~i  118 (406)
T KOG3859|consen   40 GFCFNILCVGETGLGKSTLMDTLFNTKFE-SEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVGFGDQINKEDSYKPI  118 (406)
T ss_pred             CceEEEEEeccCCccHHHHHHHHhccccC-CCCCccCCCCceeecchhhhhhcCeeEEEEEEeecccccccCcccccchH
Confidence            34589999999999999999999987642 222211   112222222111111 247899999999864322211   1


Q ss_pred             HH--------------HHHHHH-HhhcCCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GK--------------EIVKCI-GMAKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~--------------~~~~~~-~~~~~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..              .+.+++ ..-..++|++||.+.++ +.+-..+..+++.+...      .++|.|+.|+|...
T Consensus       119 VdyidaQFEaYLQEELKi~Rsl~~~hDsRiH~CLYFI~PTGH~LKslDLvtmk~Ldsk------VNIIPvIAKaDtis  190 (406)
T KOG3859|consen  119 VDYIDAQFEAYLQEELKIRRSLFTYHDSRIHVCLYFISPTGHSLKSLDLVTMKKLDSK------VNIIPVIAKADTIS  190 (406)
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHhccCceEEEEEEecCCCcchhHHHHHHHHHHhhh------hhhHHHHHHhhhhh
Confidence            11              112222 12236789999999886 34555566566555443      37899999999876

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.17  E-value=2e-10  Score=84.18  Aligned_cols=128  Identities=15%  Similarity=0.128  Sum_probs=88.3

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      -+++.+..||+++|--++|||||++.|.+.++.+..+..+..     ...+.+.....+++||..|.           +.
T Consensus        11 ks~t~rEirilllGldnAGKTT~LKqL~sED~~hltpT~GFn-----~k~v~~~g~f~LnvwDiGGq-----------r~   74 (185)
T KOG0074|consen   11 KSRTRREIRILLLGLDNAGKTTFLKQLKSEDPRHLTPTNGFN-----TKKVEYDGTFHLNVWDIGGQ-----------RG   74 (185)
T ss_pred             cCCCcceEEEEEEecCCCcchhHHHHHccCChhhccccCCcc-----eEEEeecCcEEEEEEecCCc-----------cc
Confidence            466778899999999999999999999998764443322222     23344445578999999987           45


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHH--HHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHH
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQE--EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDY  160 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~--~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~  160 (253)
                      ++-.++.++...|.+|||+|.++.-..+  ...+.+.+...  .-...|++|..||-|.+.  ....++.
T Consensus        75 IRpyWsNYyenvd~lIyVIDS~D~krfeE~~~el~ELleee--Kl~~vpvlIfankQdllt--aa~~eei  140 (185)
T KOG0074|consen   75 IRPYWSNYYENVDGLIYVIDSTDEKRFEEISEELVELLEEE--KLAEVPVLIFANKQDLLT--AAKVEEI  140 (185)
T ss_pred             cchhhhhhhhccceEEEEEeCCchHhHHHHHHHHHHHhhhh--hhhccceeehhhhhHHHh--hcchHHH
Confidence            6678889999999999999976432222  24444443332  113458888899999886  4444443

>PTZ00258 GTP-binding protein; Provisional

Probab=99.16  E-value=3.5e-10  Score=98.58  Aligned_cols=92  Identities=18%  Similarity=0.199  Sum_probs=60.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC----------------CeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~liDtpG~~   80 (253)
                      ....+|+|||.+++|||||+|+|++......  ...++|.......+...+                +..+.++||||+.
T Consensus        19 ~~~~kvgIVG~PNvGKSTLfnaLt~~~~~v~--n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv   96 (390)
T PTZ00258         19 GNNLKMGIVGLPNVGKSTTFNALCKQQVPAE--NFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLV   96 (390)
T ss_pred             CCCcEEEEECCCCCChHHHHHHHhcCccccc--CCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcC
Confidence            4457999999999999999999998764221  123344444444443221                2248999999998


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      ...+..+.+...+...+    ..+|++++|++..
T Consensus        97 ~ga~~g~gLg~~fL~~I----r~aD~il~VVd~f  126 (390)
T PTZ00258         97 KGASEGEGLGNAFLSHI----RAVDGIYHVVRAF  126 (390)
T ss_pred             cCCcchhHHHHHHHHHH----HHCCEEEEEEeCC
Confidence            65443444444444433    4569999999973

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.16  E-value=1e-10  Score=89.04  Aligned_cols=120  Identities=21%  Similarity=0.121  Sum_probs=79.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+++|+|..++||||++.+.+............++.....-..+. ....++.+|||.|.           +++...
T Consensus        18 e~aiK~vivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~-~Edvr~mlWdtagq-----------eEfDaI   85 (246)
T KOG4252|consen   18 ERAIKFVIVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVL-IEDVRSMLWDTAGQ-----------EEFDAI   85 (246)
T ss_pred             hhhEEEEEECCCccchHHHHHHHhccccccccccccchhhhhHHHHhh-HHHHHHHHHHhccc-----------hhHHHH
Confidence            455899999999999999999998543311111122222111111111 13446778999997           445566


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+++|+.+.++|++.+++.+.+. ..+-+.+.+..+   ..|+++|-||+|+++
T Consensus        86 tkAyyrgaqa~vLVFSTTDr~SFea~~~w~~kv~~e~~---~IPtV~vqNKIDlve  138 (246)
T KOG4252|consen   86 TKAYYRGAQASVLVFSTTDRYSFEATLEWYNKVQKETE---RIPTVFVQNKIDLVE  138 (246)
T ss_pred             HHHHhccccceEEEEecccHHHHHHHHHHHHHHHHHhc---cCCeEEeeccchhhH
Confidence            6788899999999999988877665 333333443333   469999999999997

>cd01900 YchF YchF subfamily

Probab=99.16  E-value=2.5e-10  Score=95.31  Aligned_cols=87  Identities=20%  Similarity=0.187  Sum_probs=56.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC----------------eEEEEEeCCCCCCCCCC
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~liDtpG~~~~~~~   85 (253)
                      |+|||.+++|||||+|+|++..... + ...++|.......+...+.                ..+.++|+||+....+.
T Consensus         1 igivG~PN~GKSTLfn~Lt~~~~~~-~-n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~   78 (274)
T cd01900           1 IGIVGLPNVGKSTLFNALTKAGAEA-A-NYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASK   78 (274)
T ss_pred             CeEeCCCCCcHHHHHHHHhCCCCcc-c-cccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCch
Confidence            6899999999999999999987622 1 1233443444433332221                14899999999865544


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      ++.+...+...+    ..+|++++|++..
T Consensus        79 ~~glg~~fL~~i----~~~D~li~VV~~f  103 (274)
T cd01900          79 GEGLGNKFLSHI----REVDAIAHVVRCF  103 (274)
T ss_pred             hhHHHHHHHHHH----HhCCEEEEEEeCc
Confidence            444444444333    4569999999863

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.16  E-value=6.2e-10  Score=99.47  Aligned_cols=120  Identities=13%  Similarity=0.187  Sum_probs=75.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeeeeee---------------Ee---------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRT---------------VL---------------   65 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-~~~~~~t~~~~~~~~---------------~~---------------   65 (253)
                      .+..+|+++|+-.+|||||+.+|+|....... ....+.|....+...               .+               
T Consensus        32 ~~~~~ig~~GHVDhGKTtLv~aLtg~~~~r~~~E~~rGiTi~lGfa~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  111 (460)
T PTZ00327         32 QATINIGTIGHVAHGKSTVVKALSGVKTVRFKREKVRNITIKLGYANAKIYKCPKCPRPTCYQSYGSSKPDNPPCPGCGH  111 (460)
T ss_pred             CCcEEEEEEccCCCCHHHHHHHHhCCCcccchhhHHhCCchhccccccccccCcccCCcccccccCCCcccccccccccc
Confidence            45689999999999999999999986542111 111233322211110               00               


Q ss_pred             --eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-CCHHHHHHHHHHHHHhcccccCeEEE
Q 025391           66 --KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FSQEEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        66 --~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-~~~~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                        .-...+.++||||+.           .+.+.+......+|++++|++++.. ..+..+..+..+ ..+|-   ++++|
T Consensus       112 ~~~~~~~i~~IDtPGH~-----------~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~-~~lgi---~~iIV  176 (460)
T PTZ00327        112 KMTLKRHVSFVDCPGHD-----------ILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAV-EIMKL---KHIII  176 (460)
T ss_pred             cccccceEeeeeCCCHH-----------HHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHH-HHcCC---CcEEE
Confidence              002478999999963           3333333344677999999999864 455555555433 34453   37899


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      ++||+|...
T Consensus       177 vlNKiDlv~  185 (460)
T PTZ00327        177 LQNKIDLVK  185 (460)
T ss_pred             EEecccccC
Confidence            999999975

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.15  E-value=4.8e-10  Score=104.18  Aligned_cols=120  Identities=23%  Similarity=0.302  Sum_probs=90.4

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc---CC-------------CCccceeeeeeeeEeeCC-eEEEEEeCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSR---AS-------------SSGVTSTCEMQRTVLKDG-QVVNVIDTPG   78 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~---~~-------------~~~~t~~~~~~~~~~~~~-~~~~liDtpG   78 (253)
                      ....++|+|+|+.++|||||..+|+-.......   ..             ..++|......+.. +.+ ..+++|||||
T Consensus         7 ~~~~RNigI~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~-~~~~~~iNlIDTPG   85 (697)
T COG0480           7 LERIRNIGIVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLF-WKGDYRINLIDTPG   85 (697)
T ss_pred             cccceEEEEEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEE-EcCceEEEEeCCCC
Confidence            345589999999999999999998755432221   11             13566666666665 475 9999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           79 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      +.|+.       .+..+.+..+    |++++|+|+.....+....+++...+. +    .|.++++||.|.+..
T Consensus        86 HVDFt-------~EV~rslrvl----DgavvVvdaveGV~~QTEtv~rqa~~~-~----vp~i~fiNKmDR~~a  143 (697)
T COG0480          86 HVDFT-------IEVERSLRVL----DGAVVVVDAVEGVEPQTETVWRQADKY-G----VPRILFVNKMDRLGA  143 (697)
T ss_pred             ccccH-------HHHHHHHHhh----cceEEEEECCCCeeecHHHHHHHHhhc-C----CCeEEEEECcccccc
Confidence            99987       3444555444    899999999989999988888877764 2    489999999999853

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.15  E-value=3.6e-10  Score=90.10  Aligned_cols=119  Identities=23%  Similarity=0.195  Sum_probs=79.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|.+|+|||+|...+++......- .+...........+. .....+.++||+|..++           ..+..
T Consensus         3 ~~kvvvlG~~gVGKSal~~qf~~~~f~~~y-~ptied~y~k~~~v~-~~~~~l~ilDt~g~~~~-----------~~~~~   69 (196)
T KOG0395|consen    3 EYKVVVLGAGGVGKSALTIQFLTGRFVEDY-DPTIEDSYRKELTVD-GEVCMLEILDTAGQEEF-----------SAMRD   69 (196)
T ss_pred             ceEEEEECCCCCCcchheeeeccccccccc-CCCccccceEEEEEC-CEEEEEEEEcCCCcccC-----------hHHHH
Confidence            479999999999999999888876653322 221112222222222 23346779999995433           34445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+....|++++|++++++.+... ..+.+.+.+..+.. ..|+++|.||+|+..
T Consensus        70 ~~~~~~~gF~lVysitd~~SF~~~~~l~~~I~r~~~~~-~~PivlVGNK~Dl~~  122 (196)
T KOG0395|consen   70 LYIRNGDGFLLVYSITDRSSFEEAKQLREQILRVKGRD-DVPIILVGNKCDLER  122 (196)
T ss_pred             HhhccCcEEEEEEECCCHHHHHHHHHHHHHHHHhhCcC-CCCEEEEEEcccchh
Confidence            66677799999999998888777 44445554443322 369999999999975

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.14  E-value=4.4e-10  Score=96.92  Aligned_cols=89  Identities=19%  Similarity=0.176  Sum_probs=58.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC----------------eEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~liDtpG~~~~~   83 (253)
                      .+|+|||.+++|||||+|+|++.... .. ...++|.......+...+.                ..+.++|+||+....
T Consensus         3 ~~vgIVG~PNvGKSTLfnaLt~~~~~-v~-nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a   80 (364)
T PRK09601          3 LKCGIVGLPNVGKSTLFNALTKAGAE-AA-NYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGA   80 (364)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCe-ec-ccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCC
Confidence            68999999999999999999998732 11 1223444444333332221                258999999998644


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      +..+.+...+...+    ..+|++++|+++.
T Consensus        81 ~~g~glg~~fL~~i----~~aD~li~VVd~f  107 (364)
T PRK09601         81 SKGEGLGNQFLANI----REVDAIVHVVRCF  107 (364)
T ss_pred             ChHHHHHHHHHHHH----HhCCEEEEEEeCC
Confidence            43333334443333    4669999999974

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=99.12  E-value=2.9e-09  Score=86.82  Aligned_cols=109  Identities=19%  Similarity=0.117  Sum_probs=67.6

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC-CCccccCCCCccceeeeeeeeEee--CCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR-RAFKSRASSSGVTSTCEMQRTVLK--DGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~-~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      ..+...|+++|+.++|||||+|.|+|. ..|..+......|.....+..+..  .+..+.++||||+.+...+.......
T Consensus         4 ~~~v~vvsv~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~   83 (224)
T cd01851           4 GFPVAVVSVFGPQSSGKSFLLNHLFGTLSGFDVMDTSQQTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDAR   83 (224)
T ss_pred             CCCEEEEEEECCCCCCHHHHHHHHhCCCCCeEecCCCCCCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhH
Confidence            345578999999999999999999998 355555544555665555544432  35789999999999876544111122


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHH
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQ  129 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~  129 (253)
                      +......   -.+++||..+..  ....+...+..+.
T Consensus        84 ~~~l~~l---lss~~i~n~~~~--~~~~~~~~l~~~~  115 (224)
T cd01851          84 LFALATL---LSSVLIYNSWET--ILGDDLAALMGLL  115 (224)
T ss_pred             HHHHHHH---HhCEEEEeccCc--ccHHHHHHHHHHH
Confidence            2222111   126788777653  4444444444443

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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.12  E-value=7.9e-10  Score=98.86  Aligned_cols=117  Identities=17%  Similarity=0.221  Sum_probs=77.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc-----------------------------ccCCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK-----------------------------SRASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-----------------------------~~~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|+.++|||||+-.|+......                             ......+.|.......+. ..+
T Consensus         6 ~~~ni~i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~-~~~   84 (447)
T PLN00043          6 VHINIVVIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFE-TTK   84 (447)
T ss_pred             ceEEEEEEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEec-CCC
Confidence            44899999999999999998876322100                             001123566666655554 367


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-CC------HHHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-FS------QEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-~~------~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..++++||||+.           .+.......+..+|++|+|+|++.. +.      ...+..+..+.. +|-   ++++
T Consensus        85 ~~i~liDtPGh~-----------df~~~~~~g~~~aD~aIlVVda~~G~~e~g~~~~~qT~eh~~~~~~-~gi---~~iI  149 (447)
T PLN00043         85 YYCTVIDAPGHR-----------DFIKNMITGTSQADCAVLIIDSTTGGFEAGISKDGQTREHALLAFT-LGV---KQMI  149 (447)
T ss_pred             EEEEEEECCCHH-----------HHHHHHHhhhhhccEEEEEEEcccCceecccCCCchHHHHHHHHHH-cCC---CcEE
Confidence            899999999984           3444444555788999999999753 21      233444433322 343   3688


Q ss_pred             EEEeCCCCC
Q 025391          142 VVFTGGDEL  150 (253)
Q Consensus       142 vv~~k~D~~  150 (253)
                      |++||+|..
T Consensus       150 V~vNKmD~~  158 (447)
T PLN00043        150 CCCNKMDAT  158 (447)
T ss_pred             EEEEcccCC
Confidence            899999975

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.11  E-value=1.1e-09  Score=94.83  Aligned_cols=128  Identities=17%  Similarity=0.207  Sum_probs=80.7

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCc---cceeeee---eeeEeeCC----eEE
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA--------------SSSG---VTSTCEM---QRTVLKDG----QVV   71 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~--------------~~~~---~t~~~~~---~~~~~~~~----~~~   71 (253)
                      ++....|+++|+.++|||||+|++++..+.+.-.              +..|   .|+...+   ..+...-.    ..+
T Consensus        14 T~G~IyIGvvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~V   93 (492)
T TIGR02836        14 TQGDIYIGVVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKV   93 (492)
T ss_pred             hCCcEEEEEEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccE
Confidence            3455899999999999999999999993221111              1223   4444444   22222222    578


Q ss_pred             EEEeCCCCCCCCCCcHHHHHH----------------------HHHHHHhhcCCccEEEEEE-eCC------CCCCHHHH
Q 025391           72 NVIDTPGLFDFSAGSEFVGKE----------------------IVKCIGMAKDGIHAVLVVF-SVR------SRFSQEEE  122 (253)
Q Consensus        72 ~liDtpG~~~~~~~~~~~~~~----------------------~~~~~~~~~~~~~~~l~v~-d~~------~~~~~~~~  122 (253)
                      .++||+|+.+.+.-+..-...                      .++.+.   .+.+..|+|. |.+      ......+.
T Consensus        94 rlIDcvG~~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~---dhstIgivVtTDgsi~dI~Re~y~~aEe  170 (492)
T TIGR02836        94 RLVDCVGYTVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQ---EHSTIGVVVTTDGTITDIPREDYVEAEE  170 (492)
T ss_pred             EEEECCCcccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHH---hcCcEEEEEEcCCCccccccccchHHHH
Confidence            999999998765333211111                      122222   3557888887 653      35666677


Q ss_pred             HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          123 AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       123 ~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+++.+++. +    +|+++|+|+.|-..
T Consensus       171 ~~i~eLk~~-~----kPfiivlN~~dp~~  194 (492)
T TIGR02836       171 RVIEELKEL-N----KPFIILLNSTHPYH  194 (492)
T ss_pred             HHHHHHHhc-C----CCEEEEEECcCCCC
Confidence            788887775 3    58999999999553

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.

>KOG1532 consensus GTPase XAB1, interacts with DNA repair protein XPA [Replication, recombination and repair]

Probab=99.10  E-value=9.4e-10  Score=89.62  Aligned_cols=28  Identities=18%  Similarity=0.307  Sum_probs=23.2

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...++..|+++|..|+|||||+..|...
T Consensus        15 ~~~~p~~ilVvGMAGSGKTTF~QrL~~h   42 (366)
T KOG1532|consen   15 AIQRPVIILVVGMAGSGKTTFMQRLNSH   42 (366)
T ss_pred             cccCCcEEEEEecCCCCchhHHHHHHHH
Confidence            3455678999999999999999988654

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.10  E-value=1.7e-10  Score=109.17  Aligned_cols=119  Identities=19%  Similarity=0.275  Sum_probs=78.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--------------CCccceeeeeeeeEe---eCCeEEEEEeCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--------------SSGVTSTCEMQRTVL---KDGQVVNVIDTPG   78 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--------------~~~~t~~~~~~~~~~---~~~~~~~liDtpG   78 (253)
                      ....++|+++|+.++|||||+.+|+..........              ..+.|.........+   ..+..++++||||
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            34557899999999999999999975432111100              112333333222221   1356789999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           79 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +.++.           ..+..+...+|++|+|+|+...........++...+. +    .|.++++||+|..
T Consensus        97 ~~df~-----------~~~~~~l~~~D~avlVvda~~g~~~~t~~~~~~~~~~-~----~~~iv~iNK~D~~  152 (731)
T PRK07560         97 HVDFG-----------GDVTRAMRAVDGAIVVVDAVEGVMPQTETVLRQALRE-R----VKPVLFINKVDRL  152 (731)
T ss_pred             ccChH-----------HHHHHHHHhcCEEEEEEECCCCCCccHHHHHHHHHHc-C----CCeEEEEECchhh
Confidence            98742           2333344566999999999878887777777765443 3    2578999999987

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.10  E-value=4.4e-09  Score=77.14  Aligned_cols=128  Identities=16%  Similarity=0.205  Sum_probs=87.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+.+|-.++||||++-.|.-...     ...-.|+-.....+.+ ++..+++||..|.           ..++..
T Consensus        15 ~KE~~ilmlGLd~aGKTtiLyKLkl~~~-----~~~ipTvGFnvetVty-kN~kfNvwdvGGq-----------d~iRpl   77 (180)
T KOG0071|consen   15 NKEMRILMLGLDAAGKTTILYKLKLGQS-----VTTIPTVGFNVETVTY-KNVKFNVWDVGGQ-----------DKIRPL   77 (180)
T ss_pred             cccceEEEEecccCCceehhhHHhcCCC-----cccccccceeEEEEEe-eeeEEeeeeccCc-----------hhhhHH
Confidence            3468999999999999999977753321     1222233334444553 7889999999987           457788


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCCC-ChhhHHHHHcc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELED-NDETLEDYLGR  163 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~-~~~~~~~~~~~  163 (253)
                      ++.++++..++|||+|..++ +..+.+. +.+....+.+  ...+++|+.||-|.... .++.+.+|++.
T Consensus        78 WrhYy~gtqglIFV~Dsa~~-dr~eeAr-~ELh~ii~~~em~~~~~LvlANkQDlp~A~~pqei~d~leL  145 (180)
T KOG0071|consen   78 WRHYYTGTQGLIFVVDSADR-DRIEEAR-NELHRIINDREMRDAIILILANKQDLPDAMKPQEIQDKLEL  145 (180)
T ss_pred             HHhhccCCceEEEEEeccch-hhHHHHH-HHHHHHhCCHhhhcceEEEEecCcccccccCHHHHHHHhcc
Confidence            88999999999999998655 3333222 2333444433  22477888999998642 26778888874

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.06  E-value=1.5e-09  Score=95.88  Aligned_cols=126  Identities=22%  Similarity=0.315  Sum_probs=89.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC-------------CCCccceeeeeeeeEeeC--CeEEEEEeCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA-------------SSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFD   81 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-------------~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~   81 (253)
                      ++.+++.||.+-..|||||..+|+....+....             ...|+|......++.+.+  ...+++|||||+.|
T Consensus        58 ~~iRNfsIIAHVDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvD  137 (650)
T KOG0462|consen   58 ENIRNFSIIAHVDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVD  137 (650)
T ss_pred             hhccceEEEEEecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCccc
Confidence            556889999999999999999987665421110             134788877777766533  26899999999999


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHH
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  158 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~  158 (253)
                      ++       .+..+.+..|    +++|+|+|+....-.+....+-...+ +|    -.+|+|+||+|.-..+...++
T Consensus       138 Fs-------~EVsRslaac----~G~lLvVDA~qGvqAQT~anf~lAfe-~~----L~iIpVlNKIDlp~adpe~V~  198 (650)
T KOG0462|consen  138 FS-------GEVSRSLAAC----DGALLVVDASQGVQAQTVANFYLAFE-AG----LAIIPVLNKIDLPSADPERVE  198 (650)
T ss_pred             cc-------ceehehhhhc----CceEEEEEcCcCchHHHHHHHHHHHH-cC----CeEEEeeeccCCCCCCHHHHH
Confidence            88       3444666666    79999999987877776544432222 12    258999999999876554443

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.06  E-value=2.3e-09  Score=78.61  Aligned_cols=120  Identities=14%  Similarity=0.167  Sum_probs=79.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++..|+|.-|+|||.|+..++.......-+...++..-..+..+. ....++.+|||+|.           ++++....
T Consensus        11 ifkyiiigdmgvgkscllhqftekkfmadcphtigvefgtriievs-gqkiklqiwdtagq-----------erfravtr   78 (215)
T KOG0097|consen   11 IFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-GQKIKLQIWDTAGQ-----------ERFRAVTR   78 (215)
T ss_pred             eEEEEEEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEec-CcEEEEEEeecccH-----------HHHHHHHH
Confidence            4789999999999999999988766533333333333333332222 12457889999997           67778888


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      .+++++.+.|+|.|++.+.+... ..|+.-.+.+-  .+...++++.||.|+-..
T Consensus        79 syyrgaagalmvyditrrstynhlsswl~dar~lt--npnt~i~lignkadle~q  131 (215)
T KOG0097|consen   79 SYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLT--NPNTVIFLIGNKADLESQ  131 (215)
T ss_pred             HHhccccceeEEEEehhhhhhhhHHHHHhhhhccC--CCceEEEEecchhhhhhc
Confidence            89999999999999985554433 22332222221  122356778999998653

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.05  E-value=4.8e-10  Score=88.15  Aligned_cols=115  Identities=21%  Similarity=0.130  Sum_probs=80.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee---CCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK---DGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~---~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..+++|||..++|||+|+-+.+... |+....+   |..-++......   ....+.+|||.|..+..           +
T Consensus         4 ~~K~VvVGDga~GKT~ll~~~t~~~-fp~~yvP---TVFdnys~~v~V~dg~~v~L~LwDTAGqedYD-----------r   68 (198)
T KOG0393|consen    4 RIKCVVVGDGAVGKTCLLISYTTNA-FPEEYVP---TVFDNYSANVTVDDGKPVELGLWDTAGQEDYD-----------R   68 (198)
T ss_pred             eeEEEEECCCCcCceEEEEEeccCc-CcccccC---eEEccceEEEEecCCCEEEEeeeecCCCcccc-----------c
Confidence            3799999999999999998876553 3333222   333233222222   23467899999998753           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .-..+++..|+||+++++.++.+.++  ..++-.+....   ...|+|+|.+|.|+..
T Consensus        69 lRplsY~~tdvfl~cfsv~~p~S~~nv~~kW~pEi~~~c---p~vpiiLVGtk~DLr~  123 (198)
T KOG0393|consen   69 LRPLSYPQTDVFLLCFSVVSPESFENVKSKWIPEIKHHC---PNVPIILVGTKADLRD  123 (198)
T ss_pred             ccccCCCCCCEEEEEEEcCChhhHHHHHhhhhHHHHhhC---CCCCEEEEeehHHhhh
Confidence            22458899999999999987777665  55566666654   3469999999999985

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.04  E-value=5.1e-09  Score=90.05  Aligned_cols=129  Identities=20%  Similarity=0.243  Sum_probs=84.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc-----------------------------cCCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +-.+++++|+..+|||||+-.|+-......                             .....+.|.......++. +.
T Consensus         6 ph~nl~~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet-~k   84 (428)
T COG5256           6 PHLNLVFIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFET-DK   84 (428)
T ss_pred             CceEEEEEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeec-CC
Confidence            448999999999999999987764432000                             011236677766666664 55


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..++++|+||.-|           +..-...-+..+|+.+||+++...       .....+..+ .|...+|-   ...|
T Consensus        85 ~~~tIiDaPGHrd-----------FvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~-~La~tlGi---~~lI  149 (428)
T COG5256          85 YNFTIIDAPGHRD-----------FVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHA-FLARTLGI---KQLI  149 (428)
T ss_pred             ceEEEeeCCchHH-----------HHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHH-HHHHhcCC---ceEE
Confidence            6899999999633           222222233677999999999755       444555554 34455664   4799


Q ss_pred             EEEeCCCCCCCChhhHHHHHc
Q 025391          142 VVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       142 vv~~k~D~~~~~~~~~~~~~~  162 (253)
                      |++||+|...-+...+++..+
T Consensus       150 VavNKMD~v~wde~rf~ei~~  170 (428)
T COG5256         150 VAVNKMDLVSWDEERFEEIVS  170 (428)
T ss_pred             EEEEcccccccCHHHHHHHHH
Confidence            999999998633444444443

>PRK12740 elongation factor G; Reviewed

Probab=99.03  E-value=3.9e-09  Score=99.40  Aligned_cols=110  Identities=24%  Similarity=0.316  Sum_probs=74.2

Q ss_pred             EcCCCCCHHHHHHHHhCCCCcccc---C-------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHH
Q 025391           25 VGRTGNGKSATGNSILGRRAFKSR---A-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   88 (253)
Q Consensus        25 vG~~g~GKSTl~n~l~g~~~~~~~---~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~   88 (253)
                      +|+.|+|||||++.|+........   .             ...++|......... +.+..+++|||||..++.     
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~-~~~~~i~liDtPG~~~~~-----   74 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCE-WKGHKINLIDTPGHVDFT-----   74 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEE-ECCEEEEEEECCCcHHHH-----
Confidence            699999999999999654321111   0             013445555445454 478899999999985421     


Q ss_pred             HHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           89 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                            .....++..+|++++|+|++..........+..+... +    .|+++|+||+|...
T Consensus        75 ------~~~~~~l~~aD~vllvvd~~~~~~~~~~~~~~~~~~~-~----~p~iiv~NK~D~~~  126 (668)
T PRK12740         75 ------GEVERALRVLDGAVVVVCAVGGVEPQTETVWRQAEKY-G----VPRIIFVNKMDRAG  126 (668)
T ss_pred             ------HHHHHHHHHhCeEEEEEeCCCCcCHHHHHHHHHHHHc-C----CCEEEEEECCCCCC
Confidence                  2222334567999999999877777766666655442 2    47899999999875

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.03  E-value=4.3e-10  Score=84.05  Aligned_cols=119  Identities=15%  Similarity=0.080  Sum_probs=73.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe----eC----CeEEEEEeCCCCCCCCCCcHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL----KD----GQVVNVIDTPGLFDFSAGSEFVGK   91 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~----~~----~~~~~liDtpG~~~~~~~~~~~~~   91 (253)
                      .+.+.+|.+|+||||++-..+.......-..+.++...........    ..    ...+.+|||+|.           +
T Consensus        10 ikfLaLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQ-----------E   78 (219)
T KOG0081|consen   10 IKFLALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQ-----------E   78 (219)
T ss_pred             HHHHhhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccH-----------H
Confidence            4677889999999999877665433111111112221111111110    01    125779999997           5


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHH-hcccccCeEEEEEeCCCCCC
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTL-FGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~-~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +++......++.+-+||+++|+++.-+... +.|+..++.. +-+  .+-++++.||+|+..
T Consensus        79 RFRSLTTAFfRDAMGFlLiFDlT~eqSFLnvrnWlSQL~~hAYcE--~PDivlcGNK~DL~~  138 (219)
T KOG0081|consen   79 RFRSLTTAFFRDAMGFLLIFDLTSEQSFLNVRNWLSQLQTHAYCE--NPDIVLCGNKADLED  138 (219)
T ss_pred             HHHHHHHHHHHhhccceEEEeccchHHHHHHHHHHHHHHHhhccC--CCCEEEEcCccchhh
Confidence            566666666777789999999997666555 5555555432 222  246889999999974

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.02  E-value=3.2e-09  Score=93.41  Aligned_cols=89  Identities=19%  Similarity=0.115  Sum_probs=55.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe--------------------e---CCeEEEEEeC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--------------------K---DGQVVNVIDT   76 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~--------------------~---~~~~~~liDt   76 (253)
                      .+|+|||.+++|||||+|+|++......  .....|..+.......                    .   ....+.++||
T Consensus         2 ~kigivG~pnvGKSTlfn~Lt~~~~~~~--~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~   79 (396)
T PRK09602          2 ITIGLVGKPNVGKSTFFNAATLADVEIA--NYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDV   79 (396)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCccccc--CCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEc
Confidence            5899999999999999999998764221  1122333333322110                    1   1245789999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      ||+.........+...+...+    ..+|++++|++..
T Consensus        80 aGl~~ga~~g~glg~~fL~~i----r~ad~ll~Vvd~~  113 (396)
T PRK09602         80 AGLVPGAHEGRGLGNQFLDDL----RQADALIHVVDAS  113 (396)
T ss_pred             CCcCCCccchhhHHHHHHHHH----HHCCEEEEEEeCC
Confidence            999754433333333443333    4559999999985

>cd01858 NGP_1 NGP-1

Probab=99.02  E-value=7.9e-10  Score=85.22  Aligned_cols=57  Identities=23%  Similarity=0.311  Sum_probs=41.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ...+|+++|.+|+|||||+|+|+|......+..+ +.|.......    .+..+.++||||+
T Consensus       101 ~~~~v~~~G~~nvGKStliN~l~~~~~~~~~~~~-g~T~~~~~~~----~~~~~~liDtPGi  157 (157)
T cd01858         101 KQISVGFIGYPNVGKSSIINTLRSKKVCKVAPIP-GETKVWQYIT----LMKRIYLIDCPGV  157 (157)
T ss_pred             cceEEEEEeCCCCChHHHHHHHhcCCceeeCCCC-CeeEeEEEEE----cCCCEEEEECcCC
Confidence            3478999999999999999999998765555433 3344333222    2345899999995

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.

>COG0488 Uup ATPase components of ABC transporters with duplicated ATPase domains [General function prediction only]

Probab=99.01  E-value=4.9e-10  Score=101.51  Aligned_cols=135  Identities=16%  Similarity=0.094  Sum_probs=83.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC-CeEEEEEeC-----CCCC----------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDT-----PGLF----------   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~liDt-----pG~~----------   80 (253)
                      .+.-||+|+|+||+|||||++.|+|...+..+....+.+....++...... ...-+++|.     |+..          
T Consensus       346 ~~g~riaiiG~NG~GKSTLlk~l~g~~~~~~G~v~~g~~v~igyf~Q~~~~l~~~~t~~d~l~~~~~~~~e~~~r~~L~~  425 (530)
T COG0488         346 DRGDRIAIVGPNGAGKSTLLKLLAGELGPLSGTVKVGETVKIGYFDQHRDELDPDKTVLEELSEGFPDGDEQEVRAYLGR  425 (530)
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHhhhcccCCceEEeCCceEEEEEEehhhhcCccCcHHHHHHhhCccccHHHHHHHHHH
Confidence            345799999999999999999999987766555455555555554443211 011122222     1110          


Q ss_pred             -CC-----------CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           81 -DF-----------SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        81 -~~-----------~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                       .+           -+++++.    +-.+....-.+.-+|++++||++++......++.....|.     .++|++||+.
T Consensus       426 f~F~~~~~~~~v~~LSGGEk~----Rl~La~ll~~~pNvLiLDEPTNhLDi~s~~aLe~aL~~f~-----Gtvl~VSHDr  496 (530)
T COG0488         426 FGFTGEDQEKPVGVLSGGEKA----RLLLAKLLLQPPNLLLLDEPTNHLDIESLEALEEALLDFE-----GTVLLVSHDR  496 (530)
T ss_pred             cCCChHHHhCchhhcCHhHHH----HHHHHHHhccCCCEEEEcCCCccCCHHHHHHHHHHHHhCC-----CeEEEEeCCH
Confidence             00           0122211    1122222233446778899999999999888877766653     6999999999


Q ss_pred             CCCCChhhHHHHHc
Q 025391          149 ELEDNDETLEDYLG  162 (253)
Q Consensus       149 ~~~~~~~~~~~~~~  162 (253)
                      .+.  +.....+|.
T Consensus       497 ~Fl--~~va~~i~~  508 (530)
T COG0488         497 YFL--DRVATRIWL  508 (530)
T ss_pred             HHH--HhhcceEEE
Confidence            886  555555554

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.00  E-value=5e-09  Score=91.05  Aligned_cols=117  Identities=21%  Similarity=0.350  Sum_probs=85.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~--------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~   85 (253)
                      ++|+||.+...|||||+..|+.+...-...              ...++|.-..-..+. +++.+++++||||+-|+.+.
T Consensus         6 RNIAIIAHVDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~-~~~~~INIvDTPGHADFGGE   84 (603)
T COG1217           6 RNIAIIAHVDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVN-YNGTRINIVDTPGHADFGGE   84 (603)
T ss_pred             ceeEEEEEecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceee-cCCeEEEEecCCCcCCccch
Confidence            789999999999999999999875311110              123556555545555 58899999999999998854


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      -+       +.++.    .|++++++|+....-++.+.+++...+. |-    +.|||+||.|.....
T Consensus        85 VE-------Rvl~M----VDgvlLlVDA~EGpMPQTrFVlkKAl~~-gL----~PIVVvNKiDrp~Ar  136 (603)
T COG1217          85 VE-------RVLSM----VDGVLLLVDASEGPMPQTRFVLKKALAL-GL----KPIVVINKIDRPDAR  136 (603)
T ss_pred             hh-------hhhhh----cceEEEEEEcccCCCCchhhhHHHHHHc-CC----CcEEEEeCCCCCCCC
Confidence            33       33333    4899999999888888888877655543 32    578999999998543

>cd01899 Ygr210 Ygr210 subfamily

Probab=98.98  E-value=5.1e-09  Score=89.49  Aligned_cols=87  Identities=20%  Similarity=0.132  Sum_probs=52.3

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-----------------------eCCeEEEEEeCCC
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------------KDGQVVNVIDTPG   78 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-----------------------~~~~~~~liDtpG   78 (253)
                      |+|||.+++|||||+|+|++.... .... ...|..........                       .....+.+|||||
T Consensus         1 i~ivG~pnvGKStLfn~lt~~~~~-~~~~-pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aG   78 (318)
T cd01899           1 IGLVGKPNAGKSTFFNAATLADVE-IANY-PFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAG   78 (318)
T ss_pred             CEEECCCCCCHHHHHHHHhCCCCc-ccCC-CCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCC
Confidence            689999999999999999987642 1111 11222222211110                       1234689999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           79 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      +.............+..    .+..+|++++|+|++
T Consensus        79 lv~ga~~~~glg~~fL~----~ir~aD~ii~Vvd~~  110 (318)
T cd01899          79 LVPGAHEGKGLGNKFLD----DLRDADALIHVVDAS  110 (318)
T ss_pred             CCCCccchhhHHHHHHH----HHHHCCEEEEEEeCC
Confidence            96433222222233332    345669999999986

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=98.96  E-value=7.1e-09  Score=92.29  Aligned_cols=123  Identities=17%  Similarity=0.218  Sum_probs=82.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~-~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...||+|||..|+|||||+=+|+....++.-+..-. ++..   ..+ ...+....++||+.-.+.           ..+
T Consensus         8 kdVRIvliGD~G~GKtSLImSL~~eef~~~VP~rl~~i~IP---adv-tPe~vpt~ivD~ss~~~~-----------~~~   72 (625)
T KOG1707|consen    8 KDVRIVLIGDEGVGKTSLIMSLLEEEFVDAVPRRLPRILIP---ADV-TPENVPTSIVDTSSDSDD-----------RLC   72 (625)
T ss_pred             cceEEEEECCCCccHHHHHHHHHhhhccccccccCCccccC---Ccc-CcCcCceEEEecccccch-----------hHH
Confidence            348999999999999999999998876443322111 1111   111 124455789999744321           122


Q ss_pred             HHhhcCCccEEEEEEeCCC--CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChh
Q 025391           97 IGMAKDGIHAVLVVFSVRS--RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE  155 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~--~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~  155 (253)
                      +..-...+|++.+|...++  .++.....|+-.++..+|.....|+|+|.||.|.......
T Consensus        73 l~~EirkA~vi~lvyavd~~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~  133 (625)
T KOG1707|consen   73 LRKEIRKADVICLVYAVDDESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENN  133 (625)
T ss_pred             HHHHHhhcCEEEEEEecCChHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCcccccc
Confidence            2333345689999987763  2444447788888888888889999999999999864333

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.96  E-value=2.6e-09  Score=82.14  Aligned_cols=118  Identities=14%  Similarity=0.084  Sum_probs=81.3

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ......+|+++|--||||||++..|--.....+     .+|.-.+...+.+ ++..+.+||.-|...           ++
T Consensus        13 ~~~~e~~IlmlGLD~AGKTTILykLk~~E~vtt-----vPTiGfnVE~v~y-kn~~f~vWDvGGq~k-----------~R   75 (181)
T KOG0070|consen   13 FGKKEMRILMVGLDAAGKTTILYKLKLGEIVTT-----VPTIGFNVETVEY-KNISFTVWDVGGQEK-----------LR   75 (181)
T ss_pred             cCcceEEEEEEeccCCCceeeeEeeccCCcccC-----CCccccceeEEEE-cceEEEEEecCCCcc-----------cc
Confidence            345568999999999999999988755444333     3344444455554 688999999999843           44


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      ..+..+++..+++|||+|.+++..-.+  .-..+..++..+  ...|+++..||-|...
T Consensus        76 ~lW~~Y~~~t~~lIfVvDS~Dr~Ri~e--ak~eL~~~l~~~~l~~~~llv~aNKqD~~~  132 (181)
T KOG0070|consen   76 PLWKHYFQNTQGLIFVVDSSDRERIEE--AKEELHRMLAEPELRNAPLLVFANKQDLPG  132 (181)
T ss_pred             cchhhhccCCcEEEEEEeCCcHHHHHH--HHHHHHHHHcCcccCCceEEEEechhhccc
Confidence            667788899999999999885544433  112222232222  3468999999999864

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=98.95  E-value=1.5e-08  Score=75.50  Aligned_cols=120  Identities=18%  Similarity=0.131  Sum_probs=73.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh-CCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL-GRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~-g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      +...+|++||.-++|||+++..|+ |...+....  .+...+....+++...+  ..+.+.||.|+.+..       .  
T Consensus         7 Gk~~kVvVcG~k~VGKTaileQl~yg~~~~~~e~--~pTiEDiY~~svet~rgarE~l~lyDTaGlq~~~-------~--   75 (198)
T KOG3883|consen    7 GKVCKVVVCGMKSVGKTAILEQLLYGNHVPGTEL--HPTIEDIYVASVETDRGAREQLRLYDTAGLQGGQ-------Q--   75 (198)
T ss_pred             CcceEEEEECCccccHHHHHHHHHhccCCCCCcc--ccchhhheeEeeecCCChhheEEEeecccccCch-------h--
Confidence            345899999999999999997765 443322211  11111222233333222  368899999997542       1  


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHH---hcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTL---FGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~---~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..-..++.-+|+|++|.++.+   ++..+.+..+++.   +.+.--.|++|+.|++|...
T Consensus        76 -eLprhy~q~aDafVLVYs~~d---~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~  132 (198)
T KOG3883|consen   76 -ELPRHYFQFADAFVLVYSPMD---PESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAE  132 (198)
T ss_pred             -hhhHhHhccCceEEEEecCCC---HHHHHHHHHHHHHHhhccccccccEEEEechhhccc
Confidence             222355566799999998663   3443344433333   23333468999999999964

>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=98.94  E-value=5.3e-10  Score=85.64  Aligned_cols=62  Identities=31%  Similarity=0.360  Sum_probs=36.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCC-----CC-ccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRAS-----SS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~-----~~-~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~   85 (253)
                      ..++|+|++|||||||+|.|++.....++..     .+ ..|+.......    .....+|||||+.++...
T Consensus        36 k~~vl~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l----~~g~~iIDTPGf~~~~l~  103 (161)
T PF03193_consen   36 KTSVLLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPL----PDGGYIIDTPGFRSFGLW  103 (161)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHTSS----S--------------SEEEEEE----TTSEEEECSHHHHT--GC
T ss_pred             CEEEEECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEec----CCCcEEEECCCCCccccc
Confidence            7899999999999999999999865433311     11 22333333322    234589999999776543

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.

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=98.93  E-value=3.6e-09  Score=78.19  Aligned_cols=113  Identities=19%  Similarity=0.167  Sum_probs=75.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ...+.++|--.+|||||+|.++.....    ..-..|.-.+.+.+. ..+..+.+||.||..           .++.+..
T Consensus        20 emel~lvGLq~sGKtt~Vn~ia~g~~~----edmiptvGfnmrk~t-kgnvtiklwD~gGq~-----------rfrsmWe   83 (186)
T KOG0075|consen   20 EMELSLVGLQNSGKTTLVNVIARGQYL----EDMIPTVGFNMRKVT-KGNVTIKLWDLGGQP-----------RFRSMWE   83 (186)
T ss_pred             eeeEEEEeeccCCcceEEEEEeeccch----hhhcccccceeEEec-cCceEEEEEecCCCc-----------cHHHHHH
Confidence            368999999999999999998753221    111223333333333 256788999999984           4557778


Q ss_pred             hhcCCccEEEEEEeCCCC--CCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSR--FSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~--~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      .++++.++++||+|+.++  ++.. +.-+.   ..+..+  ...|++|+.||.|...
T Consensus        84 rycR~v~aivY~VDaad~~k~~~s-r~EL~---~LL~k~~l~gip~LVLGnK~d~~~  136 (186)
T KOG0075|consen   84 RYCRGVSAIVYVVDAADPDKLEAS-RSELH---DLLDKPSLTGIPLLVLGNKIDLPG  136 (186)
T ss_pred             HHhhcCcEEEEEeecCCcccchhh-HHHHH---HHhcchhhcCCcEEEecccccCcc
Confidence            888999999999998742  2222 22222   222222  2468999999999975

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=98.90  E-value=4e-09  Score=82.43  Aligned_cols=57  Identities=33%  Similarity=0.401  Sum_probs=41.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ...+|+++|.+|+|||||+|+|+|......+..+ +.|.......    .+..+.++||||+
T Consensus       116 ~~~~~~~vG~pnvGKSslin~l~~~~~~~~~~~p-g~T~~~~~~~----~~~~~~l~DtPGi  172 (172)
T cd04178         116 TSITVGVVGFPNVGKSSLINSLKRSRACNVGATP-GVTKSMQEVH----LDKKVKLLDSPGI  172 (172)
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCcccceecCCC-CeEcceEEEE----eCCCEEEEECcCC
Confidence            3479999999999999999999998775555433 4444333222    2346899999995

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

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.88  E-value=1.9e-08  Score=91.07  Aligned_cols=127  Identities=22%  Similarity=0.291  Sum_probs=88.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee---------------------------------------
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM---------------------------------------   60 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~---------------------------------------   60 (253)
                      .+|++.|.+.+||||++|+++...+.+.+..+.   +.|..                                       
T Consensus       110 mKV~ifGrts~GKSt~iNAmL~~klLP~g~gh~---TncF~~VegadG~e~vl~~~~s~ek~d~~ti~~~~haL~~~~~~  186 (749)
T KOG0448|consen  110 MKVAIFGRTSAGKSTVINAMLHKKLLPSGIGHT---TNCFLEVEGADGAEAVLATEGSEEKIDMKTINQLAHALKPDKDL  186 (749)
T ss_pred             cEEEEeCCCCCcHHHHHHHHHHHhhCccccccc---ceeeeeecccCCcceeeccCCCcccccHHHHhHHHHhcCccccc
Confidence            699999999999999999999888766554321   11000                                       


Q ss_pred             -----eeeEeeCC------eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHH
Q 025391           61 -----QRTVLKDG------QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQ  129 (253)
Q Consensus        61 -----~~~~~~~~------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~  129 (253)
                           ..+-+.++      .++.++|.||+.-.        .+....+-.+...+|+++||+.+.+.++..+..++....
T Consensus       187 ~~~sLlrV~~p~~~csLLrnDivliDsPGld~~--------se~tswid~~cldaDVfVlV~NaEntlt~sek~Ff~~vs  258 (749)
T KOG0448|consen  187 GAGSLLRVFWPDDKCSLLRNDIVLIDSPGLDVD--------SELTSWIDSFCLDADVFVLVVNAENTLTLSEKQFFHKVS  258 (749)
T ss_pred             CcceEEEEEecCccchhhhccceeccCCCCCCc--------hhhhHHHHHHhhcCCeEEEEecCccHhHHHHHHHHHHhh
Confidence                 00111111      26889999999642        333455545556789999999998889988888876665


Q ss_pred             HHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391          130 TLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       130 ~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      +.     .++++|+.||+|...++++-.++...
T Consensus       259 ~~-----KpniFIlnnkwDasase~ec~e~V~~  286 (749)
T KOG0448|consen  259 EE-----KPNIFILNNKWDASASEPECKEDVLK  286 (749)
T ss_pred             cc-----CCcEEEEechhhhhcccHHHHHHHHH
Confidence            53     35899999999998755555555554

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.88  E-value=5e-09  Score=79.27  Aligned_cols=62  Identities=29%  Similarity=0.440  Sum_probs=41.7

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCC
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~   80 (253)
                      |+.....+++++|.+|+|||||+|+|++........ ..+.|.....  +..  +..+.+|||||+.
T Consensus        78 Sa~~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~~-~~~~~~~~~~--~~~--~~~~~i~DtpG~~  139 (141)
T cd01857          78 SALKENATIGLVGYPNVGKSSLINALVGKKKVSVSA-TPGKTKHFQT--IFL--TPTITLCDCPGLV  139 (141)
T ss_pred             EecCCCcEEEEECCCCCCHHHHHHHHhCCCceeeCC-CCCcccceEE--EEe--CCCEEEEECCCcC
Confidence            333333489999999999999999999987653322 2333433322  221  2368999999985

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.

>PRK13768 GTPase; Provisional

Probab=98.86  E-value=1.4e-08  Score=84.34  Aligned_cols=80  Identities=18%  Similarity=0.145  Sum_probs=48.5

Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+.+|||||..+.... ......+.+.+....  ++++++|+|+....++.+.....++....-.....|+++|+||+|
T Consensus        97 ~~~~~~d~~g~~~~~~~-~~~~~~~~~~l~~~~--~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~~~~~~~i~v~nK~D  173 (253)
T PRK13768         97 ADYVLVDTPGQMELFAF-RESGRKLVERLSGSS--KSVVVFLIDAVLAKTPSDFVSLLLLALSVQLRLGLPQIPVLNKAD  173 (253)
T ss_pred             CCEEEEeCCcHHHHHhh-hHHHHHHHHHHHhcC--CeEEEEEechHHhCCHHHHHHHHHHHHHHHHHcCCCEEEEEEhHh
Confidence            36899999998653211 112233333333221  789999999976666666444443321110012358999999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      .+.
T Consensus       174 ~~~  176 (253)
T PRK13768        174 LLS  176 (253)
T ss_pred             hcC
Confidence            987

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=98.86  E-value=9.1e-10  Score=79.97  Aligned_cols=114  Identities=14%  Similarity=0.171  Sum_probs=75.1

Q ss_pred             EEEcCCCCCHHHHHHHHhCCCCcccc--CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           23 VLVGRTGNGKSATGNSILGRRAFKSR--ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        23 ~lvG~~g~GKSTl~n~l~g~~~~~~~--~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +++|.+++|||.|+-..-... |..+  .++.++........+. ....++.+|||+|.           ++++...-.+
T Consensus         1 mllgds~~gktcllir~kdga-fl~~~fistvgid~rnkli~~~-~~kvklqiwdtagq-----------erfrsvt~ay   67 (192)
T KOG0083|consen    1 MLLGDSCTGKTCLLIRFKDGA-FLAGNFISTVGIDFRNKLIDMD-DKKVKLQIWDTAGQ-----------ERFRSVTHAY   67 (192)
T ss_pred             CccccCccCceEEEEEeccCc-eecCceeeeeeeccccceeccC-CcEEEEEEeeccch-----------HHHhhhhHhh
Confidence            478999999998764432111 1111  1111222222222221 13457899999998           5666777788


Q ss_pred             cCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.+|+++++.|++++.+... +.|+..+.++-...  ...+++.||+|...
T Consensus        68 yrda~allllydiankasfdn~~~wlsei~ey~k~~--v~l~llgnk~d~a~  117 (192)
T KOG0083|consen   68 YRDADALLLLYDIANKASFDNCQAWLSEIHEYAKEA--VALMLLGNKCDLAH  117 (192)
T ss_pred             hcccceeeeeeecccchhHHHHHHHHHHHHHHHHhh--HhHhhhccccccch
Confidence            899999999999998888877 67777777753322  36789999999964

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.85  E-value=2.9e-08  Score=78.15  Aligned_cols=115  Identities=14%  Similarity=0.136  Sum_probs=72.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|.++|++++|||+|+-.|.-....     ..-+....+..... .+...+.+||.||..           +++.-+..
T Consensus        39 ~~Vll~Gl~dSGKT~LF~qL~~gs~~-----~TvtSiepn~a~~r-~gs~~~~LVD~PGH~-----------rlR~kl~e  101 (238)
T KOG0090|consen   39 NAVLLVGLSDSGKTSLFTQLITGSHR-----GTVTSIEPNEATYR-LGSENVTLVDLPGHS-----------RLRRKLLE  101 (238)
T ss_pred             CcEEEEecCCCCceeeeeehhcCCcc-----CeeeeeccceeeEe-ecCcceEEEeCCCcH-----------HHHHHHHH
Confidence            68999999999999998776544221     11111222222222 244558999999984           33333333


Q ss_pred             hcC---CccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc----cccCeEEEEEeCCCCCCC
Q 025391          100 AKD---GIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK----KIFDYMIVVFTGGDELED  152 (253)
Q Consensus       100 ~~~---~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~----~~~~~~ivv~~k~D~~~~  152 (253)
                      +++   .+-+++||+|.. -+...-+...+.+...+-.    ....|++|+-||-|.+..
T Consensus       102 ~~~~~~~akaiVFVVDSa-~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~tA  160 (238)
T KOG0090|consen  102 YLKHNYSAKAIVFVVDSA-TFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLFTA  160 (238)
T ss_pred             HccccccceeEEEEEecc-ccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhhhc
Confidence            333   578999999876 5555555555555444322    234689999999999964

>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=98.84  E-value=4.7e-09  Score=83.74  Aligned_cols=120  Identities=23%  Similarity=0.211  Sum_probs=69.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccc------------------eeeeeeeeE----------------e
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVT------------------STCEMQRTV----------------L   65 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t------------------~~~~~~~~~----------------~   65 (253)
                      ..|++||++|+||||++-.|+...... +....-++                  .........                .
T Consensus         2 ~vi~lvGptGvGKTTt~aKLAa~~~~~-~~~v~lis~D~~R~ga~eQL~~~a~~l~vp~~~~~~~~~~~~~~~~~l~~~~   80 (196)
T PF00448_consen    2 KVIALVGPTGVGKTTTIAKLAARLKLK-GKKVALISADTYRIGAVEQLKTYAEILGVPFYVARTESDPAEIAREALEKFR   80 (196)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHHHHT-T--EEEEEESTSSTHHHHHHHHHHHHHTEEEEESSTTSCHHHHHHHHHHHHH
T ss_pred             EEEEEECCCCCchHhHHHHHHHHHhhc-cccceeecCCCCCccHHHHHHHHHHHhccccchhhcchhhHHHHHHHHHHHh
Confidence            579999999999999998876543211 10000000                  000000000                0


Q ss_pred             eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEe
Q 025391           66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        66 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      .++.++++|||||...   .......++...+...  .++-+++|++++...+  +...+....+.++     ..-+++|
T Consensus        81 ~~~~D~vlIDT~Gr~~---~d~~~~~el~~~~~~~--~~~~~~LVlsa~~~~~--~~~~~~~~~~~~~-----~~~lIlT  148 (196)
T PF00448_consen   81 KKGYDLVLIDTAGRSP---RDEELLEELKKLLEAL--NPDEVHLVLSATMGQE--DLEQALAFYEAFG-----IDGLILT  148 (196)
T ss_dssp             HTTSSEEEEEE-SSSS---THHHHHHHHHHHHHHH--SSSEEEEEEEGGGGGH--HHHHHHHHHHHSS-----TCEEEEE
T ss_pred             hcCCCEEEEecCCcch---hhHHHHHHHHHHhhhc--CCccceEEEecccChH--HHHHHHHHhhccc-----CceEEEE
Confidence            1345799999999863   2344456666666554  5778999999874433  3223333334333     4567799


Q ss_pred             CCCCCCC
Q 025391          146 GGDELED  152 (253)
Q Consensus       146 k~D~~~~  152 (253)
                      |.|....
T Consensus       149 KlDet~~  155 (196)
T PF00448_consen  149 KLDETAR  155 (196)
T ss_dssp             STTSSST
T ss_pred             eecCCCC
Confidence            9999763

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 ....

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.83  E-value=7.5e-08  Score=84.95  Aligned_cols=122  Identities=16%  Similarity=0.189  Sum_probs=72.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh------CCCCccccCCCCc-----------cceeeeeeeeEe---------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL------GRRAFKSRASSSG-----------VTSTCEMQRTVL---------------   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~------g~~~~~~~~~~~~-----------~t~~~~~~~~~~---------------   65 (253)
                      ++..|+++|++|+||||++..|+      |..+.....++..           ......++....               
T Consensus        99 ~~~vi~lvG~~GvGKTTtaaKLA~~l~~~G~kV~lV~~D~~R~aA~eQLk~~a~~~~vp~~~~~~~~dp~~i~~~~l~~~  178 (429)
T TIGR01425        99 KQNVIMFVGLQGSGKTTTCTKLAYYYQRKGFKPCLVCADTFRAGAFDQLKQNATKARIPFYGSYTESDPVKIASEGVEKF  178 (429)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHCCCCEEEEcCcccchhHHHHHHHHhhccCCeEEeecCCCCHHHHHHHHHHHH
Confidence            34789999999999999999987      4443222221110           000011111000               


Q ss_pred             -eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           66 -KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        66 -~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                       ..+.+++||||||...   ..+....++......  ..||.++||+|++.....  ....+.+.+..     .+.-+|+
T Consensus       179 ~~~~~DvViIDTaGr~~---~d~~lm~El~~i~~~--~~p~e~lLVlda~~Gq~a--~~~a~~F~~~~-----~~~g~Il  246 (429)
T TIGR01425       179 KKENFDIIIVDTSGRHK---QEDSLFEEMLQVAEA--IQPDNIIFVMDGSIGQAA--EAQAKAFKDSV-----DVGSVII  246 (429)
T ss_pred             HhCCCCEEEEECCCCCc---chHHHHHHHHHHhhh--cCCcEEEEEeccccChhH--HHHHHHHHhcc-----CCcEEEE
Confidence             0256899999999754   234455666655433  367899999998644332  33344444332     3688999


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||.|...
T Consensus       247 TKlD~~a  253 (429)
T TIGR01425       247 TKLDGHA  253 (429)
T ss_pred             ECccCCC
Confidence            9999863

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.

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.83  E-value=2.8e-08  Score=98.55  Aligned_cols=131  Identities=18%  Similarity=0.235  Sum_probs=85.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCC----cHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAG----SEFV   89 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~----~~~~   89 (253)
                      +=.+|||++|+||||+++.- |...+.....      ..+.|..|     ..+-....+++||+|..-+..+    ....
T Consensus       112 PWYlviG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c-----~wwf~~~avliDtaG~y~~~~~~~~~~~~~  185 (1169)
T TIGR03348       112 PWYLVIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNC-----DWWFTDEAVLIDTAGRYTTQDSDPEEDAAA  185 (1169)
T ss_pred             CCEEEECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCccc-----ceEecCCEEEEcCCCccccCCCcccccHHH
Confidence            45789999999999999886 6654332210      11223323     3344567789999997644432    2334


Q ss_pred             HHHHHHHHHhh--cCCccEEEEEEeCCCCCC--HH--------HHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhH
Q 025391           90 GKEIVKCIGMA--KDGIHAVLVVFSVRSRFS--QE--------EEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETL  157 (253)
Q Consensus        90 ~~~~~~~~~~~--~~~~~~~l~v~d~~~~~~--~~--------~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~  157 (253)
                      +..+...+...  ...++++|+++++.+-++  ..        -+..+..+...+|-.  .|++||+||+|.+.    -+
T Consensus       186 W~~fL~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~--~PVYvv~Tk~Dll~----GF  259 (1169)
T TIGR03348       186 WLGFLGLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGAR--FPVYLVLTKADLLA----GF  259 (1169)
T ss_pred             HHHHHHHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCC--CCEEEEEecchhhc----CH
Confidence            66666666544  245799999999874432  22        155566677777765  49999999999996    35


Q ss_pred             HHHHc
Q 025391          158 EDYLG  162 (253)
Q Consensus       158 ~~~~~  162 (253)
                      .+|+.
T Consensus       260 ~~~f~  264 (1169)
T TIGR03348       260 EEFFA  264 (1169)
T ss_pred             HHHHH
Confidence            55555

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.83  E-value=1.1e-08  Score=78.75  Aligned_cols=57  Identities=26%  Similarity=0.378  Sum_probs=40.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ...+|+++|.+|+|||||+|+|++......+.. .+.|......  .  .+..+.++||||+
T Consensus        99 ~~~~~~~~G~~~~GKstlin~l~~~~~~~~~~~-~~~t~~~~~~--~--~~~~~~liDtPG~  155 (155)
T cd01849          99 KSITVGVIGYPNVGKSSVINALLNKLKLKVGNV-PGTTTSQQEV--K--LDNKIKLLDTPGI  155 (155)
T ss_pred             cCcEEEEEccCCCCHHHHHHHHHccccccccCC-CCcccceEEE--E--ecCCEEEEECCCC
Confidence            458999999999999999999999865443322 2333333222  1  2356899999996

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.

>cd01855 YqeH YqeH

Probab=98.83  E-value=6.4e-09  Score=82.69  Aligned_cols=57  Identities=30%  Similarity=0.327  Sum_probs=38.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccc------c-CCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKS------R-ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~------~-~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ..+++++|.+|+|||||+|+|++......      . ....+.|........    +..+.++||||+
T Consensus       127 ~~~~~~~G~~nvGKStliN~l~~~~~~~~~~~~~~~~~~~~gtT~~~~~~~~----~~~~~~~DtPG~  190 (190)
T cd01855         127 GGDVYVVGATNVGKSTLINALLKKDNGKKKLKDLLTTSPIPGTTLDLIKIPL----GNGKKLYDTPGI  190 (190)
T ss_pred             CCcEEEEcCCCCCHHHHHHHHHHhcccccccccccccCCCCCeeeeeEEEec----CCCCEEEeCcCC
Confidence            36899999999999999999998654221      1 122234444333222    225799999996

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.82  E-value=2.4e-08  Score=84.58  Aligned_cols=65  Identities=23%  Similarity=0.355  Sum_probs=47.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE   87 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   87 (253)
                      ...+|+++|.+|+|||||+|+|+|......+.. .++|.......    -+..+.++||||+..+....+
T Consensus       120 ~~~~~~~~G~pnvGKSsliN~l~~~~~~~~~~~-~g~T~~~~~~~----~~~~~~l~DtPGi~~~~~~~~  184 (287)
T PRK09563        120 RAIRAMIIGIPNVGKSTLINRLAGKKIAKTGNR-PGVTKAQQWIK----LGKGLELLDTPGILWPKLEDQ  184 (287)
T ss_pred             CceEEEEECCCCCCHHHHHHHHhcCCccccCCC-CCeEEEEEEEE----eCCcEEEEECCCcCCCCCCcH
Confidence            457999999999999999999999876444432 34555443222    245689999999987665444

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.82  E-value=4e-08  Score=83.32  Aligned_cols=127  Identities=17%  Similarity=0.299  Sum_probs=81.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeee---------------E----e-------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT---------------V----L-------------   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~---------------~----~-------------   65 (253)
                      ..+-|+++|+-..||||+++.|+..+.+.....+.+ |+.......               .    +             
T Consensus        57 ~KPmill~GqyStGKTtfi~yLle~dypg~riGpEP-Ttd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnR  135 (532)
T KOG1954|consen   57 AKPMILLVGQYSTGKTTFIRYLLEQDYPGLRIGPEP-TTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNR  135 (532)
T ss_pred             cCceEEEEeccccchhHHHHHHHhCCCCccccCCCC-CcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHH
Confidence            346899999999999999999999887533322221 111111100               0    0             


Q ss_pred             --------eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCC--HHHHHHHHHHHHHhccc
Q 025391           66 --------KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS--QEEEAALHSLQTLFGKK  135 (253)
Q Consensus        66 --------~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~--~~~~~~l~~l~~~~g~~  135 (253)
                              .--..+++|||||+.+.....-.....+...+.++..++|.+|+++|+- .++  ++-..++..++   |..
T Consensus       136 f~csqmp~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~h-KLDIsdEf~~vi~aLk---G~E  211 (532)
T KOG1954|consen  136 FMCSQLPNQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAH-KLDISDEFKRVIDALK---GHE  211 (532)
T ss_pred             HHHhcCChhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechh-hccccHHHHHHHHHhh---CCc
Confidence                    0001589999999975432211122345667788889999999999985 444  44455555544   332


Q ss_pred             ccCeEEEEEeCCCCCC
Q 025391          136 IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 ~~~~~ivv~~k~D~~~  151 (253)
                        ..+-||+||+|.+.
T Consensus       212 --dkiRVVLNKADqVd  225 (532)
T KOG1954|consen  212 --DKIRVVLNKADQVD  225 (532)
T ss_pred             --ceeEEEeccccccC
Confidence              46899999999986

>PRK14845 translation initiation factor IF-2; Provisional

Probab=98.81  E-value=1.1e-07  Score=91.98  Aligned_cols=117  Identities=14%  Similarity=0.112  Sum_probs=81.7

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC-----------------eEEEEEe
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG-----------------QVVNVID   75 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------~~~~liD   75 (253)
                      +.....-.--++++    +||||+.+|.+..+  .....+++|.+.....++....                 ..+.|||
T Consensus       459 ~~~~~~~~~~~~~~----~KTtLLD~iR~t~v--~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiD  532 (1049)
T PRK14845        459 TTETHNFIANGILV----HNTTLLDKIRKTRV--AKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFID  532 (1049)
T ss_pred             EeccCcceeeeeec----ccccHHHHHhCCCc--ccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEE
Confidence            34333333344554    39999999999987  3345678888877776654211                 1389999


Q ss_pred             CCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           76 TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        76 tpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |||+..           +..........+|++++|+|+++.+.+.....+..+... +    .|+++++||+|...
T Consensus       533 TPGhe~-----------F~~lr~~g~~~aDivlLVVDa~~Gi~~qT~e~I~~lk~~-~----iPiIVViNKiDL~~  592 (1049)
T PRK14845        533 TPGHEA-----------FTSLRKRGGSLADLAVLVVDINEGFKPQTIEAINILRQY-K----TPFVVAANKIDLIP  592 (1049)
T ss_pred             CCCcHH-----------HHHHHHhhcccCCEEEEEEECcccCCHhHHHHHHHHHHc-C----CCEEEEEECCCCcc
Confidence            999743           223333445678999999999888888887777766553 2    47999999999864

>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=98.80  E-value=1.2e-07  Score=74.42  Aligned_cols=109  Identities=13%  Similarity=0.101  Sum_probs=61.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEE-EeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV-IDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l-iDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+.    +..          ++..+.+ ...+.    -++++.-.-.++ 
T Consensus        23 ~~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G~----i~~----------~g~~i~~~~q~~~----LSgGq~qrv~la-   83 (177)
T cd03222          23 KEGEVIGIVGPNGTGKTTAVKILAGQLIPNGDN----DEW----------DGITPVYKPQYID----LSGGELQRVAIA-   83 (177)
T ss_pred             CCCCEEEEECCCCChHHHHHHHHHcCCCCCCcE----EEE----------CCEEEEEEcccCC----CCHHHHHHHHHH-
Confidence            344699999999999999999999986543332    111          1111111 11121    122332112222 


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                        ......| .+++++++++.++......+ ..+.+.....  ..++++++|...
T Consensus        84 --ral~~~p-~lllLDEPts~LD~~~~~~l~~~l~~~~~~~--~~tiiivsH~~~  133 (177)
T cd03222          84 --AALLRNA-TFYLFDEPSAYLDIEQRLNAARAIRRLSEEG--KKTALVVEHDLA  133 (177)
T ss_pred             --HHHhcCC-CEEEEECCcccCCHHHHHHHHHHHHHHHHcC--CCEEEEEECCHH
Confidence              2222344 67778899889998885443 4444432111  148889999654

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.

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=98.80  E-value=6.2e-09  Score=74.96  Aligned_cols=103  Identities=20%  Similarity=0.217  Sum_probs=65.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||++||..|+|||||.++|-|......      .|.     .+++ +.  -..|||||-+-..       +.+-.++..
T Consensus         2 Kri~~vG~~gcGKTtL~q~L~G~~~lyk------KTQ-----Ave~-~d--~~~IDTPGEy~~~-------~~~Y~aL~t   60 (148)
T COG4917           2 KRIAFVGQVGCGKTTLFQSLYGNDTLYK------KTQ-----AVEF-ND--KGDIDTPGEYFEH-------PRWYHALIT   60 (148)
T ss_pred             ceeEEecccccCchhHHHHhhcchhhhc------ccc-----eeec-cC--ccccCCchhhhhh-------hHHHHHHHH
Confidence            5899999999999999999998854221      121     1221 11  1358999976321       333344544


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+|++++|..++++-+.-..-        |-....+++|=|+||.|+.+
T Consensus        61 t~~dadvi~~v~~and~~s~f~p~--------f~~~~~k~vIgvVTK~DLae  104 (148)
T COG4917          61 TLQDADVIIYVHAANDPESRFPPG--------FLDIGVKKVIGVVTKADLAE  104 (148)
T ss_pred             HhhccceeeeeecccCccccCCcc--------cccccccceEEEEecccccc
Confidence            556789999998877543322211        11222346999999999996

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.80  E-value=1.9e-08  Score=91.98  Aligned_cols=121  Identities=25%  Similarity=0.367  Sum_probs=86.8

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------CCCCccceeeeeeeeEeeCCeEEEEEeCCC
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTPG   78 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~--------------~~~~~~t~~~~~~~~~~~~~~~~~liDtpG   78 (253)
                      +..+....+|.|+.+-..|||||+.+|+......+.              ....++|......+.. .++..+++||+||
T Consensus         3 ~~~~~~irn~~~vahvdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~-~~~~~~nlidspg   81 (887)
T KOG0467|consen    3 QKGSEGIRNICLVAHVDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLL-HKDYLINLIDSPG   81 (887)
T ss_pred             CCCCCceeEEEEEEEecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccc-cCceEEEEecCCC
Confidence            345556689999999999999999998766542222              1234677777666543 3678999999999


Q ss_pred             CCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           79 LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +.|+.       .++..+...+    |++++++|+..........+++..... |    ...++|+||+|.+
T Consensus        82 hvdf~-------sevssas~l~----d~alvlvdvvegv~~qt~~vlrq~~~~-~----~~~~lvinkidrl  137 (887)
T KOG0467|consen   82 HVDFS-------SEVSSASRLS----DGALVLVDVVEGVCSQTYAVLRQAWIE-G----LKPILVINKIDRL  137 (887)
T ss_pred             ccchh-------hhhhhhhhhc----CCcEEEEeeccccchhHHHHHHHHHHc-c----CceEEEEehhhhH
Confidence            99987       3333333333    889999999889998888888733221 1    2589999999955

>cd03230 ABC_DR_subfamily_A This family of ATP-binding proteins belongs to a multisubunit transporter involved in drug resistance (BcrA and DrrA), nodulation, lipid transport, and lantibiotic immunity

Probab=98.80  E-value=8.2e-08  Score=75.17  Aligned_cols=120  Identities=15%  Similarity=0.114  Sum_probs=63.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee-ee-EeeCCeEEEEEeCCCCCCCC--------CCcH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ-RT-VLKDGQVVNVIDTPGLFDFS--------AGSE   87 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~-~~-~~~~~~~~~liDtpG~~~~~--------~~~~   87 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.    +....... .. ......-..+...|.++...        ++++
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~----i~~~g~~~~~~~~~~~~~i~~~~q~~~~~~~~tv~~~~~LS~G~  100 (173)
T cd03230          25 KGEIYGLLGPNGAGKTTLIKIILGLLKPDSGE----IKVLGKDIKKEPEEVKRRIGYLPEEPSLYENLTVRENLKLSGGM  100 (173)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCeE----EEECCEEcccchHhhhccEEEEecCCccccCCcHHHHhhcCHHH
Confidence            34689999999999999999999986543331    11100000 00 00011122333344443321        1111


Q ss_pred             HHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCC
Q 025391           88 FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .  ++ .........+| -++++++++..++......+ +.+.+....   ..++|+++|.-
T Consensus       101 ~--qr-v~laral~~~p-~illlDEPt~~LD~~~~~~l~~~l~~~~~~---g~tiii~th~~  155 (173)
T cd03230         101 K--QR-LALAQALLHDP-ELLILDEPTSGLDPESRREFWELLRELKKE---GKTILLSSHIL  155 (173)
T ss_pred             H--HH-HHHHHHHHcCC-CEEEEeCCccCCCHHHHHHHHHHHHHHHHC---CCEEEEECCCH
Confidence            1  11 11112222333 78888999989999885555 444443222   25889998854

In bacteria and archaea, these transporters usually include an ATP-binding protein and one or two integral membrane proteins. Eukaryote systems of the ABCA subfamily display ABC domains that are quite similar to this family. The ATP-binding domain shows the highest similarity between all members of the ABC transporter family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd01856 YlqF YlqF

Probab=98.79  E-value=1.9e-08  Score=78.65  Aligned_cols=59  Identities=25%  Similarity=0.387  Sum_probs=41.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~   80 (253)
                      ...++++++|.+|+|||||+|.|++......+ ...+.|........    ...+.++||||++
T Consensus       113 ~~~~~~~~~G~~~vGKstlin~l~~~~~~~~~-~~~~~T~~~~~~~~----~~~~~~iDtpG~~  171 (171)
T cd01856         113 PRGIRAMVVGIPNVGKSTLINRLRGKKVAKVG-NKPGVTKGIQWIKI----SPGIYLLDTPGIL  171 (171)
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHhCCCceeec-CCCCEEeeeEEEEe----cCCEEEEECCCCC
Confidence            34479999999999999999999987653222 22234444433322    2568899999974

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.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=98.79  E-value=2.3e-08  Score=74.61  Aligned_cols=130  Identities=17%  Similarity=0.099  Sum_probs=85.2

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...-.++|+++|.+..|||||+-...|...-.......|+.......++. .-...+.+||..|.           +++.
T Consensus        16 ~n~Vslkv~llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~-~t~IsfSIwdlgG~-----------~~~~   83 (205)
T KOG1673|consen   16 SNLVSLKVGLLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIR-GTDISFSIWDLGGQ-----------REFI   83 (205)
T ss_pred             ccceEEEEEeecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEec-ceEEEEEEEecCCc-----------Hhhh
Confidence            33445899999999999999998887765422222222332222222221 12346789999887           5666


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHH
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  158 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~  158 (253)
                      .++..+..++-++||++|++.+.+...  ..+|.+...|..-..--++|.||-|.+-.-+....
T Consensus        84 n~lPiac~dsvaIlFmFDLt~r~TLnS--i~~WY~QAr~~NktAiPilvGTKyD~fi~lp~e~Q  145 (205)
T KOG1673|consen   84 NMLPIACKDSVAILFMFDLTRRSTLNS--IKEWYRQARGLNKTAIPILVGTKYDLFIDLPPELQ  145 (205)
T ss_pred             ccCceeecCcEEEEEEEecCchHHHHH--HHHHHHHHhccCCccceEEeccchHhhhcCCHHHH
Confidence            777777778889999999997766544  55677776665533346778999998863343333

>PRK12288 GTPase RsgA; Reviewed

Probab=98.79  E-value=2.5e-08  Score=86.29  Aligned_cols=60  Identities=27%  Similarity=0.433  Sum_probs=41.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      .++|+|.+|||||||+|+|++.....++..+.      .+|+....+...  .+  ..++||||+-.+..
T Consensus       207 i~~~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~--~~--~~liDTPGir~~~l  272 (347)
T PRK12288        207 ISIFVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFP--HG--GDLIDSPGVREFGL  272 (347)
T ss_pred             CEEEECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEec--CC--CEEEECCCCCcccC
Confidence            58999999999999999999987655543322      134444433332  22  35999999977654

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=98.79  E-value=7e-08  Score=88.11  Aligned_cols=152  Identities=15%  Similarity=0.154  Sum_probs=101.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-----------------eCCeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------KDGQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-----------------~~~~~~~liDtpG~~   80 (253)
                      +.+.++|+|+..+|||-|+..|.+..+..+  ..+++|......+++.                 .+-..+.+|||||+.
T Consensus       474 RSPIcCilGHVDTGKTKlld~ir~tNVqeg--eaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghE  551 (1064)
T KOG1144|consen  474 RSPICCILGHVDTGKTKLLDKIRGTNVQEG--EAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHE  551 (1064)
T ss_pred             CCceEEEeecccccchHHHHHhhccccccc--cccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCch
Confidence            457899999999999999999999876333  3445554443333221                 122368899999975


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC----Chhh
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED----NDET  156 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~----~~~~  156 (253)
                      .|           ...-++-..-.|.+|+|+|+.+.+.+.....++.|+..     ..|+||.+||.|.+-.    .+..
T Consensus       552 sF-----------tnlRsrgsslC~~aIlvvdImhGlepqtiESi~lLR~r-----ktpFivALNKiDRLYgwk~~p~~~  615 (1064)
T KOG1144|consen  552 SF-----------TNLRSRGSSLCDLAILVVDIMHGLEPQTIESINLLRMR-----KTPFIVALNKIDRLYGWKSCPNAP  615 (1064)
T ss_pred             hh-----------hhhhhccccccceEEEEeehhccCCcchhHHHHHHHhc-----CCCeEEeehhhhhhcccccCCCch
Confidence            43           23323333445899999999989999888888877764     2489999999999821    1345


Q ss_pred             HHHHHcccCCchhhhhHHHhhhHHHHHHHcC
Q 025391          157 LEDYLGRECPKPLKKGATKLRDQQFEVDSLK  187 (253)
Q Consensus       157 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~  187 (253)
                      +.+.+.+.......+....+..+...|.+.|
T Consensus       616 i~~~lkkQ~k~v~~EF~~R~~~ii~efaEQg  646 (1064)
T KOG1144|consen  616 IVEALKKQKKDVQNEFKERLNNIIVEFAEQG  646 (1064)
T ss_pred             HHHHHHHhhHHHHHHHHHHHHHHHHHHHHcc
Confidence            5555554555555555555666666665533

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.78  E-value=3.7e-08  Score=82.97  Aligned_cols=64  Identities=23%  Similarity=0.292  Sum_probs=45.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS   86 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~   86 (253)
                      ...+|+++|.+|+|||||+|+|++......+.. .+.|.......    -+..+.++||||+.......
T Consensus       117 ~~~~~~~vG~~nvGKSslin~l~~~~~~~~~~~-~g~T~~~~~~~----~~~~~~l~DtPG~~~~~~~~  180 (276)
T TIGR03596       117 RPIRAMIVGIPNVGKSTLINRLAGKKVAKVGNR-PGVTKGQQWIK----LSDGLELLDTPGILWPKFED  180 (276)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCccccCCC-CCeecceEEEE----eCCCEEEEECCCcccCCCCc
Confidence            457999999999999999999999876545433 34454443222    23468999999996554433

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.

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=98.77  E-value=1.3e-07  Score=83.86  Aligned_cols=141  Identities=18%  Similarity=0.199  Sum_probs=96.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC---------------------------------------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS---------------------------------------------   52 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~---------------------------------------------   52 (253)
                      +-+||++||.-.+||||.+..|+...+|+-+...-                                             
T Consensus       307 hLPRVVVVGDQSaGKTSVLEmiAqARIFPRGSGEMMTRaPVKVTLsEGPyHVAqFrDSsREfDLTKE~DLq~LR~e~E~R  386 (980)
T KOG0447|consen  307 HLPRVVVVGDQSAGKTSVLEMIAQARIFPRGSGEMMTRSPVKVTLSEGPHHVALFKDSSREFDLTKEEDLAALRHEIELR  386 (980)
T ss_pred             cCceEEEEcCccccchHHHHHHHHhccCcCCCcceeccCCeEEEeccCcchhhhhccccccccccchhHHHHHHHHHHHH
Confidence            34799999999999999999999888776553311                                             


Q ss_pred             -------ccceeeeeeeeEeeCC---eEEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHH
Q 025391           53 -------GVTSTCEMQRTVLKDG---QVVNVIDTPGLFDFSAG--SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQE  120 (253)
Q Consensus        53 -------~~t~~~~~~~~~~~~~---~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~  120 (253)
                             |.|+.....+... +|   .+.+++|.||+..+-..  ..++...|.++-..+...|.++|+|+.-+ ..+.+
T Consensus       387 Mr~sVr~GkTVSnEvIsltV-KGPgLqRMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDG-SVDAE  464 (980)
T KOG0447|consen  387 MRKNVKEGCTVSPETISLNV-KGPGLQRMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDG-SVDAE  464 (980)
T ss_pred             HHhcccCCcccccceEEEee-cCCCcceeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccC-Ccchh
Confidence                   3444444443332 33   47899999999865432  24466777788888889999999999765 45544


Q ss_pred             HHHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHc
Q 025391          121 EEAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLG  162 (253)
Q Consensus       121 ~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~  162 (253)
                      -..+-..+...  ++..+.+|+|+||.|+.+.   ++..+.++++
T Consensus       465 RSnVTDLVsq~--DP~GrRTIfVLTKVDlAEknlA~PdRI~kIle  507 (980)
T KOG0447|consen  465 RSIVTDLVSQM--DPHGRRTIFVLTKVDLAEKNVASPSRIQQIIE  507 (980)
T ss_pred             hhhHHHHHHhc--CCCCCeeEEEEeecchhhhccCCHHHHHHHHh
Confidence            43333333333  2334689999999998753   2556666665

>cd03229 ABC_Class3 This class is comprised of all BPD (Binding Protein Dependent) systems that are largely represented in archaea and eubacteria and are primarily involved in scavenging solutes from the environment

Probab=98.77  E-value=9.1e-08  Score=75.27  Aligned_cols=130  Identities=18%  Similarity=0.108  Sum_probs=64.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHH-------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV-------   89 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~-------   89 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.... +................-..+.+.|.++......+.+       
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~g~~~~~~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~l~~~lS~G  104 (178)
T cd03229          25 AGEIVALLGPSGSGKSTLLRCIAGLEEPDSGSILIDGEDLTDLEDELPPLRRRIGMVFQDFALFPHLTVLENIALGLSGG  104 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCceEEEECCEEccccchhHHHHhhcEEEEecCCccCCCCCHHHheeecCCHH
Confidence            34689999999999999999999986543331110 0000000000000011122334445544221111110       


Q ss_pred             HHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           90 GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      .++...........| -++++++++..++......+..+...+... ...++++++|...
T Consensus       105 ~~qr~~la~al~~~p-~llilDEP~~~LD~~~~~~l~~~l~~~~~~-~~~tiii~sH~~~  162 (178)
T cd03229         105 QQQRVALARALAMDP-DVLLLDEPTSALDPITRREVRALLKSLQAQ-LGITVVLVTHDLD  162 (178)
T ss_pred             HHHHHHHHHHHHCCC-CEEEEeCCcccCCHHHHHHHHHHHHHHHHh-cCCEEEEEeCCHH
Confidence            011111222333444 677788998899998865554433322211 0258999999643

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0062 consensus ATPase component of ABC transporters with duplicated ATPase domains/Translation elongation factor EF-3b [Amino acid transport and metabolism; Translation, ribosomal structure and biogenesis]

Probab=98.76  E-value=3.3e-08  Score=87.15  Aligned_cols=60  Identities=10%  Similarity=0.043  Sum_probs=43.9

Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCc
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPK  167 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~  167 (253)
                      .+..|| +|+++++|++++-....||+......     +.++++++|+..+.  +..+.+++.....+
T Consensus       213 lf~~pD-lLLLDEPTNhLDv~av~WLe~yL~t~-----~~T~liVSHDr~FL--n~V~tdIIH~~~~k  272 (582)
T KOG0062|consen  213 LFAKPD-LLLLDEPTNHLDVVAVAWLENYLQTW-----KITSLIVSHDRNFL--NTVCTDIIHLENLK  272 (582)
T ss_pred             HhcCCC-EEeecCCcccchhHHHHHHHHHHhhC-----CceEEEEeccHHHH--HHHHHHHHHHhhhh
Confidence            345565 55667888888887777776655543     36999999999999  88888888754433

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.76  E-value=4.2e-08  Score=87.22  Aligned_cols=113  Identities=20%  Similarity=0.189  Sum_probs=78.7

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCcc-ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      ...+|++.+++||++|+|||||+++|.....-. .....+++|.       ...+.++++++.+|.-.            
T Consensus        64 ~d~PPPfIvavvGPpGtGKsTLirSlVrr~tk~ti~~i~GPiTv-------vsgK~RRiTflEcp~Dl------------  124 (1077)
T COG5192          64 KDLPPPFIVAVVGPPGTGKSTLIRSLVRRFTKQTIDEIRGPITV-------VSGKTRRITFLECPSDL------------  124 (1077)
T ss_pred             ccCCCCeEEEeecCCCCChhHHHHHHHHHHHHhhhhccCCceEE-------eecceeEEEEEeChHHH------------
Confidence            344566888899999999999999997653211 1122333333       22467899999999432            


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..++. ...-+|.+|+++|.+-.+..+...+|+.+... |   .+.++-|+||.|.+.
T Consensus       125 -~~miD-vaKIaDLVlLlIdgnfGfEMETmEFLnil~~H-G---mPrvlgV~ThlDlfk  177 (1077)
T COG5192         125 -HQMID-VAKIADLVLLLIDGNFGFEMETMEFLNILISH-G---MPRVLGVVTHLDLFK  177 (1077)
T ss_pred             -HHHHh-HHHhhheeEEEeccccCceehHHHHHHHHhhc-C---CCceEEEEeeccccc
Confidence             12222 12345899999999888888888888877664 4   347999999999996

>cd03221 ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is a cytosolic protein required by fungal ribosomes for in vitro protein synthesis and for in vivo growth

Probab=98.75  E-value=1.7e-07  Score=71.17  Aligned_cols=102  Identities=19%  Similarity=0.201  Sum_probs=59.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC-eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG-QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.    +..          ++ ..+.++.  .+    ++++.  +++ ..
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~----i~~----------~~~~~i~~~~--~l----S~G~~--~rv-~l   81 (144)
T cd03221          25 PGDRIGLVGRNGAGKSTLLKLIAGELEPDEGI----VTW----------GSTVKIGYFE--QL----SGGEK--MRL-AL   81 (144)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCCCCCCceE----EEE----------CCeEEEEEEc--cC----CHHHH--HHH-HH
Confidence            34689999999999999999999985433221    111          11 1222221  11    22222  222 12


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .......| .++++++++..++...+..+..+.+..+     .++++++|.-
T Consensus        82 aral~~~p-~illlDEP~~~LD~~~~~~l~~~l~~~~-----~til~~th~~  127 (144)
T cd03221          82 AKLLLENP-NLLLLDEPTNHLDLESIEALEEALKEYP-----GTVILVSHDR  127 (144)
T ss_pred             HHHHhcCC-CEEEEeCCccCCCHHHHHHHHHHHHHcC-----CEEEEEECCH
Confidence            22233444 5777888888999988666544333332     4888888863

EF-3 stimulates the binding of the EF-1: GTP: aa-tRNA ternary complex to the ribosomal A site by facilitated release of the deacylated tRNA from the E site. The reaction requires ATP hydrolysis. EF-3 contains two ATP nucleotide binding sequence (NBS) motifs. NBSI is sufficient for the intrinsic ATPase activity. NBSII is essential for the ribosome-stimulated functions.

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=98.75  E-value=5.7e-08  Score=84.84  Aligned_cols=151  Identities=20%  Similarity=0.259  Sum_probs=98.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------CCCCccceeeeeeeeEeeC----CeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-------------ASSSGVTSTCEMQRTVLKD----GQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------------~~~~~~t~~~~~~~~~~~~----~~~~~liDtpG~~   80 (253)
                      +.++..||.+-..|||||..+|+........             ....|+|.........+..    ...+.+|||||+.
T Consensus         8 ~IRNFsIIAHIDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERERGITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHV   87 (603)
T COG0481           8 NIRNFSIIAHIDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHV   87 (603)
T ss_pred             hccceEEEEEecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhcCceEEeeEEEEEEEeCCCCEEEEEEcCCCCcc
Confidence            3478899999999999999999765431111             1124677776666555432    2478899999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCCh----hh
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND----ET  156 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~----~~  156 (253)
                      |+.       .+..+.+..|    .+.|+|+|++.....+..  .+.... +..+  --++.|+||.|+...++    ..
T Consensus        88 DFs-------YEVSRSLAAC----EGalLvVDAsQGveAQTl--AN~YlA-le~~--LeIiPViNKIDLP~Adpervk~e  151 (603)
T COG0481          88 DFS-------YEVSRSLAAC----EGALLVVDASQGVEAQTL--ANVYLA-LENN--LEIIPVLNKIDLPAADPERVKQE  151 (603)
T ss_pred             ceE-------EEehhhHhhC----CCcEEEEECccchHHHHH--HHHHHH-HHcC--cEEEEeeecccCCCCCHHHHHHH
Confidence            987       5666777777    588999999866665542  222222 2222  35999999999986554    35


Q ss_pred             HHHHHcccCCchhhhhHHHhhhHHHHHH
Q 025391          157 LEDYLGRECPKPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       157 ~~~~~~~~~~~~l~~~~~~~~~~~~~~~  184 (253)
                      +++.+..+....+.-+.+..-.++++++
T Consensus       152 Ie~~iGid~~dav~~SAKtG~gI~~iLe  179 (603)
T COG0481         152 IEDIIGIDASDAVLVSAKTGIGIEDVLE  179 (603)
T ss_pred             HHHHhCCCcchheeEecccCCCHHHHHH
Confidence            6677776555555544444444444443

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.75  E-value=1.5e-07  Score=81.74  Aligned_cols=124  Identities=22%  Similarity=0.307  Sum_probs=92.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .|+..|+--.|||||+.+++|...-.. .....+.|.+..+++... .+..+.+||.||+.+          .+..++ .
T Consensus         2 ii~t~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~-~d~~~~fIDvpgh~~----------~i~~mi-a   69 (447)
T COG3276           2 IIGTAGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKL-EDGVMGFIDVPGHPD----------FISNLL-A   69 (447)
T ss_pred             eEEEeeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccC-CCCceEEeeCCCcHH----------HHHHHH-h
Confidence            578899999999999999998753111 123567888888888876 445899999999963          233333 3


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      ...+.|..++|+++++.++....+.+..+.. ||..   +.+||+||+|...  +..++..+.
T Consensus        70 g~~~~d~alLvV~~deGl~~qtgEhL~iLdl-lgi~---~giivltk~D~~d--~~r~e~~i~  126 (447)
T COG3276          70 GLGGIDYALLVVAADEGLMAQTGEHLLILDL-LGIK---NGIIVLTKADRVD--EARIEQKIK  126 (447)
T ss_pred             hhcCCceEEEEEeCccCcchhhHHHHHHHHh-cCCC---ceEEEEecccccc--HHHHHHHHH
Confidence            3467899999999988999999888866654 6754   7899999999997  544444443

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.74  E-value=9.5e-08  Score=86.36  Aligned_cols=121  Identities=22%  Similarity=0.258  Sum_probs=81.2

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC---------------CccceeeeeeeeEe----eCCeEEEEE
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS---------------SGVTSTCEMQRTVL----KDGQVVNVI   74 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~---------------~~~t~~~~~~~~~~----~~~~~~~li   74 (253)
                      ..+....+|+++|+-++|||+|+..|.++..+......               .+.+.+........    .+..-++++
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            34455688999999999999999999988764432111               12222222221111    123468899


Q ss_pred             eCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           75 DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        75 DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ||||+.++.       .+..+.+.    -+|++++|+|+..........+++...+.     ..++++|+||.|.+
T Consensus       203 DTPGHVnF~-------DE~ta~l~----~sDgvVlvvDv~EGVmlntEr~ikhaiq~-----~~~i~vviNKiDRL  262 (971)
T KOG0468|consen  203 DTPGHVNFS-------DETTASLR----LSDGVVLVVDVAEGVMLNTERIIKHAIQN-----RLPIVVVINKVDRL  262 (971)
T ss_pred             cCCCcccch-------HHHHHHhh----hcceEEEEEEcccCceeeHHHHHHHHHhc-----cCcEEEEEehhHHH
Confidence            999999876       34444443    44899999999878887776666554432     24799999999987

>cd03216 ABC_Carb_Monos_I This family represents the domain I of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.74  E-value=1.1e-07  Score=73.76  Aligned_cols=115  Identities=12%  Similarity=0.104  Sum_probs=60.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee-eeeE--eeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTV--LKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~-~~~~--~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.    +...... ....  ......+.++.  .    -++++.   +..
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G~----v~~~g~~~~~~~~~~~~~~~i~~~~--q----LS~G~~---qrl   91 (163)
T cd03216          25 RGEVHALLGENGAGKSTLMKILSGLYKPDSGE----ILVDGKEVSFASPRDARRAGIAMVY--Q----LSVGER---QMV   91 (163)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCeE----EEECCEECCcCCHHHHHhcCeEEEE--e----cCHHHH---HHH
Confidence            44689999999999999999999986543331    1110000 0000  00001111111  0    122232   111


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      .........| -+++++++++.++...+..+ +.+.+....   ..++|+++|.-.
T Consensus        92 ~laral~~~p-~illlDEP~~~LD~~~~~~l~~~l~~~~~~---~~tiii~sh~~~  143 (163)
T cd03216          92 EIARALARNA-RLLILDEPTAALTPAEVERLFKVIRRLRAQ---GVAVIFISHRLD  143 (163)
T ss_pred             HHHHHHhcCC-CEEEEECCCcCCCHHHHHHHHHHHHHHHHC---CCEEEEEeCCHH
Confidence            2222333444 66777999989999885555 444443211   258888888643

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. Pentoses include xylose, arabinose, and ribose. Important hexoses include glucose, galactose, and fructose. In members of the Carb_monos family, the single hydrophobic gene product forms a homodimer while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK12289 GTPase RsgA; Reviewed

Probab=98.73  E-value=1.9e-08  Score=87.13  Aligned_cols=60  Identities=25%  Similarity=0.334  Sum_probs=40.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ..++|+|++|+|||||+|+|++......+..+.      .+|........  ..+  ..|+||||+..+.
T Consensus       173 ki~v~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l--~~g--~~liDTPG~~~~~  238 (352)
T PRK12289        173 KITVVAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFEL--PNG--GLLADTPGFNQPD  238 (352)
T ss_pred             ceEEEEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEEC--CCC--cEEEeCCCccccc
Confidence            358999999999999999999876654443222      13444433322  122  3799999997644

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.73  E-value=6.7e-08  Score=79.10  Aligned_cols=125  Identities=16%  Similarity=0.128  Sum_probs=78.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC-CCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS-SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~-~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+++++.|.+++|||+|+|.++.......... ..+.|...+.+    .-+..++++|.||+.-.. -+....+.+..
T Consensus       134 ~~~pe~~~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f----~v~~~~~~vDlPG~~~a~-y~~~~~~d~~~  208 (320)
T KOG2486|consen  134 DKRPELAFYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHF----HVGKSWYEVDLPGYGRAG-YGFELPADWDK  208 (320)
T ss_pred             CCCceeeeecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeee----eccceEEEEecCCccccc-CCccCcchHhH
Confidence            4558999999999999999999988765322222 33444433322    236789999999954222 12222233434


Q ss_pred             HHHhhcC---CccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKD---GIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~---~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +...++-   ..-.+++++|++.++.+.|...++|+.+.     ..|..+|+||+|...
T Consensus       209 ~t~~Y~leR~nLv~~FLLvd~sv~i~~~D~~~i~~~ge~-----~VP~t~vfTK~DK~k  262 (320)
T KOG2486|consen  209 FTKSYLLERENLVRVFLLVDASVPIQPTDNPEIAWLGEN-----NVPMTSVFTKCDKQK  262 (320)
T ss_pred             hHHHHHHhhhhhheeeeeeeccCCCCCCChHHHHHHhhc-----CCCeEEeeehhhhhh
Confidence            4332221   11234455566667777787778877663     248999999999874

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.73  E-value=3.8e-08  Score=84.20  Aligned_cols=125  Identities=17%  Similarity=0.170  Sum_probs=70.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCCc-----------cceeeeeeeeE---------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR------ASSSG-----------VTSTCEMQRTV---------------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------~~~~~-----------~t~~~~~~~~~---------------   64 (253)
                      .++..|+++|+||+||||++..|++.......      .+...           ......+....               
T Consensus       112 ~~~~vi~lvGpnGsGKTTt~~kLA~~l~~~g~~V~Li~~D~~r~~a~eql~~~a~~~~i~~~~~~~~~dpa~~v~~~l~~  191 (318)
T PRK10416        112 KKPFVILVVGVNGVGKTTTIGKLAHKYKAQGKKVLLAAGDTFRAAAIEQLQVWGERVGVPVIAQKEGADPASVAFDAIQA  191 (318)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCeEEEEecCccchhhHHHHHHHHHHcCceEEEeCCCCCHHHHHHHHHHH
Confidence            34579999999999999999998765321111      11100           00001111000               


Q ss_pred             -eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh----cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe
Q 025391           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA----KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  139 (253)
Q Consensus        65 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~  139 (253)
                       ...+.++++|||||.....   .....++..+...+    ...||..++|++++.......  ....+.+.+     ..
T Consensus       192 ~~~~~~D~ViIDTaGr~~~~---~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~--~a~~f~~~~-----~~  261 (318)
T PRK10416        192 AKARGIDVLIIDTAGRLHNK---TNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALS--QAKAFHEAV-----GL  261 (318)
T ss_pred             HHhCCCCEEEEeCCCCCcCC---HHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHH--HHHHHHhhC-----CC
Confidence             0134579999999986533   22334444444322    346788999999984333222  222222222     35


Q ss_pred             EEEEEeCCCCCC
Q 025391          140 MIVVFTGGDELE  151 (253)
Q Consensus       140 ~ivv~~k~D~~~  151 (253)
                      .-+|+||.|...
T Consensus       262 ~giIlTKlD~t~  273 (318)
T PRK10416        262 TGIILTKLDGTA  273 (318)
T ss_pred             CEEEEECCCCCC
Confidence            789999999764

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=98.71  E-value=1e-06  Score=75.59  Aligned_cols=26  Identities=19%  Similarity=0.187  Sum_probs=21.9

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+...|+|+|++|+|||||++.|..
T Consensus        53 ~~~~~~igi~G~~GaGKSTl~~~l~~   78 (332)
T PRK09435         53 TGNALRIGITGVPGVGKSTFIEALGM   78 (332)
T ss_pred             CCCcEEEEEECCCCCCHHHHHHHHHH
Confidence            34568999999999999999998643

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=98.71  E-value=2.8e-07  Score=77.91  Aligned_cols=129  Identities=15%  Similarity=0.174  Sum_probs=89.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc-----------c---c-----------------CCCCccceeeeeeeeEee
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK-----------S---R-----------------ASSSGVTSTCEMQRTVLK   66 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-----------~---~-----------------~~~~~~t~~~~~~~~~~~   66 (253)
                      ..+|++-||.-.-||||||-.|+-.....           +   +                 ....++|....+.++.. 
T Consensus         5 ~lLRfiTcGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT-   83 (431)
T COG2895           5 SLLRFITCGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFST-   83 (431)
T ss_pred             cceeEEEeccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeeccc-
Confidence            44899999999999999998887654200           0   0                 00127888888877765 


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ..+++.+.||||+.+          ..+++..- ..-+|+.|+++|+...+-...+.. ..+...+|-.   ++++.+||
T Consensus        84 ~KRkFIiADTPGHeQ----------YTRNMaTG-ASTadlAIlLVDAR~Gvl~QTrRH-s~I~sLLGIr---hvvvAVNK  148 (431)
T COG2895          84 EKRKFIIADTPGHEQ----------YTRNMATG-ASTADLAILLVDARKGVLEQTRRH-SFIASLLGIR---HVVVAVNK  148 (431)
T ss_pred             ccceEEEecCCcHHH----------Hhhhhhcc-cccccEEEEEEecchhhHHHhHHH-HHHHHHhCCc---EEEEEEee
Confidence            678999999999842          22233322 234589999999875665555433 4566667754   89999999


Q ss_pred             CCCCCCChhhHHHHHc
Q 025391          147 GDELEDNDETLEDYLG  162 (253)
Q Consensus       147 ~D~~~~~~~~~~~~~~  162 (253)
                      +|+..-..+.++.+..
T Consensus       149 mDLvdy~e~~F~~I~~  164 (431)
T COG2895         149 MDLVDYSEEVFEAIVA  164 (431)
T ss_pred             ecccccCHHHHHHHHH
Confidence            9999655666666655

>cd03223 ABCD_peroxisomal_ALDP Peroxisomal ATP-binding cassette transporter (Pat) is involved in the import of very long-chain fatty acids (VLCFA) into the peroxisome

Probab=98.70  E-value=1.5e-07  Score=73.29  Aligned_cols=120  Identities=13%  Similarity=0.083  Sum_probs=62.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCC--CCCCCCCcHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPG--LFDFSAGSEFVGKEI   93 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG--~~~~~~~~~~~~~~~   93 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.......  .....+.. ...  ..++.|---  ....-++++...-.+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G~i~~~~~--~~i~~~~q-~~~~~~~tv~~nl~~~~~~~LS~G~~~rv~l  102 (166)
T cd03223          26 PGDRLLITGPSGTGKSSLFRALAGLWPWGSGRIGMPEG--EDLLFLPQ-RPYLPLGTLREQLIYPWDDVLSGGEQQRLAF  102 (166)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCceEEECCC--ceEEEECC-CCccccccHHHHhhccCCCCCCHHHHHHHHH
Confidence            44689999999999999999999986544332111100  01111110 000  001111000  011112222211122


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                         .......| -+++++++++.++......+..+...++     .+++++||...
T Consensus       103 ---aral~~~p-~~lllDEPt~~LD~~~~~~l~~~l~~~~-----~tiiivsh~~~  149 (166)
T cd03223         103 ---ARLLLHKP-KFVFLDEATSALDEESEDRLYQLLKELG-----ITVISVGHRPS  149 (166)
T ss_pred             ---HHHHHcCC-CEEEEECCccccCHHHHHHHHHHHHHhC-----CEEEEEeCChh
Confidence               22223444 6777888888999988665544433332     48999999743

The peroxisomal membrane forms a permeability barrier for a wide variety of metabolites required for and formed during fatty acid beta-oxidation. To communicate with the cytoplasm and mitochondria, peroxisomes need dedicated proteins to transport such hydrophilic molecules across their membranes. X-linked adrenoleukodystrophy (X-ALD) is caused by mutations in the ALD gene, which encodes ALDP (adrenoleukodystrophy protein ), a peroxisomal integral membrane protein that is a member of the ATP-binding cassette (ABC) transporter protein family. The disease is characterized by a striking and unpredictable variation in phenotypic expression. Phenotypes include the rapidly progressive childhood cerebral form (CCALD), the milder adult form, adrenomyeloneuropathy (AMN), and variants without neurologic involvement (i.e. asympt

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.69  E-value=3e-08  Score=81.99  Aligned_cols=60  Identities=27%  Similarity=0.305  Sum_probs=40.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCC------CccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASS------SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~------~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      ..++++|++|+|||||+|.|++.....++...      ..+|+.......   .  ...++||||+..+..
T Consensus       121 ~~~~~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l---~--~~~liDtPG~~~~~l  186 (245)
T TIGR00157       121 RISVFAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHF---H--GGLIADTPGFNEFGL  186 (245)
T ss_pred             CEEEEECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEc---C--CcEEEeCCCccccCC
Confidence            58999999999999999999997654433221      123444433332   2  237999999986553

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=98.69  E-value=5.2e-08  Score=84.30  Aligned_cols=122  Identities=21%  Similarity=0.228  Sum_probs=71.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC-CCccceeeeeee----------------------------eEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRAS-SSGVTSTCEMQR----------------------------TVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~-~~~~t~~~~~~~----------------------------~~~~~~   68 (253)
                      +...|+||||+||||||++..|+.......+.. .+-+|+++.+..                            +....+
T Consensus       202 ~~~vi~LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~  281 (407)
T COG1419         202 QKRVIALVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRD  281 (407)
T ss_pred             cCcEEEEECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhc
Confidence            367999999999999999998877644112211 111232222111                            111245


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .++++|||.|....   +.....++...+..+  .+.-+.||++++....     .++.+.+.|+.-  +.--+++||.|
T Consensus       282 ~d~ILVDTaGrs~~---D~~~i~el~~~~~~~--~~i~~~Lvlsat~K~~-----dlkei~~~f~~~--~i~~~I~TKlD  349 (407)
T COG1419         282 CDVILVDTAGRSQY---DKEKIEELKELIDVS--HSIEVYLVLSATTKYE-----DLKEIIKQFSLF--PIDGLIFTKLD  349 (407)
T ss_pred             CCEEEEeCCCCCcc---CHHHHHHHHHHHhcc--ccceEEEEEecCcchH-----HHHHHHHHhccC--CcceeEEEccc
Confidence            68999999998643   233445666666555  2334556667662222     333444445432  35678899999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       350 ET~  352 (407)
T COG1419         350 ETT  352 (407)
T ss_pred             ccC
Confidence            986

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.69  E-value=5.6e-08  Score=91.10  Aligned_cols=44  Identities=14%  Similarity=0.110  Sum_probs=32.4

Q ss_pred             CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..| -+|++++++++++.....++..+...++     .++|++||...+.
T Consensus       173 ~~P-~lLLLDEPt~~LD~~~~~~L~~~L~~~~-----~tvlivsHd~~~l  216 (635)
T PRK11147        173 SNP-DVLLLDEPTNHLDIETIEWLEGFLKTFQ-----GSIIFISHDRSFI  216 (635)
T ss_pred             cCC-CEEEEcCCCCccCHHHHHHHHHHHHhCC-----CEEEEEeCCHHHH
Confidence            344 5788899999999999777766655443     4899999976653

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.69  E-value=3.5e-08  Score=85.59  Aligned_cols=121  Identities=21%  Similarity=0.155  Sum_probs=68.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC------ccccCCCC---cc--------ceeeeeeeeE----------e---eCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA------FKSRASSS---GV--------TSTCEMQRTV----------L---KDG   68 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~------~~~~~~~~---~~--------t~~~~~~~~~----------~---~~~   68 (253)
                      +.+|+|+|++|+||||++..|++...      .....++.   ..        ...+......          .   ..+
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            46899999999999999999874321      00011110   00        0000000000          0   013


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .+++||||||....   ......++.+.+...  .||.++||++++.... .....++.    |..  ....-+|+||.|
T Consensus       321 ~DvVLIDTaGRs~k---d~~lm~EL~~~lk~~--~PdevlLVLsATtk~~-d~~~i~~~----F~~--~~idglI~TKLD  388 (436)
T PRK11889        321 VDYILIDTAGKNYR---ASETVEEMIETMGQV--EPDYICLTLSASMKSK-DMIEIITN----FKD--IHIDGIVFTKFD  388 (436)
T ss_pred             CCEEEEeCccccCc---CHHHHHHHHHHHhhc--CCCeEEEEECCccChH-HHHHHHHH----hcC--CCCCEEEEEccc
Confidence            58899999998542   233445666655533  4678888888762221 11333333    322  235789999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       389 ET~  391 (436)
T PRK11889        389 ETA  391 (436)
T ss_pred             CCC
Confidence            986

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.68  E-value=9.7e-08  Score=80.83  Aligned_cols=60  Identities=33%  Similarity=0.401  Sum_probs=40.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----C--ccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASS----S--GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~----~--~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ..++++|++|+|||||+|+|+|...+..+...    .  .+|........   . ....++||||+.++.
T Consensus       162 k~~~~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~---~-~~~~liDtPG~~~~~  227 (287)
T cd01854         162 KTSVLVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPL---P-GGGLLIDTPGFREFG  227 (287)
T ss_pred             ceEEEECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEc---C-CCCEEEECCCCCccC
Confidence            68999999999999999999998765544221    1  12333322222   1 123799999996644

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.68  E-value=1e-07  Score=81.06  Aligned_cols=60  Identities=30%  Similarity=0.369  Sum_probs=40.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      ...++|+|++|+|||||+|+|+|......+....      ..|........    .....++||||+...
T Consensus       164 gk~~~~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~----~~~~~~~DtpG~~~~  229 (298)
T PRK00098        164 GKVTVLAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDL----PGGGLLIDTPGFSSF  229 (298)
T ss_pred             CceEEEECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEc----CCCcEEEECCCcCcc
Confidence            3579999999999999999999987654443221      12322222222    123489999999754

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.67  E-value=4.6e-08  Score=81.68  Aligned_cols=61  Identities=28%  Similarity=0.329  Sum_probs=40.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ....+++|.+|+|||||+|+|.+.....++..      ...+|+.......+    ..-.|+||||+.++.
T Consensus       164 ~~~svl~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~----~gG~iiDTPGf~~~~  230 (301)
T COG1162         164 GKITVLLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLP----GGGWIIDTPGFRSLG  230 (301)
T ss_pred             CCeEEEECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcC----CCCEEEeCCCCCccC
Confidence            35889999999999999999998654333211      11234444444332    233689999997654

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=98.65  E-value=2.6e-07  Score=82.55  Aligned_cols=132  Identities=20%  Similarity=0.256  Sum_probs=85.4

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCc-----------------------------cccCCCCccceeeeeeeeEe
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAF-----------------------------KSRASSSGVTSTCEMQRTVL   65 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~-----------------------------~~~~~~~~~t~~~~~~~~~~   65 (253)
                      .+.+-+.++++|+..+|||||+-.|+-.-..                             .......|+|+......++ 
T Consensus       173 ~~k~~l~lvv~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fe-  251 (603)
T KOG0458|consen  173 DPKDHLNLVVLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFE-  251 (603)
T ss_pred             CCccceEEEEEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEe-
Confidence            3445589999999999999999887543220                             0011224677777766666 


Q ss_pred             eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC-----CCCHH--HHHHHHHHHHHhcccccC
Q 025391           66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS-----RFSQE--EEAALHSLQTLFGKKIFD  138 (253)
Q Consensus        66 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~-----~~~~~--~~~~l~~l~~~~g~~~~~  138 (253)
                      .....++++|+||+-+|-.          .++... ..+|+.++|+|++.     .|++.  .++....+ +.+|-   .
T Consensus       252 s~~~~~tliDaPGhkdFi~----------nmi~g~-sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~ll-r~Lgi---~  316 (603)
T KOG0458|consen  252 SKSKIVTLIDAPGHKDFIP----------NMISGA-SQADVAVLVVDASTGEFESGFDPGGQTREHALLL-RSLGI---S  316 (603)
T ss_pred             cCceeEEEecCCCccccch----------hhhccc-cccceEEEEEECCcchhhhccCCCCchHHHHHHH-HHcCc---c
Confidence            3677899999999876543          333222 45689999998762     23322  25554444 44564   4


Q ss_pred             eEEEEEeCCCCCCCChhhHHHHHc
Q 025391          139 YMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus       139 ~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      ..+|++||+|.+.=....++.+..
T Consensus       317 qlivaiNKmD~V~Wsq~RF~eIk~  340 (603)
T KOG0458|consen  317 QLIVAINKMDLVSWSQDRFEEIKN  340 (603)
T ss_pred             eEEEEeecccccCccHHHHHHHHH
Confidence            799999999999543445555444

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.65  E-value=2.9e-07  Score=77.23  Aligned_cols=126  Identities=17%  Similarity=0.193  Sum_probs=70.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCC------CccccCCCC--c---------cceeeeeeee-------E--------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRR------AFKSRASSS--G---------VTSTCEMQRT-------V--------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~------~~~~~~~~~--~---------~t~~~~~~~~-------~--------   64 (253)
                      .+...|+++|++|+||||++..|+...      +.....+..  +         ..........       .        
T Consensus        70 ~~~~vi~l~G~~G~GKTTt~akLA~~l~~~g~~V~li~~D~~r~~a~~ql~~~~~~~~i~~~~~~~~~dp~~~~~~~l~~  149 (272)
T TIGR00064        70 NKPNVILFVGVNGVGKTTTIAKLANKLKKQGKSVLLAAGDTFRAAAIEQLEEWAKRLGVDVIKQKEGADPAAVAFDAIQK  149 (272)
T ss_pred             CCCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeCCCCCHHHHHHHHHHHHhCCeEEEeCCCCCCHHHHHHHHHHH
Confidence            345789999999999999988876422      100011110  0         0000000000       0        


Q ss_pred             -eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh----cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe
Q 025391           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA----KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  139 (253)
Q Consensus        65 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~  139 (253)
                       ...+.++++|||||....   +.....++.......    ...+|..++|++++.  ..........+.+.+     ..
T Consensus       150 ~~~~~~D~ViIDT~G~~~~---d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~--~~~~~~~~~~f~~~~-----~~  219 (272)
T TIGR00064       150 AKARNIDVVLIDTAGRLQN---KVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATT--GQNALEQAKVFNEAV-----GL  219 (272)
T ss_pred             HHHCCCCEEEEeCCCCCcc---hHHHHHHHHHHHHHHhcccCCCCceEEEEEECCC--CHHHHHHHHHHHhhC-----CC
Confidence             013568999999998653   333344555444322    245799999999873  333323333333332     25


Q ss_pred             EEEEEeCCCCCCC
Q 025391          140 MIVVFTGGDELED  152 (253)
Q Consensus       140 ~ivv~~k~D~~~~  152 (253)
                      .-+|+||.|....
T Consensus       220 ~g~IlTKlDe~~~  232 (272)
T TIGR00064       220 TGIILTKLDGTAK  232 (272)
T ss_pred             CEEEEEccCCCCC
Confidence            7899999999753

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.

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.65  E-value=1.2e-07  Score=88.89  Aligned_cols=44  Identities=5%  Similarity=0.046  Sum_probs=32.7

Q ss_pred             CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..| -+|++++|+++++.....++..+...++     .++|++||...+.
T Consensus       166 ~~P-~lLLLDEPtn~LD~~~~~~L~~~L~~~~-----~tviivsHd~~~l  209 (638)
T PRK10636        166 CRS-DLLLLDEPTNHLDLDAVIWLEKWLKSYQ-----GTLILISHDRDFL  209 (638)
T ss_pred             cCC-CEEEEcCCCCcCCHHHHHHHHHHHHhCC-----CeEEEEeCCHHHH
Confidence            444 4778899999999999777766655443     4899999987654

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=98.65  E-value=9.1e-08  Score=84.89  Aligned_cols=60  Identities=7%  Similarity=0.113  Sum_probs=46.0

Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGREC  165 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~  165 (253)
                      ..+..| -+|++++++.+++.....+++.....+..    +++||++|...+.  +..+.+++....
T Consensus       235 ~Lf~kP-~LLLLDEPtnhLDleA~~wLee~L~k~d~----~~lVi~sh~QDfl--n~vCT~Ii~l~~  294 (614)
T KOG0927|consen  235 ALFQKP-DLLLLDEPTNHLDLEAIVWLEEYLAKYDR----IILVIVSHSQDFL--NGVCTNIIHLDN  294 (614)
T ss_pred             HHhcCC-CEEEecCCccCCCHHHHHHHHHHHHhccC----ceEEEEecchhhh--hhHhhhhheecc
Confidence            334556 46677889989999999988877776543    3899999999988  888888887533

>TIGR00092 GTP-binding protein YchF

Probab=98.64  E-value=1.5e-07  Score=81.36  Aligned_cols=90  Identities=16%  Similarity=0.062  Sum_probs=58.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC----------------eEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~liDtpG~~~~~   83 (253)
                      ++++|||.+++|||||+|+|++........ ....|.......+...+.                ..+.++|.||+....
T Consensus         3 lk~GivGlPn~GKSTlfnaLT~~~~~~~a~-ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gA   81 (368)
T TIGR00092         3 LSGGIVGLPNVGKSTLFAATTNLLGNEAAN-PPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGA   81 (368)
T ss_pred             ceEEEECCCCCChHHHHHHHhCCCccccCC-CCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccch
Confidence            689999999999999999999986511111 122233333333332221                268899999998654


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      +.+......+...++.+    |+++.|++..
T Consensus        82 s~g~Glgn~fL~~ir~~----d~l~hVvr~f  108 (368)
T TIGR00092        82 SKGEGLGNQFLANIREV----DIIQHVVRCF  108 (368)
T ss_pred             hcccCcchHHHHHHHhC----CEEEEEEeCC
Confidence            44444445555555544    8999999874

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.

>cd03246 ABCC_Protease_Secretion This family represents the ABC component of the protease secretion system PrtD, a 60-kDa integral membrane protein sharing 37% identity with HlyB, the ABC component of the alpha-hemolysin secretion pathway, in the C-terminal domain

Probab=98.64  E-value=2.1e-07  Score=72.82  Aligned_cols=123  Identities=18%  Similarity=0.154  Sum_probs=62.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC------CCCcHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF------SAGSEFVGK   91 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~------~~~~~~~~~   91 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+....... .............-..+..-|.++..      -++++   +
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~-~~~~~~~~~~~~~i~~~~q~~~~~~~tv~~~lLS~G~---~  102 (173)
T cd03246          27 PGESLAIIGPSGSGKSTLARLILGLLRPTSGRVRLDGA-DISQWDPNELGDHVGYLPQDDELFSGSIAENILSGGQ---R  102 (173)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCCCCCeEEECCE-EcccCCHHHHHhheEEECCCCccccCcHHHHCcCHHH---H
Confidence            34689999999999999999999986544332110000 00000000000111122223333221      11112   1


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCC
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      +-..........| -++++++++..++...+..+ +.+... ...  ..++++++|..
T Consensus       103 qrv~la~al~~~p-~~lllDEPt~~LD~~~~~~l~~~l~~~-~~~--~~tii~~sh~~  156 (173)
T cd03246         103 QRLGLARALYGNP-RILVLDEPNSHLDVEGERALNQAIAAL-KAA--GATRIVIAHRP  156 (173)
T ss_pred             HHHHHHHHHhcCC-CEEEEECCccccCHHHHHHHHHHHHHH-HhC--CCEEEEEeCCH
Confidence            1112223333455 57778899889999985555 444443 221  25888899854

They export degradative enzymes by using a type I protein secretion system and lack an N-terminal signal peptide, but contain a C-terminal secretion signal. The Type I secretion apparatus is made up of three components, an ABC transporter, a membrane fusion protein (MFP), and an outer membrane protein (OMP). For the HlyA transporter complex, HlyB (ABC transporter) and HlyD (MFP) reside in the inner membrane of E. coli. The OMP component is TolC, which is thought to interact with the MFP to form a continuous channel across the periplasm from the cytoplasm to the exterior. HlyB belongs to the family of ABC transporters, which are ubiquitous, ATP-dependent transmembrane pumps or channels. The spectrum of transport substra

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=3.6e-07  Score=79.25  Aligned_cols=121  Identities=16%  Similarity=0.243  Sum_probs=83.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh--CCCCccccCC------------------CCccceeeeeeeeEeeCCeEEEEEeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL--GRRAFKSRAS------------------SSGVTSTCEMQRTVLKDGQVVNVIDT   76 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~--g~~~~~~~~~------------------~~~~t~~~~~~~~~~~~~~~~~liDt   76 (253)
                      ...++.+||-++.||||||-..|+  |..+-..+..                  ..|++..+..-..++ ++..++++||
T Consensus        10 ~rRRTFAIISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y-~~~~iNLLDT   88 (528)
T COG4108          10 ARRRTFAIISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDY-ADCLVNLLDT   88 (528)
T ss_pred             hhhcceeEEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEecc-CCeEEeccCC
Confidence            345789999999999999987654  2221111110                  124455555455554 7899999999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCCh
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDND  154 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~  154 (253)
                      ||+.|++-+..   +        .+..+|+.++|+|+...+.+....+++.++-. +    .|++-.+||.|.-..++
T Consensus        89 PGHeDFSEDTY---R--------tLtAvDsAvMVIDaAKGiE~qT~KLfeVcrlR-~----iPI~TFiNKlDR~~rdP  150 (528)
T COG4108          89 PGHEDFSEDTY---R--------TLTAVDSAVMVIDAAKGIEPQTLKLFEVCRLR-D----IPIFTFINKLDREGRDP  150 (528)
T ss_pred             CCccccchhHH---H--------HHHhhheeeEEEecccCccHHHHHHHHHHhhc-C----CceEEEeeccccccCCh
Confidence            99998874322   1        22345899999999879999998888766542 3    48999999999986444

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.64  E-value=2e-07  Score=74.00  Aligned_cols=32  Identities=28%  Similarity=0.385  Sum_probs=27.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      ..-.++||||+|+|||||+++|.+...+..+.
T Consensus        27 ~Gevv~iiGpSGSGKSTlLRclN~LE~~~~G~   58 (240)
T COG1126          27 KGEVVVIIGPSGSGKSTLLRCLNGLEEPDSGS   58 (240)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCcCCCCce
Confidence            34689999999999999999999987766653

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=98.64  E-value=1.4e-07  Score=78.84  Aligned_cols=126  Identities=18%  Similarity=0.173  Sum_probs=81.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.+.|.+||.+++|||||++.|++....+..  .-..|.+........+.|..+.+.||-||.+.-.      -.+..++
T Consensus       177 s~pviavVGYTNaGKsTLikaLT~Aal~p~d--rLFATLDpT~h~a~Lpsg~~vlltDTvGFisdLP------~~LvaAF  248 (410)
T KOG0410|consen  177 SSPVIAVVGYTNAGKSTLIKALTKAALYPND--RLFATLDPTLHSAHLPSGNFVLLTDTVGFISDLP------IQLVAAF  248 (410)
T ss_pred             CCceEEEEeecCccHHHHHHHHHhhhcCccc--hhheeccchhhhccCCCCcEEEEeechhhhhhCc------HHHHHHH
Confidence            3479999999999999999999977654433  2234444444445556788999999999974221      3333333


Q ss_pred             Hhhc---CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc---ccCeEEEEEeCCCCCC
Q 025391           98 GMAK---DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK---IFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~---~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~---~~~~~ivv~~k~D~~~  151 (253)
                      ...+   ..+|.+|-|.|++++.-...+..+....+.+|-+   -...++=|=||+|.-.
T Consensus       249 ~ATLeeVaeadlllHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~  308 (410)
T KOG0410|consen  249 QATLEEVAEADLLLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEE  308 (410)
T ss_pred             HHHHHHHhhcceEEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhcccccccc
Confidence            3332   3568999999998555555544444444444532   1234556677877764

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=2.3e-07  Score=76.56  Aligned_cols=127  Identities=18%  Similarity=0.229  Sum_probs=85.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc--------------ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK--------------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~--------------~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      +-.+|+.||+...|||||-.+|++.-.-.              ......++|.......+.. .++.+..+|+||.-|  
T Consensus        11 phVNigtiGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPeEk~rGITIntahveyet-~~rhyahVDcPGHaD--   87 (394)
T COG0050          11 PHVNVGTIGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPEEKARGITINTAHVEYET-ANRHYAHVDCPGHAD--   87 (394)
T ss_pred             CeeEEEEeccccCchhhHHHHHHHHHHhhccccccchhhhccCchHhhcCceeccceeEEec-CCceEEeccCCChHH--
Confidence            34799999999999999999987542200              0011235555544444443 577899999999853  


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                              .+.+++.-+ ...|+.|+|+++++..-++.+..+-..+. .|-+   .+++++||+|+.+  +..+-+.++
T Consensus        88 --------YvKNMItgA-aqmDgAILVVsA~dGpmPqTrEHiLlarq-vGvp---~ivvflnK~Dmvd--d~ellelVe  151 (394)
T COG0050          88 --------YVKNMITGA-AQMDGAILVVAATDGPMPQTREHILLARQ-VGVP---YIVVFLNKVDMVD--DEELLELVE  151 (394)
T ss_pred             --------HHHHHhhhH-HhcCccEEEEEcCCCCCCcchhhhhhhhh-cCCc---EEEEEEecccccC--cHHHHHHHH
Confidence                    334444333 35589999999988888888777644443 4543   6889999999997  554444443

>cd03213 ABCG_EPDR ABCG transporters are involved in eye pigment (EP) precursor transport, regulation of lipid-trafficking mechanisms, and pleiotropic drug resistance (DR)

Probab=98.63  E-value=6.4e-07  Score=71.47  Aligned_cols=123  Identities=17%  Similarity=0.069  Sum_probs=62.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC--CccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHH------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR--AFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV------   89 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~--~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~------   89 (253)
                      +.-.++|+|+||+|||||++.|+|..  .+..+.    +...............-..+.+.|.++....-.+.+      
T Consensus        34 ~Ge~~~l~G~nGsGKStLl~~i~Gl~~~~~~~G~----i~~~g~~~~~~~~~~~i~~~~q~~~~~~~~t~~~~i~~~~~~  109 (194)
T cd03213          34 PGELTAIMGPSGAGKSTLLNALAGRRTGLGVSGE----VLINGRPLDKRSFRKIIGYVPQDDILHPTLTVRETLMFAAKL  109 (194)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCCceE----EEECCEeCchHhhhheEEEccCcccCCCCCcHHHHHHHHHHh
Confidence            44689999999999999999999985  433321    111000000000011111223334333211100100      


Q ss_pred             -----H-HHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCC
Q 025391           90 -----G-KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        90 -----~-~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                           . ++...........| -+++++++++.++...+..+ +.+.+....   ..++|+++|.-
T Consensus       110 ~~LS~G~~qrv~laral~~~p-~illlDEP~~~LD~~~~~~l~~~l~~~~~~---~~tiii~sh~~  171 (194)
T cd03213         110 RGLSGGERKRVSIALELVSNP-SLLFLDEPTSGLDSSSALQVMSLLRRLADT---GRTIICSIHQP  171 (194)
T ss_pred             ccCCHHHHHHHHHHHHHHcCC-CEEEEeCCCcCCCHHHHHHHHHHHHHHHhC---CCEEEEEecCc
Confidence                 0 11111122223444 57788899889999885555 444443211   25899999963

DR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. Compared to other members of the ABC transporter subfamilies, the ABCG transporter family is composed of proteins that have an ATP-binding cassette domain at the N-terminus and a TM (transmembrane) domain at the C-terminus.

>COG3840 ThiQ ABC-type thiamine transport system, ATPase component [Coenzyme metabolism]

Probab=98.63  E-value=2.6e-07  Score=71.49  Aligned_cols=32  Identities=31%  Similarity=0.345  Sum_probs=27.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +..-+++|+|++|+|||||+|.|+|-..+..+
T Consensus        23 ~~ge~vAi~GpSGaGKSTLLnLIAGF~~P~~G   54 (231)
T COG3840          23 PAGEIVAILGPSGAGKSTLLNLIAGFETPASG   54 (231)
T ss_pred             cCCcEEEEECCCCccHHHHHHHHHhccCCCCc
Confidence            34469999999999999999999998776555

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.62  E-value=2.7e-07  Score=71.30  Aligned_cols=120  Identities=20%  Similarity=0.110  Sum_probs=76.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++++++|..|.||||+.++.+-...-.....+.+........... .+..++.+|||.|..-..+-..         
T Consensus         8 ~~~fklvlvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn-~g~irf~~wdtagqEk~gglrd---------   77 (216)
T KOG0096|consen    8 GLTFKLVLVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTN-RGQIRFNVWDTAGQEKKGGLRD---------   77 (216)
T ss_pred             cceEEEEEecCCcccccchhhhhhcccceecccCcceeEEeeeeeecc-cCcEEEEeeecccceeeccccc---------
Confidence            457899999999999999999877655433333333333333222111 1236899999999864432111         


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                        -++-+..+.|+++|++++++-.. ..+.+.+.+..+.   .|++++.||.|.-.
T Consensus        78 --gyyI~~qcAiimFdVtsr~t~~n~~rwhrd~~rv~~N---iPiv~cGNKvDi~~  128 (216)
T KOG0096|consen   78 --GYYIQGQCAIIMFDVTSRFTYKNVPRWHRDLVRVREN---IPIVLCGNKVDIKA  128 (216)
T ss_pred             --ccEEecceeEEEeeeeehhhhhcchHHHHHHHHHhcC---CCeeeeccceeccc
Confidence              11122347888899988888766 3344455555443   48999999999865

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.62  E-value=8.9e-08  Score=82.21  Aligned_cols=62  Identities=26%  Similarity=0.362  Sum_probs=45.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      ...++++||-+++|||||||+|+|......+..+ |.|........    ...+.++||||+.-...
T Consensus       131 ~~~~v~vvG~PNVGKSslIN~L~~k~~~~~s~~P-G~Tk~~q~i~~----~~~i~LlDtPGii~~~~  192 (322)
T COG1161         131 RKIRVGVVGYPNVGKSTLINRLLGKKVAKTSNRP-GTTKGIQWIKL----DDGIYLLDTPGIIPPKF  192 (322)
T ss_pred             cceEEEEEcCCCCcHHHHHHHHhcccceeeCCCC-ceecceEEEEc----CCCeEEecCCCcCCCCc
Confidence            3478999999999999999999999885555444 44444333322    33489999999986554

>cd03228 ABCC_MRP_Like The MRP (Mutidrug Resistance Protein)-like transporters are involved in drug, peptide, and lipid export

Probab=98.61  E-value=2.4e-07  Score=72.38  Aligned_cols=123  Identities=19%  Similarity=0.151  Sum_probs=63.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC------CCCcHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF------SAGSEFVGK   91 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~------~~~~~~~~~   91 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+....... .............-..+...|.++..      -++++.  +
T Consensus        27 ~G~~~~l~G~nGsGKstLl~~i~G~~~~~~G~i~~~g~-~~~~~~~~~~~~~i~~~~~~~~~~~~t~~e~lLS~G~~--~  103 (171)
T cd03228          27 PGEKVAIVGPSGSGKSTLLKLLLRLYDPTSGEILIDGV-DLRDLDLESLRKNIAYVPQDPFLFSGTIRENILSGGQR--Q  103 (171)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCCCCCEEEECCE-EhhhcCHHHHHhhEEEEcCCchhccchHHHHhhCHHHH--H
Confidence            34689999999999999999999986544332110000 00000000000011122333333321      011111  1


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCC
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      + ..........| -++++++++..++......+ +.+.+. ...   .++++++|...
T Consensus       104 r-l~la~al~~~p-~llllDEP~~gLD~~~~~~l~~~l~~~-~~~---~tii~~sh~~~  156 (171)
T cd03228         104 R-IAIARALLRDP-PILILDEATSALDPETEALILEALRAL-AKG---KTVIVIAHRLS  156 (171)
T ss_pred             H-HHHHHHHhcCC-CEEEEECCCcCCCHHHHHHHHHHHHHh-cCC---CEEEEEecCHH
Confidence            1 11222333444 57788889889999885544 444443 222   58888888654

They belong to the subfamily C of the ATP-binding cassette (ABC) superfamily of transport proteins. The ABCC subfamily contains transporters with a diverse functional spectrum that includes ion transport, cell surface receptor, and toxin secretion activities. The MRP-like family, simlar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains, each composed of six transmembrane (TM) helices, and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=98.61  E-value=5.5e-07  Score=74.19  Aligned_cols=30  Identities=27%  Similarity=0.288  Sum_probs=25.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||+++|+|.-.+..+
T Consensus        28 G~i~~iiGpNG~GKSTLLk~l~g~l~p~~G   57 (258)
T COG1120          28 GEITGILGPNGSGKSTLLKCLAGLLKPKSG   57 (258)
T ss_pred             CcEEEEECCCCCCHHHHHHHHhccCCCCCC
Confidence            368999999999999999999997655444

>cd03215 ABC_Carb_Monos_II This family represents domain II of the carbohydrate uptake proteins that transport only monosaccharides (Monos)

Probab=98.60  E-value=3.8e-07  Score=72.03  Aligned_cols=31  Identities=26%  Similarity=0.424  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (182)
T cd03215          25 AGEIVGIAGLVGNGQTELAEALFGLRPPASG   55 (182)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654443

The Carb_Monos family is involved in the uptake of monosaccharides, such as pentoses (such as xylose, arabinose, and ribose) and hexoses (such as xylose, arabinose, and ribose), that cannot be broken down to simple sugars by hydrolysis. In members of Carb_Monos family the single hydrophobic gene product forms a homodimer, while the ABC protein represents a fusion of two nucleotide-binding domains. However, it is assumed that two copies of the ABC domains are present in the assembled transporter.

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.60  E-value=1.7e-07  Score=87.71  Aligned_cols=123  Identities=21%  Similarity=0.232  Sum_probs=66.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceee------------------eeee----------eEeeCCe
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTC------------------EMQR----------TVLKDGQ   69 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-~~~~~t~~~------------------~~~~----------~~~~~~~   69 (253)
                      ...|+|||+||+||||++..|++......+. ...-++.+.                  ....          +....+.
T Consensus       185 g~Vi~lVGpnGvGKTTTiaKLA~~~~~~~G~kkV~lit~Dt~RigA~eQL~~~a~~~gvpv~~~~~~~~l~~al~~~~~~  264 (767)
T PRK14723        185 GGVLALVGPTGVGKTTTTAKLAARCVAREGADQLALLTTDSFRIGALEQLRIYGRILGVPVHAVKDAADLRFALAALGDK  264 (767)
T ss_pred             CeEEEEECCCCCcHHHHHHHHHhhHHHHcCCCeEEEecCcccchHHHHHHHHHHHhCCCCccccCCHHHHHHHHHHhcCC
Confidence            4689999999999999999998764211110 000000000                  0000          0012345


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      +++||||||.....   .....++.....  ...|+-.++|++++..  ..+ ..+++.+....+.   ...-+|+||.|
T Consensus       265 D~VLIDTAGRs~~d---~~l~eel~~l~~--~~~p~e~~LVLsAt~~--~~~l~~i~~~f~~~~~~---~i~glIlTKLD  334 (767)
T PRK14723        265 HLVLIDTVGMSQRD---RNVSEQIAMLCG--VGRPVRRLLLLNAASH--GDTLNEVVHAYRHGAGE---DVDGCIITKLD  334 (767)
T ss_pred             CEEEEeCCCCCccC---HHHHHHHHHHhc--cCCCCeEEEEECCCCc--HHHHHHHHHHHhhcccC---CCCEEEEeccC
Confidence            79999999976432   223333333222  2456778899888732  112 2233333322111   24678899999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       335 Et~  337 (767)
T PRK14723        335 EAT  337 (767)
T ss_pred             CCC
Confidence            974

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.60  E-value=2.1e-07  Score=80.93  Aligned_cols=134  Identities=19%  Similarity=0.193  Sum_probs=70.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccC-CCCccceee------------------eeeee----------EeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRA-SSSGVTSTC------------------EMQRT----------VLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-~~~~~t~~~------------------~~~~~----------~~~~~   68 (253)
                      ....++|+|++|+||||++..|++......+. ...-++...                  .....          ....+
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            34689999999999999999997643211110 000000000                  00000          11245


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccc---cCeEEEEEe
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKI---FDYMIVVFT  145 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~---~~~~ivv~~  145 (253)
                      .++++|||||.....   ......+. .+... ..+.-.++|++++....... ..+..+....+.+.   ....-+|+|
T Consensus       216 ~DlVLIDTaG~~~~d---~~l~e~La-~L~~~-~~~~~~lLVLsAts~~~~l~-evi~~f~~~~~~p~~~~~~~~~~I~T  289 (374)
T PRK14722        216 KHMVLIDTIGMSQRD---RTVSDQIA-MLHGA-DTPVQRLLLLNATSHGDTLN-EVVQAYRSAAGQPKAALPDLAGCILT  289 (374)
T ss_pred             CCEEEEcCCCCCccc---HHHHHHHH-HHhcc-CCCCeEEEEecCccChHHHH-HHHHHHHHhhcccccccCCCCEEEEe
Confidence            689999999986422   22222222 23222 34456788888875444333 33444444322211   124578899


Q ss_pred             CCCCCCCChhhH
Q 025391          146 GGDELEDNDETL  157 (253)
Q Consensus       146 k~D~~~~~~~~~  157 (253)
                      |.|....-+..+
T Consensus       290 KlDEt~~~G~~l  301 (374)
T PRK14722        290 KLDEASNLGGVL  301 (374)
T ss_pred             ccccCCCccHHH
Confidence            999986333333

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.60  E-value=1e-07  Score=84.11  Aligned_cols=123  Identities=19%  Similarity=0.206  Sum_probs=66.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-----------------------ccceeeeeee------eEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-----------------------GVTSTCEMQR------TVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~-----------------------~~t~~~~~~~------~~~~~~   68 (253)
                      ...+|+|||+||+||||+++.|++......+....                       +.........      .....+
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            45799999999999999999888752111110000                       0000000000      001234


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+++|||+|.....   .....++... .. ...++-.++|++++....  +   +..+...|..  ....-+|+||.|
T Consensus       270 ~d~VLIDTaGrsqrd---~~~~~~l~~l-~~-~~~~~~~~LVl~at~~~~--~---~~~~~~~f~~--~~~~~~I~TKlD  337 (420)
T PRK14721        270 KHMVLIDTVGMSQRD---QMLAEQIAML-SQ-CGTQVKHLLLLNATSSGD--T---LDEVISAYQG--HGIHGCIITKVD  337 (420)
T ss_pred             CCEEEecCCCCCcch---HHHHHHHHHH-hc-cCCCceEEEEEcCCCCHH--H---HHHHHHHhcC--CCCCEEEEEeee
Confidence            578999999986432   2233333332 22 134567788888773222  2   2222233322  235778999999


Q ss_pred             CCCC
Q 025391          149 ELED  152 (253)
Q Consensus       149 ~~~~  152 (253)
                      ....
T Consensus       338 Et~~  341 (420)
T PRK14721        338 EAAS  341 (420)
T ss_pred             CCCC
Confidence            9853

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.59  E-value=3.6e-07  Score=69.14  Aligned_cols=114  Identities=11%  Similarity=0.030  Sum_probs=73.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      -+++++|--+||||||++.|-....  .   ..-+|.+....... ..+..++.+|..|.           ..-++....
T Consensus        21 gKllFlGLDNAGKTTLLHMLKdDrl--~---qhvPTlHPTSE~l~-Ig~m~ftt~DLGGH-----------~qArr~wkd   83 (193)
T KOG0077|consen   21 GKLLFLGLDNAGKTTLLHMLKDDRL--G---QHVPTLHPTSEELS-IGGMTFTTFDLGGH-----------LQARRVWKD   83 (193)
T ss_pred             ceEEEEeecCCchhhHHHHHccccc--c---ccCCCcCCChHHhe-ecCceEEEEccccH-----------HHHHHHHHH
Confidence            5899999999999999999854432  1   11122222222233 37788999999887           344466678


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |++.+|++++++|+-+.-...+ +..+..+... -.-.+.|++|+.||+|...
T Consensus        84 yf~~v~~iv~lvda~d~er~~es~~eld~ll~~-e~la~vp~lilgnKId~p~  135 (193)
T KOG0077|consen   84 YFPQVDAIVYLVDAYDQERFAESKKELDALLSD-ESLATVPFLILGNKIDIPY  135 (193)
T ss_pred             HHhhhceeEeeeehhhHHHhHHHHHHHHHHHhH-HHHhcCcceeecccccCCC
Confidence            8888899999998853322222 2222222211 0114568999999999975

>cd01859 MJ1464 MJ1464

Probab=98.59  E-value=1.5e-07  Score=72.35  Aligned_cols=57  Identities=30%  Similarity=0.419  Sum_probs=38.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      ...+++++|.+|+||||++|.+.+......+. ..+.|.......    .+..+.+|||||+
T Consensus       100 ~~~~~~~ig~~~~Gkssl~~~l~~~~~~~~~~-~~~~t~~~~~~~----~~~~~~~~DtpGi  156 (156)
T cd01859         100 KEGKVGVVGYPNVGKSSIINALKGRHSASTSP-SPGYTKGEQLVK----ITSKIYLLDTPGV  156 (156)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCccccCC-CCCeeeeeEEEE----cCCCEEEEECcCC
Confidence            45789999999999999999999876433332 223333322211    2346899999995

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.59  E-value=1.4e-07  Score=82.41  Aligned_cols=120  Identities=17%  Similarity=0.148  Sum_probs=62.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcc----ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~----~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      .+|++||.+|+|||||+|+|++.....    ......+.|.....  +.  -+..+.++||||+.....-...+..   .
T Consensus       155 ~~v~~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~--~~--~~~~~~l~DtPG~~~~~~~~~~l~~---~  227 (360)
T TIGR03597       155 KDVYVVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIE--IP--LDDGHSLYDTPGIINSHQMAHYLDK---K  227 (360)
T ss_pred             CeEEEECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEE--EE--eCCCCEEEECCCCCChhHhhhhcCH---H
Confidence            589999999999999999999864311    11122233443322  22  1334679999999753210000000   1


Q ss_pred             HHHhhc--CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAK--DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~--~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+....  ...+...+.++....+.......+.++..   .  ...+.+.+++.+.+.
T Consensus       228 ~l~~~~~~~~i~~~~~~l~~~q~~~~ggl~~~d~~~~---~--~~~~~~~~~~~~~~h  280 (360)
T TIGR03597       228 DLKYITPKKEIKPKTYQLNPNQTLFLGGLARFDYLKG---E--KTSFTFYVSNELNIH  280 (360)
T ss_pred             HHhhcCCCCccCceEEEeCCCCEEEEceEEEEEEecC---C--ceEEEEEccCCceeE
Confidence            111111  34567777777654444344333332221   1  123556666666654

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.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.58  E-value=4.9e-07  Score=76.22  Aligned_cols=117  Identities=16%  Similarity=0.287  Sum_probs=72.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC---cccc--CCCCccceeeeeeeeEee--------CCeEEEEEeCCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA---FKSR--ASSSGVTSTCEMQRTVLK--------DGQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~---~~~~--~~~~~~t~~~~~~~~~~~--------~~~~~~liDtpG~~~~~~~   85 (253)
                      .++++++|+-.+|||||.++|....-   |...  ....++|.+..+......        ....++++|+||..     
T Consensus         7 n~N~GiLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHa-----   81 (522)
T KOG0461|consen    7 NLNLGILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHA-----   81 (522)
T ss_pred             eeeeeeEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcH-----
Confidence            38999999999999999999864321   1111  112344544444333222        23466999999983     


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                            .+.+.+-....-.|..++|+|+........-+.+-     .|....+..+||+||.|.+.
T Consensus        82 ------sLIRtiiggaqiiDlm~lviDv~kG~QtQtAEcLi-----ig~~~c~klvvvinkid~lp  136 (522)
T KOG0461|consen   82 ------SLIRTIIGGAQIIDLMILVIDVQKGKQTQTAECLI-----IGELLCKKLVVVINKIDVLP  136 (522)
T ss_pred             ------HHHHHHHhhhheeeeeeEEEehhcccccccchhhh-----hhhhhccceEEEEecccccc
Confidence                  23333333334558899999997555544433331     23333457899999999996

>PRK14974 cell division protein FtsY; Provisional

Probab=98.58  E-value=2.7e-07  Score=79.32  Aligned_cols=72  Identities=18%  Similarity=0.114  Sum_probs=44.8

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      +.++++|||||....   ......++.......  .||.+++|++++..-  ......+.+.+..     ...-+++||.
T Consensus       222 ~~DvVLIDTaGr~~~---~~~lm~eL~~i~~~~--~pd~~iLVl~a~~g~--d~~~~a~~f~~~~-----~~~giIlTKl  289 (336)
T PRK14974        222 GIDVVLIDTAGRMHT---DANLMDELKKIVRVT--KPDLVIFVGDALAGN--DAVEQAREFNEAV-----GIDGVILTKV  289 (336)
T ss_pred             CCCEEEEECCCccCC---cHHHHHHHHHHHHhh--CCceEEEeeccccch--hHHHHHHHHHhcC-----CCCEEEEeee
Confidence            457999999998642   334445555554433  578889999886332  2222233333322     2578999999


Q ss_pred             CCCC
Q 025391          148 DELE  151 (253)
Q Consensus       148 D~~~  151 (253)
                      |...
T Consensus       290 D~~~  293 (336)
T PRK14974        290 DADA  293 (336)
T ss_pred             cCCC
Confidence            9975

>cd03238 ABC_UvrA The excision repair protein UvrA; Nucleotide excision repair in eubacteria is a process that repairs DNA damage by the removal of a 12-13-mer oligonucleotide containing the lesion

Probab=98.57  E-value=4e-07  Score=71.42  Aligned_cols=24  Identities=38%  Similarity=0.320  Sum_probs=21.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.-+++|+|+||+|||||++.|++
T Consensus        20 ~G~~~~l~G~nG~GKSTLl~~il~   43 (176)
T cd03238          20 LNVLVVVTGVSGSGKSTLVNEGLY   43 (176)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhh
Confidence            346999999999999999999974

Recognition and cleavage of the damaged DNA is a multistep ATP-dependent reaction that requires the UvrA, UvrB, and UvrC proteins. Both UvrA and UvrB are ATPases, with UvrA having two ATP binding sites, which have the characteristic signature of the family of ABC proteins, and UvrB having one ATP binding site that is structurally related to that of helicases.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=98.57  E-value=1.4e-07  Score=75.28  Aligned_cols=123  Identities=20%  Similarity=0.275  Sum_probs=75.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|.|+|.+|+||||+=-.+.... ..-.....+.|....-....+.++.-+.+||+.|...      .+...++..-.
T Consensus         4 ~kKvlLMGrsGsGKsSmrsiiF~ny-~a~D~~rlg~tidveHsh~RflGnl~LnlwDcGgqe~------fmen~~~~q~d   76 (295)
T KOG3886|consen    4 KKKVLLMGRSGSGKSSMRSIIFANY-IARDTRRLGATIDVEHSHVRFLGNLVLNLWDCGGQEE------FMENYLSSQED   76 (295)
T ss_pred             cceEEEeccCCCCccccchhhhhhh-hhhhhhccCCcceeeehhhhhhhhheeehhccCCcHH------HHHHHHhhcch
Confidence            4789999999999998544433211 1111223445555555555555667889999988631      11122222223


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH----HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE----EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~----~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+...+++|+|+|+.++--..+    ...++.+.+.-   +...+++++.|.|.+.
T Consensus        77 ~iF~nV~vli~vFDves~e~~~D~~~yqk~Le~ll~~S---P~AkiF~l~hKmDLv~  130 (295)
T KOG3886|consen   77 NIFRNVQVLIYVFDVESREMEKDFHYYQKCLEALLQNS---PEAKIFCLLHKMDLVQ  130 (295)
T ss_pred             hhheeheeeeeeeeccchhhhhhHHHHHHHHHHHHhcC---CcceEEEEEeechhcc
Confidence            45677899999999975422223    34445555442   3347899999999986

>cd03247 ABCC_cytochrome_bd The CYD subfamily implicated in cytochrome bd biogenesis

Probab=98.56  E-value=4e-07  Score=71.57  Aligned_cols=121  Identities=17%  Similarity=0.185  Sum_probs=61.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeeeeeeEeeCCeEEEEEeCCCCCC---------CCCCcH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFD---------FSAGSE   87 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~liDtpG~~~---------~~~~~~   87 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+.... +..... . ... ....-..+.+.|.++.         .-++++
T Consensus        27 ~Ge~~~i~G~nGsGKStLl~~l~G~~~~~~G~i~~~g~~~~~-~-~~~-~~~~i~~~~q~~~~~~~tv~~~i~~~LS~G~  103 (178)
T cd03247          27 QGEKIALLGRSGSGKSTLLQLLTGDLKPQQGEITLDGVPVSD-L-EKA-LSSLISVLNQRPYLFDTTLRNNLGRRFSGGE  103 (178)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCCCCCCEEEECCEEHHH-H-HHH-HHhhEEEEccCCeeecccHHHhhcccCCHHH
Confidence            34689999999999999999999986544332110 000000 0 000 0000011112222211         111222


Q ss_pred             HHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCC
Q 025391           88 FVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        88 ~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      .   +...........| -+++++++++.++......+ +.+.+. ..   ..++++++|.-.
T Consensus       104 ~---qrv~laral~~~p-~~lllDEP~~~LD~~~~~~l~~~l~~~-~~---~~tii~~sh~~~  158 (178)
T cd03247         104 R---QRLALARILLQDA-PIVLLDEPTVGLDPITERQLLSLIFEV-LK---DKTLIWITHHLT  158 (178)
T ss_pred             H---HHHHHHHHHhcCC-CEEEEECCcccCCHHHHHHHHHHHHHH-cC---CCEEEEEecCHH
Confidence            1   1112222333444 67778889889999885544 444443 22   258888888543

The CydC and CydD proteins are important for the formation of cytochrome bd terminal oxidase of E. coli and it has been proposed that they were necessary for biosynthesis of the cytochrome bd quinol oxidase and for periplasmic c-type cytochromes. CydCD were proposed to determine a heterooligomeric complex important for heme export into the periplasm or to be involved in the maintenance of the proper redox state of the periplasmic space. In Bacillus subtilius, the absence of CydCD does not affect the presence of halo-cytochrome c in the membrane and this observation suggests that CydCD proteins are not involved in the export of heme in this organism.

>COG1131 CcmA ABC-type multidrug transport system, ATPase component [Defense mechanisms]

Probab=98.56  E-value=7.2e-07  Score=75.73  Aligned_cols=30  Identities=23%  Similarity=0.226  Sum_probs=25.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        31 Gei~gllG~NGAGKTTllk~l~gl~~p~~G   60 (293)
T COG1131          31 GEIFGLLGPNGAGKTTLLKILAGLLKPTSG   60 (293)
T ss_pred             CeEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            358999999999999999999998765443

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=98.56  E-value=7.1e-07  Score=73.21  Aligned_cols=29  Identities=34%  Similarity=0.410  Sum_probs=24.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      --++|+||||+|||||+++|+|.-.+..+
T Consensus        31 ~~~~iiGPNGaGKSTLlK~iLGll~p~~G   59 (254)
T COG1121          31 EITALIGPNGAGKSTLLKAILGLLKPSSG   59 (254)
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCcCCcc
Confidence            58999999999999999999996554444

>cd03217 ABC_FeS_Assembly ABC-type transport system involved in Fe-S cluster assembly, ATPase component

Probab=98.55  E-value=6.4e-07  Score=71.82  Aligned_cols=25  Identities=32%  Similarity=0.587  Sum_probs=23.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-.++|+|+||+|||||++.|+|.
T Consensus        25 ~Ge~~~i~G~nGsGKStLl~~l~G~   49 (200)
T cd03217          25 KGEVHALMGPNGSGKSTLAKTIMGH   49 (200)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCC
Confidence            4469999999999999999999997

Biosynthesis of iron-sulfur clusters (Fe-S) depends on multiprotein systems. The SUF system of E. coli and Erwinia chrysanthemi is important for Fe-S biogenesis under stressful conditions. The SUF system is made of six proteins: SufC is an atypical cytoplasmic ABC-ATPase, which forms a complex with SufB and SufD; SufA plays the role of a scaffold protein for assembly of iron-sulfur clusters and delivery to target proteins; SufS is a cysteine desulfurase which mobilizes the sulfur atom from cysteine and provides it to the cluster; SufE has no associated function yet.

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.55  E-value=3.7e-07  Score=78.11  Aligned_cols=89  Identities=19%  Similarity=0.158  Sum_probs=58.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-----------------eCCeEEEEEeCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------KDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-----------------~~~~~~~liDtpG~~~~   82 (253)
                      +++||||.+++|||||+|+|+.......  ....+|...+...+..                 .-...+.++|.+|+...
T Consensus         3 l~~GIVGlPNVGKSTlFnAlT~~~a~~a--NYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~G   80 (372)
T COG0012           3 LKIGIVGLPNVGKSTLFNALTKAGAEIA--NYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKG   80 (372)
T ss_pred             ceeEEecCCCCcHHHHHHHHHcCCcccc--CCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCC
Confidence            7899999999999999999998763111  1122233222221110                 01125789999999877


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      .+.++.+..++..-++    .+|+++.|++..
T Consensus        81 As~GeGLGNkFL~~IR----evdaI~hVVr~f  108 (372)
T COG0012          81 ASKGEGLGNKFLDNIR----EVDAIIHVVRCF  108 (372)
T ss_pred             cccCCCcchHHHHhhh----hcCeEEEEEEec
Confidence            7666666666665555    448999999864

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=98.54  E-value=1.1e-06  Score=76.58  Aligned_cols=90  Identities=16%  Similarity=0.267  Sum_probs=62.5

Q ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhhhHHHhhhHHHHHHH
Q 025391          106 AVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDS  185 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  185 (253)
                      .+|++..++++++....-|+.   .++  ..|+.++++++|+..+.  +..+.+++..+..+               +.-
T Consensus       432 TLLMLDEPTNHLDLNAVIWLd---NYL--QgWkKTLLIVSHDQgFL--D~VCtdIIHLD~qk---------------Lhy  489 (807)
T KOG0066|consen  432 TLLMLDEPTNHLDLNAVIWLD---NYL--QGWKKTLLIVSHDQGFL--DSVCTDIIHLDNQK---------------LHY  489 (807)
T ss_pred             eeeeecCCccccccceeeehh---hHH--hhhhheeEEEecccchH--HHHHHHHhhhhhhh---------------hhh
Confidence            567777888888866644443   332  23678999999999998  88999999864443               444


Q ss_pred             cCC-CCH--HHHHHHHHHHHHhHHHHHHHHHHHhc
Q 025391          186 LKG-YSK--REISELKEQMHKSYEDQLKRITEMCA  217 (253)
Q Consensus       186 ~~g-y~~--~~~~~~~~~~~~~~~~~~~~~~~~~e  217 (253)
                      +.| |+.  .+|....+.+.+.|+++.++.+++-.
T Consensus       490 YrGNY~~FKKmY~Qk~~e~~K~yekQeK~LkelKa  524 (807)
T KOG0066|consen  490 YRGNYTLFKKMYAQKMQEHEKNYEKQEKQLKELKA  524 (807)
T ss_pred             hcchHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence            556 664  46666667777777777766666554

>cd00267 ABC_ATPase ABC (ATP-binding cassette) transporter nucleotide-binding domain; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.54  E-value=8.3e-07  Score=68.27  Aligned_cols=112  Identities=15%  Similarity=0.130  Sum_probs=58.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee----CCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK----DGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~----~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .-.++|+|+||+|||||++.|.|...+..+    .++....  .....    ....+.++.  .    -++++...-.+.
T Consensus        25 g~~~~i~G~nGsGKStll~~l~g~~~~~~G----~i~~~~~--~~~~~~~~~~~~~i~~~~--q----lS~G~~~r~~l~   92 (157)
T cd00267          25 GEIVALVGPNGSGKSTLLRAIAGLLKPTSG----EILIDGK--DIAKLPLEELRRRIGYVP--Q----LSGGQRQRVALA   92 (157)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCcc----EEEECCE--EcccCCHHHHHhceEEEe--e----CCHHHHHHHHHH
Confidence            368999999999999999999997543222    1111110  00000    001122221  1    122232112222


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .+   ....| -++++++++..++......+..+...+...  ..++++++|.-
T Consensus        93 ~~---l~~~~-~i~ilDEp~~~lD~~~~~~l~~~l~~~~~~--~~tii~~sh~~  140 (157)
T cd00267          93 RA---LLLNP-DLLLLDEPTSGLDPASRERLLELLRELAEE--GRTVIIVTHDP  140 (157)
T ss_pred             HH---HhcCC-CEEEEeCCCcCCCHHHHHHHHHHHHHHHHC--CCEEEEEeCCH
Confidence            22   22233 677788998899988855553333332221  24888888853

The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.52  E-value=3.4e-07  Score=74.04  Aligned_cols=104  Identities=21%  Similarity=0.282  Sum_probs=66.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-ccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      -||+++|-+.+|||||+-.|++..-   ..... ..|..|....+. +++-.+.++|.||+....+.+....++    +-
T Consensus        63 aRValIGfPSVGKStlLs~iT~T~S---eaA~yeFTTLtcIpGvi~-y~ga~IQllDLPGIieGAsqgkGRGRQ----vi  134 (364)
T KOG1486|consen   63 ARVALIGFPSVGKSTLLSKITSTHS---EAASYEFTTLTCIPGVIH-YNGANIQLLDLPGIIEGASQGKGRGRQ----VI  134 (364)
T ss_pred             eEEEEecCCCccHHHHHHHhhcchh---hhhceeeeEEEeecceEE-ecCceEEEecCcccccccccCCCCCce----EE
Confidence            7999999999999999999987642   22223 345555545444 589999999999998654333211121    12


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhc
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG  133 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g  133 (253)
                      ....-+|.+|+|+|++.  +...+..++.-.+..|
T Consensus       135 avArtaDlilMvLDatk--~e~qr~~le~ELe~vG  167 (364)
T KOG1486|consen  135 AVARTADLILMVLDATK--SEDQREILEKELEAVG  167 (364)
T ss_pred             EEeecccEEEEEecCCc--chhHHHHHHHHHHHhc
Confidence            33356799999999872  2233445444333334

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.51  E-value=2.4e-07  Score=70.56  Aligned_cols=119  Identities=13%  Similarity=0.024  Sum_probs=74.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc-cc--CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK-SR--ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~-~~--~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...|+|+|.-+||||||+-.+-....-. .+  ++....|..-+...++. .+..+.+||.-|.           ..++.
T Consensus        17 ~y~vlIlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v-~~~~l~fwdlgGQ-----------e~lrS   84 (197)
T KOG0076|consen   17 DYSVLILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEV-CNAPLSFWDLGGQ-----------ESLRS   84 (197)
T ss_pred             hhhheeeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceee-ccceeEEEEcCCh-----------HHHHH
Confidence            3689999999999999997753221100 11  12233455555565664 5788999999886           44556


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...-++.-+|++|+++|++++-...+  ..+-+.+..-.-  -..|++++.||-|.-.
T Consensus        85 lw~~yY~~~H~ii~viDa~~~eR~~~~~t~~~~v~~~E~l--eg~p~L~lankqd~q~  140 (197)
T KOG0076|consen   85 LWKKYYWLAHGIIYVIDATDRERFEESKTAFEKVVENEKL--EGAPVLVLANKQDLQN  140 (197)
T ss_pred             HHHHHHHHhceeEEeecCCCHHHHHHHHHHHHHHHHHHHh--cCCchhhhcchhhhhh
Confidence            66667778899999999985322222  111111111111  1248999999999864

>cd03232 ABC_PDR_domain2 The pleiotropic drug resistance-like (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.51  E-value=1.9e-06  Score=68.58  Aligned_cols=26  Identities=27%  Similarity=0.509  Sum_probs=23.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +.-.++|+|+||+|||||++.|+|..
T Consensus        32 ~Ge~~~l~G~nGsGKSTLl~~l~G~~   57 (192)
T cd03232          32 PGTLTALMGESGAGKTTLLDVLAGRK   57 (192)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCC
Confidence            34689999999999999999999964

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>KOG0066 consensus eIF2-interacting protein ABC50 (ABC superfamily) [Translation, ribosomal structure and biogenesis]

Probab=98.51  E-value=1.3e-06  Score=76.20  Aligned_cols=116  Identities=15%  Similarity=0.164  Sum_probs=68.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe---------------------------------
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL---------------------------------   65 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~---------------------------------   65 (253)
                      .-||+|||+||+|||||+..|+|..-+..+......+..........                                 
T Consensus       613 dSRiaIVGPNGVGKSTlLkLL~Gkl~P~~GE~RKnhrL~iG~FdQh~~E~L~~Eetp~EyLqr~FNlpyq~ARK~LG~fG  692 (807)
T KOG0066|consen  613 DSRIAIVGPNGVGKSTLLKLLIGKLDPNDGELRKNHRLRIGWFDQHANEALNGEETPVEYLQRKFNLPYQEARKQLGTFG  692 (807)
T ss_pred             cceeEEECCCCccHHHHHHHHhcCCCCCcchhhccceeeeechhhhhHHhhccccCHHHHHHHhcCCChHHHHHHhhhhh
Confidence            46999999999999999999999876555443333222222211100                                 


Q ss_pred             --eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEE
Q 025391           66 --KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        66 --~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~iv  142 (253)
                        ..-..+.+-|..|-.          ..-..+...++.+||++| +..+++.++-+....+ +.|.++-      ..+|
T Consensus       693 L~sHAHTikikdLSGGQ----------KaRValaeLal~~PDvlI-LDEPTNNLDIESIDALaEAIney~------GgVi  755 (807)
T KOG0066|consen  693 LASHAHTIKIKDLSGGQ----------KARVALAELALGGPDVLI-LDEPTNNLDIESIDALAEAINEYN------GGVI  755 (807)
T ss_pred             hhhccceEeeeecCCcc----------hHHHHHHHHhcCCCCEEE-ecCCCCCcchhhHHHHHHHHHhcc------CcEE
Confidence              001123333333211          111233456678887765 4677778888775555 4444432      4788


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      +++|+..+-
T Consensus       756 ~VsHDeRLi  764 (807)
T KOG0066|consen  756 MVSHDERLI  764 (807)
T ss_pred             EEeccccee
Confidence            899988773

>PTZ00099 rab6; Provisional

Probab=98.48  E-value=1.7e-06  Score=67.95  Aligned_cols=71  Identities=20%  Similarity=0.110  Sum_probs=49.0

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ...+.+|||||...           +......++.++|++|+|+|++++.+... ..++..+....+.  ..|++||.||
T Consensus        28 ~v~l~iwDt~G~e~-----------~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~~~--~~piilVgNK   94 (176)
T PTZ00099         28 PVRLQLWDTAGQER-----------FRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGK--DVIIALVGNK   94 (176)
T ss_pred             EEEEEEEECCChHH-----------hhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCeEEEEEEC
Confidence            45788999999843           33445566789999999999986544444 3344444443332  3578999999


Q ss_pred             CCCCC
Q 025391          147 GDELE  151 (253)
Q Consensus       147 ~D~~~  151 (253)
                      .|+..
T Consensus        95 ~DL~~   99 (176)
T PTZ00099         95 TDLGD   99 (176)
T ss_pred             ccccc
Confidence            99853

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.47  E-value=8.4e-07  Score=77.89  Aligned_cols=123  Identities=18%  Similarity=0.215  Sum_probs=66.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------CCCC--c---------cceeeeeeee---------EeeCCeEE
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR-------ASSS--G---------VTSTCEMQRT---------VLKDGQVV   71 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------~~~~--~---------~t~~~~~~~~---------~~~~~~~~   71 (253)
                      ...|+++|++|+||||++..|+.......+       .++.  +         ..........         ....+.++
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            457999999999999999888753210000       0000  0         0000000000         00135588


Q ss_pred             EEEeCCCCCCCCCCcHHHHHHHHHHHHhhc-CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           72 NVIDTPGLFDFSAGSEFVGKEIVKCIGMAK-DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        72 ~liDtpG~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +||||||.....   .....++...+.... +.++-.+||++++...... ...    .+.|.  .....-+|+||.|..
T Consensus       303 VLIDTaGr~~rd---~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~~~~-~~~----~~~f~--~~~~~glIlTKLDEt  372 (432)
T PRK12724        303 ILIDTAGYSHRN---LEQLERMQSFYSCFGEKDSVENLLVLSSTSSYHHT-LTV----LKAYE--SLNYRRILLTKLDEA  372 (432)
T ss_pred             EEEeCCCCCccC---HHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCHHHH-HHH----HHHhc--CCCCCEEEEEcccCC
Confidence            999999986432   233345555554332 2356788888887333211 222    22332  123678999999997


Q ss_pred             C
Q 025391          151 E  151 (253)
Q Consensus       151 ~  151 (253)
                      .
T Consensus       373 ~  373 (432)
T PRK12724        373 D  373 (432)
T ss_pred             C
Confidence            5

>cd03214 ABC_Iron-Siderophores_B12_Hemin ABC transporters, involved in the uptake of siderophores, heme, and vitamin B12, are widely conserved in bacteria and archaea

Probab=98.47  E-value=2.3e-06  Score=67.44  Aligned_cols=30  Identities=27%  Similarity=0.310  Sum_probs=25.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS   47 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~   47 (253)
                      +.-.++|+|+||+|||||++.|+|...+..
T Consensus        24 ~G~~~~l~G~nGsGKStLl~~i~G~~~~~~   53 (180)
T cd03214          24 AGEIVGILGPNGAGKSTLLKTLAGLLKPSS   53 (180)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCC
Confidence            446899999999999999999999865433

Only very few species lack representatives of the siderophore family transporters. The E. coli BtuCD protein is an ABC transporter mediating vitamin B12 uptake. The two ATP-binding cassettes (BtuD) are in close contact with each other, as are the two membrane-spanning subunits (BtuC); this arrangement is distinct from that observed for the E. coli lipid flippase MsbA. The BtuC subunits provide 20 transmembrane helices grouped around a translocation pathway that is closed to the cytoplasm by a gate region, whereas the dimer arrangement of the BtuD subunits resembles the ATP-bound form of the Rad50 DNA repair enzyme. A prominent cytoplasmic loop of BtuC forms the contact region with the ATP-binding cassette and represent a conserved motif among the ABC transporters.

>COG4586 ABC-type uncharacterized transport system, ATPase component [General function prediction only]

Probab=98.47  E-value=3.8e-07  Score=74.75  Aligned_cols=33  Identities=27%  Similarity=0.238  Sum_probs=28.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      ++.-+++++|+|||||||+++.|+|...+.++.
T Consensus        48 P~G~ivgflGaNGAGKSTtLKmLTGll~p~~G~   80 (325)
T COG4586          48 PKGEIVGFLGANGAGKSTTLKMLTGLLLPTSGK   80 (325)
T ss_pred             CCCcEEEEEcCCCCcchhhHHHHhCccccCCCe
Confidence            344799999999999999999999998766653

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=98.47  E-value=1.7e-06  Score=69.90  Aligned_cols=44  Identities=16%  Similarity=0.240  Sum_probs=31.4

Q ss_pred             cEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          105 HAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       105 ~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..+|+.++||..++... ..++..+.+.-...  ..++|++||+..+
T Consensus       161 P~iilADEPTgnLD~~t~~~V~~ll~~~~~~~--g~tii~VTHd~~l  205 (226)
T COG1136         161 PKIILADEPTGNLDSKTAKEVLELLRELNKER--GKTIIMVTHDPEL  205 (226)
T ss_pred             CCeEEeeCccccCChHHHHHHHHHHHHHHHhc--CCEEEEEcCCHHH
Confidence            37889999998999887 55556665543221  2499999997765

>COG4988 CydD ABC-type transport system involved in cytochrome bd biosynthesis, ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.46  E-value=1.2e-06  Score=78.88  Aligned_cols=31  Identities=35%  Similarity=0.385  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +..+++|||++|+|||||++.|+|...+..+
T Consensus       346 ~g~~talvG~SGaGKSTLl~lL~G~~~~~~G  376 (559)
T COG4988         346 AGQLTALVGASGAGKSTLLNLLLGFLAPTQG  376 (559)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCcCCCCCc
Confidence            4579999999999999999999998765444

>COG1122 CbiO ABC-type cobalt transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.45  E-value=3.6e-06  Score=68.94  Aligned_cols=31  Identities=29%  Similarity=0.313  Sum_probs=26.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|.|-..+..+
T Consensus        29 ~Ge~~~i~G~nGsGKSTL~~~l~GLl~p~~G   59 (235)
T COG1122          29 KGERVLLIGPNGSGKSTLLKLLNGLLKPTSG   59 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHcCcCcCCCC
Confidence            3468999999999999999999998776654

>PRK11147 ABC transporter ATPase component; Reviewed

Probab=98.44  E-value=6.7e-07  Score=83.90  Aligned_cols=41  Identities=10%  Similarity=0.163  Sum_probs=31.0

Q ss_pred             cEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          105 HAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       105 ~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .-+|++++++++++......+..+...++     .++|++||...+
T Consensus       459 p~lLlLDEPt~~LD~~~~~~l~~~l~~~~-----~tvi~vSHd~~~  499 (635)
T PRK11147        459 SNLLILDEPTNDLDVETLELLEELLDSYQ-----GTVLLVSHDRQF  499 (635)
T ss_pred             CCEEEEcCCCCCCCHHHHHHHHHHHHhCC-----CeEEEEECCHHH
Confidence            36788899999999998777666655542     489999997544

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.44  E-value=1.9e-06  Score=70.06  Aligned_cols=29  Identities=31%  Similarity=0.324  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      --|.|+|++|+|||||+|.|+|...+..+
T Consensus        30 EfvsilGpSGcGKSTLLriiAGL~~p~~G   58 (248)
T COG1116          30 EFVAILGPSGCGKSTLLRLIAGLEKPTSG   58 (248)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            57999999999999999999999876665

>cd03274 ABC_SMC4_euk Eukaryotic SMC4 proteins; SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains

Probab=98.44  E-value=7.3e-06  Score=66.31  Aligned_cols=41  Identities=7%  Similarity=0.061  Sum_probs=28.0

Q ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391          106 AVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      .++++++++..+++.....+..+...+...   .++|+++|.+.
T Consensus       151 ~ililDEPt~gLD~~~~~~l~~~l~~~~~~---~~~iivs~~~~  191 (212)
T cd03274         151 PLYVMDEIDAALDFRNVSIVANYIKERTKN---AQFIVISLRNN  191 (212)
T ss_pred             CEEEEcCCCcCCCHHHHHHHHHHHHHHcCC---CEEEEEECcHH
Confidence            577789999899998866654444434332   57888887643

Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, whereas SMC5 and SMC6 show some divergence in both of these sequences. In eukaryotic cells, the proteins are found as heterodimers of SMC1 paired with SMC3, SMC2 with SMC4, and SMC5 with SMC6 (fo

>PRK10636 putative ABC transporter ATP-binding protein; Provisional

Probab=98.43  E-value=7.6e-07  Score=83.49  Aligned_cols=31  Identities=32%  Similarity=0.334  Sum_probs=26.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-+++|+|+||+|||||++.|+|...+..|
T Consensus       337 ~Ge~~~l~G~NGsGKSTLlk~l~G~~~p~~G  367 (638)
T PRK10636        337 PGSRIGLLGRNGAGKSTLIKLLAGELAPVSG  367 (638)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4469999999999999999999998765444

>cd03231 ABC_CcmA_heme_exporter CcmA, the ATP-binding component of the bacterial CcmAB transporter

Probab=98.43  E-value=3.6e-06  Score=67.49  Aligned_cols=31  Identities=16%  Similarity=0.233  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (201)
T cd03231          25 AGEALQVTGPNGSGKTTLLRILAGLSPPLAG   55 (201)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4479999999999999999999998654443

The CCM family is involved in bacterial cytochrome c biogenesis. Cytochrome c maturation in E. coli requires the ccm operon, which encodes eight membrane proteins (CcmABCDEFGH). CcmE is a periplasmic heme chaperone that binds heme covalently and transfers it onto apocytochrome c in the presence of CcmF, CcmG, and CcmH. The CcmAB proteins represent an ABC transporter and the CcmCD proteins participate in heme transfer to CcmE.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.43  E-value=5.7e-07  Score=80.00  Aligned_cols=122  Identities=24%  Similarity=0.223  Sum_probs=64.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceee------------------eeee----------eEeeCCe
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTC------------------EMQR----------TVLKDGQ   69 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~------------------~~~~----------~~~~~~~   69 (253)
                      ...|+|+|++|+||||++..|+.... ...+....-++.+.                  ....          +....+.
T Consensus       221 ~~~i~~vGptGvGKTTt~~kLA~~~~~~~~g~~V~li~~D~~r~~a~eqL~~~a~~~~vp~~~~~~~~~l~~~l~~~~~~  300 (424)
T PRK05703        221 GGVVALVGPTGVGKTTTLAKLAARYALLYGKKKVALITLDTYRIGAVEQLKTYAKIMGIPVEVVYDPKELAKALEQLRDC  300 (424)
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHHHHhcCCCeEEEEECCccHHHHHHHHHHHHHHhCCceEccCCHHhHHHHHHHhCCC
Confidence            35899999999999999888765322 11110000000000                  0000          0011345


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      +++||||||.....   .....++..++... ..+.-.++|++++.  ...+   +..+...|..-  ...-+|+||.|.
T Consensus       301 DlVlIDt~G~~~~d---~~~~~~L~~ll~~~-~~~~~~~LVl~a~~--~~~~---l~~~~~~f~~~--~~~~vI~TKlDe  369 (424)
T PRK05703        301 DVILIDTAGRSQRD---KRLIEELKALIEFS-GEPIDVYLVLSATT--KYED---LKDIYKHFSRL--PLDGLIFTKLDE  369 (424)
T ss_pred             CEEEEeCCCCCCCC---HHHHHHHHHHHhcc-CCCCeEEEEEECCC--CHHH---HHHHHHHhCCC--CCCEEEEecccc
Confidence            89999999985432   22334555555522 23456677777752  2222   22222333321  235689999999


Q ss_pred             CC
Q 025391          150 LE  151 (253)
Q Consensus       150 ~~  151 (253)
                      ..
T Consensus       370 t~  371 (424)
T PRK05703        370 TS  371 (424)
T ss_pred             cc
Confidence            75

>COG1135 AbcC ABC-type metal ion transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.43  E-value=1.6e-06  Score=72.42  Aligned_cols=31  Identities=23%  Similarity=0.110  Sum_probs=26.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ..-.++|||.+|||||||++.|-+...|.++
T Consensus        31 ~GeI~GIIG~SGAGKSTLiR~iN~Le~PtsG   61 (339)
T COG1135          31 KGEIFGIIGYSGAGKSTLLRLINLLERPTSG   61 (339)
T ss_pred             CCcEEEEEcCCCCcHHHHHHHHhccCCCCCc
Confidence            3458999999999999999999988776665

>COG1124 DppF ABC-type dipeptide/oligopeptide/nickel transport system, ATPase component [Amino acid transport and metabolism / Inorganic ion transport and metabolism]

Probab=98.43  E-value=2.4e-06  Score=69.04  Aligned_cols=31  Identities=29%  Similarity=0.381  Sum_probs=26.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|++|+|||||++.|+|...+..+
T Consensus        32 ~Ge~lgivGeSGsGKSTL~r~l~Gl~~p~~G   62 (252)
T COG1124          32 RGETLGIVGESGSGKSTLARLLAGLEKPSSG   62 (252)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhcccCCCCc
Confidence            4468999999999999999999999876555

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.43  E-value=1.1e-06  Score=74.06  Aligned_cols=90  Identities=20%  Similarity=0.200  Sum_probs=58.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-------------C---CeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-------------D---GQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-------------~---~~~~~liDtpG~~~   81 (253)
                      ..++|||||.+++|||||+|+|+........  ...+|...+...+...             +   .-.+++.|.+|+..
T Consensus        19 ~~lkiGIVGlPNvGKST~fnalT~~~a~~~N--fPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvk   96 (391)
T KOG1491|consen   19 NNLKIGIVGLPNVGKSTFFNALTKSKAGAAN--FPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVK   96 (391)
T ss_pred             CcceeeEeeCCCCchHHHHHHHhcCCCCccC--CCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeeccccc
Confidence            4589999999999999999999987653111  1122333322222111             1   12588999999987


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV  113 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~  113 (253)
                      ..+.++.+...+..-++.    +|+++-|+++
T Consensus        97 GAs~G~GLGN~FLs~iR~----vDaifhVVr~  124 (391)
T KOG1491|consen   97 GASAGEGLGNKFLSHIRH----VDAIFHVVRA  124 (391)
T ss_pred             CcccCcCchHHHHHhhhh----ccceeEEEEe
Confidence            766666665655555544    4788877764

>PRK13543 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.42  E-value=5.4e-06  Score=67.14  Aligned_cols=31  Identities=19%  Similarity=0.310  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        36 ~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   66 (214)
T PRK13543         36 AGEALLVQGDNGAGKTTLLRVLAGLLHVESG   66 (214)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCCCCe
Confidence            3468999999999999999999998654443

>COG2884 FtsE Predicted ATPase involved in cell division [Cell division and chromosome partitioning]

Probab=98.42  E-value=4e-06  Score=65.35  Aligned_cols=29  Identities=31%  Similarity=0.354  Sum_probs=24.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      --+-++|++|||||||++.|++...+..+
T Consensus        29 ef~fl~GpSGAGKSTllkLi~~~e~pt~G   57 (223)
T COG2884          29 EFVFLTGPSGAGKSTLLKLIYGEERPTRG   57 (223)
T ss_pred             eEEEEECCCCCCHHHHHHHHHhhhcCCCc
Confidence            46788999999999999999998776554

>cd03237 ABC_RNaseL_inhibitor_domain2 The ATPase domain 2 of RNase L inhibitor

Probab=98.42  E-value=1.3e-06  Score=72.26  Aligned_cols=31  Identities=16%  Similarity=0.199  Sum_probs=26.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        24 ~Ge~~~i~G~NGsGKSTLlk~L~G~~~p~~G   54 (246)
T cd03237          24 ESEVIGILGPNGIGKTTFIKMLAGVLKPDEG   54 (246)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcCCCC
Confidence            4568999999999999999999998665444

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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 of more than 48%. The high degree of evolutionary conservation suggests that RLI performs a central role in archaeal and eukaryotic physiology.

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.41  E-value=3.6e-07  Score=79.09  Aligned_cols=123  Identities=18%  Similarity=0.101  Sum_probs=67.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC------CccccCCCCcc-----------ceeeeeeeeEe-------------eC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR------AFKSRASSSGV-----------TSTCEMQRTVL-------------KD   67 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~------~~~~~~~~~~~-----------t~~~~~~~~~~-------------~~   67 (253)
                      +...|+|+|++|+||||++..|+...      +.....++...           .....+.....             ..
T Consensus       205 ~~~ii~lvGptGvGKTTt~akLA~~l~~~g~~V~lItaDtyR~gAveQLk~yae~lgvpv~~~~dp~dL~~al~~l~~~~  284 (407)
T PRK12726        205 NHRIISLIGQTGVGKTTTLVKLGWQLLKQNRTVGFITTDTFRSGAVEQFQGYADKLDVELIVATSPAELEEAVQYMTYVN  284 (407)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeCCccCccHHHHHHHHhhcCCCCEEecCCHHHHHHHHHHHHhcC
Confidence            45789999999999999998886432      10011111000           00000110000             02


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      +.+++||||||....   ......++.......  .||.+++|++++  ....+  ....+.. |..  ....-+|+||.
T Consensus       285 ~~D~VLIDTAGr~~~---d~~~l~EL~~l~~~~--~p~~~~LVLsag--~~~~d--~~~i~~~-f~~--l~i~glI~TKL  352 (407)
T PRK12726        285 CVDHILIDTVGRNYL---AEESVSEISAYTDVV--HPDLTCFTFSSG--MKSAD--VMTILPK-LAE--IPIDGFIITKM  352 (407)
T ss_pred             CCCEEEEECCCCCcc---CHHHHHHHHHHhhcc--CCceEEEECCCc--ccHHH--HHHHHHh-cCc--CCCCEEEEEcc
Confidence            458999999998642   233445555544332  557777787664  23222  3333332 321  23578889999


Q ss_pred             CCCCC
Q 025391          148 DELED  152 (253)
Q Consensus       148 D~~~~  152 (253)
                      |....
T Consensus       353 DET~~  357 (407)
T PRK12726        353 DETTR  357 (407)
T ss_pred             cCCCC
Confidence            99753

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=98.41  E-value=4.6e-07  Score=79.92  Aligned_cols=61  Identities=33%  Similarity=0.336  Sum_probs=44.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      ..+||+||.+++||||+||+|.|.+..... .+.|.|.+.....+    ...+.+.|+||+.-.+.
T Consensus       314 ~vtVG~VGYPNVGKSSTINaLvG~KkVsVS-~TPGkTKHFQTi~l----s~~v~LCDCPGLVfPSf  374 (562)
T KOG1424|consen  314 VVTVGFVGYPNVGKSSTINALVGRKKVSVS-STPGKTKHFQTIFL----SPSVCLCDCPGLVFPSF  374 (562)
T ss_pred             eeEEEeecCCCCchhHHHHHHhcCceeeee-cCCCCcceeEEEEc----CCCceecCCCCccccCC
Confidence            589999999999999999999999874433 23445554443322    34678999999975443

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.40  E-value=8.9e-07  Score=81.85  Aligned_cols=31  Identities=19%  Similarity=0.156  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..|
T Consensus        32 ~Ge~~~iiG~NGsGKSTLlk~i~G~~~p~~G   62 (556)
T PRK11819         32 PGAKIGVLGLNGAGKSTLLRIMAGVDKEFEG   62 (556)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3368999999999999999999998654443

>cd03243 ABC_MutS_homologs The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch

Probab=98.40  E-value=3.2e-06  Score=67.85  Aligned_cols=121  Identities=14%  Similarity=0.063  Sum_probs=58.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC-CCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS-AGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~-~~~~~~~~~~~~~~   97 (253)
                      -+++|+|+||+|||||+++|.+.... ..+.....  .......    ....+..++........ +.-..-..++...+
T Consensus        30 ~~~~l~G~Ng~GKStll~~i~~~~~~~~~g~~~~~--~~~~i~~----~dqi~~~~~~~d~i~~~~s~~~~e~~~l~~i~  103 (202)
T cd03243          30 RLLLITGPNMGGKSTYLRSIGLAVLLAQIGCFVPA--ESASIPL----VDRIFTRIGAEDSISDGRSTFMAELLELKEIL  103 (202)
T ss_pred             eEEEEECCCCCccHHHHHHHHHHHHHHHcCCCccc--cccccCC----cCEEEEEecCcccccCCceeHHHHHHHHHHHH
Confidence            68999999999999999999843210 01100000  0000110    11112222221111111 11111123333333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..+ .. ..++++++++..+++.....+ ..+.+.+...  ..++|++||...+
T Consensus       104 ~~~-~~-~~llllDEp~~gld~~~~~~l~~~ll~~l~~~--~~~vi~~tH~~~~  153 (202)
T cd03243         104 SLA-TP-RSLVLIDELGRGTSTAEGLAIAYAVLEHLLEK--GCRTLFATHFHEL  153 (202)
T ss_pred             Hhc-cC-CeEEEEecCCCCCCHHHHHHHHHHHHHHHHhc--CCeEEEECChHHH
Confidence            332 33 478888899888998765433 3333322211  3588899996554

Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, and recognition of specific DNA stru

>cd03218 ABC_YhbG The ABC transporters belonging to the YhbG family are similar to members of the Mj1267_LivG family, which is involved in the transport of branched-chain amino acids

Probab=98.40  E-value=3e-06  Score=69.42  Aligned_cols=31  Identities=32%  Similarity=0.308  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   55 (232)
T cd03218          25 QGEIVGLLGPNGAGKTTTFYMIVGLVKPDSG   55 (232)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654443

The genes yhbG and yhbN are located in a single operon and may function together in cell envelope during biogenesis. YhbG is the putative ATP-binding cassette component and YhbN is the putative periplasmic-binding protein. Depletion of each gene product leads to growth arrest, irreversible cell damage and loss of viability in E. coli. The YhbG homolog (NtrA) is essential in Rhizobium meliloti, a symbiotic nitrogen-fixing bacterium.

>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=98.39  E-value=5.2e-07  Score=74.19  Aligned_cols=76  Identities=17%  Similarity=0.123  Sum_probs=33.8

Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc-CCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeC
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK-DGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      .+.++||||+.+.-    ..+..+...+.... ...-++++++|...--++..  ...+-.+.-.+.  ...|.+.|+||
T Consensus        92 ~y~l~DtPGQiElf----~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~--~~lP~vnvlsK  165 (238)
T PF03029_consen   92 DYLLFDTPGQIELF----THSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLR--LELPHVNVLSK  165 (238)
T ss_dssp             SEEEEE--SSHHHH----HHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHH--HTSEEEEEE--
T ss_pred             cEEEEeCCCCEEEE----EechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhh--CCCCEEEeeec
Confidence            68999999985321    11122222333222 34457888888873333333  111112222221  12489999999


Q ss_pred             CCCCC
Q 025391          147 GDELE  151 (253)
Q Consensus       147 ~D~~~  151 (253)
                      +|.+.
T Consensus       166 ~Dl~~  170 (238)
T PF03029_consen  166 IDLLS  170 (238)
T ss_dssp             GGGS-
T ss_pred             cCccc
Confidence            99997

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>cd03264 ABC_drug_resistance_like ABC-type multidrug transport system, ATPase component

Probab=98.39  E-value=2.7e-06  Score=68.73  Aligned_cols=28  Identities=21%  Similarity=0.178  Sum_probs=24.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   54 (211)
T cd03264          27 MYGLLGPNGAGKTTLMRILATLTPPSSG   54 (211)
T ss_pred             cEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            8999999999999999999998654443

The biological function of this family is not well characterized, but display ABC domains similar to members of ABCA subfamily. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03293 ABC_NrtD_SsuB_transporters NrtD and SsuB are the ATP-binding subunits of the bacterial ABC-type nitrate and sulfonate transport systems, respectively

Probab=98.39  E-value=8e-06  Score=66.40  Aligned_cols=31  Identities=35%  Similarity=0.318  Sum_probs=25.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   59 (220)
T cd03293          29 EGEFVALVGPSGCGKSTLLRIIAGLERPTSG   59 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998654333

ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>COG1134 TagH ABC-type polysaccharide/polyol phosphate transport system, ATPase component [Carbohydrate transport and metabolism / Cell envelope biogenesis, outer membrane]

Probab=98.39  E-value=3.7e-06  Score=68.07  Aligned_cols=43  Identities=28%  Similarity=0.344  Sum_probs=32.4

Q ss_pred             CCCCCCCCCCC---CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391            6 IDDDWELTSPS---NGERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus         6 ~~~~~~~~~~~---~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ..+.|.+...+   ...-+|+|||+||||||||++.|+|...|..+
T Consensus        37 ~~~~~aL~disf~i~~Ge~vGiiG~NGaGKSTLlkliaGi~~Pt~G   82 (249)
T COG1134          37 VAEFWALKDISFEIYKGERVGIIGHNGAGKSTLLKLIAGIYKPTSG   82 (249)
T ss_pred             cceEEEecCceEEEeCCCEEEEECCCCCcHHHHHHHHhCccCCCCc
Confidence            34555554322   44569999999999999999999998765554

>TIGR00750 lao LAO/AO transport system ATPase

Probab=98.38  E-value=4.9e-06  Score=70.96  Aligned_cols=25  Identities=24%  Similarity=0.278  Sum_probs=22.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+...|+|+|++|+|||||++.|.+
T Consensus        32 ~~~~~i~i~G~~G~GKttl~~~l~~   56 (300)
T TIGR00750        32 GNAHRVGITGTPGAGKSTLLEALGM   56 (300)
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4568999999999999999999765

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.38  E-value=4.7e-07  Score=79.15  Aligned_cols=58  Identities=29%  Similarity=0.304  Sum_probs=37.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC-----ccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA-----FKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~-----~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ..++.+||.+|||||||+|+|++...     ...+ ...++|.....  +..  +....++||||+..
T Consensus       160 ~~~v~vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s-~~pGTT~~~~~--~~l--~~~~~l~DTPGi~~  222 (365)
T PRK13796        160 GRDVYVVGVTNVGKSTLINRIIKEITGEKDVITTS-RFPGTTLDKIE--IPL--DDGSFLYDTPGIIH  222 (365)
T ss_pred             CCeEEEEcCCCCcHHHHHHHHHhhccCccceEEec-CCCCccceeEE--EEc--CCCcEEEECCCccc
Confidence            35899999999999999999986531     1111 12234443322  222  22357999999963

>PLN03073 ABC transporter F family; Provisional

Probab=98.38  E-value=8.8e-07  Score=83.80  Aligned_cols=44  Identities=9%  Similarity=0.022  Sum_probs=32.0

Q ss_pred             CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..| -+|+++++++.++.....++..+...++     .++|+++|...+.
T Consensus       361 ~~p-~lLlLDEPt~~LD~~~~~~l~~~L~~~~-----~tviivsHd~~~l  404 (718)
T PLN03073        361 IEP-DLLLLDEPTNHLDLHAVLWLETYLLKWP-----KTFIVVSHAREFL  404 (718)
T ss_pred             cCC-CEEEEECCCCCCCHHHHHHHHHHHHHcC-----CEEEEEECCHHHH
Confidence            344 5778889999999999776655555443     4899999976553

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=98.37  E-value=1.8e-06  Score=72.91  Aligned_cols=127  Identities=20%  Similarity=0.205  Sum_probs=71.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCC---------------Cccceee-ee----e-------ee
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR------ASS---------------SGVTSTC-EM----Q-------RT   63 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------~~~---------------~~~t~~~-~~----~-------~~   63 (253)
                      +.+..|++||-||+||||.+-.|+....-...      .++               .++..-. ..    .       ..
T Consensus       137 ~~p~Vil~vGVNG~GKTTTIaKLA~~l~~~g~~VllaA~DTFRAaAiEQL~~w~er~gv~vI~~~~G~DpAaVafDAi~~  216 (340)
T COG0552         137 KKPFVILFVGVNGVGKTTTIAKLAKYLKQQGKSVLLAAGDTFRAAAIEQLEVWGERLGVPVISGKEGADPAAVAFDAIQA  216 (340)
T ss_pred             CCcEEEEEEecCCCchHhHHHHHHHHHHHCCCeEEEEecchHHHHHHHHHHHHHHHhCCeEEccCCCCCcHHHHHHHHHH
Confidence            44689999999999999999887543210000      000               0000000 00    0       00


Q ss_pred             EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh-cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEE
Q 025391           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA-KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        64 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                      ....+.+++++||+|-......--.-.+.+.+.+... ...||-+++++|++..-+..  .-.+.+.+..+     -.-+
T Consensus       217 Akar~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal--~QAk~F~eav~-----l~Gi  289 (340)
T COG0552         217 AKARGIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNAL--SQAKIFNEAVG-----LDGI  289 (340)
T ss_pred             HHHcCCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHH--HHHHHHHHhcC-----CceE
Confidence            0124568999999998754433222234444444333 34578899999987444432  23344555543     4778


Q ss_pred             EEeCCCCC
Q 025391          143 VFTGGDEL  150 (253)
Q Consensus       143 v~~k~D~~  150 (253)
                      ++||.|--
T Consensus       290 IlTKlDgt  297 (340)
T COG0552         290 ILTKLDGT  297 (340)
T ss_pred             EEEecccC
Confidence            99999954

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.36  E-value=1.3e-06  Score=69.16  Aligned_cols=30  Identities=23%  Similarity=0.356  Sum_probs=26.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 Gev~ailGPNGAGKSTlLk~LsGel~p~~G   56 (259)
T COG4559          27 GEVLAILGPNGAGKSTLLKALSGELSPDSG   56 (259)
T ss_pred             CcEEEEECCCCccHHHHHHHhhCccCCCCC
Confidence            367899999999999999999999765554

>TIGR03719 ABC_ABC_ChvD ATP-binding cassette protein, ChvD family

Probab=98.36  E-value=1.3e-06  Score=80.68  Aligned_cols=31  Identities=19%  Similarity=0.163  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..|
T Consensus        30 ~Ge~~~liG~NGsGKSTLl~~i~G~~~p~~G   60 (552)
T TIGR03719        30 PGAKIGVLGLNGAGKSTLLRIMAGVDKEFNG   60 (552)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4468999999999999999999998654443

Members of this protein family have two copies of the ABC transporter ATP-binding cassette, but are found outside the common ABC transporter operon structure that features integral membrane permease proteins and substrate-binding proteins encoded next to the ATP-binding cassette (ABC domain) protein. The member protein ChvD from Agrobacterium tumefaciens was identified as both a candidate to interact with VirB8, based on yeast two-hybrid analysis, and as an apparent regulator of VirG. The general function of this protein family is unknown.

>cd03280 ABC_MutS2 MutS2 homologs in bacteria and eukaryotes

Probab=98.36  E-value=1.4e-05  Score=64.04  Aligned_cols=112  Identities=19%  Similarity=0.201  Sum_probs=57.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh--------CCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc-HHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSIL--------GRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-EFVG   90 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~--------g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~   90 (253)
                      .+++|+|+||+|||||++.|.        |..++...    ...    ...    ....+..++.+.......+. ..-.
T Consensus        29 ~~~~ltG~Ng~GKStll~~i~~~~~~~~~G~~vp~~~----~~~----~~~----~~~~~~~lg~~~~l~~~~s~fs~g~   96 (200)
T cd03280          29 RVLVITGPNAGGKTVTLKTLGLLTLMAQSGLPIPAAE----GSS----LPV----FENIFADIGDEQSIEQSLSTFSSHM   96 (200)
T ss_pred             eEEEEECCCCCChHHHHHHHHHHHHHHHcCCCccccc----ccc----CcC----ccEEEEecCchhhhhcCcchHHHHH
Confidence            569999999999999999987        43332111    000    000    11122233332211111111 1111


Q ss_pred             HHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HH-HHHHhcccccCeEEEEEeCCC
Q 025391           91 KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HS-LQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        91 ~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~-l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      +++...+.. ..+| -++++++++..++......+ .. +......   ..+++++||..
T Consensus        97 ~~~~~i~~~-~~~p-~llllDEp~~glD~~~~~~i~~~~l~~l~~~---~~~vi~~tH~~  151 (200)
T cd03280          97 KNIARILQH-ADPD-SLVLLDELGSGTDPVEGAALAIAILEELLER---GALVIATTHYG  151 (200)
T ss_pred             HHHHHHHHh-CCCC-cEEEEcCCCCCCCHHHHHHHHHHHHHHHHhc---CCEEEEECCHH
Confidence            223333322 3444 57888899889998885544 22 3332211   25889999964

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family also possess a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding clamps, a

>KOG0927 consensus Predicted transporter (ABC superfamily) [General function prediction only]

Probab=98.36  E-value=9.3e-07  Score=78.63  Aligned_cols=35  Identities=29%  Similarity=0.247  Sum_probs=29.4

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS   50 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~   50 (253)
                      -...-||++|||||+|||||++.++|...+..|..
T Consensus       413 id~~srvAlVGPNG~GKsTLlKl~~gdl~p~~G~v  447 (614)
T KOG0927|consen  413 IDLDSRVALVGPNGAGKSTLLKLITGDLQPTIGMV  447 (614)
T ss_pred             cCcccceeEecCCCCchhhhHHHHhhccccccccc
Confidence            34557999999999999999999999987666643

>TIGR02868 CydC thiol reductant ABC exporter, CydC subunit

Probab=98.35  E-value=2.1e-06  Score=78.86  Aligned_cols=31  Identities=23%  Similarity=0.216  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-+++|+|++|+|||||++.|+|...+..|
T Consensus       360 ~G~~vaIvG~SGsGKSTLl~lL~g~~~p~~G  390 (529)
T TIGR02868       360 PGERVAILGPSGSGKSTLLMLLTGLLDPLQG  390 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            5578999999999999999999998665444

The gene pair cydCD encodes an ABC-family transporter in which each gene contains an N-terminal membrane-spanning domain (pfam00664) and a C-terminal ATP-binding domain (pfam00005). In E. coli these genes were discovered as mutants which caused the terminal heme-copper oxidase complex cytochrome bd to fail to assemble. Recent work has shown that the transporter is involved in export of redox-active thiol compounds such as cysteine and glutathione. The linkage to assembly of the cytochrome bd complex is further supported by the conserved operon structure found outside the gammaproteobacteria (cydABCD) containing both the transporter and oxidase genes components. The genes used as the seed members for this model are all either found in the gammproteobacterial context or the CydABCD context. All members of this family scoring above trusted at the time of its creation were from genomes which encode a cytochrome bd complex.

>COG3839 MalK ABC-type sugar transport systems, ATPase components [Carbohydrate transport and metabolism]

Probab=98.35  E-value=2.6e-06  Score=72.88  Aligned_cols=30  Identities=37%  Similarity=0.376  Sum_probs=26.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      --++|+||||||||||++.|+|-..+.++.
T Consensus        30 ef~vllGPSGcGKSTlLr~IAGLe~~~~G~   59 (338)
T COG3839          30 EFVVLLGPSGCGKSTLLRMIAGLEEPTSGE   59 (338)
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCCCce
Confidence            468999999999999999999998765553

>PRK11248 tauB taurine transporter ATP-binding subunit; Provisional

Probab=98.35  E-value=1.5e-05  Score=66.33  Aligned_cols=31  Identities=26%  Similarity=0.402  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   56 (255)
T PRK11248         26 SGELLVVLGPSGCGKTTLLNLIAGFVPYQHG   56 (255)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654443

>PRK09544 znuC high-affinity zinc transporter ATPase; Reviewed

Probab=98.35  E-value=3e-06  Score=70.40  Aligned_cols=31  Identities=29%  Similarity=0.377  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 ~Ge~~~I~G~NGsGKSTLl~~i~Gl~~p~~G   59 (251)
T PRK09544         29 PGKILTLLGPNGAGKSTLVRVVLGLVAPDEG   59 (251)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654443

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.35  E-value=1.5e-07  Score=81.08  Aligned_cols=127  Identities=22%  Similarity=0.279  Sum_probs=86.0

Q ss_pred             CCCCCCCCCCCC----eEEEEEcCCCCCHHHHHHHHhCCC---CccccCC-------------CCccceeeeeeeeEeeC
Q 025391            8 DDWELTSPSNGE----RTVVLVGRTGNGKSATGNSILGRR---AFKSRAS-------------SSGVTSTCEMQRTVLKD   67 (253)
Q Consensus         8 ~~~~~~~~~~~~----~~i~lvG~~g~GKSTl~n~l~g~~---~~~~~~~-------------~~~~t~~~~~~~~~~~~   67 (253)
                      +.-++.|..+|.    ++|+++.+-.+||||.-..|+-..   ...+...             ..++|........+ |+
T Consensus        22 dikslhs~~~p~~akirnigiiahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fd-wk  100 (753)
T KOG0464|consen   22 DIKSLHSIINPAIAKIRNIGIIAHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFD-WK  100 (753)
T ss_pred             cchhccCCCCCchhhhhcceeEEEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecc-cc
Confidence            344455555443    689999999999999987765332   2111111             23666766666665 69


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      |.++++|||||..|+..       ++.+|+...    |+++.|+|++....+...-+++.-.     ....|....+||+
T Consensus       101 g~rinlidtpghvdf~l-------everclrvl----dgavav~dasagve~qtltvwrqad-----k~~ip~~~finkm  164 (753)
T KOG0464|consen  101 GHRINLIDTPGHVDFRL-------EVERCLRVL----DGAVAVFDASAGVEAQTLTVWRQAD-----KFKIPAHCFINKM  164 (753)
T ss_pred             cceEeeecCCCcceEEE-------EHHHHHHHh----cCeEEEEeccCCcccceeeeehhcc-----ccCCchhhhhhhh
Confidence            99999999999998874       334565544    7999999988777666544443332     2345788889999


Q ss_pred             CCCC
Q 025391          148 DELE  151 (253)
Q Consensus       148 D~~~  151 (253)
                      |.+.
T Consensus       165 dk~~  168 (753)
T KOG0464|consen  165 DKLA  168 (753)
T ss_pred             hhhh
Confidence            9884

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.34  E-value=9.5e-07  Score=73.77  Aligned_cols=122  Identities=20%  Similarity=0.133  Sum_probs=68.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCc---ccc---CCCC-----------ccceeeeeeeeE-------------eeC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAF---KSR---ASSS-----------GVTSTCEMQRTV-------------LKD   67 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~---~~~---~~~~-----------~~t~~~~~~~~~-------------~~~   67 (253)
                      +..+|+++|++|+||||++..|++....   ..+   ..+.           ............             ...
T Consensus        74 ~~~~i~~~G~~g~GKTtl~~~l~~~l~~~~~~v~~i~~D~~ri~~~~ql~~~~~~~~~~~~~~~~~~~l~~~l~~l~~~~  153 (270)
T PRK06731         74 EVQTIALIGPTGVGKTTTLAKMAWQFHGKKKTVGFITTDHSRIGTVQQLQDYVKTIGFEVIAVRDEAAMTRALTYFKEEA  153 (270)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHHHHHHcCCeEEEEecCCCCHHHHHHHHHHhhhcCceEEecCCHHHHHHHHHHHHhcC
Confidence            4479999999999999999988765210   000   0000           000000000000             012


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      +.++.++||||....   ......++...+...  .|+-+++|++++.... .-...++.    |..  ....-+++||.
T Consensus       154 ~~D~ViIDt~Gr~~~---~~~~l~el~~~~~~~--~~~~~~LVl~a~~~~~-d~~~~~~~----f~~--~~~~~~I~TKl  221 (270)
T PRK06731        154 RVDYILIDTAGKNYR---ASETVEEMIETMGQV--EPDYICLTLSASMKSK-DMIEIITN----FKD--IHIDGIVFTKF  221 (270)
T ss_pred             CCCEEEEECCCCCcC---CHHHHHHHHHHHhhh--CCCeEEEEEcCccCHH-HHHHHHHH----hCC--CCCCEEEEEee
Confidence            458999999998642   233445555555433  5667888988762221 12223332    332  24678999999


Q ss_pred             CCCC
Q 025391          148 DELE  151 (253)
Q Consensus       148 D~~~  151 (253)
                      |...
T Consensus       222 Det~  225 (270)
T PRK06731        222 DETA  225 (270)
T ss_pred             cCCC
Confidence            9986

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.34  E-value=7.8e-06  Score=73.76  Aligned_cols=128  Identities=20%  Similarity=0.190  Sum_probs=65.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCc--------cccCCCCcc-----------ceeeeeeeeE----------eeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAF--------KSRASSSGV-----------TSTCEMQRTV----------LKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~--------~~~~~~~~~-----------t~~~~~~~~~----------~~~~   68 (253)
                      ....|+|+|++|+||||++..|......        ....+....           .....+....          ...+
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            3479999999999999999888753110        001111000           0000011100          1134


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .+++||||||.....   .....++. .+... . ....++|++.+...... ...++.+...      .+.-+|+||.|
T Consensus       429 ~DLVLIDTaG~s~~D---~~l~eeL~-~L~aa-~-~~a~lLVLpAtss~~Dl-~eii~~f~~~------~~~gvILTKlD  495 (559)
T PRK12727        429 YKLVLIDTAGMGQRD---RALAAQLN-WLRAA-R-QVTSLLVLPANAHFSDL-DEVVRRFAHA------KPQGVVLTKLD  495 (559)
T ss_pred             CCEEEecCCCcchhh---HHHHHHHH-HHHHh-h-cCCcEEEEECCCChhHH-HHHHHHHHhh------CCeEEEEecCc
Confidence            579999999986422   11222222 22222 1 23566777766332222 2233333321      35779999999


Q ss_pred             CCCCChhhHH
Q 025391          149 ELEDNDETLE  158 (253)
Q Consensus       149 ~~~~~~~~~~  158 (253)
                      ....-+..+.
T Consensus       496 Et~~lG~aLs  505 (559)
T PRK12727        496 ETGRFGSALS  505 (559)
T ss_pred             CccchhHHHH
Confidence            9753333333

>cd03261 ABC_Org_Solvent_Resistant ABC (ATP-binding cassette) transport system involved in resistant to organic solvents; ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules

Probab=98.33  E-value=5.9e-06  Score=67.88  Aligned_cols=31  Identities=26%  Similarity=0.334  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   55 (235)
T cd03261          25 RGEILAIIGPSGSGKSTLLRLIVGLLRPDSG   55 (235)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998654443

The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03224 ABC_TM1139_LivF_branched LivF (TM1139) is part of the LIV-I bacterial ABC-type two-component transport system that imports neutral, branched-chain amino acids

Probab=98.33  E-value=4.5e-06  Score=67.91  Aligned_cols=31  Identities=32%  Similarity=0.469  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (222)
T cd03224          25 EGEIVALLGRNGAGKTTLLKTIMGLLPPRSG   55 (222)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4468999999999999999999998654443

The E. coli branched-chain amino acid transporter comprises a heterodimer of ABC transporters (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ). ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules.

>PRK11247 ssuB aliphatic sulfonates transport ATP-binding subunit; Provisional

Probab=98.33  E-value=1.2e-05  Score=67.07  Aligned_cols=31  Identities=29%  Similarity=0.365  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        37 ~Ge~~~I~G~NGsGKSTLlk~l~Gl~~p~~G   67 (257)
T PRK11247         37 AGQFVAVVGRSGCGKSTLLRLLAGLETPSAG   67 (257)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            3468999999999999999999998654433

>cd03268 ABC_BcrA_bacitracin_resist The BcrA subfamily represents ABC transporters involved in peptide antibiotic resistance

Probab=98.33  E-value=5.8e-06  Score=66.61  Aligned_cols=31  Identities=29%  Similarity=0.294  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   55 (208)
T cd03268          25 KGEIYGFLGPNGAGKTTTMKIILGLIKPDSG   55 (208)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            4468999999999999999999998654443

Bacitracin is a dodecapeptide antibiotic produced by B. licheniformis and B. subtilis. The synthesis of bacitracin is non-ribosomally catalyzed by a multienzyme complex BcrABC. Bacitracin has potent antibiotic activity against gram-positive bacteria. The inhibition of peptidoglycan biosynthesis is the best characterized bacterial effect of bacitracin. The bacitracin resistance of B. licheniformis is mediated by the ABC transporter Bcr which is composed of two identical BcrA ATP-binding subunits and one each of the integral membrane proteins, BcrB and BcrC. B. subtilis cells carrying bcr genes on high-copy number plasmids develop collateral detergent sensitivity, a similar phenomenon in human cells with overexpressed multi-drug resistance P-glycoprotein.

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.33  E-value=2.7e-06  Score=78.26  Aligned_cols=31  Identities=26%  Similarity=0.267  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G   56 (530)
T PRK15064         26 GGNRYGLIGANGCGKSTFMKILGGDLEPSAG   56 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654433

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.33  E-value=2e-06  Score=75.36  Aligned_cols=122  Identities=19%  Similarity=0.184  Sum_probs=67.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCc----------cccCCCC-----------ccceeeeeeee----------EeeC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAF----------KSRASSS-----------GVTSTCEMQRT----------VLKD   67 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~----------~~~~~~~-----------~~t~~~~~~~~----------~~~~   67 (253)
                      +..|+++|++|+||||++..|+.....          ....++.           +..........          ....
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            468999999999999999888743210          0000110           00000000000          0113


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      +..+++|||||....   +.....++...+.... .++-.++|++++....  +  ..+.+..+ ..  ..+.-+++||.
T Consensus       254 ~~DlVLIDTaGr~~~---~~~~l~el~~~l~~~~-~~~e~~LVlsat~~~~--~--~~~~~~~~-~~--~~~~~~I~TKl  322 (388)
T PRK12723        254 DFDLVLVDTIGKSPK---DFMKLAEMKELLNACG-RDAEFHLAVSSTTKTS--D--VKEIFHQF-SP--FSYKTVIFTKL  322 (388)
T ss_pred             CCCEEEEcCCCCCcc---CHHHHHHHHHHHHhcC-CCCeEEEEEcCCCCHH--H--HHHHHHHh-cC--CCCCEEEEEec
Confidence            568999999998642   2223456666655443 2446788888874422  2  22333333 21  13578999999


Q ss_pred             CCCC
Q 025391          148 DELE  151 (253)
Q Consensus       148 D~~~  151 (253)
                      |...
T Consensus       323 Det~  326 (388)
T PRK12723        323 DETT  326 (388)
T ss_pred             cCCC
Confidence            9975

>TIGR03411 urea_trans_UrtD urea ABC transporter, ATP-binding protein UrtD

Probab=98.32  E-value=5.4e-06  Score=68.37  Aligned_cols=31  Identities=23%  Similarity=0.352  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   57 (242)
T TIGR03411        27 PGELRVIIGPNGAGKTTMMDVITGKTRPDEG   57 (242)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4468999999999999999999998654443

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>TIGR01188 drrA daunorubicin resistance ABC transporter ATP-binding subunit

Probab=98.32  E-value=2.1e-06  Score=73.23  Aligned_cols=31  Identities=19%  Similarity=0.148  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        18 ~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   48 (302)
T TIGR01188        18 EGEVFGFLGPNGAGKTTTIRMLTTLLRPTSG   48 (302)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654443

This model describes daunorubicin resistance ABC transporter, ATP binding subunit in bacteria and archaea. This model is restricted in its scope to preferentially recognize the ATP binding subunit associated with effux of the drug, daunorubicin. This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporter is the obligatory coupling of ATP hydrolysis to substrate translocation. The minimal configuration of bacterial ABC transport system: an ATPase or ATP binding subunit; An integral membrane protein; a hydrophilic polypetpide, which likely functions as substrate binding protein. In eukaryotes proteins of similar function include p-gyco proteins, multidrug resistance protein etc.

>PRK13536 nodulation factor exporter subunit NodI; Provisional

Probab=98.32  E-value=2.8e-06  Score=73.64  Aligned_cols=31  Identities=29%  Similarity=0.395  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..|
T Consensus        66 ~Gei~gLlGpNGaGKSTLl~~L~Gl~~p~~G   96 (340)
T PRK13536         66 SGECFGLLGPNGAGKSTIARMILGMTSPDAG   96 (340)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCCCce
Confidence            4469999999999999999999998655443

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=98.32  E-value=5.8e-06  Score=66.46  Aligned_cols=31  Identities=23%  Similarity=0.362  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   55 (205)
T cd03226          25 AGEIIALTGKNGAGKTTLAKILAGLIKESSG   55 (205)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            4468999999999999999999998654444

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. The CbiMNQO family ABC transport system is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most cobalt (Cbi) transport systems possess a separate CbiN component, the cobalt-binding periplasmic protein, and they are encoded by the conserved gene cluster cbiMNQO. Both the CbiM and CbiQ proteins are integral cytoplasmic membrane proteins, and the CbiO protein has the linker peptide and the Walker A and B motifs commonly found in the ATPase components of the ABC-type transport systems.

>cd03255 ABC_MJ0796_Lo1CDE_FtsE This family is comprised of MJ0796 ATP-binding cassette, macrolide-specific ABC-type efflux carrier (MacAB), and proteins involved in cell division (FtsE), and release of liporoteins from the cytoplasmic membrane (LolCDE)

Probab=98.32  E-value=1.2e-05  Score=65.28  Aligned_cols=31  Identities=32%  Similarity=0.313  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 ~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   59 (218)
T cd03255          29 KGEFVAIVGPSGSGKSTLLNILGGLDRPTSG   59 (218)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCcCCCce
Confidence            3468999999999999999999998654443

They are clustered together phylogenetically. MacAB is an exporter that confers resistance to macrolides, while the LolCDE system is not a transporter at all. An FtsE null mutants showed filamentous growth and appeared viable on high salt medium only, indicating a role for FtsE in cell division and/or salt transport. The LolCDE complex catalyses the release of lipoproteins from the cytoplasmic membrane prior to their targeting to the outer membrane.

>cd03265 ABC_DrrA DrrA is the ATP-binding protein component of a bacterial exporter complex that confers resistance to the antibiotics daunorubicin and doxorubicin

Probab=98.32  E-value=2.2e-06  Score=69.68  Aligned_cols=31  Identities=23%  Similarity=0.169  Sum_probs=25.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~i~G~~~~~~G   55 (220)
T cd03265          25 RGEIFGLLGPNGAGKTTTIKMLTTLLKPTSG   55 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998654433

In addition to DrrA, the complex includes an integral membrane protein called DrrB. DrrA belongs to the ABC family of transporters and shares sequence and functional similarities with a protein found in cancer cells called P-glycoprotein. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides, and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=98.32  E-value=5.4e-06  Score=67.08  Aligned_cols=31  Identities=19%  Similarity=0.248  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~G~~~~l~G~nGsGKSTLl~~i~Gl~~~~~G   57 (214)
T TIGR02673        27 KGEFLFLTGPSGAGKTTLLKLLYGALTPSRG   57 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654333

This model describes FtsE, a member of the ABC transporter ATP-binding protein family. This protein, and its permease partner FtsX, localize to the division site. In a number of species, the ftsEX gene pair is located next to FtsY, the signal recognition particle-docking protein.

>PRK13538 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.32  E-value=8.3e-06  Score=65.54  Aligned_cols=31  Identities=19%  Similarity=0.227  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~p~~G   56 (204)
T PRK13538         26 AGELVQIEGPNGAGKTSLLRILAGLARPDAG   56 (204)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654443

>cd03263 ABC_subfamily_A The ABCA subfamily mediates the transport of a variety of lipid compounds

Probab=98.32  E-value=6.4e-06  Score=66.92  Aligned_cols=31  Identities=26%  Similarity=0.293  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   57 (220)
T cd03263          27 KGEIFGLLGHNGAGKTTTLKMLTGELRPTSG   57 (220)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3458999999999999999999998654443

Mutations of members of ABCA subfamily are associated with human genetic diseases, such as, familial high-density lipoprotein (HDL) deficiency, neonatal surfactant deficiency, degenerative retinopathies, and congenital keratinization disorders. The ABCA1 protein is involved in disorders of cholesterol transport and high-density lipoprotein (HDL) biosynthesis. The ABCA4 (ABCR) protein transports vitamin A derivatives in the outer segments of photoreceptor cells, and therefore, performs a crucial step in the visual cycle. The ABCA genes are not present in yeast. However, evolutionary studies of ABCA genes indicate that they arose as transporters that subsequently duplicated and that certain sets of ABCA genes were lost in different eukaryotic lineages.

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=98.32  E-value=2.9e-06  Score=68.78  Aligned_cols=31  Identities=35%  Similarity=0.386  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        28 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   58 (216)
T TIGR00960        28 KGEMVFLVGHSGAGKSTFLKLILGIEKPTRG   58 (216)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654433

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.32  E-value=3.4e-06  Score=70.61  Aligned_cols=120  Identities=19%  Similarity=0.245  Sum_probs=71.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcc-ccCCCCccceeeeee----------------ee----E-----eeCCeE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGVTSTCEMQ----------------RT----V-----LKDGQV   70 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-~~~~~~~~t~~~~~~----------------~~----~-----~~~~~~   70 (253)
                      ++..+|+++|+-..|||||..+|+|--... +.....++|....+.                ..    +     ..--++
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            566999999999999999999999854200 000111111111100                00    0     001247


Q ss_pred             EEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCC-HHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           71 VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS-QEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        71 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~-~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      +.|+|.||+.          .-++.+++-+ .--|+.|+|+.++.++- ++.++.+-.+ +..|-   ++++|+=||.|.
T Consensus        88 VSfVDaPGHe----------~LMATMLsGA-AlMDgAlLvIaANEpcPQPQT~EHl~Al-eIigi---k~iiIvQNKIDl  152 (415)
T COG5257          88 VSFVDAPGHE----------TLMATMLSGA-ALMDGALLVIAANEPCPQPQTREHLMAL-EIIGI---KNIIIVQNKIDL  152 (415)
T ss_pred             EEEeeCCchH----------HHHHHHhcch-hhhcceEEEEecCCCCCCCchHHHHHHH-hhhcc---ceEEEEecccce
Confidence            8999999973          2223333211 12289999999986654 3345555444 33454   489999999999


Q ss_pred             CC
Q 025391          150 LE  151 (253)
Q Consensus       150 ~~  151 (253)
                      ..
T Consensus       153 V~  154 (415)
T COG5257         153 VS  154 (415)
T ss_pred             ec
Confidence            96

>cd03278 ABC_SMC_barmotin Barmotin is a tight junction-associated protein expressed in rat epithelial cells which is thought to have an important regulatory role in tight junction barrier function

Probab=98.31  E-value=6.8e-06  Score=65.72  Aligned_cols=43  Identities=14%  Similarity=0.153  Sum_probs=28.9

Q ss_pred             CccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCC
Q 025391          103 GIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus       103 ~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      .+..++++++++..+++.....+ ..+.+. ...   .++|++||.-.
T Consensus       134 ~~~~illlDEP~~~LD~~~~~~l~~~l~~~-~~~---~tiIiitH~~~  177 (197)
T cd03278         134 RPSPFCVLDEVDAALDDANVERFARLLKEF-SKE---TQFIVITHRKG  177 (197)
T ss_pred             CCCCEEEEeCCcccCCHHHHHHHHHHHHHh-ccC---CEEEEEECCHH
Confidence            34468888999989999885554 444443 322   47888899643

Barmotin belongs to the SMC protein family. SMC proteins are large (approximately 110 to 170 kDa), and each is arranged into five recognizable domains. Amino-acid sequence homology of SMC proteins between species is largely confined to the amino- and carboxy-terminal globular domains. The amino-terminal domain contains a 'Walker A' nucleotide-binding domain (GxxGxGKS/T, in the single-letter amino-acid code), which by mutational studies has been shown to be essential in several proteins. The carboxy-terminal domain contains a sequence (the DA-box) that resembles a 'Walker B' motif, and a motif with homology to the signature sequence of the ATP-binding cassette (ABC) family of ATPases. The sequence homology within the carboxy-terminal domain is relatively high within the SMC1-SMC4 group, w

>TIGR01184 ntrCD nitrate transport ATP-binding subunits C and D

Probab=98.31  E-value=1.9e-05  Score=64.69  Aligned_cols=30  Identities=33%  Similarity=0.354  Sum_probs=25.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        11 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   40 (230)
T TIGR01184        11 GEFISLIGHSGCGKSTLLNLISGLAQPTSG   40 (230)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            358999999999999999999998654443

This model describes the ATP binding subunits of nitrate transport in bacteria and archaea. This protein belongs to the ATP-binding cassette (ABC) superfamily. It is thought that the two subunits encoded by ntrC and ntrD form the binding surface for interaction with ATP. This model is restricted in identifying ATP binding subunit associated with the nitrate transport. Nitrate assimilation is aided by other proteins derived from the operon which among others include products of ntrA - a regulatory protein; ntrB - a hydropbobic transmembrane permease and narB - a reductase.

>TIGR01288 nodI ATP-binding ABC transporter family nodulation protein NodI

Probab=98.31  E-value=2.5e-06  Score=72.90  Aligned_cols=31  Identities=26%  Similarity=0.329  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 ~Ge~~~l~G~NGaGKSTLl~~l~Gl~~p~~G   59 (303)
T TIGR01288        29 RGECFGLLGPNGAGKSTIARMLLGMISPDRG   59 (303)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998654433

This model does not recognize the highly divergent NodI from Azorhizobium caulinodans.

>TIGR03608 L_ocin_972_ABC putative bacteriocin export ABC transporter, lactococcin 972 group

Probab=98.31  E-value=3.1e-06  Score=68.05  Aligned_cols=31  Identities=29%  Similarity=0.342  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (206)
T TIGR03608        23 KGKMYAIIGESGSGKSTLLNIIGLLEKFDSG   53 (206)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            3468999999999999999999998654443

A gene pair with a fairly wide distribution consists of a polypeptide related to the lactococcin 972 (see TIGR01653) and multiple-membrane-spanning putative immunity protein (see TIGR01654). This model represents a small clade within the ABC transporters that regularly are found adjacent to these bacteriocin system gene pairs and are likely serve as export proteins.

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.31  E-value=1.7e-06  Score=77.63  Aligned_cols=25  Identities=32%  Similarity=0.458  Sum_probs=22.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...|+|||+||+||||++..|++..
T Consensus       256 g~Vi~LvGpnGvGKTTTiaKLA~~~  280 (484)
T PRK06995        256 GGVFALMGPTGVGKTTTTAKLAARC  280 (484)
T ss_pred             CcEEEEECCCCccHHHHHHHHHHHH
Confidence            3689999999999999999998754

>cd03219 ABC_Mj1267_LivG_branched The Mj1267/LivG ABC transporter subfamily is involved in the transport of the hydrophobic amino acids leucine, isoleucine and valine

Probab=98.31  E-value=4.8e-06  Score=68.38  Aligned_cols=31  Identities=29%  Similarity=0.204  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   55 (236)
T cd03219          25 PGEIHGLIGPNGAGKTTLFNLISGFLRPTSG   55 (236)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            4468999999999999999999998654443

MJ1267 is a branched-chain amino acid transporter with 29% similarity to both the LivF and LivG components of the E. coli branched-chain amino acid transporter. MJ1267 contains an insertion from residues 114 to 123 characteristic of LivG (Leucine-Isoleucine-Valine) homologs. The branched-chain amino acid transporter from E. coli comprises a heterodimer of ABCs (LivF and LivG), a heterodimer of six-helix TM domains (LivM and LivH), and one of two alternative soluble periplasmic substrate binding proteins (LivK or LivJ).

>TIGR03522 GldA_ABC_ATP gliding motility-associated ABC transporter ATP-binding subunit GldA

Probab=98.31  E-value=6.6e-06  Score=70.20  Aligned_cols=31  Identities=35%  Similarity=0.353  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Gei~~l~G~NGaGKTTLl~~l~Gl~~~~~G   57 (301)
T TIGR03522        27 KGRIVGFLGPNGAGKSTTMKIITGYLPPDSG   57 (301)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654444

Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldA is an ABC transporter ATP-binding protein (pfam00005) linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. Knockouts of GldA abolish the gliding phenotype. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility.

>cd03292 ABC_FtsE_transporter FtsE is a hydrophilic nucleotide-binding protein that binds FtsX to form a heterodimeric ATP-binding cassette (ABC)-type transporter that associates with the bacterial inner membrane

Probab=98.31  E-value=1.2e-05  Score=65.08  Aligned_cols=31  Identities=32%  Similarity=0.302  Sum_probs=25.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   56 (214)
T cd03292          26 AGEFVFLVGPSGAGKSTLLKLIYKEELPTSG   56 (214)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            3468999999999999999999998654333

The FtsE/X transporter is thought to be involved in cell division and is important for assembly or stability of the septal ring.

>PRK10895 lipopolysaccharide ABC transporter ATP-binding protein; Provisional

Probab=98.31  E-value=5.7e-06  Score=68.22  Aligned_cols=31  Identities=26%  Similarity=0.313  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        28 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   58 (241)
T PRK10895         28 SGEIVGLLGPNGAGKTTTFYMVVGIVPRDAG   58 (241)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4468999999999999999999998654443

>PRK11174 cysteine/glutathione ABC transporter membrane/ATP-binding component; Reviewed

Probab=98.31  E-value=5e-06  Score=77.45  Aligned_cols=30  Identities=30%  Similarity=0.423  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-+++|+|++|+|||||++.|+|.. +..|
T Consensus       375 ~G~~vaIvG~SGsGKSTL~~lL~g~~-p~~G  404 (588)
T PRK11174        375 AGQRIALVGPSGAGKTSLLNALLGFL-PYQG  404 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCC-CCCc
Confidence            55799999999999999999999986 4433

>PRK13546 teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.31  E-value=3.7e-06  Score=70.33  Aligned_cols=31  Identities=32%  Similarity=0.328  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        49 ~Ge~~~liG~NGsGKSTLlk~L~Gl~~p~~G   79 (264)
T PRK13546         49 EGDVIGLVGINGSGKSTLSNIIGGSLSPTVG   79 (264)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            4568999999999999999999998654433

>cd03266 ABC_NatA_sodium_exporter NatA is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled proton or K+ uptake

Probab=98.31  E-value=6.3e-06  Score=66.86  Aligned_cols=31  Identities=23%  Similarity=0.244  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   60 (218)
T cd03266          30 PGEVTGLLGPNGAGKTTTLRMLAGLLEPDAG   60 (218)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            3468999999999999999999998654433

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilus, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of a single ATP-binding protein and a single intergral membrane protein.

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.30  E-value=2.2e-06  Score=83.60  Aligned_cols=130  Identities=18%  Similarity=0.223  Sum_probs=79.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhCCCCccccCCC-----CccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc-H---HHHHH
Q 025391           22 VVLVGRTGNGKSATGNSILGRRAFKSRASS-----SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-E---FVGKE   92 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~-----~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~---~~~~~   92 (253)
                      .++||++|+||||++..- |...+......     ...|..|     +.+-+...++|||.|-.-..++. +   ..+..
T Consensus       128 y~viG~pgsGKTtal~~s-gl~Fpl~~~~~~~~~~~~gT~~c-----dwwf~deaVlIDtaGry~~q~s~~~~~~~~W~~  201 (1188)
T COG3523         128 YMVIGPPGSGKTTALLNS-GLQFPLAEQMGALGLAGPGTRNC-----DWWFTDEAVLIDTAGRYITQDSADEVDRAEWLG  201 (1188)
T ss_pred             eEEecCCCCCcchHHhcc-cccCcchhhhccccccCCCCccc-----CcccccceEEEcCCcceecccCcchhhHHHHHH
Confidence            578999999999988653 44333222111     1113333     34556788999999987655422 2   23344


Q ss_pred             HHHHHHhh--cCCccEEEEEEeCCCCC--CHHH--------HHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHH
Q 025391           93 IVKCIGMA--KDGIHAVLVVFSVRSRF--SQEE--------EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDY  160 (253)
Q Consensus        93 ~~~~~~~~--~~~~~~~l~v~d~~~~~--~~~~--------~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~  160 (253)
                      +...+...  .+..+++|+.+++.+-+  +..+        +..++.+...++-  ..|++|++||.|.+.    -+++|
T Consensus       202 fL~lLkk~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~--~~PVYl~lTk~Dll~----GF~ef  275 (1188)
T COG3523         202 FLGLLKKYRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHA--RLPVYLVLTKADLLP----GFEEF  275 (1188)
T ss_pred             HHHHHHHhccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhcc--CCceEEEEecccccc----cHHHH
Confidence            44444322  34669999999875322  2222        3335555555544  459999999999997    36666


Q ss_pred             Hcc
Q 025391          161 LGR  163 (253)
Q Consensus       161 ~~~  163 (253)
                      ...
T Consensus       276 F~~  278 (1188)
T COG3523         276 FGS  278 (1188)
T ss_pred             Hhc
Confidence            663

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=98.30  E-value=1.9e-06  Score=76.75  Aligned_cols=121  Identities=18%  Similarity=0.134  Sum_probs=66.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC------CccccCCCCcc-----------ceeeeeeee--------------Eee
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR------AFKSRASSSGV-----------TSTCEMQRT--------------VLK   66 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~------~~~~~~~~~~~-----------t~~~~~~~~--------------~~~   66 (253)
                      ++..|+++|++|+||||++..|+..-      +.....+....           ......+..              ...
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            45789999999999999998775321      10000000000           000000000              001


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ....++++||||....   .+....++.......  .||.+++|+|++..     ...+..... |... ....-+|+||
T Consensus       174 ~~~DvVIIDTAGr~~~---d~~lm~El~~l~~~~--~pdevlLVvda~~g-----q~av~~a~~-F~~~-l~i~gvIlTK  241 (437)
T PRK00771        174 KKADVIIVDTAGRHAL---EEDLIEEMKEIKEAV--KPDEVLLVIDATIG-----QQAKNQAKA-FHEA-VGIGGIIITK  241 (437)
T ss_pred             hcCCEEEEECCCcccc---hHHHHHHHHHHHHHh--cccceeEEEecccc-----HHHHHHHHH-HHhc-CCCCEEEEec
Confidence            2347899999998643   344445555544332  56889999998643     123333333 3322 1246788999


Q ss_pred             CCCC
Q 025391          147 GDEL  150 (253)
Q Consensus       147 ~D~~  150 (253)
                      .|..
T Consensus       242 lD~~  245 (437)
T PRK00771        242 LDGT  245 (437)
T ss_pred             ccCC
Confidence            9976

>cd03262 ABC_HisP_GlnQ_permeases HisP and GlnQ are the ATP-binding components of the bacterial periplasmic histidine and glutamine permeases, repectively

Probab=98.30  E-value=1.4e-05  Score=64.60  Aligned_cols=31  Identities=29%  Similarity=0.280  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~G~~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03262          25 KGEVVVIIGPSGSGKSTLLRCINLLEEPDSG   55 (213)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4468999999999999999999998654433

Histidine permease is a multisubunit complex containing the HisQ and HisM integral membrane subunits and two copies of HisP. HisP has properties intermediate between those of integral and peripheral membrane proteins and is accessible from both sides of the membrane, presumably by its interaction with HisQ and HisM. The two HisP subunits form a homodimer within the complex. The domain structure of the amino acid uptake systems is typical for prokaryote extracellular solute binding protein-dependent uptake systems. All of the amino acid uptake systems also have at least one, and in a few cases, two extracellular solute binding proteins located in the periplasm of Gram-negative bacteria, or attached to the cell membrane of Gram-positive bacteria. The best-studied member of the PAAT (polar amino acid transport) family is the HisJQM

>cd03269 ABC_putative_ATPase This subfamily is involved in drug resistance, nodulation, lipid transport, and bacteriocin and lantibiotic immunity

Probab=98.30  E-value=2.3e-06  Score=69.02  Aligned_cols=31  Identities=32%  Similarity=0.306  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (210)
T cd03269          25 KGEIFGLLGPNGAGKTTTIRMILGIILPDSG   55 (210)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654433

In eubacteria and archaea, the typical organization consists of one ABC and one or two IMs. Eukaryote systems of the ABCA subfamily display ABC domains strongly similar to this family. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region in addition to the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>TIGR01189 ccmA heme ABC exporter, ATP-binding protein CcmA

Probab=98.30  E-value=1.1e-05  Score=64.39  Aligned_cols=31  Identities=19%  Similarity=0.202  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (198)
T TIGR01189        25 AGEALQVTGPNGIGKTTLLRILAGLLRPDSG   55 (198)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCcc
Confidence            4468999999999999999999998654433

This model describes the cyt c biogenesis protein encoded by ccmA in bacteria. An exception is, an arabidopsis protein. Quite likely this is encoded by an organelle. Bacterial c-type cytocromes are located on the periplasmic side of the cytoplasmic membrane. Several gene products encoded in a locus designated as 'ccm' are implicated in the transport and assembly of the functional cytochrome C. This cluster includes genes: ccmA;B;C;D;E;F;G and H. The posttranslational pathway includes the transport of heme moiety, the secretion of the apoprotein and the covalent attachment of the heme with the apoprotein. The proteins ccmA and B represent an ABC transporter; ccmC and D participate in heme transfer to ccmE, which function as a periplasmic heme chaperone. The presence of ccmF, G and H is suggested to be obligatory for the final functional assembly of cytochrome c.

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.30  E-value=5.8e-06  Score=63.73  Aligned_cols=22  Identities=41%  Similarity=0.499  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++++|..|+|||||++.++..
T Consensus         2 ~~~l~G~~GsGKTtl~~~l~~~   23 (158)
T cd03112           2 VTVLTGFLGAGKTTLLNHILTE   23 (158)
T ss_pred             EEEEEECCCCCHHHHHHHHHhc
Confidence            5789999999999999998866

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.

>cd03259 ABC_Carb_Solutes_like ABC Carbohydrate and Solute Transporters-like subgroup

Probab=98.29  E-value=9.3e-06  Score=65.64  Aligned_cols=31  Identities=26%  Similarity=0.268  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   55 (213)
T cd03259          25 PGEFLALLGPSGCGKTTLLRLIAGLERPDSG   55 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            3468999999999999999999998654443

This family is comprised of proteins involved in the transport of apparently unrelated solutes and proteins specific for di- and oligosaccharides and polyols. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds, like sugars, ions, peptides and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03240 ABC_Rad50 The catalytic domains of Rad50 are similar to the ATP-binding cassette of ABC transporters, but are not associated with membrane-spanning domains

Probab=98.29  E-value=1.7e-05  Score=63.74  Aligned_cols=43  Identities=14%  Similarity=0.265  Sum_probs=28.6

Q ss_pred             cEEEEEEeCCCCCCHHHHH--HHHHHHHHhcccccCeEEEEEeCCCC
Q 025391          105 HAVLVVFSVRSRFSQEEEA--ALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus       105 ~~~l~v~d~~~~~~~~~~~--~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      ..++++++++..+++....  +.+.+.+.....  ..++++++|...
T Consensus       140 p~illlDEP~~~LD~~~~~~~l~~~l~~~~~~~--~~~iiiitH~~~  184 (204)
T cd03240         140 CGILALDEPTTNLDEENIEESLAEIIEERKSQK--NFQLIVITHDEE  184 (204)
T ss_pred             CCEEEEcCCccccCHHHHHHHHHHHHHHHHhcc--CCEEEEEEecHH
Confidence            4778888998899998855  455555542210  147888999643

The conserved ATP-binding motifs common to Rad50 and the ABC transporter family include the Walker A and Walker B motifs, the Q loop, a histidine residue in the switch region, a D-loop, and a conserved LSGG sequence. This conserved sequence, LSGG, is the most specific and characteristic motif of this family and is thus known as the ABC signature sequence.

>COG2274 SunT ABC-type bacteriocin/lantibiotic exporters, contain an N-terminal double-glycine peptidase domain [Defense mechanisms]

Probab=98.28  E-value=3.9e-06  Score=78.91  Aligned_cols=32  Identities=31%  Similarity=0.404  Sum_probs=27.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .++-+|+|+|++|||||||++.|+|...+..|
T Consensus       497 ~~Ge~vaIvG~SGsGKSTL~KLL~gly~p~~G  528 (709)
T COG2274         497 PPGEKVAIVGRSGSGKSTLLKLLLGLYKPQQG  528 (709)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            34579999999999999999999998765544

>TIGR03410 urea_trans_UrtE urea ABC transporter, ATP-binding protein UrtE

Probab=98.28  E-value=5.4e-06  Score=67.87  Aligned_cols=31  Identities=26%  Similarity=0.425  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (230)
T TIGR03410        25 KGEVTCVLGRNGVGKTTLLKTLMGLLPVKSG   55 (230)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4469999999999999999999998654443

Members of this protein family are ABC transporter ATP-binding subunits associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity.

>cd03301 ABC_MalK_N The N-terminal ATPase domain of the maltose transporter, MalK

Probab=98.28  E-value=1.3e-05  Score=64.78  Aligned_cols=31  Identities=35%  Similarity=0.389  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   55 (213)
T cd03301          25 DGEFVVLLGPSGCGKTTTLRMIAGLEEPTSG   55 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654433

ATP binding cassette (ABC) proteins function from bacteria to human, mediating the translocation of substances into and out of cells or organelles. ABC transporters contain two transmembrane-spanning domains (TMDs) or subunits and two nucleotide binding domains (NBDs) or subunits that couple transport to the hydrolysis of ATP. In the maltose transport system, the periplasmic maltose binding protein (MBP) stimulates the ATPase activity of the membrane-associated transporter, which consists of two transmembrane subunits, MalF and MalG, and two copies of the ATP binding subunit, MalK, and becomes tightly bound to the transporter in the catalytic transition state, ensuring that maltose is passed to the transporter as ATP is hydrolyzed.

>cd00066 G-alpha G protein alpha subunit

Probab=98.28  E-value=8.2e-06  Score=70.07  Aligned_cols=74  Identities=12%  Similarity=0.153  Sum_probs=49.7

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC--------CCHHHHHHHHHHHHHhccc--c
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR--------FSQEEEAALHSLQTLFGKK--I  136 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~--------~~~~~~~~l~~l~~~~g~~--~  136 (253)
                      ++..+.+||++|...           .++.+..++.+++++|||++.++.        ....-...+..+...+..+  .
T Consensus       159 ~~~~~~~~DvgGq~~-----------~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~  227 (317)
T cd00066         159 KNLKFRMFDVGGQRS-----------ERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFA  227 (317)
T ss_pred             cceEEEEECCCCCcc-----------cchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCcccc
Confidence            566788999999742           335555677899999999998732        1122234444455544433  2


Q ss_pred             cCeEEEEEeCCCCCC
Q 025391          137 FDYMIVVFTGGDELE  151 (253)
Q Consensus       137 ~~~~ivv~~k~D~~~  151 (253)
                      ..|++|++||.|.+.
T Consensus       228 ~~pill~~NK~D~f~  242 (317)
T cd00066         228 NTSIILFLNKKDLFE  242 (317)
T ss_pred             CCCEEEEccChHHHH
Confidence            469999999999884

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.

>PRK13537 nodulation ABC transporter NodI; Provisional

Probab=98.27  E-value=3.5e-06  Score=72.05  Aligned_cols=31  Identities=26%  Similarity=0.314  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        32 ~Gei~gllGpNGaGKSTLl~~l~Gl~~p~~G   62 (306)
T PRK13537         32 RGECFGLLGPNGAGKTTTLRMLLGLTHPDAG   62 (306)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            3458999999999999999999998665444

>PRK10867 signal recognition particle protein; Provisional

Probab=98.27  E-value=3.3e-06  Score=75.00  Aligned_cols=71  Identities=18%  Similarity=0.209  Sum_probs=40.4

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      +.+++++||||....   ++....++.......  .|+.+++|+|++.  ........+.+.+.+     ...-+|+||.
T Consensus       183 ~~DvVIIDTaGrl~~---d~~lm~eL~~i~~~v--~p~evllVlda~~--gq~av~~a~~F~~~~-----~i~giIlTKl  250 (433)
T PRK10867        183 GYDVVIVDTAGRLHI---DEELMDELKAIKAAV--NPDEILLVVDAMT--GQDAVNTAKAFNEAL-----GLTGVILTKL  250 (433)
T ss_pred             CCCEEEEeCCCCccc---CHHHHHHHHHHHHhh--CCCeEEEEEeccc--HHHHHHHHHHHHhhC-----CCCEEEEeCc
Confidence            457999999997642   233334444443322  5678899998752  112222233333222     2467788999


Q ss_pred             CCC
Q 025391          148 DEL  150 (253)
Q Consensus       148 D~~  150 (253)
                      |..
T Consensus       251 D~~  253 (433)
T PRK10867        251 DGD  253 (433)
T ss_pred             cCc
Confidence            964

>PRK11300 livG leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.26  E-value=8.3e-06  Score=67.81  Aligned_cols=31  Identities=26%  Similarity=0.342  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 ~Ge~~~l~G~nGsGKSTLl~~l~Gl~~~~~G   60 (255)
T PRK11300         30 EQEIVSLIGPNGAGKTTVFNCLTGFYKPTGG   60 (255)
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCcCCCcc
Confidence            4568999999999999999999998654444

>PRK10584 putative ABC transporter ATP-binding protein YbbA; Provisional

Probab=98.26  E-value=2.9e-05  Score=63.44  Aligned_cols=31  Identities=29%  Similarity=0.364  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        35 ~Ge~~~i~G~nGsGKSTLl~~i~Gl~~p~~G   65 (228)
T PRK10584         35 RGETIALIGESGSGKSTLLAILAGLDDGSSG   65 (228)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            4469999999999999999999998654443

>PRK13540 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.26  E-value=4.1e-06  Score=67.11  Aligned_cols=31  Identities=23%  Similarity=0.204  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~Ge~~~l~G~nGsGKSTLl~~i~G~~~~~~G   56 (200)
T PRK13540         26 AGGLLHLKGSNGAGKTTLLKLIAGLLNPEKG   56 (200)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            4469999999999999999999998655444

>cd03294 ABC_Pro_Gly_Bertaine This family comprises the glycine betaine/L-proline ATP binding subunit in bacteria and its equivalents in archaea

Probab=98.26  E-value=1.5e-05  Score=66.93  Aligned_cols=31  Identities=26%  Similarity=0.214  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        49 ~Ge~~~l~G~nGsGKSTLl~~L~Gl~~p~~G   79 (269)
T cd03294          49 EGEIFVIMGLSGSGKSTLLRCINRLIEPTSG   79 (269)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            4468999999999999999999998654443

This transport system belong to the larger ATP-Binding Cassette (ABC) transporter superfamily. The characteristic feature of these transporters is the obligatory coupling of ATP hydrolysis to substrate translocation. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>smart00275 G_alpha G protein alpha subunit

Probab=98.26  E-value=1.2e-05  Score=69.73  Aligned_cols=74  Identities=12%  Similarity=0.129  Sum_probs=50.1

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC--------CHHHHHHHHHHHHHhccc--c
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF--------SQEEEAALHSLQTLFGKK--I  136 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~--------~~~~~~~l~~l~~~~g~~--~  136 (253)
                      ++..+.+||..|..           ..++.+..++.+++++|||++.++.-        ...-...+..+...+..+  .
T Consensus       182 ~~~~~~~~DvgGqr-----------~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~  250 (342)
T smart00275      182 KKLFFRMFDVGGQR-----------SERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFA  250 (342)
T ss_pred             CCeEEEEEecCCch-----------hhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCcccc
Confidence            56678899998873           23355566778999999999987321        112234445555555443  3


Q ss_pred             cCeEEEEEeCCCCCC
Q 025391          137 FDYMIVVFTGGDELE  151 (253)
Q Consensus       137 ~~~~ivv~~k~D~~~  151 (253)
                      ..|++|++||.|.+.
T Consensus       251 ~~piil~~NK~D~~~  265 (342)
T smart00275      251 NTSIILFLNKIDLFE  265 (342)
T ss_pred             CCcEEEEEecHHhHH
Confidence            469999999999984

Subunit of G proteins that contains the guanine nucleotide binding site

>cd03220 ABC_KpsT_Wzt ABC_KpsT_Wzt The KpsT/Wzt ABC transporter subfamily is involved in extracellular polysaccharide export

Probab=98.26  E-value=1.7e-05  Score=64.67  Aligned_cols=30  Identities=30%  Similarity=0.354  Sum_probs=25.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS   47 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~   47 (253)
                      +.-.++|+|+||+|||||++.|+|...+..
T Consensus        47 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~   76 (224)
T cd03220          47 RGERIGLIGRNGAGKSTLLRLLAGIYPPDS   76 (224)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCc
Confidence            446899999999999999999999865433

Among the variety of membrane-linked or extracellular polysaccharides excreted by bacteria, only capsular polysaccharides, lipopolysaccharides, and teichoic acids have been shown to be exported by ABC transporters. A typical system is made of a conserved integral membrane and an ABC. In addition to these proteins, capsular polysaccharide exporter systems require two 'accessory' proteins to perform their function: a periplasmic (E.coli) or a lipid-anchored outer membrane protein called OMA (Neisseria meningitidis and Haemophilus influenzae) and a cytoplasmic membrane protein MPA2.

>TIGR01277 thiQ thiamine ABC transporter, ATP-binding protein

Probab=98.25  E-value=1.9e-05  Score=63.92  Aligned_cols=31  Identities=32%  Similarity=0.323  Sum_probs=26.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        23 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   53 (213)
T TIGR01277        23 DGEIVAIMGPSGAGKSTLLNLIAGFIEPASG   53 (213)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            4468999999999999999999998665444

This model describes the energy-transducing ATPase subunit ThiQ of the ThiBPQ thiamine (and thiamine pyrophosphate) ABC transporter in several Proteobacteria. This protein is found so far only in Proteobacteria, and is found in complete genomes only if the ThiB and ThiP subunits are also found.

>PRK13539 cytochrome c biogenesis protein CcmA; Provisional

Probab=98.24  E-value=2e-05  Score=63.51  Aligned_cols=31  Identities=26%  Similarity=0.315  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (207)
T PRK13539         27 AGEALVLTGPNGSGKTTLLRLIAGLLPPAAG   57 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            4468999999999999999999998654443

>cd03279 ABC_sbcCD SbcCD and other Mre11/Rad50 (MR) complexes are implicated in the metabolism of DNA ends

Probab=98.24  E-value=6.7e-05  Score=60.70  Aligned_cols=23  Identities=30%  Similarity=0.398  Sum_probs=20.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-.++|+|+||+|||||+++|.+
T Consensus        28 ~~~~~i~G~NGsGKSTll~~i~~   50 (213)
T cd03279          28 NGLFLICGPTGAGKSTILDAITY   50 (213)
T ss_pred             cCEEEEECCCCCCHHHHHHHhee
Confidence            34899999999999999999984

They cleave ends sealed by hairpin structures and are thought to play a role in removing protein bound to DNA termini.

>cd03254 ABCC_Glucan_exporter_like Glucan exporter ATP-binding protein

Probab=98.24  E-value=8.6e-06  Score=66.58  Aligned_cols=31  Identities=29%  Similarity=0.309  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        28 ~G~~~~i~G~nGsGKSTLl~~l~G~~~~~~G   58 (229)
T cd03254          28 PGETVAIVGPTGAGKTTLINLLMRFYDPQKG   58 (229)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            3358999999999999999999998765444

In A. tumefaciens cyclic beta-1, 2-glucan must be transported into the periplasmic space to exert its action as a virluence factor. This subfamily belongs to the MRP-like family and is involved in drug, peptide, and lipid export. The MRP-like family, similar to all ABC proteins, have a common four-domain core structure constituted by two membrane-spanning domains each composed of six transmembrane (TM) helices and two nucleotide-binding domains (NBD). ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03281 ABC_MSH5_euk MutS5 homolog in eukaryotes

Probab=98.24  E-value=1.5e-05  Score=64.60  Aligned_cols=21  Identities=24%  Similarity=0.370  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      .+++|.|+||+|||||++.|.
T Consensus        30 ~~~~itGpNg~GKStlLk~i~   50 (213)
T cd03281          30 SIMVITGPNSSGKSVYLKQVA   50 (213)
T ss_pred             eEEEEECCCCCChHHHHHHHH
Confidence            789999999999999999986

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form sliding c

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=98.24  E-value=6.5e-06  Score=72.70  Aligned_cols=29  Identities=28%  Similarity=0.339  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      -.=+|+|.||||||||++.|.|...+..+
T Consensus        31 eIHaLLGENGAGKSTLm~iL~G~~~P~~G   59 (501)
T COG3845          31 EIHALLGENGAGKSTLMKILFGLYQPDSG   59 (501)
T ss_pred             cEEEEeccCCCCHHHHHHHHhCcccCCcc
Confidence            45689999999999999999999776655

>PRK11176 lipid transporter ATP-binding/permease protein; Provisional

Probab=98.23  E-value=9e-06  Score=75.64  Aligned_cols=31  Identities=35%  Similarity=0.498  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-+++|+|++|+|||||++.|+|...+..|
T Consensus       368 ~G~~~aIvG~sGsGKSTLl~ll~gl~~p~~G  398 (582)
T PRK11176        368 AGKTVALVGRSGSGKSTIANLLTRFYDIDEG  398 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhccCCCCc
Confidence            4578999999999999999999998765544

>TIGR03740 galliderm_ABC gallidermin-class lantibiotic protection ABC transporter, ATP-binding subunit

Probab=98.23  E-value=2.8e-05  Score=63.28  Aligned_cols=31  Identities=29%  Similarity=0.232  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        25 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   55 (223)
T TIGR03740        25 KNSVYGLLGPNGAGKSTLLKMITGILRPTSG   55 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654433

Model TIGR03731 represents the family of all lantibiotics related to gallidermin, including epidermin, mutatin, and nisin. This protein family describes the ATP-binding subunit of a gallidermin/epidermin class lantibiotic protection transporter. It is largely restricted to gallidermin-family lantibiotic biosynthesis and export cassettes, but also occurs in orphan transporter cassettes in species that lack candidate lantibiotic precursor and synthetase genes.

>PRK11614 livF leucine/isoleucine/valine transporter ATP-binding subunit; Provisional

Probab=98.23  E-value=1.2e-05  Score=66.23  Aligned_cols=31  Identities=26%  Similarity=0.372  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~p~~G   60 (237)
T PRK11614         30 QGEIVTLIGANGAGKTTLLGTLCGDPRATSG   60 (237)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHcCCCCCCCc
Confidence            4468999999999999999999998654444

>PRK13545 tagH teichoic acids export protein ATP-binding subunit; Provisional

Probab=98.23  E-value=4.5e-05  Score=69.13  Aligned_cols=31  Identities=29%  Similarity=0.352  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..|
T Consensus        49 ~GEivgIiGpNGSGKSTLLkiLaGLl~P~sG   79 (549)
T PRK13545         49 EGEIVGIIGLNGSGKSTLSNLIAGVTMPNKG   79 (549)
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654443

>COG4987 CydC ABC-type transport system involved in cytochrome bd biosynthesis, fused ATPase and permease components [Energy production and conversion / Posttranslational modification, protein turnover, chaperones]

Probab=98.22  E-value=4.9e-06  Score=74.19  Aligned_cols=40  Identities=8%  Similarity=-0.046  Sum_probs=30.2

Q ss_pred             EEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391          106 AVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      -+++++++|..+++.. ++++..+.+.+..    .+++.+||.-.
T Consensus       494 pl~lLDEPTegLD~~TE~~vL~ll~~~~~~----kTll~vTHrL~  534 (573)
T COG4987         494 PLWLLDEPTEGLDPITERQVLALLFEHAEG----KTLLMVTHRLR  534 (573)
T ss_pred             CeEEecCCcccCChhhHHHHHHHHHHHhcC----CeEEEEecccc
Confidence            5677778999999986 7778877776654    48899998433

>PLN03073 ABC transporter F family; Provisional

Probab=98.22  E-value=7.3e-06  Score=77.66  Aligned_cols=31  Identities=29%  Similarity=0.298  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|+|+||+|||||++.|+|...+..+
T Consensus       534 ~Ge~i~LvG~NGsGKSTLLk~L~Gll~p~~G  564 (718)
T PLN03073        534 LDSRIAMVGPNGIGKSTILKLISGELQPSSG  564 (718)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCCc
Confidence            3458999999999999999999998654444

>PRK10908 cell division protein FtsE; Provisional

Probab=98.22  E-value=1.2e-05  Score=65.53  Aligned_cols=31  Identities=26%  Similarity=0.272  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   57 (222)
T PRK10908         27 PGEMAFLTGHSGAGKSTLLKLICGIERPSAG   57 (222)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            4468999999999999999999998654443

>PRK13657 cyclic beta-1,2-glucan ABC transporter; Provisional

Probab=98.22  E-value=9.1e-06  Score=75.72  Aligned_cols=31  Identities=35%  Similarity=0.302  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|+|++|+|||||++.|+|...+..|
T Consensus       360 ~G~~v~IvG~sGsGKSTLl~lL~gl~~p~~G  390 (588)
T PRK13657        360 PGQTVAIVGPTGAGKSTLINLLQRVFDPQSG  390 (588)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            4578999999999999999999998765544

>PRK15439 autoinducer 2 ABC transporter ATP-binding protein LsrA; Provisional

Probab=98.21  E-value=8.4e-06  Score=74.63  Aligned_cols=31  Identities=29%  Similarity=0.286  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        36 ~Ge~~~liG~NGsGKSTLl~~l~Gl~~p~~G   66 (510)
T PRK15439         36 AGEVHALLGGNGAGKSTLMKIIAGIVPPDSG   66 (510)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998654443

>cd03244 ABCC_MRP_domain2 Domain 2 of the ABC subfamily C

Probab=98.20  E-value=1.2e-05  Score=65.37  Aligned_cols=30  Identities=33%  Similarity=0.398  Sum_probs=25.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 Ge~~~i~G~nGsGKSTLl~~l~G~~~~~~G   59 (221)
T cd03244          30 GEKVGIVGRTGSGKSSLLLALFRLVELSSG   59 (221)
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCCCCCC
Confidence            358999999999999999999998654443

This family is also known as MRP (mulrtidrug resisitance-associated protein). Some of the MRP members have five additional transmembrane segments in their N-terminus, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resistance lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions, such as glutathione, glucuronate, and sulfate.

>COG1127 Ttg2A ABC-type transport system involved in resistance to organic solvents, ATPase component [Secondary metabolites biosynthesis, transport, and catabolism]

Probab=98.20  E-value=5.8e-06  Score=66.75  Aligned_cols=30  Identities=27%  Similarity=0.341  Sum_probs=26.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-..+|+|++|+|||||++.|+|...+..+
T Consensus        34 Gei~~iiGgSGsGKStlLr~I~Gll~P~~G   63 (263)
T COG1127          34 GEILAILGGSGSGKSTLLRLILGLLRPDKG   63 (263)
T ss_pred             CcEEEEECCCCcCHHHHHHHHhccCCCCCC
Confidence            367899999999999999999999876655

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.20  E-value=1.4e-06  Score=78.25  Aligned_cols=152  Identities=16%  Similarity=0.211  Sum_probs=97.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc---CC-------------CCccceeeeeeeeEeeCCeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR---AS-------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~---~~-------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~   80 (253)
                      +..++|+++.+-.+||||+-+.++-.......   ..             ..++|......+.. |...++++|||||+.
T Consensus        37 ~k~RNIgi~AhidsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~-w~~~~iNiIDTPGHv  115 (721)
T KOG0465|consen   37 NKIRNIGISAHIDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFT-WRDYRINIIDTPGHV  115 (721)
T ss_pred             hhhcccceEEEEecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeee-eccceeEEecCCCce
Confidence            35578999999999999999887655432111   11             12455555555554 578899999999999


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhh-HHH
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDET-LED  159 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~-~~~  159 (253)
                      |+...-+       +++..    .|+.++|+++..........+.+.+.++ +    .|.+..+||.|....++-. +..
T Consensus       116 DFT~EVe-------RALrV----lDGaVlvl~aV~GVqsQt~tV~rQ~~ry-~----vP~i~FiNKmDRmGa~~~~~l~~  179 (721)
T KOG0465|consen  116 DFTFEVE-------RALRV----LDGAVLVLDAVAGVESQTETVWRQMKRY-N----VPRICFINKMDRMGASPFRTLNQ  179 (721)
T ss_pred             eEEEEeh-------hhhhh----ccCeEEEEEcccceehhhHHHHHHHHhc-C----CCeEEEEehhhhcCCChHHHHHH
Confidence            8764333       34333    3677778777667777777777777664 3    4789999999999755433 333


Q ss_pred             HHcccCCchh--h---hhHHHhhhHHHHHHH
Q 025391          160 YLGRECPKPL--K---KGATKLRDQQFEVDS  185 (253)
Q Consensus       160 ~~~~~~~~~l--~---~~~~~~~~~~~~~~~  185 (253)
                      ...+......  +   -....+..+..+++.
T Consensus       180 i~~kl~~~~a~vqiPig~e~~f~GvvDlv~~  210 (721)
T KOG0465|consen  180 IRTKLNHKPAVVQIPIGSESNFKGVVDLVNG  210 (721)
T ss_pred             HHhhcCCchheeEccccccccchhHHhhhhc
Confidence            3332111111  1   222356667776664

>cd03236 ABC_RNaseL_inhibitor_domain1 The ATPase domain 1 of RNase L inhibitor

Probab=98.20  E-value=1.3e-05  Score=66.69  Aligned_cols=32  Identities=25%  Similarity=0.274  Sum_probs=27.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+
T Consensus        24 ~~Ge~~~IvG~nGsGKSTLlk~l~Gl~~p~~G   55 (255)
T cd03236          24 REGQVLGLVGPNGIGKSTALKILAGKLKPNLG   55 (255)
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCcCCCCc
Confidence            45579999999999999999999999765554

The ABC ATPase, RNase L inhibitor (RLI), is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids. 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, RLIs 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.

>PRK11819 putative ABC transporter ATP-binding protein; Reviewed

Probab=98.20  E-value=5.5e-06  Score=76.61  Aligned_cols=31  Identities=29%  Similarity=0.312  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus       349 ~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G  379 (556)
T PRK11819        349 PGGIVGIIGPNGAGKSTLFKMITGQEQPDSG  379 (556)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            3458999999999999999999998655444

>PRK15064 ABC transporter ATP-binding protein; Provisional

Probab=98.19  E-value=5.6e-06  Score=76.16  Aligned_cols=31  Identities=19%  Similarity=0.377  Sum_probs=25.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus       344 ~Ge~~~l~G~NGsGKSTLl~~i~G~~~p~~G  374 (530)
T PRK15064        344 AGERLAIIGENGVGKTTLLRTLVGELEPDSG  374 (530)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            3458999999999999999999998654443

>cd03233 ABC_PDR_domain1 The pleiotropic drug resistance (PDR) family of ATP-binding cassette (ABC) transporters

Probab=98.19  E-value=3e-05  Score=62.24  Aligned_cols=27  Identities=26%  Similarity=0.426  Sum_probs=24.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-.++|+|+||+|||||++.|+|...
T Consensus        32 ~Ge~~~i~G~nGsGKSTLl~~l~G~~~   58 (202)
T cd03233          32 PGEMVLVLGRPGSGCSTLLKALANRTE   58 (202)
T ss_pred             CCcEEEEECCCCCCHHHHHHHhcccCC
Confidence            446999999999999999999999865

PDR is a well-described phenomenon occurring in fungi and shares several similarities with processes in bacteria and higher eukaryotes. This PDR subfamily represents domain I of its (ABC-IM)2 organization. ABC transporters are a large family of proteins involved in the transport of a wide variety of different compounds including sugars, ions, peptides, and more complex organic molecules. The nucleotide-binding domain shows the highest similarity between all members of the family. ABC transporters are a subset of nucleotide hydrolases that contain a signature motif, Q-loop, and H-loop/switch region, in addition to, the Walker A motif/P-loop and Walker B motif commonly found in a number of ATP- and GTP-binding and hydrolyzing proteins.

>cd03245 ABCC_bacteriocin_exporters ABC-type bacteriocin exporters

Probab=98.19  E-value=1.8e-05  Score=64.32  Aligned_cols=31  Identities=29%  Similarity=0.381  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 ~G~~~~i~G~nGsGKSTLl~~i~G~~~~~~G   59 (220)
T cd03245          29 AGEKVAIIGRVGSGKSTLLKLLAGLYKPTSG   59 (220)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            4468999999999999999999998654443

Many non-lantibiotic bacteriocins of lactic acid bacteria are produced as precursors which have N-terminal leader peptides that share similarities in amino acid sequence and contain a conserved processing site of two glycine residues in positions -1 and -2. A dedicated ATP-binding cassette (ABC) transporter is responsible for the proteolytic cleavage of the leader peptides and subsequent translocation of the bacteriocins across the cytoplasmic membrane.

>cd03369 ABCC_NFT1 Domain 2 of NFT1 (New full-length MRP-type transporter 1)

Probab=98.19  E-value=1.4e-05  Score=64.26  Aligned_cols=31  Identities=26%  Similarity=0.299  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        33 ~G~~~~i~G~nGsGKSTLl~~l~Gl~~~~~G   63 (207)
T cd03369          33 AGEKIGIVGRTGAGKSTLILALFRFLEAEEG   63 (207)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccCCCCC
Confidence            4468999999999999999999998654433

NFT1 belongs to the MRP (mulrtidrug resisitance-associated protein) family of ABC transporters. Some of the MRP members have five additional transmembrane segments in their N-terminas, but the function of these additional membrane-spanning domains is not clear. The MRP was found in the multidrug-resisting lung cancer cell in which p-glycoprotein was not overexpressed. MRP exports glutathione by drug stimulation, as well as, certain substrates in conjugated forms with anions such as glutathione, glucuronate, and sulfate.

>PRK09536 btuD corrinoid ABC transporter ATPase; Reviewed

Probab=98.18  E-value=2.1e-05  Score=69.64  Aligned_cols=31  Identities=29%  Similarity=0.289  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        28 ~Geiv~liGpNGaGKSTLLk~LaGll~p~sG   58 (402)
T PRK09536         28 EGSLVGLVGPNGAGKTTLLRAINGTLTPTAG   58 (402)
T ss_pred             CCCEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            4468999999999999999999998654443

>TIGR02857 CydD thiol reductant ABC exporter, CydD subunit

Probab=98.18  E-value=9.8e-06  Score=74.51  Aligned_cols=31  Identities=35%  Similarity=0.369  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-+++|+|++|+|||||++.|+|...+..|
T Consensus       347 ~G~~~~ivG~sGsGKSTL~~ll~g~~~~~~G  377 (529)
T TIGR02857       347 PGERVALVGPSGAGKSTLLNLLLGFVDPTEG  377 (529)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            5579999999999999999999998765544

Unfortunately, the gene symbol nomenclature adopted based on this operon in B. subtilis assigns cydC to the third gene in the operon where this gene is actually homologous to the E. coli cydD gene. We have chosen to name all homologs in this family in accordance with the precedence of publication of the E. coli name, CydD

>COG4598 HisP ABC-type histidine transport system, ATPase component [Amino acid transport and metabolism]

Probab=98.18  E-value=3.9e-05  Score=59.49  Aligned_cols=43  Identities=21%  Similarity=0.168  Sum_probs=29.9

Q ss_pred             EEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          106 AVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+++.+++|+.++++- -+.++.+.....+.   .+++|+||-=.+.
T Consensus       172 ~vmLFDEPTSALDPElVgEVLkv~~~LAeEg---rTMv~VTHEM~FA  215 (256)
T COG4598         172 EVMLFDEPTSALDPELVGEVLKVMQDLAEEG---RTMVVVTHEMGFA  215 (256)
T ss_pred             ceEeecCCcccCCHHHHHHHHHHHHHHHHhC---CeEEEEeeehhHH
Confidence            5667788888999886 55566665553333   6999999965553

>cd03267 ABC_NatA_like Similar in sequence to NatA, this is the ATPase component of a bacterial ABC-type Na+ transport system called NatAB, which catalyzes ATP-dependent electrogenic Na+ extrusion without mechanically coupled to proton or K+ uptake

Probab=98.18  E-value=2.8e-05  Score=63.94  Aligned_cols=31  Identities=26%  Similarity=0.268  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        46 ~Ge~~~i~G~NGsGKSTLl~~i~Gl~~p~~G   76 (236)
T cd03267          46 KGEIVGFIGPNGAGKTTTLKILSGLLQPTSG   76 (236)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCcCCCce
Confidence            4468999999999999999999998654443

NatB possess six putative membrane spanning regions at its C-terminus. In B. subtilis, NatAB is inducible by agents such as ethanol and protonophores, which lower the protonmotive force across the membrane. The closest sequence similarity to NatA is exhibited by DrrA of the two-component daunomycin- and doxorubicin-efflux system. Hence, the functional NatAB is presumably assembled with two copies of the single ATP-binding protein and the single intergral membrane protein.

>PRK10790 putative multidrug transporter membrane\ATP-binding components; Provisional

Probab=98.18  E-value=8.8e-06  Score=75.86  Aligned_cols=31  Identities=32%  Similarity=0.501  Sum_probs=26.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|+|++|+|||||++.|+|...+..|
T Consensus       366 ~Ge~iaIvG~SGsGKSTLl~lL~gl~~p~~G  396 (592)
T PRK10790        366 SRGFVALVGHTGSGKSTLASLLMGYYPLTEG  396 (592)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccCCCCc
Confidence            4478999999999999999999998765544

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=98.18  E-value=1.6e-05  Score=63.15  Aligned_cols=50  Identities=26%  Similarity=0.262  Sum_probs=30.0

Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      -|+.++..-..-+|+++++++.+++-.-.-++.+...+..   ..+||++||-
T Consensus       158 LcIARalAv~PeVlLmDEPtSALDPIsT~kIEeLi~eLk~---~yTIviVTHn  207 (253)
T COG1117         158 LCIARALAVKPEVLLMDEPTSALDPISTLKIEELITELKK---KYTIVIVTHN  207 (253)
T ss_pred             HHHHHHHhcCCcEEEecCcccccCchhHHHHHHHHHHHHh---ccEEEEEeCC
Confidence            3443333322367788888888888774444443333332   3699999993

>PRK13409 putative ATPase RIL; Provisional

Probab=98.17  E-value=8.5e-06  Score=75.66  Aligned_cols=35  Identities=14%  Similarity=0.169  Sum_probs=29.0

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      ...+.-.++|+|+||+|||||++.|+|...+..|.
T Consensus        95 ~i~~Gev~gLvG~NGaGKSTLlkiL~G~l~p~~G~  129 (590)
T PRK13409         95 IPKEGKVTGILGPNGIGKTTAVKILSGELIPNLGD  129 (590)
T ss_pred             cCCCCCEEEEECCCCCCHHHHHHHHhCCccCCCcc
Confidence            34556799999999999999999999987665554

>TIGR03771 anch_rpt_ABC anchored repeat-type ABC transporter, ATP-binding subunit

Probab=98.17  E-value=5.9e-05  Score=61.47  Aligned_cols=31  Identities=26%  Similarity=0.290  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus         5 ~Ge~~~l~G~nGsGKSTLl~~l~G~~~~~~G   35 (223)
T TIGR03771         5 KGELLGLLGPNGAGKTTLLRAILGLIPPAKG   35 (223)
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3468999999999999999999998654443

This protein family is the ATP-binding cassette subunit of binding protein-dependent ABC transporter complex that strictly co-occurs with TIGR03769. TIGRFAMs model TIGR03769 describes a protein domain that occurs singly or as one of up to three repeats in proteins of a number of Actinobacteria, including Propionibacterium acnes KPA171202. The TIGR03769 domain occurs both in an adjacent gene for the substrate-binding protein and in additional (often nearby) proteins, often with LPXTG-like sortase recognition signals. Homologous ATP-binding subunits outside the scope of this family include manganese transporter MntA in Synechocystis sp. PCC 6803 and chelated iron transporter subunits. The function of this transporter complex is unknown.

>PRK11153 metN DL-methionine transporter ATP-binding subunit; Provisional

Probab=98.17  E-value=1.3e-05  Score=69.73  Aligned_cols=31  Identities=23%  Similarity=0.152  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 ~Gei~~iiG~nGsGKSTLlk~L~Gl~~p~~G   60 (343)
T PRK11153         30 AGEIFGVIGASGAGKSTLIRCINLLERPTSG   60 (343)
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            3468999999999999999999998755443

>cd03283 ABC_MutS-like MutS-like homolog in eukaryotes

Probab=98.16  E-value=1.8e-05  Score=63.34  Aligned_cols=122  Identities=16%  Similarity=0.053  Sum_probs=58.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~-~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..++|+|+||+|||||++.|.|.... ..+...............    -..+.+.|....... ....+. .++...+.
T Consensus        26 ~~~~ltGpNg~GKSTllr~i~~~~~l~~~G~~v~a~~~~~q~~~l----~~~~~~~d~l~~~~s-~~~~e~-~~~~~iL~   99 (199)
T cd03283          26 NGILITGSNMSGKSTFLRTIGVNVILAQAGAPVCASSFELPPVKI----FTSIRVSDDLRDGIS-YFYAEL-RRLKEIVE   99 (199)
T ss_pred             cEEEEECCCCCChHHHHHHHHHHHHHHHcCCEEecCccCcccceE----EEeccchhccccccC-hHHHHH-HHHHHHHH
Confidence            57899999999999999999764321 011100000000000000    001112222111110 111111 34444444


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHH-H-HHHHHhcccccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAAL-H-SLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l-~-~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..-....-++++++++..++..+...+ . .+......   ..+++++||.-.+
T Consensus       100 ~~~~~~p~llllDEp~~glD~~~~~~l~~~ll~~l~~~---~~tiiivTH~~~~  150 (199)
T cd03283         100 KAKKGEPVLFLLDEIFKGTNSRERQAASAAVLKFLKNK---NTIGIISTHDLEL  150 (199)
T ss_pred             hccCCCCeEEEEecccCCCCHHHHHHHHHHHHHHHHHC---CCEEEEEcCcHHH
Confidence            332123478888888888888875433 3 23333211   3588888987443

The MutS protein initiates DNA mismatch repair by recognizing mispaired and unpaired bases embedded in duplex DNA and activating endo- and exonucleases to remove the mismatch. Members of the MutS family possess C-terminal domain with a conserved ATPase activity that belongs to the ATP binding cassette (ABC) superfamily. MutS homologs (MSH) have been identified in most prokaryotic and all eukaryotic organisms examined. Prokaryotes have two homologs (MutS1 and MutS2), whereas seven MSH proteins (MSH1 to MSH7) have been identified in eukaryotes. The homodimer MutS1 and heterodimers MSH2-MSH3 and MSH2-MSH6 are primarily involved in mitotic mismatch repair, whereas MSH4-MSH5 is involved in resolution of Holliday junctions during meiosis. All members of the MutS family contain the highly conserved Walker A/B ATPase domain, and many share a common mechanism of action. MutS1, MSH2-MSH3, MSH2-MSH6, and MSH4-MSH5 dimerize to form slid

>TIGR02142 modC_ABC molybdenum ABC transporter, ATP-binding protein

Probab=98.16  E-value=2.8e-05  Score=67.92  Aligned_cols=30  Identities=23%  Similarity=0.341  Sum_probs=25.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        23 Gei~~l~G~nGsGKSTLl~~iaGl~~p~~G   52 (354)
T TIGR02142        23 QGVTAIFGRSGSGKTTLIRLIAGLTRPDEG   52 (354)
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            358999999999999999999998655443

This model represents the ATP-binding cassette (ABC) protein of the three subunit molybdate ABC transporter. The three proteins of this complex are homologous to proteins of the sulfate ABC transporter. Molybdenum may be used in nitrogenases of nitrogen-fixing bacteria and in molybdopterin cofactors. In some cases, molybdate may be transported by a sulfate transporter rather than by a specific molybdate transporter.

>PRK13631 cbiO cobalt transporter ATP-binding subunit; Provisional

Probab=98.16  E-value=2.6e-05  Score=67.14  Aligned_cols=31  Identities=23%  Similarity=0.304  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        51 ~Ge~~~I~G~nGsGKSTLl~~L~Gl~~p~~G   81 (320)
T PRK13631         51 KNKIYFIIGNSGSGKSTLVTHFNGLIKSKYG   81 (320)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCC
Confidence            4468999999999999999999998665444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	253
3lxx_A	239	Crystal Structure Of Human Gtpase Imap Family Membe		1e-20
2xtm_A	234	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		6e-16
3p1j_A	209	Crystal Structure Of Human Gtpase Imap Family Membe		9e-16
2xto_A	240	Crystal Structure Of Gdp-Bound Human Gimap2, Amino		1e-15
2xtp_A	260	Crystal Structure Of Nucleotide-Free Human Gimap2,		2e-15
3v70_A	247	Crystal Structure Of Human Gtpase Imap Family Membe		3e-14
3bb4_A	262	Crystal Structure Of Toc33 From Arabidopsis Thalian		7e-04
3def_A	262	Crystal Structure Of Toc33 From Arabidopsis Thalian		8e-04
2j3e_A	249	Dimerization Is Important For The Gtpase Activity O		9e-04

>pdb|3LXX|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 4 Length = 239

Iteration: 1
 Score = 96.3 bits (238), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 50/130 (38%), Positives = 76/130 (58%), Gaps = 2/130 (1%)
Query: 15  PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVI 74
           P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +  K+ ++V V+
Sbjct: 25  PRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWKETELV-VV 83
Query: 75  DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGK 134
           DTPG+FD    +    KEI++CI +   G HA+L          +EE  A   +   FG+
Sbjct: 84  DTPGIFDTEVPNAETSKEIIRCILLTSPGPHALL-LVVPLGRYTEEEHKATEKILKXFGE 142
Query: 135 KIFDYMIVVF 144
           +   + I++F
Sbjct: 143 RARSFXILIF 152

>pdb|2XTM|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 1-234 Length = 234

Iteration: 1
 Score = 80.9 bits (198), Expect = 6e-16,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 74/129 (57%), Gaps = 2/129 (1%)
Query: 16  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 19  SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 77
Query: 76  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 135
           TP +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 78  TPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 136
Query: 136 IFDYMIVVF 144
              + IV+F
Sbjct: 137 AMGHTIVLF 145

>pdb|3P1J|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 2 In The Nucleotide-Free State Length = 209

Iteration: 1
 Score = 80.5 bits (197), Expect = 9e-16,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 74/129 (57%), Gaps = 2/129 (1%)
Query: 16  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 2   SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 60
Query: 76  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 135
           TP +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 61  TPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 119
Query: 136 IFDYMIVVF 144
              + IV+F
Sbjct: 120 AMGHTIVLF 128

>pdb|2XTO|A Chain A, Crystal Structure Of Gdp-Bound Human Gimap2, Amino Acid Residues 21-260 Length = 240

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 43/126 (34%), Positives = 73/126 (57%), Gaps = 2/126 (1%)
Query: 19  ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPG 78
           E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +IDTP 
Sbjct: 2   ELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IIDTPD 60
Query: 79  LFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFD 138
           +F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+    
Sbjct: 61  MFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGEDAMG 119
Query: 139 YMIVVF 144
           + IV+F
Sbjct: 120 HTIVLF 125

>pdb|2XTP|A Chain A, Crystal Structure Of Nucleotide-Free Human Gimap2, Amino Acid Residues 1-260 Length = 260

Iteration: 1
 Score = 79.0 bits (193), Expect = 2e-15,   Method: Compositional matrix adjust.
 Identities = 44/129 (34%), Positives = 73/129 (56%), Gaps = 2/129 (1%)
Query: 16  SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVID 75
           S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   +    + ++V +ID
Sbjct: 19  SRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWGNREIV-IID 77
Query: 76  TPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKK 135
           TP  F +    E + KE+ +C  ++  G H +L          Q+++AA   ++ +FG+ 
Sbjct: 78  TPDXFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQLGRYTSQDQQAA-QRVKEIFGED 136
Query: 136 IFDYMIVVF 144
              + IV+F
Sbjct: 137 AXGHTIVLF 145

>pdb|3V70|A Chain A, Crystal Structure Of Human Gtpase Imap Family Member 1 Length = 247

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 46/126 (36%), Positives = 70/126 (55%), Gaps = 3/126 (2%)
Query: 20  RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL 79
           R ++LVGRTG GKSATGNSILG+R F SR  ++ VT  C    +   D   V V+DTP +
Sbjct: 22  RRLILVGRTGAGKSATGNSILGQRRFFSRLGATSVTRACTTG-SRRWDKCHVEVVDTPDI 80
Query: 80  FDFSAGSEFVG-KEIVKCIGMAKDGIHAVLXXXXXXXXXXQEEEAALHSLQTLFGKKIFD 138
           F         G +E   C  ++  G HA+L          Q+++ A+  ++ +FG+ +  
Sbjct: 81  FSSQVSKTDPGCEERGHCYLLSAPGPHALLLVTQLGRFTAQDQQ-AVRQVRDMFGEDVLK 139
Query: 139 YMIVVF 144
           +M++VF
Sbjct: 140 WMVIVF 145

>pdb|3BB4|A Chain A, Crystal Structure Of Toc33 From Arabidopsis Thaliana In Complex With Mg2+ And Gmppnp Length = 262

Iteration: 1
 Score = 40.8 bits (94), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 77/167 (46%), Gaps = 11/167 (6%)
Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           TV+++G+ G GKS+T NS++G +  +     +       + RT+   G  +N+IDTPGL 
Sbjct: 38  TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGLV 95
Query: 81  DFSAGSEFVGKEIVKCIG--MAKDGIHAVLXXXXXXXXXXQE-EEAALHSLQTLFGKKIF 137
           +  AG  +V  + ++ I   +    I  +L           E ++  + ++   FGK+I+
Sbjct: 96  E--AG--YVNHQALELIKGFLVNRTIDVLLYVDRLDVYRVDELDKQVVIAITQTFGKEIW 151
Query: 138 DYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK--KGATKLRDQQFE 182
              ++V                +  +   + LK  +  +K+R Q+FE
Sbjct: 152 CKTLLVLTHAQFSPPDELSYETFSSKRSDELLKTIRAGSKMRKQEFE 198

>pdb|3DEF|A Chain A, Crystal Structure Of Toc33 From Arabidopsis Thaliana, Dimerization Deficient Mutant R130a Length = 262

Iteration: 1
 Score = 40.8 bits (94), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 76/167 (45%), Gaps = 11/167 (6%)
Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           TV+++G+ G GKS+T NS++G +  +     +       + RT+   G  +N+IDTPGL 
Sbjct: 38  TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGLV 95
Query: 81  DFSAGSEFVGKEIVKCIG--MAKDGIHAVLXXXXXXXXXXQE-EEAALHSLQTLFGKKIF 137
           +  AG  +V  + ++ I   +    I  +L           E ++  + ++   FGK+I+
Sbjct: 96  E--AG--YVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIW 151
Query: 138 DYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK--KGATKLRDQQFE 182
              ++V                +  +     LK  +  +K+R Q+FE
Sbjct: 152 CKTLLVLTHAQFSPPDELSYETFSSKRSDSLLKTIRAGSKMRKQEFE 198

>pdb|2J3E|A Chain A, Dimerization Is Important For The Gtpase Activity Of Chloroplast Translocon Components Attoc33 And Pstoc159 Length = 249

Iteration: 1
 Score = 40.4 bits (93), Expect = 9e-04,   Method: Compositional matrix adjust.
 Identities = 40/167 (23%), Positives = 76/167 (45%), Gaps = 11/167 (6%)
Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           TV+++G+ G GKS+T NS++G +  +     +       + RT+   G  +N+IDTPGL 
Sbjct: 37  TVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGLV 94
Query: 81  DFSAGSEFVGKEIVKCIG--MAKDGIHAVLXXXXXXXXXXQE-EEAALHSLQTLFGKKIF 137
           +  AG  +V  + ++ I   +    I  +L           E ++  + ++   FGK+I+
Sbjct: 95  E--AG--YVNHQALELIKGFLVNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIW 150
Query: 138 DYMIVVFXXXXXXXXXXXXXXXYLGRECPKPLK--KGATKLRDQQFE 182
              ++V                +  +     LK  +  +K+R Q+FE
Sbjct: 151 CKTLLVLTHAQFSPPDELSYETFSSKRSDSLLKTIRAGSKMRKQEFE 197

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	253
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	7e-51
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	2e-49
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	4e-49
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	3e-47
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	6e-44
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	3e-11
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-07

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A* Length = 262

 Score =  166 bits (421), Expect = 7e-51
 Identities = 33/161 (20%), Positives = 69/161 (42%), Gaps = 3/161 (1%)

Query: 11  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 70
           +L        TV+++G+ G GKS+T NS++G +  +     +       + RT+   G  
Sbjct: 28  KLKQKDMNSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFT 85

Query: 71  VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQT 130
           +N+IDTPGL +    +    + I   +      +   +    V     + ++  + ++  
Sbjct: 86  INIIDTPGLVEAGYVNHQALELIKGFLVNRTIDVLLYVDRLDVY-AVDELDKQVVIAITQ 144

Query: 131 LFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKK 171
            FGK+I+   ++V T       ++ + E +  +     LK 
Sbjct: 145 TFGKEIWCKTLLVLTHAQFSPPDELSYETFSSKRSDSLLKT 185

>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 =  162 bits (410), Expect = 2e-49
 Identities = 64/190 (33%), Positives = 106/190 (55%), Gaps = 6/190 (3%)

Query: 14  SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNV 73
            P N +  +VLVG+TG GKSATGNSILGR+ F S  ++  +T  CE + +       + V
Sbjct: 24  EPRNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSW-KETELVV 82

Query: 74  IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG 133
           +DTPG+FD    +    KEI++CI +   G HA+L+V  +  R+++EE  A   +  +FG
Sbjct: 83  VDTPGIFDTEVPNAETSKEIIRCILLTSPGPHALLLVVPL-GRYTEEEHKATEKILKMFG 141

Query: 134 KKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKRE 193
           ++   +MI++FT  D+L   D  L DYL RE P+ ++       D+   +++ K     +
Sbjct: 142 ERARSFMILIFTRKDDLG--DTNLHDYL-REAPEDIQDLMDIFGDRYCALNN-KATGAEQ 197

Query: 194 ISELKEQMHK 203
            ++  + +  
Sbjct: 198 EAQRAQLLGL 207

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A* Length = 270

 Score =  162 bits (410), Expect = 4e-49
 Identities = 36/169 (21%), Positives = 67/169 (39%), Gaps = 5/169 (2%)

Query: 3   GSAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQR 62
              ++    L        T++++G+ G GKS+T NSI+G R        S       + R
Sbjct: 23  TKLLELLGNLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSR 82

Query: 63  TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV-RSRFSQEE 121
           +    G  +N+IDTPGL +    ++     I   +      I  +L V  +   R    +
Sbjct: 83  SR--AGFTLNIIDTPGLIEGGYINDMALNIIKSFL--LDKTIDVLLYVDRLDAYRVDNLD 138

Query: 122 EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 170
           +    ++   FGK I++  IV  T       +    +++  +     L+
Sbjct: 139 KLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQ 187

>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 Length = 260

 Score =  156 bits (396), Expect = 3e-47
 Identities = 56/212 (26%), Positives = 105/212 (49%), Gaps = 13/212 (6%)

Query: 4   SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT 63
           S      +    S  E  ++LVG+TG GKSA GNSIL ++AF+S+  S  +T TC   + 
Sbjct: 7   SHWGPHAKGQCASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQG 66

Query: 64  VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA 123
                + + +IDTP +F +    E + KE+ +C  ++  G H +L+V  +  R++ +++ 
Sbjct: 67  SW-GNREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAPGPHVLLLVTQL-GRYTSQDQQ 124

Query: 124 ALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEV 183
           A   ++ +FG+    + IV+FT  ++L     +L DY+     K L K       +    
Sbjct: 125 AAQRVKEIFGEDAMGHTIVLFTHKEDLN--GGSLMDYMHDSDNKALSKLVAACGGRICAF 182

Query: 184 DSLKGYSKREISELKEQMHKSYEDQLKRITEM 215
           +     ++ E S   +Q+    ++ +  I ++
Sbjct: 183 N-----NRAEGSNQDDQV----KELMDCIEDL 205

>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 = 62.0 bits (150), Expect = 3e-11
 Identities = 34/211 (16%), Positives = 69/211 (32%), Gaps = 28/211 (13%)

Query: 4   SAIDDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQR 62
           SAI D   L    +    V + G TG+GKS+  N++ G    +  A+ +GV     E   
Sbjct: 56  SAISD--ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHP 113

Query: 63  TVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE 122
               +   V   D PG+   +   +   +++                +    +RF + + 
Sbjct: 114 YKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKF--------YEYDFFIIISATRFKKNDI 165

Query: 123 AALHSLQTLFGKKIFDYMIVVFTGGDELEDND----------ETLEDYLGRECPKPLKKG 172
               ++     K+       V T  D    N+          E +   +   C    ++ 
Sbjct: 166 DIAKAISM-MKKEF----YFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRE- 219

Query: 173 ATKLRDQQFEVDSLKGYSKREISELKEQMHK 203
              + +    + S K     +   L +++  
Sbjct: 220 -NGIAEPPIFLLSNKNVCHYDFPVLMDKLIS 249

>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 = 49.9 bits (118), Expect = 4e-07
 Identities = 35/237 (14%), Positives = 81/237 (34%), Gaps = 45/237 (18%)

Query: 19  ERTVVLVGRTGNGKSATGNSILGRRAFK-SRASSSGV----TSTCEMQRTVLKDGQVVNV 73
            + V++ G  G+GK+     +    ++K        +       C    TVL+  Q +  
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVC--LSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLY 207

Query: 74  IDTPGLFDFSAGSEFV------GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 127
              P     S  S  +       +  ++ +  +K   + +LV+ +V++  ++   A   S
Sbjct: 208 QIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN--AKAWNAFNLS 265

Query: 128 LQTLF---GKKIFDYMIVVFTGGDELEDN------DETLE---DYLGREC---PKPLKKG 172
            + L     K++ D++    T    L+ +      DE       YL       P+ +   
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325

Query: 173 --------ATKLRDQQFEVDSLKGYSKREISELKEQMHKSYE----DQLKRITEMCA 217
                   A  +RD    + +   +      +L   +  S       + +++ +  +
Sbjct: 326 NPRRLSIIAESIRD---GLATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	253
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.94
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.93
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.9
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.82
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.81
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.77
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.76
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.76
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.74
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.73
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.72
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.7
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.7
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.7
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.7
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.69
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.69
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.69
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.69
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.69
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.69
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.69
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.69
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.68
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.68
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.68
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.68
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.68
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.68
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.67
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.67
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.67
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.67
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.67
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.67
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.67
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.67
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.67
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.66
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.66
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.66
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.66
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.66
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.65
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.65
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.65
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.65
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.65
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.65
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.65
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.65
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.65
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.65
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.65
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.65
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.65
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.65
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.64
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.64
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.64
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.64
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.64
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.64
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.64
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.64
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.64
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.64
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.64
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.64
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.63
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.63
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.63
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.63
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.63
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.63
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.62
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.62
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.62
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.62
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.62
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.62
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.62
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.62
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.62
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.62
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.62
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.62
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.62
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.62
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.62
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.62
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.61
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.61
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.61
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.61
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.61
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.61
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.61
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.61
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.61
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.61
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.6
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.6
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.6
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.6
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.6
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.6
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.59
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.59
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.59
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.59
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.59
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.59
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.58
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.58
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.58
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.58
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.58
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.58
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.58
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.58
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.58
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.57
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.57
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.57
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.57
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.56
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.56
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.56
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.56
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.55
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.55
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.54
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.54
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.54
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.53
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.53
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.53
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.51
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.51
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.5
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.5
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.49
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.49
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.49
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.49
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.49
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.49
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.49
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.48
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.48
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.48
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.22
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	99.47
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.47
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.46
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.46
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.46
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.46
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.46
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.45
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.45
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.45
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.44
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.44
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.44
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.43
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.42
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.42
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.42
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.41
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.41
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.4
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.4
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.39
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.38
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.38
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	99.37
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.36
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.36
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.36
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.36
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.35
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.35
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.33
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.31
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.3
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.29
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.29
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.28
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.24
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.24
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.16
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	99.13
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.11
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.1
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.09
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	99.06
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.04
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.04
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.03
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	99.03
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.03
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	98.98
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.98
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.92
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.89
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	98.89
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	98.89
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	98.81
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.78
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.73
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	98.7
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.7
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.67
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.67
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	98.63
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.63
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.63
2og2_A	359	Putative signal recognition particle receptor; nuc	98.61
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.59
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.58
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	98.55
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	98.51
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	98.5
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	98.46
1ji0_A	240	ABC transporter; ATP binding protein, structural g	98.44
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	98.43
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.42
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.42
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	98.41
2xxa_A	433	Signal recognition particle protein; protein trans	98.38
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	98.37
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	98.37
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	98.35
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	98.35
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.34
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	98.33
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	98.3
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	98.3
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.29
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	98.29
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	98.29
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	98.27
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	98.26
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	98.26
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	98.24
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	98.24
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	98.22
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	98.22
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	98.21
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	98.18
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	98.18
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	98.18
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.16
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	98.16
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.14
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.14
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	98.12
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	98.11
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.1
1ls1_A	295	Signal recognition particle protein; FFH, SRP54, S	98.08
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.06
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	98.05
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	98.01
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	97.97
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	97.96
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	97.94
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	97.93
1b0u_A	262	Histidine permease; ABC transporter, transport pro	97.93
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	97.93
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	97.92
1sgw_A	214	Putative ABC transporter; structural genomics, P p	97.92
1g6h_A	257	High-affinity branched-chain amino acid transport	97.92
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	97.91
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	97.91
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	97.9
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	97.9
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	97.9
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	97.89
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	97.88
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.88
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	97.88
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	97.87
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	97.87
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	97.87
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	97.87
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	97.86
3thx_A	934	DNA mismatch repair protein MSH2; ABC family ATPas	97.84
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	97.84
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	97.83
4f4c_A	1321	Multidrug resistance protein PGP-1; ABC transporte	97.79
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	97.78
4b4t_J	405	26S protease regulatory subunit 8 homolog; hydrola	97.77
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	97.77
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	97.77
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	97.76
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	97.76
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.75
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	97.75
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	97.75
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	97.75
2ghi_A	260	Transport protein; multidrug resistance protein, M	97.74
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	97.73
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	97.73
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	97.73
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	97.73
4b4t_I	437	26S protease regulatory subunit 4 homolog; hydrola	97.71
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	97.71
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	97.7
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	97.68
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	97.66
3g5u_A	1284	MCG1178, multidrug resistance protein 1A; P-glycop	97.65
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	97.63
1ewq_A	765	DNA mismatch repair protein MUTS; multiple domains	97.63
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.61
3thx_B	918	DNA mismatch repair protein MSH3; ABC family ATPas	97.61
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	97.61
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.6
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	97.59
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	97.59
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	97.58
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	97.57
1wb9_A	800	DNA mismatch repair protein MUTS; DNA-binding, ATP	97.57
2eyu_A	261	Twitching motility protein PILT; pilus retraction	97.56
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	97.55
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	97.54
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	97.54
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	97.53
4b4t_H	467	26S protease regulatory subunit 7 homolog; hydrola	97.53
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	97.53
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	97.52
2cvh_A	220	DNA repair and recombination protein RADB; filamen	97.51
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	97.49
3ux8_A	670	Excinuclease ABC, A subunit; UVRA, nucleotide exci	97.49
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	97.48
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	97.47
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	97.47
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	97.47
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	97.43
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	97.42
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	97.4
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	97.39
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	97.39
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	97.38
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	97.37
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	97.36
4a74_A	231	DNA repair and recombination protein RADA; hydrola	97.36
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	97.32
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	97.31
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	97.31
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	97.31
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	97.31
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	97.3
2o8b_B	1022	DNA mismatch repair protein MSH6; DNA damage respo	97.3
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	97.27
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	97.26
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	97.25
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	97.25
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	97.25
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	97.23
2ewv_A	372	Twitching motility protein PILT; pilus retraction	97.21
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	97.21
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	97.21
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	97.2
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	97.2
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	97.2
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	97.19
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	97.18
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	97.17
3kta_A	182	Chromosome segregation protein SMC; structural mai	97.16
1p9r_A	418	General secretion pathway protein E; bacterial typ	97.15
2iw3_A	986	Elongation factor 3A; acetylation, ATP-binding, pr	97.12
3end_A	307	Light-independent protochlorophyllide reductase ir	97.1
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	97.09
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	97.07
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	97.05
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	97.04
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	97.01
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	97.01
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	96.99
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.97
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	96.97
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	96.97
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.97
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.96
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.95
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	96.94
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.94
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	96.93
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.91
3pih_A	916	Uvrabc system protein A; hydrolase, ABC ATPase, DN	96.91
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.91
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	96.91
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	96.9
3vfd_A	389	Spastin; ATPase, microtubule severing, hydrolase;	96.9
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	96.9
2ce7_A	476	Cell division protein FTSH; metalloprotease; HET:	96.89
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	96.88
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	96.85
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	96.83
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	96.83
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	96.82
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	96.81
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	96.81
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.81
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	96.79
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	96.79
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	96.79
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	96.78
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	96.78
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	96.78
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	96.77
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	96.77
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	96.76
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	96.75
4aby_A	415	DNA repair protein RECN; hydrolase, double strand	96.74
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	96.71
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	96.71
3a8t_A	339	Adenylate isopentenyltransferase; rossmann fold pr	96.71
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	96.69
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	96.69
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	96.69
3d8b_A	357	Fidgetin-like protein 1; AAA+, ATPase, ADP, SGC, s	96.69
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	96.68
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	96.68
1via_A	175	Shikimate kinase; structural genomics, transferase	96.67
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	96.66
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	96.66
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	96.66
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	96.66
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	96.65
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	96.65
3cwq_A	209	Para family chromosome partitioning protein; alpha	96.63
3hr8_A	356	Protein RECA; alpha and beta proteins (A/B, A+B),	96.63
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	96.63
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	96.62
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	96.62
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	96.61
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	96.6
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	96.6
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.6
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	96.59
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	96.58
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	96.57
1jr3_A	373	DNA polymerase III subunit gamma; processivity, pr	96.57
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	96.56
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	96.56
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	96.55
2qp9_X	355	Vacuolar protein sorting-associated protein 4; ATP	96.55
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	96.54
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	96.53
3kjh_A	254	CO dehydrogenase/acetyl-COA synthase complex, acce	96.51
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	96.48
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	96.47
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	96.47
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	96.47
1ypw_A	806	Transitional endoplasmic reticulum ATPase; AAA, P9	96.46
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	96.45
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	96.44
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	96.44
2zan_A	444	Vacuolar protein sorting-associating protein 4B; S	96.44
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	96.4
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	96.39
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	96.39
1qvr_A	854	CLPB protein; coiled coil, AAA ATPase, chaperone;	96.37
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	96.37
3cr8_A	552	Sulfate adenylyltranferase, adenylylsulfate kinase	96.37
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	96.36
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	96.35
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	96.35
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	96.34
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	96.34
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	96.34
1w1w_A	430	Structural maintenance of chromosome 1; cohesin, c	96.34
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	96.34
2vli_A	183	Antibiotic resistance protein; transferase, tunica	96.33
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	96.33
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	96.31
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	96.28
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	96.23
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	96.23
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	96.23
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	96.22
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	96.21
1e69_A	322	Chromosome segregation SMC protein; structural mai	96.18
3hu3_A	489	Transitional endoplasmic reticulum ATPase; VCP, tr	96.17
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	96.16
1r6b_X	758	CLPA protein; AAA+, N-terminal domain, CLPS, cryst	96.13
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	96.11
3eph_A	409	TRNA isopentenyltransferase; transferase, alternat	96.09
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	96.07
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.06
3cf2_A	806	TER ATPase, transitional endoplasmic reticulum ATP	96.06
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	96.04
3bos_A	242	Putative DNA replication factor; P-loop containing	96.01
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	96.01
3pvs_A	447	Replication-associated recombination protein A; ma	95.99
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	95.99
3foz_A	316	TRNA delta(2)-isopentenylpyrophosphate transferas;	95.96

>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=99.94  E-value=9e-26  Score=184.88  Aligned_cols=143  Identities=41%  Similarity=0.716  Sum_probs=103.4

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ....++|+|+|++|+|||||+|+|+|...+..+....++|..+...... +.+..+.||||||+.+..........++..
T Consensus        26 ~~~~~~i~lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~-~~~~~i~liDTpG~~~~~~~~~~~~~~~~~  104 (239)
T 3lxx_A           26 RNSQLRIVLVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSS-WKETELVVVDTPGIFDTEVPNAETSKEIIR  104 (239)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEE-ETTEEEEEEECCSCC-----CHHHHHHHHH
T ss_pred             CCCceEEEEECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEE-eCCceEEEEECCCccCCCCCHHHHHHHHHH
Confidence            3456899999999999999999999998765554444566666555554 478899999999999887777777788999


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                      ++..+++++|++|+|+|++ +++..+..++.++.+.++.....|++||+||+|.+.  +..+++|+.
T Consensus       105 ~~~~~~~~~~~~l~v~d~~-~~~~~~~~~l~~~~~~~~~~~~~~~iiv~nK~D~~~--~~~~~~~i~  168 (239)
T 3lxx_A          105 CILLTSPGPHALLLVVPLG-RYTEEEHKATEKILKMFGERARSFMILIFTRKDDLG--DTNLHDYLR  168 (239)
T ss_dssp             HHHHTTTCCSEEEEEEETT-CCSSHHHHHHHHHHHHHHHHHGGGEEEEEECGGGC------------
T ss_pred             HHHhcCCCCcEEEEEeeCC-CCCHHHHHHHHHHHHHhhhhccceEEEEEeCCccCC--cccHHHHHH
Confidence            9988889999999999998 788888888999988888766679999999999987  555665554

>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=99.90  E-value=3.8e-22  Score=165.24  Aligned_cols=135  Identities=33%  Similarity=0.577  Sum_probs=106.5

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +..+.++|+|+|++|||||||+|+|+|...+.....+.++|..+...... +.+..+.||||||+.++....+...+.+.
T Consensus        18 ~~~~~~~I~lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~-~~~~~i~iiDTpG~~~~~~~~~~~~~~i~   96 (260)
T 2xtp_A           18 ASRSELRIILVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGS-WGNREIVIIDTPDMFSWKDHCEALYKEVQ   96 (260)
T ss_dssp             ---CCEEEEEEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEE-ETTEEEEEEECCGGGGSSCCCHHHHHHHH
T ss_pred             CCCCceEEEEECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEE-eCCCEEEEEECcCCCCCCCCHHHHHHHHH
Confidence            34456899999999999999999999988665544444455555444444 47889999999999987776666666777


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEe-CCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT-GGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~-k~D~~~  151 (253)
                      .++..+++++|++|+|+|++ +++..+..+++++.+.++.....|.++|+| |+|...
T Consensus        97 ~~~~~~~~~~d~il~V~d~~-~~~~~~~~~~~~l~~~~~~~~~~~~i~vv~nK~Dl~~  153 (260)
T 2xtp_A           97 RCYLLSAPGPHVLLLVTQLG-RYTSQDQQAAQRVKEIFGEDAMGHTIVLFTHKEDLNG  153 (260)
T ss_dssp             HHHHHHTTCCSEEEEEEETT-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECGGGGTT
T ss_pred             HHHHhcCCCCcEEEEEEeCC-CCCHHHHHHHHHHHHHhCchhhccEEEEEEcccccCC
Confidence            78878889999999999998 688888888899999888665567788877 999874

>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=3.2e-19  Score=147.90  Aligned_cols=141  Identities=22%  Similarity=0.307  Sum_probs=104.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+++|.+|+|||||+|+|+|........ ..+.|......... ..+..+.+|||||+.++....+...+.+..++
T Consensus        35 ~~~~I~lvG~~g~GKSSLin~l~~~~~~~~~~-~~~~t~~~~~~~~~-~~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l  112 (262)
T 3def_A           35 NSMTVLVLGKGGVGKSSTVNSLIGEQVVRVSP-FQAEGLRPVMVSRT-MGGFTINIIDTPGLVEAGYVNHQALELIKGFL  112 (262)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHTSCCSCCCS-SCC-CCCCEEEEEE-ETTEEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCCcccCC-CCCcceeeEEEEEE-ECCeeEEEEECCCCCCcccchHHHHHHHHHHH
Confidence            45899999999999999999999987533322 22334333333333 47889999999999887655555545555544


Q ss_pred             HhhcCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           98 GMAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                        ..+++|++|+|++++. +++..+..+++.+...++...+.|+++|+||+|........+++|+.
T Consensus       113 --~~~~~~~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~e~~~~  176 (262)
T 3def_A          113 --VNRTIDVLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSYETFSS  176 (262)
T ss_dssp             --TTCEECEEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCHHHHHH
T ss_pred             --hcCCCCEEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccHHHHHH
Confidence              2357899999988763 57777888999999999887777999999999987544566777776

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.81  E-value=6.5e-19  Score=146.64  Aligned_cols=141  Identities=23%  Similarity=0.344  Sum_probs=101.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+++|.+|+|||||+|+|+|........ ..+.|..+...... ..+..+.+|||||+.++..........+..++
T Consensus        38 ~~~~I~vvG~~g~GKSSLin~l~~~~~~~~~~-~~~~t~~~~~~~~~-~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~  115 (270)
T 1h65_A           38 NSLTILVMGKGGVGKSSTVNSIIGERVVSISP-FQSEGPRPVMVSRS-RAGFTLNIIDTPGLIEGGYINDMALNIIKSFL  115 (270)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-SSCCCSSCEEEEEE-ETTEEEEEEECCCSEETTEECHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHhCCCcccccC-CCCcceeeEEEEEe-eCCeEEEEEECCCCCCCccchHHHHHHHHHHh
Confidence            45899999999999999999999987533332 22333333333333 46789999999999876543343333333321


Q ss_pred             HhhcCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHc
Q 025391           98 GMAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLG  162 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~  162 (253)
                        ..+++|++|||++++. +++..+..+++.+...+|...+.|+++|+||+|.....+..+++|+.
T Consensus       116 --~~~~~d~il~v~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~~~~~~~~~  179 (270)
T 1h65_A          116 --LDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFS  179 (270)
T ss_dssp             --TTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHHHHHH
T ss_pred             --hcCCCCEEEEEEeCCCCcCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCCCCHHHHHH
Confidence              2457899999988864 67777888899998888877667999999999987633446777776

>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=99.77  E-value=1.9e-17  Score=139.86  Aligned_cols=125  Identities=22%  Similarity=0.251  Sum_probs=91.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|++|+|||||+|+|+|......... .+.|.... ..+....+..+.+|||||+.++..   .+...+.....
T Consensus         7 ~g~V~ivG~~nvGKSTLln~l~g~~~~ivs~~-~~tTr~~i-~~i~~~~~~~l~l~DTpG~~~~~~---~l~~~~~~~~~   81 (301)
T 1wf3_A            7 SGFVAIVGKPNVGKSTLLNNLLGVKVAPISPR-PQTTRKRL-RGILTEGRRQIVFVDTPGLHKPMD---ALGEFMDQEVY   81 (301)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTSCCSCCCSS-SCCCCSCE-EEEEEETTEEEEEEECCCCCCCCS---HHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCceeeecCC-CCceeEEE-EEEEEeCCcEEEEecCccccchhh---HHHHHHHHHHH
Confidence            46899999999999999999999876432221 12232222 222334678999999999986432   34455666677


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++|+|+|++++++..+..+++.+....+   ..|+++|+||+|...
T Consensus        82 ~~l~~ad~il~VvD~~~~~~~~~~~i~~~l~~~~~---~~p~ilV~NK~Dl~~  131 (301)
T 1wf3_A           82 EALADVNAVVWVVDLRHPPTPEDELVARALKPLVG---KVPILLVGNKLDAAK  131 (301)
T ss_dssp             HHTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTT---TSCEEEEEECGGGCS
T ss_pred             HHHhcCCEEEEEEECCCCCChHHHHHHHHHHhhcC---CCCEEEEEECcccCC
Confidence            77889999999999998888887766666655321   358999999999986

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.76  E-value=5.2e-18  Score=136.63  Aligned_cols=130  Identities=12%  Similarity=0.172  Sum_probs=89.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHH--HHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF--VGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~--~~~~~~   94 (253)
                      ...++|+|+|.+|+|||||+|+|++...........+.|............+..+.+|||||+.+.......  ....+.
T Consensus        27 ~~~~~i~v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~  106 (223)
T 4dhe_A           27 TVQPEIAFAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLL  106 (223)
T ss_dssp             CCSCEEEEEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHH
T ss_pred             CCCCEEEEEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHH
Confidence            456899999999999999999999986321222233445554444443345678999999998765433321  112222


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+......+|++|+|+|+++.++..+..++.++...     ..|+++|+||+|...
T Consensus       107 ~~~~~~~~~~d~vi~v~d~~~~~~~~~~~~~~~l~~~-----~~p~i~v~nK~Dl~~  158 (223)
T 4dhe_A          107 SSYLQTRPQLCGMILMMDARRPLTELDRRMIEWFAPT-----GKPIHSLLTKCDKLT  158 (223)
T ss_dssp             HHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHGGG-----CCCEEEEEECGGGSC
T ss_pred             HHHHhcCcCcCEEEEEEeCCCCCCHHHHHHHHHHHhc-----CCCEEEEEeccccCC
Confidence            2222234568999999999988888888877776652     258999999999986

>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=99.76  E-value=7.1e-18  Score=142.97  Aligned_cols=129  Identities=19%  Similarity=0.284  Sum_probs=93.2

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC-CeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      +++++...|+|+|.+|||||||+|+|+|........ ..+.|......... .. +..+.+|||||+.++.. .....+.
T Consensus         5 ~~~~~~g~v~ivG~~nvGKSTLin~l~g~~~~i~s~-~~~tT~~~~~~~~~-~~~~~~i~lvDTPG~~~~~~-~~~l~~~   81 (308)
T 3iev_A            5 HHHMKVGYVAIVGKPNVGKSTLLNNLLGTKVSIISP-KAGTTRMRVLGVKN-IPNEAQIIFLDTPGIYEPKK-SDVLGHS   81 (308)
T ss_dssp             --CCEEEEEEEECSTTSSHHHHHHHHHTSCCSCCCS-SSCCCCSCEEEEEE-ETTTEEEEEEECCCCCCCCT-TCHHHHH
T ss_pred             CCCCCCCEEEEECCCCCcHHHHHHHHhCCCccccCC-CCCceeeEEEEEEe-cCCCCeEEEEECcCCCcccc-chhHHHH
Confidence            445566899999999999999999999987643222 22334333333333 45 88999999999987552 2345566


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHHH-HHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~-l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +......++..+|++|+|+|+++..+..+... ++.+..     ...|+++|+||+|..
T Consensus        82 ~~~~~~~~l~~aD~il~VvD~~~~~~~~~~~~~~~~l~~-----~~~pvilV~NK~Dl~  135 (308)
T 3iev_A           82 MVEIAKQSLEEADVILFMIDATEGWRPRDEEIYQNFIKP-----LNKPVIVVINKIDKI  135 (308)
T ss_dssp             HHHHHHHHHHHCSEEEEEEETTTBSCHHHHHHHHHHTGG-----GCCCEEEEEECGGGS
T ss_pred             HHHHHHHHhhcCCEEEEEEeCCCCCCchhHHHHHHHHHh-----cCCCEEEEEECccCC
Confidence            66666677788899999999998888888665 555544     235899999999998

>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=99.74  E-value=1e-16  Score=126.25  Aligned_cols=125  Identities=22%  Similarity=0.272  Sum_probs=81.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|+|.+|+|||||+|+|++...........+.|........    +..+.+|||||+.+...... ....+...
T Consensus        21 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~----~~~~~l~Dt~G~~~~~~~~~-~~~~~~~~   95 (195)
T 1svi_A           21 GGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYII----NDELHFVDVPGYGFAKVSKS-EREAWGRM   95 (195)
T ss_dssp             SCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEEEE----TTTEEEEECCCBCCCSSCHH-HHHHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEE----CCcEEEEECCCCCccccCHH-HHHHHHHH
Confidence            35689999999999999999999988632222222333433333221    34789999999876554322 12233333


Q ss_pred             HHhh---cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMA---KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~---~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+   ...+|++++|+|++++.+..+..+++++...     ..|+++|+||+|...
T Consensus        96 ~~~~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~-----~~p~i~v~nK~Dl~~  148 (195)
T 1svi_A           96 IETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYY-----GIPVIVIATKADKIP  148 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSC
T ss_pred             HHHHHhhhhcCCEEEEEEECCCCCCHHHHHHHHHHHHc-----CCCEEEEEECcccCC
Confidence            3322   2455999999999988888887777777652     248999999999986

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.73  E-value=4.9e-17  Score=123.85  Aligned_cols=152  Identities=23%  Similarity=0.238  Sum_probs=94.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+++|++|+|||||+|+|++....... ...+.+......... ..+..+.+|||||......    ....+......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~----~~~~~~~~~~~   75 (161)
T 2dyk_A            2 HKVVIVGRPNVGKSSLFNRLLKKRSAVVA-DVPGVTRDLKEGVVE-TDRGRFLLVDTGGLWSGDK----WEKKIQEKVDR   75 (161)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHCCC------------CCEEEEEE-ETTEEEEEEECGGGCSSSS----CCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCeeecc-CCCCceecceEEEEE-eCCceEEEEECCCCCCccc----hHHHHHHHHHH
Confidence            68999999999999999999987642121 122233333333333 3677899999999876432    11334445556


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcccCCchhhhhHHHhhhH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQ  179 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~  179 (253)
                      ++..+|++++|+|++++++.....+.+++...     ..|+++|+||+|.... .....++.......++..+......+
T Consensus        76 ~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~-----~~p~ilv~nK~Dl~~~-~~~~~~~~~~~~~~~~~~Sa~~~~gv  149 (161)
T 2dyk_A           76 ALEDAEVVLFAVDGRAELTQADYEVAEYLRRK-----GKPVILVATKVDDPKH-ELYLGPLYGLGFGDPIPTSSEHARGL  149 (161)
T ss_dssp             HTTTCSEEEEEEESSSCCCHHHHHHHHHHHHH-----TCCEEEEEECCCSGGG-GGGCGGGGGGSSCSCEECBTTTTBSH
T ss_pred             HHHhCCEEEEEEECCCcccHhHHHHHHHHHhc-----CCCEEEEEECcccccc-hHhHHHHHhCCCCCeEEEecccCCCh
Confidence            67888999999999988888777777766652     2479999999999752 22233333222223444444444444


Q ss_pred             HHHH
Q 025391          180 QFEV  183 (253)
Q Consensus       180 ~~~~  183 (253)
                      ++++
T Consensus       150 ~~l~  153 (161)
T 2dyk_A          150 EELL  153 (161)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            4444

>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=99.72  E-value=5.6e-16  Score=125.46  Aligned_cols=134  Identities=17%  Similarity=0.130  Sum_probs=81.7

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      |......++|+|+|.+|+|||||+|+|++......  ...+.|......... ..+..+.+|||||+.+......... .
T Consensus        23 P~~~~~~~kI~vvG~~~vGKSsLin~l~~~~~~~~--~~~~~t~~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~~~-~   98 (228)
T 2qu8_A           23 PSINPHKKTIILSGAPNVGKSSFMNIVSRANVDVQ--SYSFTTKNLYVGHFD-HKLNKYQIIDTPGLLDRAFENRNTI-E   98 (228)
T ss_dssp             CSCCTTSEEEEEECSTTSSHHHHHHHHTTTCEEEE--CC-----CEEEEEEE-ETTEEEEEEECTTTTTSCGGGCCHH-H
T ss_pred             CCCCCCCCEEEEECCCCCCHHHHHHHHhCCCCccC--CCCCcceeeeeeeee-cCCCeEEEEECCCCcCcccchhhhH-H
Confidence            44445679999999999999999999999865321  122233333333333 3668899999999975332111110 0


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ...+......+|++|+|+|++++.+........++..........|+++|+||+|...
T Consensus        99 -~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~l~~~~~~~piilv~nK~Dl~~  156 (228)
T 2qu8_A           99 -MTTITALAHINGVILFIIDISEQCGLTIKEQINLFYSIKSVFSNKSIVIGFNKIDKCN  156 (228)
T ss_dssp             -HHHHHHHHTSSEEEEEEEETTCTTSSCHHHHHHHHHHHHTCC-CCCEEEEEECGGGCC
T ss_pred             -HHHHHHhhccccEEEEEEecccccCcchHHHHHHHHHHHHhhcCCcEEEEEeCcccCC
Confidence             1222233567799999999987655332223344443322212358999999999975

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.70  E-value=1.6e-16  Score=123.03  Aligned_cols=126  Identities=17%  Similarity=0.236  Sum_probs=85.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+++|.+|+|||||+|+|++........  .+.+.......+. ..+..+.+|||||...+...           
T Consensus         6 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~-----------   71 (178)
T 2lkc_A            6 ERPPVVTIMGHVDHGKTTLLDAIRHSKVTEQEA--GGITQHIGAYQVT-VNDKKITFLDTPGHEAFTTM-----------   71 (178)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHTTCSSCSSC--CSSSTTCCCCEEE-ETTEEEEESCCCSSSSSSCS-----------
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCccccCCC--CceeEeeeEEEEE-eCCceEEEEECCCCHHHHHH-----------
Confidence            455899999999999999999999876533222  1222222223233 36788999999998764421           


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHH
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  161 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~  161 (253)
                      ....+..+|++|+|+|+++.........+..+..     ...|+++|+||+|........+...+
T Consensus        72 ~~~~~~~~d~~i~v~d~~~~~~~~~~~~l~~~~~-----~~~p~ilv~nK~Dl~~~~~~~~~~~~  131 (178)
T 2lkc_A           72 RARGAQVTDIVILVVAADDGVMPQTVEAINHAKA-----ANVPIIVAINKMDKPEANPDRVMQEL  131 (178)
T ss_dssp             CCSSCCCCCEEEEEEETTCCCCHHHHHHHHHHGG-----GSCCEEEEEETTTSSCSCHHHHHHHH
T ss_pred             HHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHh-----CCCCEEEEEECccCCcCCHHHHHHHH
Confidence            2245678899999999987776666555544322     23589999999999863333444444

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.70  E-value=9.2e-16  Score=120.41  Aligned_cols=126  Identities=17%  Similarity=0.178  Sum_probs=85.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH--HHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~   93 (253)
                      ....++|+|+|.+|+|||||+|+|++....... ...+.|......    ..+..+.+|||||+........  .....+
T Consensus        20 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~~~~~t~~~~~~----~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~   94 (195)
T 3pqc_A           20 PPLKGEVAFVGRSNVGKSSLLNALFNRKIAFVS-KTPGKTRSINFY----LVNSKYYFVDLPGYGYAKVSKKERMLWKRL   94 (195)
T ss_dssp             CCTTCEEEEEEBTTSSHHHHHHHHHTSCCSCCC-SSCCCCCCEEEE----EETTTEEEEECCCBSSSCCCHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHcCcccccc-CCCCCccCeEEE----EECCcEEEEECCCCccccCChhhHHHHHHH
Confidence            345589999999999999999999998732222 222333333222    1245688999999765433221  112222


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .........++|++++|+|++...+.....+++++...     ..|+++|+||+|...
T Consensus        95 ~~~~~~~~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~-----~~p~i~v~nK~Dl~~  147 (195)
T 3pqc_A           95 VEDYFKNRWSLQMVFLLVDGRIPPQDSDLMMVEWMKSL-----NIPFTIVLTKMDKVK  147 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSC
T ss_pred             HHHHHhcCcCceEEEEEecCCCCCCHHHHHHHHHHHHc-----CCCEEEEEEChhcCC
Confidence            23232333567999999999888888887777777664     248999999999986

>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=99.70  E-value=1.9e-16  Score=122.79  Aligned_cols=127  Identities=22%  Similarity=0.183  Sum_probs=82.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +..+|+|+|++|+|||||+|+|++........ ..+.|.......+. .++..+.+|||||+.+.....+.  ..+....
T Consensus         3 ~~~ki~ivG~~g~GKStLl~~l~~~~~~~~~~-~~~~t~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~--~~~~~~~   78 (172)
T 2gj8_A            3 HGMKVVIAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIH-IDGMPLHIIDTAGLREASDEVER--IGIERAW   78 (172)
T ss_dssp             -CEEEEEEESTTSSHHHHHHHHHTSCCSCCCS-STTCCCSCEEEEEE-ETTEEEEEEECCCCSCCSSHHHH--HHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcceeeC-CCCceeceeeEEEE-ECCeEEEEEECCCcccchhHHHH--HHHHHHH
Confidence            45799999999999999999999876422211 12233333223333 46778999999999754321110  1122222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .++..+|++++|+|++++.+.....++..+.....  ...|+++|+||+|...
T Consensus        79 -~~~~~ad~~i~v~D~~~~~s~~~~~~~~~~~~~~~--~~~p~ilv~NK~Dl~~  129 (172)
T 2gj8_A           79 -QEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLP--AKLPITVVRNKADITG  129 (172)
T ss_dssp             -HHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSC--TTCCEEEEEECHHHHC
T ss_pred             -HHHHhCCEEEEEEECCCCCCHHHHHHHHHHHHhcc--cCCCEEEEEECccCCc
Confidence             23467899999999987776555556666655432  2358999999999853

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.70  E-value=2.3e-16  Score=122.34  Aligned_cols=119  Identities=21%  Similarity=0.191  Sum_probs=77.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      ..+.++|+|+|++|+|||||+|+|++.......  ..+.+.......+. ..+  ..+.+|||||.....          
T Consensus         6 ~~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~~i~Dt~G~~~~~----------   72 (181)
T 3tw8_B            6 YDHLFKLLIIGDSGVGKSSLLLRFADNTFSGSY--ITTIGVDFKIRTVE-INGEKVKLQIWDTAGQERFR----------   72 (181)
T ss_dssp             CCEEEEEEEECCTTSCHHHHHHHHCSCC---CC--TTTBSEEEEEEEEE-ETTEEEEEEEEEETTGGGCS----------
T ss_pred             cCcceEEEEECCCCCCHHHHHHHHhcCCCCCcc--CCCceeEEEEEEEE-ECCEEEEEEEEcCCCchhhh----------
Confidence            345689999999999999999999987653222  22233333333333 244  578999999975433          


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .....++..+|++|+|+|++++.+... ..++..+....   ...|+++|+||+|...
T Consensus        73 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~p~ilv~nK~Dl~~  127 (181)
T 3tw8_B           73 -TITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNC---DDVCRILVGNKNDDPE  127 (181)
T ss_dssp             -SCCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC---TTSEEEEEEECTTCGG
T ss_pred             -hhHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECCCCch
Confidence             223355678899999999985433333 22334443332   2368999999999764

>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=99.69  E-value=1.2e-16  Score=122.76  Aligned_cols=119  Identities=14%  Similarity=0.111  Sum_probs=74.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +..+|+++|++|+|||||+|++++...........+.+...  ...... ....+.+|||||....           ...
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~l~i~Dt~G~~~~-----------~~~   71 (170)
T 1z08_A            5 YSFKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLT--KKLNIGGKRVNLAIWDTAGQERF-----------HAL   71 (170)
T ss_dssp             EEEEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEE--EEEESSSCEEEEEEEECCCC-----------------
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEE--EEEEECCEEEEEEEEECCCcHhh-----------hhh
Confidence            44899999999999999999999876432222222222211  122211 2347889999997532           234


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++.+... ..++..+....+.  ..|+++|+||+|...
T Consensus        72 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piilv~nK~Dl~~  125 (170)
T 1z08_A           72 GPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGN--EICLCIVGNKIDLEK  125 (170)
T ss_dssp             -CCSSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGG--GSEEEEEEECGGGGG
T ss_pred             HHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCeEEEEEECccccc
Confidence            4556788999999999985443333 3344445444332  358999999999864

>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=99.69  E-value=1.7e-16  Score=124.58  Aligned_cols=125  Identities=14%  Similarity=0.071  Sum_probs=79.6

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      +......++|+|+|.+|+|||||+|+|++...........+.+......... .....+.+|||||......        
T Consensus        16 ~~~~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~--------   86 (189)
T 2gf9_A           16 PRGSDYMFKLLLIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRH-DKRIKLQIWDTAGQERYRT--------   86 (189)
T ss_dssp             CTTCSEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEET-TEEEEEEEEECCSCCSSCC--------
T ss_pred             CcccCceeEEEEECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEEC-CeEEEEEEEeCCCcHHHhh--------
Confidence            3344456899999999999999999999876533222222222222211111 1245789999999865432        


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                         ....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        87 ---~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  141 (189)
T 2gf9_A           87 ---ITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSW--DNAQVILVGNKCDLED  141 (189)
T ss_dssp             ---SGGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGG
T ss_pred             ---hHHHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECccccc
Confidence               23456678899999999985433322 334444444321  2358999999999864

>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=99.69  E-value=1.7e-16  Score=123.22  Aligned_cols=125  Identities=14%  Similarity=0.067  Sum_probs=72.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..+..+|+++|++|+|||||+|+|++...........+.+...............+.+|||||...           +..
T Consensus         5 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~-----------~~~   73 (182)
T 1ky3_A            5 KKNILKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQER-----------FQS   73 (182)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC------------------
T ss_pred             cCceEEEEEECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChH-----------hhh
Confidence            345689999999999999999999987643222222222222211111101245789999999643           224


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhc--ccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFG--KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g--~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+... ..++..+....+  .....|+++|+||+|...
T Consensus        74 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  132 (182)
T 1ky3_A           74 LGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE  132 (182)
T ss_dssp             ---CCSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCG
T ss_pred             hhHHHhhcCCEEEEEEECCChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCcccc
Confidence            44566788999999999985443332 334444444332  113458999999999863

>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=99.69  E-value=5e-17  Score=124.69  Aligned_cols=119  Identities=18%  Similarity=0.120  Sum_probs=75.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|++|+|||||+|+|++...........+.+......... .....+.+|||||.....           ....
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~G~~~~~-----------~~~~   70 (170)
T 1ek0_A            3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTIN-EHTVKFEIWDTAGQERFA-----------SLAP   70 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGGG-----------GGHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEECCCChhhh-----------hhhh
Confidence            4799999999999999999999876432222222222222222111 123478999999974321           2334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++++|+|++++.+... ..++..+....+  ...|+++|+||+|...
T Consensus        71 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~  122 (170)
T 1ek0_A           71 XYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS--KDIIIALVGNKIDXLQ  122 (170)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             hhhccCcEEEEEEecCChHHHHHHHHHHHHHHHhcC--CCCcEEEEEECCCccc
Confidence            45578899999999985443333 333444444332  2358999999999875

>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=99.69  E-value=1.6e-16  Score=123.01  Aligned_cols=121  Identities=16%  Similarity=0.166  Sum_probs=76.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+++|.+|+|||||+|+|++...........+.+......... .....+.+|||||.....           ..
T Consensus        13 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~l~Dt~G~~~~~-----------~~   80 (179)
T 1z0f_A           13 SYIFKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVS-GQKIKLQIWDTAGQERFR-----------AV   80 (179)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEET-TEEEEEEEEECTTGGGTC-----------HH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-CeEEEEEEEECCCChHhh-----------hh
Confidence            345899999999999999999999876532222222222222222111 123578999999975432           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        81 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~  134 (179)
T 1z0f_A           81 TRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTN--PNTVIILIGNKADLEA  134 (179)
T ss_dssp             HHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGG
T ss_pred             HHHHhccCCEEEEEEeCcCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccccc
Confidence            3344467799999999985543332 334444444332  2358999999999864

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.69  E-value=5e-16  Score=129.41  Aligned_cols=134  Identities=20%  Similarity=0.263  Sum_probs=80.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----CccceeeeeeeeEe-eCC--eEEEEEeCCCCCCCCCCcH---
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASS----SGVTSTCEMQRTVL-KDG--QVVNVIDTPGLFDFSAGSE---   87 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~----~~~t~~~~~~~~~~-~~~--~~~~liDtpG~~~~~~~~~---   87 (253)
                      ..++|+|+|.+|+|||||+|+|++...+......    ...|.......... ..+  ..+.+|||||+.++....+   
T Consensus         7 ~~~~I~vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~   86 (274)
T 3t5d_A            7 FEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQ   86 (274)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTH
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHH
Confidence            3489999999999999999999998876554210    01222222222221 133  3899999999976543221   


Q ss_pred             HHHHHH----HHHHHh---------hcCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           88 FVGKEI----VKCIGM---------AKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        88 ~~~~~~----~~~~~~---------~~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      .+...+    ...+..         ...++|+++++++++. .+...+..+++.+..      ..|+++|+||+|.+.  
T Consensus        87 ~i~~~i~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~------~~pvi~V~nK~D~~~--  158 (274)
T 3t5d_A           87 PVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE------KVNIIPLIAKADTLT--  158 (274)
T ss_dssp             HHHHHHHHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT------TSCEEEEESSGGGSC--
T ss_pred             HHHHHHHHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc------cCCEEEEEeccCCCC--
Confidence            121111    222221         1234789999997653 688888777776654      358999999999986  


Q ss_pred             hhhHHH
Q 025391          154 DETLED  159 (253)
Q Consensus       154 ~~~~~~  159 (253)
                      ...+..
T Consensus       159 ~~e~~~  164 (274)
T 3t5d_A          159 PEECQQ  164 (274)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            544433

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.69  E-value=9.1e-17  Score=126.51  Aligned_cols=119  Identities=20%  Similarity=0.205  Sum_probs=78.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...++|+|+|++|+|||||+|+|++........  ...+.......+.. .+  ..+.+|||||.....           
T Consensus        14 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~~-~~~~~~~~i~Dt~G~~~~~-----------   79 (196)
T 3tkl_A           14 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYI--STIGVDFKIRTIEL-DGKTIKLQIWDTAGQERFR-----------   79 (196)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCSCCC--CCSSEEEEEEEEEE-TTEEEEEEEEEECCSGGGC-----------
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCCCC--CcccceEEEEEEEE-CCEEEEEEEEECCCcHhhh-----------
Confidence            445899999999999999999999876533222  22233333333332 44  578999999975432           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++.+... ..++..+......  ..|+++|+||+|...
T Consensus        80 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~p~ilv~nK~Dl~~  135 (196)
T 3tkl_A           80 TITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASE--NVNKLLVGNKCDLTT  135 (196)
T ss_dssp             TTHHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCTT
T ss_pred             hhHHHHHhhCCEEEEEEECcCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECccccc
Confidence            233445578899999999985433222 3444555444332  358999999999875

>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=99.69  E-value=1.4e-16  Score=128.30  Aligned_cols=153  Identities=14%  Similarity=0.073  Sum_probs=95.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.+||+|||.+|+|||||+++++..........+.+........... .....+.+|||+|...+.           ...
T Consensus        12 k~~KivlvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~-~~~v~l~iwDtaGqe~~~-----------~l~   79 (216)
T 4dkx_A           12 RKFKLVFLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLE-DRTIRLQLWDTAGLERFR-----------SLI   79 (216)
T ss_dssp             -CEEEEEECSTTSSHHHHHHHHHHSCCC----------CEEEEEECS-SCEEEEEEECCSCTTTCG-----------GGH
T ss_pred             CcEEEEEECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEec-ceEEEEEEEECCCchhhh-----------hHH
Confidence            45799999999999999999998665422222222222212111111 123478899999986543           344


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.+++++|+|+|++++-+... ..++..+....+..  .|++||.||+|+...   .......+.......+++.++
T Consensus        80 ~~~~~~a~~~ilv~di~~~~Sf~~i~~~~~~i~~~~~~~--~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SA  157 (216)
T 4dkx_A           80 PSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSD--VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSA  157 (216)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTTS--SEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBT
T ss_pred             HHHhccccEEEEEeecchhHHHHHHHHHHHHHHHhcCCC--CeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeC
Confidence            566788999999999986555444 45556666555443  589999999998641   123444555544455666777


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      +....++++++
T Consensus       158 ktg~nV~e~F~  168 (216)
T 4dkx_A          158 KAGYNVKQLFR  168 (216)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            77777777665

>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=99.68  E-value=1.4e-16  Score=123.67  Aligned_cols=121  Identities=21%  Similarity=0.183  Sum_probs=77.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|.+|+|||||+|+|++.........+.+.+......... .....+.+|||||.....           ..
T Consensus        10 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~   77 (181)
T 2efe_B           10 SINAKLVLLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVN-DATVKFEIWDTAGQERYH-----------SL   77 (181)
T ss_dssp             CEEEEEEEECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEET-TEEEEEEEEECCCSGGGG-----------GG
T ss_pred             ccceEEEEECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEEC-CEEEEEEEEeCCCChhhh-----------hh
Confidence            345799999999999999999999876533322222332222222111 123578999999974321           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        78 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~i~v~nK~Dl~~  131 (181)
T 2efe_B           78 APMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGN--PNMVMALAGNKSDLLD  131 (181)
T ss_dssp             THHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECTTCTT
T ss_pred             hHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECCcccc
Confidence            3345577899999999985544332 444444444322  2358999999999975

>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=99.68  E-value=1.9e-16  Score=123.64  Aligned_cols=119  Identities=15%  Similarity=0.116  Sum_probs=78.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...++|+|+|++|+|||||+|.|++.........  ..+.......+. ..+  ..+.+|||||...           +.
T Consensus         8 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~--~~~~~~~~~~~~-~~~~~~~~~l~Dt~G~~~-----------~~   73 (186)
T 2bme_A            8 DFLFKFLVIGNAGTGKSCLLHQFIEKKFKDDSNH--TIGVEFGSKIIN-VGGKYVKLQIWDTAGQER-----------FR   73 (186)
T ss_dssp             SEEEEEEEEESTTSSHHHHHHHHHHSSCCTTCCC--CSEEEEEEEEEE-ETTEEEEEEEEEECCSGG-----------GH
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCC--ccceEEEEEEEE-ECCEEEEEEEEeCCCcHH-----------HH
Confidence            4458999999999999999999998764322221  222222222222 233  5789999999743           33


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        74 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~  129 (186)
T 2bme_A           74 SVTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLAS--QNIVIILCGNKKDLDA  129 (186)
T ss_dssp             HHHHTTSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             HHHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccccc
Confidence            455667789999999999985433322 334444444322  2468999999999863

>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=99.68  E-value=9.7e-17  Score=123.08  Aligned_cols=120  Identities=17%  Similarity=0.111  Sum_probs=75.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +..+|+++|++|+|||||+|+|++...........+.+......... ..+..+.+|||||....           ....
T Consensus         5 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~D~~G~~~~-----------~~~~   72 (170)
T 1r2q_A            5 CQFKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD-DTTVKFEIWDTAGQERY-----------HSLA   72 (170)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGG-----------GGGH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEEC-CEEEEEEEEeCCCcHHh-----------hhhh
Confidence            34799999999999999999999765432222222222222222111 12457899999997532           1233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        73 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iilv~nK~Dl~~  125 (170)
T 1r2q_A           73 PMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQAS--PNIVIALSGNKADLAN  125 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             HHhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccCcc
Confidence            445578899999999985543332 333444444322  2358999999999864

>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=99.68  E-value=1.4e-16  Score=122.29  Aligned_cols=120  Identities=18%  Similarity=0.116  Sum_probs=77.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+++|++|+|||||+|+|++...........+.+......... .....+.+|||||.....           ...
T Consensus         5 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~Dt~G~~~~~-----------~~~   72 (170)
T 1z0j_A            5 RELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQ-NELHKFLIWDTAGLERFR-----------ALA   72 (170)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGGGG-----------GGT
T ss_pred             cceEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEEC-CeEEEEEEEcCCCchhhh-----------ccc
Confidence            34899999999999999999999886433222222323222222111 123578999999984321           223


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++++|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        73 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~~--~~~~iilv~nK~Dl~~  125 (170)
T 1z0j_A           73 PMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP--PSIVVAIAGNKCDLTD  125 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTSEEEEEEECTTCGG
T ss_pred             HhhCcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECCcccc
Confidence            345577899999999985544333 344455554322  2358999999999874

>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=99.68  E-value=1.6e-16  Score=125.19  Aligned_cols=121  Identities=18%  Similarity=0.096  Sum_probs=78.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++|+|+|.+|+|||||+|+|++...........+.+......... .....+.+|||||.....           ..
T Consensus        21 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~   88 (192)
T 2fg5_A           21 IRELKVCLLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCG-NELHKFLIWDTAGQERFH-----------SL   88 (192)
T ss_dssp             CEEEEEEEEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECS-SSEEEEEEEEECCSGGGG-----------GG
T ss_pred             CCceEEEEECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeC-CEEEEEEEEcCCCchhhH-----------hh
Confidence            456899999999999999999999876432222223333322222221 134589999999975322           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        89 ~~~~~~~~d~iilV~d~~~~~s~~~~~~~~~~i~~~~~--~~~piiiv~NK~Dl~~  142 (192)
T 2fg5_A           89 APMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGP--ENIVMAIAGNKCDLSD  142 (192)
T ss_dssp             THHHHTTCSEEEEEEETTCTHHHHHHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             hHHhhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECccccc
Confidence            3345577899999999985544333 334444444321  2358999999999863

>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=99.68  E-value=3e-16  Score=124.82  Aligned_cols=118  Identities=20%  Similarity=0.210  Sum_probs=77.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++|+|+|++|+|||||+|+|++...........+.+.  ....+.. .+  ..+.+|||||...+..           
T Consensus         7 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~--~~~~~~~-~~~~~~~~l~Dt~G~~~~~~-----------   72 (206)
T 2bcg_Y            7 YLFKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDF--KIKTVEL-DGKTVKLQIWDTAGQERFRT-----------   72 (206)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCE--EEEEEEE-TTEEEEEEEECCTTTTTTTC-----------
T ss_pred             cceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee--EEEEEEE-CCEEEEEEEEeCCChHHHHH-----------
Confidence            458999999999999999999998765322222222222  2222222 33  4789999999865432           


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+... ..++..+.....  ...|++||+||+|...
T Consensus        73 ~~~~~~~~~d~vilv~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  127 (206)
T 2bcg_Y           73 ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYAT--STVLKLLVGNKCDLKD  127 (206)
T ss_dssp             CCGGGGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECTTCTT
T ss_pred             HHHHhccCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECCCCcc
Confidence            23355678899999999985444333 334444444322  2358999999999975

>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=99.67  E-value=4.1e-16  Score=120.96  Aligned_cols=120  Identities=18%  Similarity=0.134  Sum_probs=74.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+..+|+++|++|+|||||+|+|++......... ...+......... ..+  ..+.+|||||...           +.
T Consensus         8 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~-~t~~~~~~~~~~~-~~~~~~~~~~~Dt~G~~~-----------~~   74 (180)
T 2g6b_A            8 DVAFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFI-STVGIDFRNKVLD-VDGVKVKLQMWDTAGQER-----------FR   74 (180)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCCCCC-CCCSCEEEEEEEE-ETTEEEEEEEEECCCC---------------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCCCCcC-CceeeEEEEEEEE-ECCEEEEEEEEeCCCcHH-----------HH
Confidence            3458999999999999999999998765322111 1112222111112 233  4789999999743           22


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        75 ~~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  130 (180)
T 2g6b_A           75 SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ--HDVALMLLGNKVDSAH  130 (180)
T ss_dssp             ----CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECCSTTS
T ss_pred             HHHHHHccCCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC--CCCcEEEEEECcccCc
Confidence            344556678899999999985443332 344444544432  2358999999999975

>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=99.67  E-value=2.7e-16  Score=123.69  Aligned_cols=120  Identities=18%  Similarity=0.139  Sum_probs=75.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+|+|.+|+|||||+|+|++.........+.+.+......... .....+.+|||||.....           ...
T Consensus        24 ~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~~   91 (193)
T 2oil_A           24 FVFKVVLIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLG-TAAVKAQIWDTAGLERYR-----------AIT   91 (193)
T ss_dssp             EEEEEEEESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEET-TEEEEEEEEEESCCCTTC-----------TTH
T ss_pred             cceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCCchhhh-----------hhh
Confidence            45899999999999999999999876533322222222222222111 124578999999986543           222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+... ..++..+....  ....|+++|+||+|...
T Consensus        92 ~~~~~~~d~vi~v~D~~~~~s~~~~~~~l~~i~~~~--~~~~piilv~nK~Dl~~  144 (193)
T 2oil_A           92 SAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHA--EATIVVMLVGNKSDLSQ  144 (193)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHTTS--CTTCEEEEEEECGGGGG
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhc--CCCCeEEEEEECCCccc
Confidence            344577899999999985433222 23333333321  12468999999999864

>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=99.67  E-value=3.8e-16  Score=122.51  Aligned_cols=120  Identities=17%  Similarity=0.128  Sum_probs=77.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+.++|+|+|.+|+|||||+|+|++...........+.+..  ...+.. .+  ..+.+|||||..           .+.
T Consensus        18 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~--~~~~~~-~~~~~~~~l~Dt~G~~-----------~~~   83 (189)
T 1z06_A           18 SRIFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFR--ERAVDI-DGERIKIQLWDTAGQE-----------RFR   83 (189)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEE--EEEEEE-TTEEEEEEEEECCCSH-----------HHH
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEE--EEEEEE-CCEEEEEEEEECCCch-----------hhh
Confidence            34589999999999999999999977653322222222222  222222 33  578999999963           233


Q ss_pred             -HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 -KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 -~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .....++..+|++|+|+|+++..+... ..++..+..... ....|+++|+||+|...
T Consensus        84 ~~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  141 (189)
T 1z06_A           84 KSMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLL-ANDIPRILVGNKCDLRS  141 (189)
T ss_dssp             TTTHHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCC-CSCCCEEEEEECTTCGG
T ss_pred             hhhhHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence             334455678899999999985433322 334444544431 22468999999999864

>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=99.67  E-value=5.5e-16  Score=119.94  Aligned_cols=119  Identities=18%  Similarity=0.079  Sum_probs=76.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +.++|+++|++|+|||||+|+|++...........+.+  .....+. ..+  ..+.+|||||...           +..
T Consensus         6 ~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~~i~Dt~G~~~-----------~~~   71 (177)
T 1wms_A            6 SLFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVE--FLNKDLE-VDGHFVTMQIWDTAGQER-----------FRS   71 (177)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEE--EEEEEEE-ETTEEEEEEEEECCCCGG-----------GHH
T ss_pred             ceeEEEEECCCCCCHHHHHHHHHcCCCCCCCCCceeee--EEEEEEE-ECCEEEEEEEEeCCCchh-----------hhh
Confidence            45899999999999999999999775422222122222  2122222 233  4789999999642           334


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc--cccCeEEEEEeCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDEL  150 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~  150 (253)
                      ....++..+|++++|+|++++.+... ..++..+......  ....|+++|+||+|..
T Consensus        72 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~  129 (177)
T 1wms_A           72 LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS  129 (177)
T ss_dssp             HHGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS
T ss_pred             hHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc
Confidence            55667788999999999985443332 3344445444321  1235899999999986

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.67  E-value=6.3e-16  Score=122.03  Aligned_cols=147  Identities=14%  Similarity=0.148  Sum_probs=85.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC-----------------------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG-----------------------------   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~-----------------------------   68 (253)
                      ..++|+|+|++|+|||||+|+|++.........+.+...  ....+.. .+                             
T Consensus         6 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~--~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   82 (208)
T 3clv_A            6 SSYKTVLLGESSVGKSSIVLRLTKDTFHENTNTTIGASF--CTYVVNL-NDINIKNNSNNEKNNNINSINDDNNVIITNQ   82 (208)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEE--EEEEEET-TC-----------------------------
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCcCCCCcCcccccee--EEEEEEe-cCccccccccccccccccccccccccccccc
Confidence            458999999999999999999998865322211111111  1111111 11                             


Q ss_pred             ----------eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccccc
Q 025391           69 ----------QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIF  137 (253)
Q Consensus        69 ----------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~  137 (253)
                                ..+.+|||||.....           .....++..+|++|+|+|++++.+... ..++..+....+    
T Consensus        83 ~~~~~~~~~~~~~~i~Dt~G~~~~~-----------~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~----  147 (208)
T 3clv_A           83 HNNYNENLCNIKFDIWDTAGQERYA-----------SIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISSN----  147 (208)
T ss_dssp             --CCCTTTCEEEEEEEECTTGGGCT-----------TTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC----
T ss_pred             cccccCccceeEEEEEECCCcHHHH-----------HHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhCC----
Confidence                      688999999975433           223344567899999999985544333 334444444322    


Q ss_pred             CeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHHHhhhHHHHH
Q 025391          138 DYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGATKLRDQQFEV  183 (253)
Q Consensus       138 ~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~  183 (253)
                      .|+++|+||+| ...   ....+..+.......++..+......+..++
T Consensus       148 ~piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~  195 (208)
T 3clv_A          148 YIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIF  195 (208)
T ss_dssp             CEEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHH
T ss_pred             CcEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHH
Confidence            68999999999 421   1234444544323333333333334444433

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.67  E-value=5.8e-16  Score=122.14  Aligned_cols=123  Identities=15%  Similarity=0.097  Sum_probs=78.0

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      .+..+.++|+|+|.+|+|||||+|.|++........   ..|.......+. ..+..+.+|||||...+           
T Consensus        12 ~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~---~~t~~~~~~~~~-~~~~~~~i~Dt~G~~~~-----------   76 (199)
T 4bas_A           12 GQSKTKLQVVMCGLDNSGKTTIINQVKPAQSSSKHI---TATVGYNVETFE-KGRVAFTVFDMGGAKKF-----------   76 (199)
T ss_dssp             ----CEEEEEEECCTTSCHHHHHHHHSCCC----CC---CCCSSEEEEEEE-ETTEEEEEEEECCSGGG-----------
T ss_pred             cCCCCCcEEEEECCCCCCHHHHHHHHhcCCCccccc---ccccceeEEEEE-eCCEEEEEEECCCCHhH-----------
Confidence            344566899999999999999999999987543111   112223333333 47789999999998532           


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc------cccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK------KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~------~~~~~~ivv~~k~D~~~  151 (253)
                      ......++..+|++|+|+|++++.+... ..++..+......      ....|++||+||+|...
T Consensus        77 ~~~~~~~~~~~d~ii~v~D~~~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  141 (199)
T 4bas_A           77 RGLWETYYDNIDAVIFVVDSSDHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAG  141 (199)
T ss_dssp             GGGGGGGCTTCSEEEEEEETTCGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTT
T ss_pred             HHHHHHHHhcCCEEEEEEECCcHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCC
Confidence            2344566789999999999986554433 2222222221100      01468999999999986

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.67  E-value=3.3e-16  Score=120.32  Aligned_cols=120  Identities=22%  Similarity=0.174  Sum_probs=74.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|++|+|||||+|+|++.........+.+.+... .... ......+.+|||||..+..           ....
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~-~~~~-~~~~~~~~~~Dt~G~~~~~-----------~~~~   69 (172)
T 2erx_A            3 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQ-VISC-DKSICTLQITDTTGSHQFP-----------AMQR   69 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEEE-EEEE-TTEEEEEEEEECCSCSSCH-----------HHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCCccccEEE-EEEE-CCEEEEEEEEECCCchhhH-----------HHHH
Confidence            4899999999999999999999875432222222222211 1111 1123468999999986532           2222


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++++|+|++++.+... ..++..+.+..+.....|+++|+||+|...
T Consensus        70 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~  123 (172)
T 2erx_A           70 LSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESP  123 (172)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGG
T ss_pred             HhcccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEcccccc
Confidence            33345699999999985433332 344555555443223468999999999864

>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=99.67  E-value=9.6e-16  Score=121.51  Aligned_cols=118  Identities=12%  Similarity=0.072  Sum_probs=76.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .++|+|+|++|+|||||+|.|++.........+.+.+...  ..+.. .....+.+|||||...           +....
T Consensus         8 ~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~~~~~~~~~~l~Dt~G~~~-----------~~~~~   74 (203)
T 1zbd_A            8 MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKV--KTIYRNDKRIKLQIWDTAGLER-----------YRTIT   74 (203)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEE--EEEEETTEEEEEEEEEECCSGG-----------GHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEE--EEEEECCeEEEEEEEECCCchh-----------hcchH
Confidence            4899999999999999999999876533222222222222  22221 1245789999999743           22445


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        75 ~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  127 (203)
T 1zbd_A           75 TAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW--DNAQVLLVGNKCDMED  127 (203)
T ss_dssp             HTTGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--SSCEEEEEEECTTCTT
T ss_pred             HHhhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECcccCc
Confidence            566678899999999985433222 333444444321  2358999999999875

>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=99.67  E-value=2e-15  Score=117.97  Aligned_cols=116  Identities=14%  Similarity=0.141  Sum_probs=79.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|+|||||+|++++.. .....    .|.......+. .++..+.+|||||..           ++...
T Consensus        16 ~~~~~i~v~G~~~~GKssl~~~l~~~~-~~~~~----~t~~~~~~~~~-~~~~~~~~~Dt~G~~-----------~~~~~   78 (186)
T 1ksh_A           16 ERELRLLMLGLDNAGKTTILKKFNGED-VDTIS----PTLGFNIKTLE-HRGFKLNIWDVGGQK-----------SLRSY   78 (186)
T ss_dssp             -CCEEEEEECSTTSSHHHHHHHHTTCC-CSSCC----CCSSEEEEEEE-ETTEEEEEEEECCSH-----------HHHTT
T ss_pred             CCeeEEEEECCCCCCHHHHHHHHhcCC-CCccc----ccCccceEEEE-ECCEEEEEEECCCCH-----------hHHHH
Confidence            456999999999999999999999876 22111    12222233333 367899999999973           34445


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|++++.+...  ...++......  ....|+++|+||+|...
T Consensus        79 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  133 (186)
T 1ksh_A           79 WRNYFESTDGLIWVVDSADRQRMQD--CQRELQSLLVEERLAGATLLIFANKQDLPG  133 (186)
T ss_dssp             GGGGCTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHH--HHHHHHHHHhChhcCCCcEEEEEeCccCCC
Confidence            5667789999999999986655433  22233333221  12468999999999976

>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=99.66  E-value=7.6e-16  Score=136.60  Aligned_cols=123  Identities=22%  Similarity=0.276  Sum_probs=84.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|||.+|||||||+|.|+|....... ...++|......... +.+..+.+|||||+.....  ......+......
T Consensus         2 ~~v~ivG~pnvGKStL~nrl~~~~~~~v~-~~~g~T~d~~~~~~~-~~~~~~~l~DT~G~~~~~~--~~~~~~~~~~~~~   77 (439)
T 1mky_A            2 ATVLIVGRPNVGKSTLFNKLVKKKKAIVE-DEEGVTRDPVQDTVE-WYGKTFKLVDTCGVFDNPQ--DIISQKMKEVTLN   77 (439)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHC---------------CCSEEEEE-ETTEEEEEEECTTTTSSGG--GCCCHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCceec-CCCCCccceeeEEEE-ECCeEEEEEECCCcccccc--chHHHHHHHHHHH
Confidence            58999999999999999999998643222 234555555555444 5788999999999874321  1112445555666


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++..+|++|+|+|++.+++..+..+..++.+. +    .|+++|+||+|...
T Consensus        78 ~~~~ad~il~V~D~~~~~~~~d~~i~~~l~~~-~----~p~ilv~NK~D~~~  124 (439)
T 1mky_A           78 MIREADLVLFVVDGKRGITKEDESLADFLRKS-T----VDTILVANKAENLR  124 (439)
T ss_dssp             HHTTCSEEEEEEETTTCCCHHHHHHHHHHHHH-T----CCEEEEEESCCSHH
T ss_pred             HHHhCCEEEEEEECCCCCCHHHHHHHHHHHHc-C----CCEEEEEeCCCCcc
Confidence            77899999999999988998887777777653 2    47999999999853

>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=99.66  E-value=1.3e-15  Score=119.34  Aligned_cols=121  Identities=12%  Similarity=0.043  Sum_probs=77.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC-----------CeEEEEEeCCCCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-----------GQVVNVIDTPGLFDFSAG   85 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-----------~~~~~liDtpG~~~~~~~   85 (253)
                      ...++|+|+|++|+|||||+|+|++.........+.+..... ..... ..           ...+.+|||||...    
T Consensus         9 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~-~~~~~-~~~~~~~~~~~~~~~~~~l~Dt~G~~~----   82 (195)
T 3bc1_A            9 DYLIKFLALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFRE-KRVVY-RANGPDGAVGRGQRIHLQLWDTAGLER----   82 (195)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE-EEEEE-CTTSCCCSSCCCEEEEEEEEEECCSGG----
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHhcCCCCcCcccccceeeee-EEEEE-ecCCcccccccCcEEEEEEEeCCCcHH----
Confidence            345899999999999999999999865432222222221110 11111 12           34899999999842    


Q ss_pred             cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           86 SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        86 ~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                             +......++..+|++|+|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        83 -------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  141 (195)
T 3bc1_A           83 -------FRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAY-SENPDIVLCGNKSDLED  141 (195)
T ss_dssp             -------GHHHHHHTTTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSS-SSSCCEEEEEECTTCGG
T ss_pred             -------HHHHHHHHHcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence                   33445666788999999999985444333 344444444321 12468999999999864

>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=99.66  E-value=2.2e-15  Score=118.46  Aligned_cols=157  Identities=11%  Similarity=0.018  Sum_probs=96.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC------CCccceeeeeeeeE--e--eCCeEEEEEeCCCCCCCCCCc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRAS------SSGVTSTCEMQRTV--L--KDGQVVNVIDTPGLFDFSAGS   86 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~------~~~~t~~~~~~~~~--~--~~~~~~~liDtpG~~~~~~~~   86 (253)
                      ...++|+|+|.+|+|||||++.|.|.........      ....|....+....  .  .....+.+|||||...+.   
T Consensus        12 ~~~~ki~vvG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~---   88 (198)
T 3t1o_A           12 EINFKIVYYGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYN---   88 (198)
T ss_dssp             EEEEEEEEECSTTSSHHHHHHHHHHTSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCS---
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHhhccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHH---
Confidence            3458999999999999999999987654221110      01122222222111  1  123478999999986543   


Q ss_pred             HHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH----HHHHHHhcccccCeEEEEEeCCCCCCC-ChhhHHHHH
Q 025391           87 EFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL----HSLQTLFGKKIFDYMIVVFTGGDELED-NDETLEDYL  161 (253)
Q Consensus        87 ~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l----~~l~~~~g~~~~~~~ivv~~k~D~~~~-~~~~~~~~~  161 (253)
                              .....++..+|++|+|+|++++........+    .|+..........|+++|+||+|.... ....+.++.
T Consensus        89 --------~~~~~~~~~~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~  160 (198)
T 3t1o_A           89 --------ASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIVIQVNKRDLPDALPVEMVRAVV  160 (198)
T ss_dssp             --------HHHHHHTTTCCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTCCTTSSCEEEEEECTTSTTCCCHHHHHHHH
T ss_pred             --------HHHHHHHhcCCEEEEEEECCcchhhHhHHHHHHHHHHHHhhccccCCCCEEEEEEchhcccccCHHHHHHHH
Confidence                    3444567889999999999855444443333    333332111234689999999998652 134566666


Q ss_pred             cccCC-chhhhhHHHhhhHHHHHH
Q 025391          162 GRECP-KPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       162 ~~~~~-~~l~~~~~~~~~~~~~~~  184 (253)
                      ..... .++..+......++.++.
T Consensus       161 ~~~~~~~~~~~Sa~~~~gv~~l~~  184 (198)
T 3t1o_A          161 DPEGKFPVLEAVATEGKGVFETLK  184 (198)
T ss_dssp             CTTCCSCEEECBGGGTBTHHHHHH
T ss_pred             HhcCCceEEEEecCCCcCHHHHHH
Confidence            64343 556666666666666555

>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=99.66  E-value=4.4e-16  Score=122.43  Aligned_cols=119  Identities=18%  Similarity=0.152  Sum_probs=74.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+..+|+|+|.+|+|||||+|.|++.........+.+.+...  ..+. ..+  ..+.+|||||......          
T Consensus        19 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~~~~~i~Dt~G~~~~~~----------   85 (191)
T 2a5j_A           19 SYLFKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGA--RMVN-IDGKQIKLQIWDTAGQESFRS----------   85 (191)
T ss_dssp             CEEEEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEE--EEEE-ETTEEEEEEEECCTTGGGTSC----------
T ss_pred             CcceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEE--EEEE-ECCEEEEEEEEECCCchhhhh----------
Confidence            445899999999999999999999876432222222222222  2222 233  4789999999754332          


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        86 -~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~l~~i~~~~~--~~~piilv~nK~Dl~~  140 (191)
T 2a5j_A           86 -ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSS--SNMVIMLIGNKSDLES  140 (191)
T ss_dssp             -CCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGG
T ss_pred             -hHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECcccCC
Confidence             12344567899999999985433332 334444444322  2358999999999864

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.66  E-value=2e-16  Score=124.60  Aligned_cols=121  Identities=14%  Similarity=0.190  Sum_probs=73.8

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      +....++|+|+|.+|+|||||+|+|++..........  .+.......+.. .+  ..+.+|||||...+          
T Consensus        22 ~~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~~t--~~~~~~~~~~~~-~~~~~~l~l~Dt~G~~~~----------   88 (192)
T 2il1_A           22 PADFKLQVIIIGSRGVGKTSLMERFTDDTFCEACKST--VGVDFKIKTVEL-RGKKIRLQIWDTAGQERF----------   88 (192)
T ss_dssp             CCSEEEEEEEECSTTSSHHHHHHHHCC--------CC--TTEEEEEEEEEE-TTEEEEEEEEEECCSGGG----------
T ss_pred             ccCCceEEEEECCCCCCHHHHHHHHhcCCCCcCCCCc--cceeEEEEEEEE-CCeEEEEEEEeCCCcHHH----------
Confidence            3345579999999999999999999987653222222  222222222322 33  47899999996432          


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ......++..+|++|+|+|++++.+... ..++..+.....  ...|++||+||+|...
T Consensus        89 -~~~~~~~~~~~d~iilV~D~~~~~s~~~~~~~~~~i~~~~~--~~~piilV~NK~Dl~~  145 (192)
T 2il1_A           89 -NSITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYAS--EDAELLLVGNKLDCET  145 (192)
T ss_dssp             -HHHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             -HHHHHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccccc
Confidence             2233344456799999999985544433 334444444322  2358999999999864

>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=99.65  E-value=2.4e-16  Score=120.95  Aligned_cols=117  Identities=13%  Similarity=0.156  Sum_probs=72.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC-CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD-GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .++|+++|++|+|||||+|+|++..........  .+............ ...+.+|||||......           ..
T Consensus         3 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~-----------~~   69 (170)
T 1g16_A            3 IMKILLIGDSGVGKSCLLVRFVEDKFNPSFITT--IGIDFKIKTVDINGKKVKLQIWDTAGQERFRT-----------IT   69 (170)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCC---------CCEEEEEEESSSCEEEEEEECCTTGGGTSC-----------CC
T ss_pred             ceEEEEECcCCCCHHHHHHHHHhCCCCCCCCCc--cceeEEEEEEEECCEEEEEEEEeCCCChhhhh-----------hH
Confidence            479999999999999999999987642222111  12222222222211 24789999999754332           12


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..++..+|++|+|+|++++.+... ..++..+....+  ...|+++|+||+|..
T Consensus        70 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~  121 (170)
T 1g16_A           70 TAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHAN--DEAQLLLVGNKSDME  121 (170)
T ss_dssp             HHHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCT
T ss_pred             HHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECccCC
Confidence            234567899999999985443322 344444544432  235899999999984

>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=99.65  E-value=1.1e-15  Score=116.93  Aligned_cols=151  Identities=18%  Similarity=0.001  Sum_probs=75.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+++|++|+|||||+|++++....... ...+.+.. ..... ......+.+|||||....           .....
T Consensus         2 ~~ki~~vG~~~~GKSsli~~l~~~~~~~~~-~~~~~~~~-~~~~~-~~~~~~~~i~D~~g~~~~-----------~~~~~   67 (166)
T 3q72_A            2 VYKVLLLGAPGVGKSALARIFGGVEDGPEA-EAAGHTYD-RSIVV-DGEEASLMVYDIWEQDGG-----------RWLPG   67 (166)
T ss_dssp             CCEEEEEESTTSSHHHHHHHHCCC-----------CEEE-EEEEE-TTEEEEEEEEECC---------------------
T ss_pred             eEEEEEECCCCCCHHHHHHHHcCccccCCC-CccccceE-EEEEE-CCEEEEEEEEECCCCccc-----------hhhhh
Confidence            479999999999999999999987643222 12222221 11111 112347889999997542           23334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      .++..+|++++|+|++++.+... ..++..+.... .....|+++|+||+|.....   ......+.......++..+..
T Consensus        68 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  146 (166)
T 3q72_A           68 HCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRAR-QTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAA  146 (166)
T ss_dssp             -----CCEEEEEEETTCHHHHHHHHHHHHHHHHCC----CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGG
T ss_pred             hhhhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccC
Confidence            55678899999999985443332 23333333321 12346899999999987422   122233333223344444555


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ....++.++.
T Consensus       147 ~~~gi~~l~~  156 (166)
T 3q72_A          147 LHHNVQALFE  156 (166)
T ss_dssp             GTBSHHHHHH
T ss_pred             CCCCHHHHHH
Confidence            5555555444

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.65  E-value=2.3e-16  Score=122.15  Aligned_cols=122  Identities=16%  Similarity=0.128  Sum_probs=75.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+..+|+++|++|+|||||+|.|++.........+.+..  .....+...+  ...+.+|||||...+..          
T Consensus         4 ~~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~--~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~----------   71 (178)
T 2hxs_A            4 MRQLKIVVLGDGASGKTSLTTCFAQETFGKQYKQTIGLD--FFLRRITLPGNLNVTLQIWDIGGQTIGGK----------   71 (178)
T ss_dssp             CCEEEEEEECCTTSSHHHHHHHHHGGGTTHHHHHTTTSS--EEEEEEEETTTEEEEEEEEECTTCCTTCT----------
T ss_pred             CceEEEEEECcCCCCHHHHHHHHHhCcCCCCCCCceeEE--EEEEEEEeCCCCEEEEEEEECCCCccccc----------
Confidence            345899999999999999999999875422111111211  2122222212  26899999999865432          


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc-ccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~  151 (253)
                       ....++..+|++|+|+|++++.+... ..++..+....... ..+++++|+||+|...
T Consensus        72 -~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~  129 (178)
T 2hxs_A           72 -MLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEH  129 (178)
T ss_dssp             -THHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGG
T ss_pred             -hhhHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEcccccc
Confidence             22344577899999999985444332 33444444432111 1234889999999864

>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=99.65  E-value=1.3e-15  Score=117.48  Aligned_cols=120  Identities=21%  Similarity=0.161  Sum_probs=70.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +.++|+|+|++|+|||||+|.|++........ +.+.+.....  +. ..+  ..+.+|||||.....         ...
T Consensus         3 ~~~ki~i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~--~~-~~~~~~~~~~~D~~g~~~~~---------~~~   69 (175)
T 2nzj_A            3 ALYRVVLLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERT--LT-VDGEDTTLVVVDTWEAEKLD---------KSW   69 (175)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEE--EE-ETTEEEEEEEECCC----------------CH
T ss_pred             eEEEEEEECCCCccHHHHHHHHhcCCCccccC-ccccceeEEE--EE-ECCEEEEEEEEecCCCCccc---------hhh
Confidence            45899999999999999999999886533222 2333322222  22 233  478899999985421         112


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+... ..++..+.... .....|+++|+||+|...
T Consensus        70 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~l~~~~-~~~~~piilv~NK~Dl~~  125 (175)
T 2nzj_A           70 SQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTH-QADHVPIILVGNKADLAR  125 (175)
T ss_dssp             HHHHTTTSCSEEEEEEETTCHHHHHHHHHHHHHHHHCC-----CCEEEEEECTTCTT
T ss_pred             hHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhh-ccCCCCEEEEEEChhhcc
Confidence            23455678899999999985444333 23333343321 112358999999999975

>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=99.65  E-value=1.9e-16  Score=125.69  Aligned_cols=119  Identities=18%  Similarity=0.147  Sum_probs=71.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...++|+|+|.+|+|||||+|.|++...........+.+.  ....+. ..+  ..+.+|||||...           +.
T Consensus        23 ~~~~ki~v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~--~~~~~~-~~~~~~~l~l~Dt~G~~~-----------~~   88 (200)
T 2o52_A           23 DFLFKFLVIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEF--GSRVVN-VGGKTVKLQIWDTAGQER-----------FR   88 (200)
T ss_dssp             CEEEEEEEEESTTSSHHHHHHHHHC------------CCE--EEEEEE-ETTEEEEEEEECCTTHHH-----------HS
T ss_pred             CcceEEEEECcCCCCHHHHHHHHHhCCCCccCCCccccee--EEEEEE-ECCeeeEEEEEcCCCcHh-----------HH
Confidence            3458999999999999999999998764322221112122  122222 233  5889999999632           22


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        89 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~piilv~nK~Dl~~  144 (200)
T 2o52_A           89 SVTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLAS--PNIVVILCGNKKDLDP  144 (200)
T ss_dssp             CCCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTC--TTCEEEEEEECGGGGG
T ss_pred             HHHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECCCccc
Confidence            223445678899999999985443332 333444444322  2358999999999863

>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=99.65  E-value=2.1e-16  Score=125.15  Aligned_cols=120  Identities=16%  Similarity=0.098  Sum_probs=71.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|+|.+|+|||||+|+|++...........+.+.......+. .....+.+|||||.....           ..
T Consensus        26 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~l~i~Dt~G~~~~~-----------~~   93 (199)
T 2p5s_A           26 QKAYKIVLAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVD-GERTVLQLWDTAGQERFR-----------SI   93 (199)
T ss_dssp             --CEEEEEESSTTSSHHHHHHHHHHCCCC----------CEEEEEEET-TEEEEEEEEECTTCTTCH-----------HH
T ss_pred             CCCeEEEEECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEEC-CEEEEEEEEECCCCcchh-----------hh
Confidence            345899999999999999999999876422222222222222222111 123568999999975431           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ...++..+|++|+|+|++++.+... ..++..+......  ..|++||+||+|..
T Consensus        94 ~~~~~~~~d~iilv~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~NK~Dl~  146 (199)
T 2p5s_A           94 AKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHE--TVPIMLVGNKADIR  146 (199)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHC-----CCEEEEEECGGGH
T ss_pred             HHHHHhhCCEEEEEEECCChHHHHHHHHHHHHHHHhcCC--CCCEEEEEECcccc
Confidence            3334456799999999985444333 3344444443222  35899999999986

>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=99.65  E-value=3e-15  Score=114.98  Aligned_cols=115  Identities=15%  Similarity=0.089  Sum_probs=78.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|++|+|||||+|+|++......     ..|.......+. ..+..+.+|||||....           ....
T Consensus         6 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~~~Dt~G~~~~-----------~~~~   68 (171)
T 1upt_A            6 REMRILILGLDGAGKTTILYRLQVGEVVTT-----IPTIGFNVETVT-YKNLKFQVWDLGGLTSI-----------RPYW   68 (171)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHSSCCCC-----CCCSSEEEEEEE-ETTEEEEEEEECCCGGG-----------GGGG
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCCc-----CCcCccceEEEE-ECCEEEEEEECCCChhh-----------hHHH
Confidence            458999999999999999999987654221     112222233333 36789999999998532           2334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+...  ...++...+..  ....|+++|+||+|...
T Consensus        69 ~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  122 (171)
T 1upt_A           69 RCYYSNTDAVIYVVDSCDRDRIGI--SKSELVAMLEEEELRKAILVVFANKQDMEQ  122 (171)
T ss_dssp             GGGCTTCSEEEEEEETTCCTTHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHHhchhhCCCEEEEEEECCCCcC
Confidence            566788999999999986655443  22333333221  13468999999999976

>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=99.65  E-value=3.3e-16  Score=122.03  Aligned_cols=118  Identities=14%  Similarity=0.119  Sum_probs=56.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+|+|++|+|||||+|.+++........  .+.+.......+. ..+  ..+.+|||||...+           ..
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~l~~~~~~~~~~--~t~~~~~~~~~~~-~~~~~~~~~l~Dt~G~~~~-----------~~   72 (183)
T 2fu5_C            7 YLFKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--STIGIDFKIRTIE-LDGKRIKLQIWDTAGQERF-----------RT   72 (183)
T ss_dssp             EEEEEEEECCCCC----------------CHH--HHHCEEEEEEEEE-ETTEEEEEEEEEC-------------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCCCC--CcccceeEEEEEE-ECCEEEEEEEEcCCCChhh-----------hh
Confidence            45899999999999999999999764321111  1112222222222 244  57899999997532           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        73 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  127 (183)
T 2fu5_C           73 ITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHAS--ADVEKMILGNKCDVND  127 (183)
T ss_dssp             -CCTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEEC--CCS
T ss_pred             hHHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECccCCc
Confidence            34466688999999999985433322 234444444322  2358999999999874

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.65  E-value=6.9e-16  Score=122.39  Aligned_cols=121  Identities=21%  Similarity=0.185  Sum_probs=73.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++|+|+|.+|+|||||+|+|++.........+.+... ....... .....+.+|||||...+..           .
T Consensus        22 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~-~~~~~~~l~Dt~G~~~~~~-----------~   88 (201)
T 3oes_A           22 VRYRKVVILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLG-KDEFHLHLVDTAGQDEYSI-----------L   88 (201)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC-----CEEEEEEEECCCCTTCC-----------C
T ss_pred             CCcEEEEEECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEEC-CEEEEEEEEECCCccchHH-----------H
Confidence            4568999999999999999999998765322221111111 1111111 2356789999999875442           2


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+... ..++..+....+ ....|+++|+||+|...
T Consensus        89 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  143 (201)
T 3oes_A           89 PYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHG-KTRVPVVLVGNKADLSP  143 (201)
T ss_dssp             CGGGTTTCCEEEEEEETTCHHHHHHHHHHHHHHHC------CCCEEEEEECTTCGG
T ss_pred             HHHHHhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccCcc
Confidence            3355678899999999985433322 222232322211 12358999999999864

>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=99.65  E-value=1.9e-16  Score=121.29  Aligned_cols=118  Identities=21%  Similarity=0.114  Sum_probs=74.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...+|+++|++|+|||||+|+|++.........+.+....  ....... ....+.+|||||......           .
T Consensus         4 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~--~~~~~~~~~~~~~~l~Dt~G~~~~~~-----------~   70 (168)
T 1z2a_A            4 VAIKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFL--ERQIQVNDEDVRLMLWDTAGQEEFDA-----------I   70 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEE--EEEEEETTEEEEEEEECCTTGGGTTC-----------C
T ss_pred             eeEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEE--EEEEEECCEEEEEEEEcCCCcHhHHH-----------H
Confidence            4589999999999999999999987543222222222221  1222211 134789999999754332           2


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++.+... ..++..+....   ...|+++|+||+|...
T Consensus        71 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~---~~~piilv~nK~Dl~~  123 (168)
T 1z2a_A           71 TKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEV---GDIPTALVQNKIDLLD  123 (168)
T ss_dssp             CHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHH---CSCCEEEEEECGGGGG
T ss_pred             HHHHhcCCCEEEEEEECcCHHHHHHHHHHHHHHHHhC---CCCCEEEEEECcccCc
Confidence            2344567899999999985433222 33444444433   2358999999999864

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.65  E-value=1.2e-15  Score=121.11  Aligned_cols=121  Identities=22%  Similarity=0.172  Sum_probs=56.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC--CCccccCCCCccceeeeeeeeEeeC---CeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR--RAFKSRASSSGVTSTCEMQRTVLKD---GQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~--~~~~~~~~~~~~t~~~~~~~~~~~~---~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      ...+|+|+|.+|+|||||+|+|++.  ........+.+  .......+....   ...+.+|||||.           ..
T Consensus        19 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~--~~~~~~~~~~~~~~~~~~~~l~Dt~G~-----------~~   85 (208)
T 2yc2_C           19 LRCKVAVVGEATVGKSALISMFTSKGSKFLKDYAMTSG--VEVVVAPVTIPDTTVSVELFLLDTAGS-----------DL   85 (208)
T ss_dssp             EEEEEEEC------------------------------------CEEEECTTSSEEEEEEEEETTTT-----------HH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHhCCCcccCCCCCccc--eEEEEEEEEECCcccEEEEEEEECCCc-----------HH
Confidence            4479999999999999999999987  32211111111  111222222212   357999999997           34


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc-cccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~-~~~~~~ivv~~k~D~~~  151 (253)
                      +......++.++|++|+|+|++++.+... ..++..+....+. ....|+++|+||+|...
T Consensus        86 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  146 (208)
T 2yc2_C           86 YKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPP  146 (208)
T ss_dssp             HHHHHSTTCCCCCEEEEEEETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC----
T ss_pred             HHHHHHHHHhhCcEEEEEEECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccch
Confidence            44566677889999999999985544333 3444445443220 02358999999999875

>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=99.65  E-value=7.1e-16  Score=121.64  Aligned_cols=119  Identities=23%  Similarity=0.202  Sum_probs=75.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +..+|+|+|.+|+|||||+|+|++.........+.+.+.    .......  ...+.+|||||.....           .
T Consensus         7 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~----~~~~~~~~~~~~~~l~Dt~G~~~~~-----------~   71 (199)
T 2gf0_A            7 NDYRVVVFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY----RQVISCDKSVCTLQITDTTGSHQFP-----------A   71 (199)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEE----EEEEEETTEEEEEEEEECCGGGSCH-----------H
T ss_pred             CeeEEEEECCCCCcHHHHHHHHHcCCCCCcccCccccce----eEEEEECCEEEEEEEEeCCChHHhH-----------H
Confidence            458999999999999999999998654322221212111    1111122  3478999999975431           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+... ..++..+....+.....|+++|+||+|...
T Consensus        72 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~  128 (199)
T 2gf0_A           72 MQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ  128 (199)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS
T ss_pred             HHHHhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc
Confidence            22333455799999999985433332 334555555543323468999999999874

>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=99.65  E-value=2.9e-15  Score=117.47  Aligned_cols=116  Identities=18%  Similarity=0.112  Sum_probs=78.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+|+|.+|+|||||+|.|++.......    ..|....+..+. ..+..+.+|||||..           .+....
T Consensus        21 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~----~~t~~~~~~~~~-~~~~~~~l~Dt~G~~-----------~~~~~~   84 (188)
T 1zd9_A           21 EEMELTLVGLQYSGKTTFVNVIASGQFNEDM----IPTVGFNMRKIT-KGNVTIKLWDIGGQP-----------RFRSMW   84 (188)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCCSC----CCCCSEEEEEEE-ETTEEEEEEEECCSH-----------HHHTTH
T ss_pred             CccEEEEECCCCCCHHHHHHHHHcCCCCCcc----CCCCceeEEEEE-eCCEEEEEEECCCCH-----------hHHHHH
Confidence            4589999999999999999999976543211    122222333333 467899999999963           333444


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++-+...  ...++......  ....|+++|+||+|...
T Consensus        85 ~~~~~~~d~ii~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  138 (188)
T 1zd9_A           85 ERYCRGVSAIVYMVDAADQEKIEA--SKNELHNLLDKPQLQGIPVLVLGNKRDLPG  138 (188)
T ss_dssp             HHHHTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCCEEEEEECTTSTT
T ss_pred             HHHHccCCEEEEEEECCCHHHHHH--HHHHHHHHHhCcccCCCCEEEEEECCCCcc
Confidence            556678899999999985544333  22333333321  13468999999999975

>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=99.65  E-value=6.9e-16  Score=120.53  Aligned_cols=118  Identities=20%  Similarity=0.218  Sum_probs=72.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +.++|+++|++|+|||||+|+|++.........   .+........ ...+.  .+.+|||||......           
T Consensus         3 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~---t~~~~~~~~~-~~~~~~~~~~i~Dt~G~~~~~~-----------   67 (189)
T 4dsu_A            3 TEYKLVVVGADGVGKSALTIQLIQNHFVDEYDP---TIEDSYRKQV-VIDGETCLLDILDTAGQEEYSA-----------   67 (189)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHSSCCCCCCT---TCCEEEEEEE-EETTEEEEEEEEECCCC---CT-----------
T ss_pred             cEEEEEEECCCCCCHHHHHHHHHhCCCCCCCCC---CchheEEEEE-EECCcEEEEEEEECCCcHHHHH-----------
Confidence            458999999999999999999998764222111   1111111212 22443  477899999765432           


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        68 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~i~v~nK~Dl~~  123 (189)
T 4dsu_A           68 MRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKD-SEDVPMVLVGNKCDLPS  123 (189)
T ss_dssp             THHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-CSCCCEEEEEECTTSSS
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEECccCcc
Confidence            22233445799999999985433333 334444444322 23468999999999874

>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=99.64  E-value=1.4e-15  Score=119.67  Aligned_cols=127  Identities=13%  Similarity=0.085  Sum_probs=80.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|+|||||++++++......     ..|.......+. .++..+.+|||||.....           ..
T Consensus        21 ~~~~ki~~vG~~~vGKSsli~~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~   83 (190)
T 1m2o_B           21 NKHGKLLFLGLDNAGKTTLLHMLKNDRLATL-----QPTWHPTSEELA-IGNIKFTTFDLGGHIQAR-----------RL   83 (190)
T ss_dssp             ---CEEEEEESTTSSHHHHHHHHHHSCCCCC-----CCCCSCEEEEEE-ETTEEEEEEECCCSGGGT-----------TS
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCcc-----ccCCCCCeEEEE-ECCEEEEEEECCCCHHHH-----------HH
Confidence            4557999999999999999999998754221     122222233333 367899999999986432           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      ...++..+|++++|+|++++.+...  ...++......  ....|+++|+||+|.... ....+.+++.
T Consensus        84 ~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~  150 (190)
T 1m2o_B           84 WKDYFPEVNGIVFLVDAADPERFDE--ARVELDALFNIAELKDVPFVILGNKIDAPNAVSEAELRSALG  150 (190)
T ss_dssp             GGGGCTTCCEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCCEEEEEECTTSTTCCCHHHHHHHTT
T ss_pred             HHHHHhcCCEEEEEEECCChHHHHH--HHHHHHHHHcchhhcCCCEEEEEECCCCcCCCCHHHHHHHhC
Confidence            3456678899999999986655443  22233333221  134689999999999752 1234444443

>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=99.64  E-value=8.3e-16  Score=121.50  Aligned_cols=129  Identities=14%  Similarity=0.090  Sum_probs=78.5

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      .+.....+|+|+|.+|||||||++.+++........ ....+.......+.......+.+|||||...+......     
T Consensus        15 ~~~~~~~ki~~vG~~~vGKTsLi~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~-----   88 (196)
T 3llu_A           15 YFQGSKPRILLMGLRRSGKSSIQKVVFHKMSPNETL-FLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFD-----   88 (196)
T ss_dssp             -----CCEEEEEESTTSSHHHHHHHHHSCCCGGGGG-GCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCC-----
T ss_pred             cccCcceEEEEECCCCCCHHHHHHHHHhcCCCccee-eeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhh-----
Confidence            344566899999999999999999999864322111 11111111111111124468999999998764322100     


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                         ...++.++|++|+|+|+++++......+..++.+........|+++|+||+|...
T Consensus        89 ---~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~l~~~~~~~~~~piilv~nK~Dl~~  143 (196)
T 3llu_A           89 ---YEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKVNPDMNFEVFIHKVDGLS  143 (196)
T ss_dssp             ---HHHHHHTCSEEEEEEETTSCCHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC
T ss_pred             ---cccccccCCEEEEEEECCCchHHHHHHHHHHHHHHHhcCCCCcEEEEEeccccCc
Confidence               0233456799999999987643444555566665422223468999999999875

>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=99.64  E-value=4.9e-16  Score=123.42  Aligned_cols=156  Identities=11%  Similarity=0.073  Sum_probs=89.0

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ..+..+|+|+|++|+|||||+|+|++........  ...+.......+... ....+.+|||||.....           
T Consensus         5 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~--~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-----------   71 (207)
T 1vg8_A            5 KKVLLKVIILGDSGVGKTSLMNQYVNKKFSNQYK--ATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQ-----------   71 (207)
T ss_dssp             --CEEEEEEECCTTSSHHHHHHHHHHSCCCSSCC--CCCSEEEEEEEEESSSCEEEEEEEEECSSGGGS-----------
T ss_pred             cCcceEEEEECcCCCCHHHHHHHHHcCCCCCCCC--CcccceEEEEEEEECCEEEEEEEEeCCCcHHHH-----------
Confidence            3456899999999999999999999876432221  122222222222221 23578999999975432           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc--cccCeEEEEEeCCCCCCCC--hhhHHHHHc-ccCCch
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK--KIFDYMIVVFTGGDELEDN--DETLEDYLG-RECPKP  168 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~~--~~~~~~~~~-~~~~~~  168 (253)
                      .....++..+|++|+|+|++++.+... ..++..+......  ....|+++|+||+|.....  ......+.. .....+
T Consensus        72 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~  151 (207)
T 1vg8_A           72 SLGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPY  151 (207)
T ss_dssp             CSCCGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCE
T ss_pred             HhHHHHHhCCcEEEEEEECCCHHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCcccccCHHHHHHHHHhcCCceE
Confidence            222345678899999999985433322 3344444443321  1235899999999987321  123333433 122234


Q ss_pred             hhhhHHHhhhHHHHHH
Q 025391          169 LKKGATKLRDQQFEVD  184 (253)
Q Consensus       169 l~~~~~~~~~~~~~~~  184 (253)
                      +..+......+..+++
T Consensus       152 ~~~Sa~~g~gi~~l~~  167 (207)
T 1vg8_A          152 FETSAKEAINVEQAFQ  167 (207)
T ss_dssp             EECBTTTTBSHHHHHH
T ss_pred             EEEeCCCCCCHHHHHH
Confidence            4444444444444443

>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=99.64  E-value=1.1e-15  Score=118.93  Aligned_cols=118  Identities=20%  Similarity=0.209  Sum_probs=73.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++|+|+|.+|+|||||+|+|++...........+.+    +.......+  ..+.+|||||...+..           
T Consensus         5 ~~~ki~~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~----~~~~~~~~~~~~~~~l~Dt~G~~~~~~-----------   69 (181)
T 3t5g_A            5 KSRKIAILGYRSVGKSSLTIQFVEGQFVDSYDPTIENT----FTKLITVNGQEYHLQLVDTAGQDEYSI-----------   69 (181)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCCEE----EEEEEEETTEEEEEEEEECCCCCTTCC-----------
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCCcccc----EEEEEEECCEEEEEEEEeCCCchhhhH-----------
Confidence            35899999999999999999999655322211111111    122222344  4678999999876532           


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++-+... ..++..+...+. ....|+++|+||+|...
T Consensus        70 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~  125 (181)
T 3t5g_A           70 FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVG-KVQIPIMLVGNKKDLHM  125 (181)
T ss_dssp             CCGGGTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHC-----CCEEEEEECTTCTT
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccchh
Confidence            22345678899999999985433333 233333433322 12358999999999864

>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=99.64  E-value=7e-16  Score=122.70  Aligned_cols=118  Identities=14%  Similarity=0.076  Sum_probs=77.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++|+|+|.+|+|||||+|+|++........  ...+.......+. .++  ..+.+|||||...           +..
T Consensus        25 ~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~-~~~~~~~l~l~Dt~G~~~-----------~~~   90 (201)
T 2ew1_A           25 FLFKIVLIGNAGVGKTCLVRRFTQGLFPPGQG--ATIGVDFMIKTVE-INGEKVKLQIWDTAGQER-----------FRS   90 (201)
T ss_dssp             EEEEEEEEESTTSSHHHHHHHHHHSSCCTTCC--CCCSEEEEEEEEE-ETTEEEEEEEEEECCSGG-----------GHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHHhCCCCCCCC--CccceeEEEEEEE-ECCEEEEEEEEECCCcHH-----------HHH
Confidence            34799999999999999999999775422211  1122222222222 233  4789999999632           334


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        91 ~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~NK~Dl~~  145 (201)
T 2ew1_A           91 ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYAS--NKVITVLVGNKIDLAE  145 (201)
T ss_dssp             HHGGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECGGGGG
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECCCCcc
Confidence            55677789999999999985433322 334444444322  2358999999999864

>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=99.64  E-value=3e-16  Score=123.30  Aligned_cols=120  Identities=18%  Similarity=0.104  Sum_probs=74.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+|+|++|+|||||+|+|++...........+.+.......+. .....+.+|||||.....           ...
T Consensus        14 ~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~~   81 (195)
T 1x3s_A           14 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVD-GNKAKLAIWDTAGQERFR-----------TLT   81 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEET-TEEEEEEEEEECSSGGGC-----------CSH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEEC-CeEEEEEEEeCCCchhhh-----------hhh
Confidence            45899999999999999999999876432222222222222222111 123578999999975432           223


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++.+...  ...++......  ....|+++|+||+|...
T Consensus        82 ~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~  135 (195)
T 1x3s_A           82 PSYYRGAQGVILVYDVTRRDTFVK--LDNWLNELETYCTRNDIVNMLVGNKIDKEN  135 (195)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHT--HHHHHHHHTTCCSCSCCEEEEEEECTTSSS
T ss_pred             HHHhccCCEEEEEEECcCHHHHHH--HHHHHHHHHHhcCcCCCcEEEEEECCcCcc
Confidence            344577899999999985433222  22333333221  12468999999999853

>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=99.64  E-value=7.1e-16  Score=122.46  Aligned_cols=151  Identities=12%  Similarity=0.040  Sum_probs=86.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+|+|.+|+|||||+|.|++.........+  .+.......+. .++  ..+.+|||||...           +..
T Consensus        28 ~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t--~~~~~~~~~~~-~~~~~~~l~i~Dt~G~~~-----------~~~   93 (201)
T 2hup_A           28 FLFKLVLVGDASVGKTCVVQRFKTGAFSERQGST--IGVDFTMKTLE-IQGKRVKLQIWDTAGQER-----------FRT   93 (201)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSCC------------CEEEEEEE-ETTEEEEEEEECCTTCGG-----------GHH
T ss_pred             cceEEEEECcCCCCHHHHHHHHhhCCCCCCCCCC--cceEEEEEEEE-ECCEEEEEEEEECCCcHh-----------HHH
Confidence            3479999999999999999999977542211111  11112122222 233  5889999999743           223


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCC-chhh
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECP-KPLK  170 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~-~~l~  170 (253)
                      ....++..+|++|+|+|++++.+... ..++..+....+  ...|++||+||+|....   ....+..+...... .++.
T Consensus        94 ~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~  171 (201)
T 2hup_A           94 ITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAG--SNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIE  171 (201)
T ss_dssp             HHHHHHTTCSEEEEEEETTBHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEE
T ss_pred             HHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEE
Confidence            44556678899999999985433322 334444444322  23589999999998641   12234444443222 3444


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+......++.++.
T Consensus       172 ~SA~~g~gi~~l~~  185 (201)
T 2hup_A          172 TSAKDSSNVEEAFL  185 (201)
T ss_dssp             CBTTTTBSHHHHHH
T ss_pred             EeCCCCCCHHHHHH
Confidence            44444444444443

>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=99.64  E-value=1.3e-15  Score=117.97  Aligned_cols=122  Identities=21%  Similarity=0.212  Sum_probs=74.9

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHH
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGK   91 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~   91 (253)
                      .+....++|+++|.+|+|||||+|+|++........    .|....+.......+  ..+.+|||||......-      
T Consensus         4 ~~~~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~------   73 (181)
T 2fn4_A            4 PPPSETHKLVVVGGGGVGKSALTIQFIQSYFVSDYD----PTIEDSYTKICSVDGIPARLDILDTAGQEEFGAM------   73 (181)
T ss_dssp             CCSSCEEEEEEEECTTSSHHHHHHHHHHSSCCSSCC----TTCCEEEEEEEEETTEEEEEEEEECCCTTTTSCC------
T ss_pred             CCCCCceEEEEECCCCCCHHHHHHHHHhCcCccccC----CCcCceEEEEEEECCEEEEEEEEECCCchhhHHH------
Confidence            344566899999999999999999999875422211    122111112222343  47889999998654321      


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                           ...++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        74 -----~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piilv~nK~Dl~~  128 (181)
T 2fn4_A           74 -----REQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKD-RDDFPVVLVGNKADLES  128 (181)
T ss_dssp             -----HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHT-SSCCCEEEEEECGGGGG
T ss_pred             -----HHHHHhhCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence                 1122345689999999985433222 233333323222 12358999999999864

>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=99.64  E-value=2.5e-15  Score=120.16  Aligned_cols=117  Identities=19%  Similarity=0.210  Sum_probs=75.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++|+|+|.+|+|||||+++|++........   +.+  .....+....  +..+.+|||||..           .+..
T Consensus         6 ~~~ki~vvG~~~~GKTsli~~l~~~~~~~~~~---~~~--~~~~~~~~~~~~~~~~~i~Dt~G~~-----------~~~~   69 (214)
T 2fh5_B            6 SQRAVLFVGLCDSGKTLLFVRLLTGQYRDTQT---SIT--DSSAIYKVNNNRGNSLTLIDLPGHE-----------SLRF   69 (214)
T ss_dssp             --CEEEEECSTTSSHHHHHHHHHHSCCCCBCC---CCS--CEEEEEECSSTTCCEEEEEECCCCH-----------HHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccccC---Ccc--eeeEEEEecCCCccEEEEEECCCCh-----------hHHH
Confidence            45899999999999999999999876422211   111  2222233221  5689999999983           2333


Q ss_pred             -HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhc----ccccCeEEEEEeCCCCCC
Q 025391           96 -CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG----KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 -~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g----~~~~~~~ivv~~k~D~~~  151 (253)
                       ....++.++|++|+|+|+++ +.........++...+.    .....|+++|+||+|...
T Consensus        70 ~~~~~~~~~~~~~i~v~d~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  129 (214)
T 2fh5_B           70 QLLDRFKSSARAVVFVVDSAA-FQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  129 (214)
T ss_dssp             HHHHHHGGGEEEEEEEEETTT-HHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             HHHHHHHhhCCEEEEEEECCC-cCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCC
Confidence             44555788899999999984 32223333344333321    122468999999999986

>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=99.64  E-value=2.9e-16  Score=123.49  Aligned_cols=120  Identities=13%  Similarity=0.062  Sum_probs=78.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+|+|.+|+|||||+|+|++...........+.+......... .....+.+|||||.           ..+....
T Consensus        22 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~-----------~~~~~~~   89 (191)
T 3dz8_A           22 YMFKLLIIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRH-EKRVKLQIWDTAGQ-----------ERYRTIT   89 (191)
T ss_dssp             ECEEEEEEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEET-TTTEEEEEECHHHH-----------HHCHHHH
T ss_pred             eeeEEEEECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEEC-CEEEEEEEEeCCCh-----------HHHHHHH
Confidence            45899999999999999999999865422222222222222222221 24568999999995           3344555


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++-+... ..++..+.....  ...|+++|+||+|...
T Consensus        90 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  142 (191)
T 3dz8_A           90 TAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSW--DNAQVILVGNKCDMEE  142 (191)
T ss_dssp             HHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECTTCGG
T ss_pred             HHHHccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC--CCCCEEEEEECCCCcc
Confidence            666788899999999985433322 334444544322  2358999999999863

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.64  E-value=1.7e-15  Score=119.87  Aligned_cols=119  Identities=22%  Similarity=0.131  Sum_probs=73.7

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      ...+..+|+++|.+|+|||||++.+++.... ....   .|....+.......+  ..+.+|||||...+..        
T Consensus        16 ~~~~~~ki~~~G~~~~GKssl~~~l~~~~~~-~~~~---~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~--------   83 (201)
T 2q3h_A           16 AEGRGVKCVLVGDGAVGKTSLVVSYTTNGYP-TEYI---PTAFDNFSAVVSVDGRPVRLQLCDTAGQDEFDK--------   83 (201)
T ss_dssp             ----CEEEEEECSTTSSHHHHHHHHHC------------CCSSEEEEEEEEETTEEEEEEEEECCCSTTCSS--------
T ss_pred             CCCcceEEEEECCCCCCHHHHHHHHHhCCCC-CCCC---CcccceeEEEEEECCEEEEEEEEECCCCHHHHH--------
Confidence            3455689999999999999999999987632 2111   111111111122344  3677999999876442        


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                         ....++.++|++|+|+|++++.+....  .++..+....+   ..|+++|+||+|...
T Consensus        84 ---~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~  138 (201)
T 2q3h_A           84 ---LRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP---KAPIILVGTQSDLRE  138 (201)
T ss_dssp             ---SGGGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCS---SSCEEEEEECGGGGG
T ss_pred             ---HhHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEECHhhhh
Confidence               233556788999999999855444432  34555555432   358999999999975

>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=99.64  E-value=2.2e-16  Score=126.75  Aligned_cols=119  Identities=21%  Similarity=0.217  Sum_probs=76.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..++|+|+|.+|+|||||+|+|++...........+.+.....  .....+  ..+.+|||||.......          
T Consensus        10 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~--~~~~~~~~~~~~l~Dt~G~~~~~~~----------   77 (218)
T 4djt_A           10 LTYKICLIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVT--FLDDQGNVIKFNVWDTAGQEKKAVL----------   77 (218)
T ss_dssp             CEEEEEEECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEE--EEBTTSCEEEEEEEEECSGGGTSCC----------
T ss_pred             CccEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEE--EEeCCCcEEEEEEEecCCchhhchH----------
Confidence            4589999999999999999999977643222222222222211  111122  57999999997654321          


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ...++..+|++|+|+|++++.+..+ ..++..+....+..  .|+++|+||+|...
T Consensus        78 -~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~--~piilv~nK~Dl~~  131 (218)
T 4djt_A           78 -KDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNE--APIVVCANKIDIKN  131 (218)
T ss_dssp             -CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCSS--SCEEEEEECTTCC-
T ss_pred             -HHHHhhcCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcCCC--CCEEEEEECCCCcc
Confidence             1234567899999999986554433 34445555544332  58999999999875

>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=99.63  E-value=1.6e-15  Score=115.98  Aligned_cols=117  Identities=19%  Similarity=0.173  Sum_probs=72.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|.+|+|||||+|+|++........    .|............  ...+.+|||||......           .
T Consensus         3 ~~ki~v~G~~~~GKssli~~l~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~-----------~   67 (167)
T 1c1y_A            3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYD----PTIEDSYRKQVEVDCQQCMLEILDTAGTEQFTA-----------M   67 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCC----CCSEEEEEEEEESSSCEEEEEEEEECSSCSSTT-----------H
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCCCC----CCccceEEEEEEECCEEEEEEEEECCChHHHHH-----------H
Confidence            4799999999999999999999865422211    11111111111122  34788999999865431           1


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        68 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  122 (167)
T 1c1y_A           68 RDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDLED  122 (167)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHC-CSCCCEEEEEECTTCGG
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-cCCCcEEEEEECccccc
Confidence            2223345689999999985433232 334444444322 22468999999999864

>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=99.63  E-value=2.4e-16  Score=122.03  Aligned_cols=117  Identities=14%  Similarity=0.097  Sum_probs=74.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+|+|++|+|||||+|+|++........  ...+.......+. ..+  ..+.+|||||.....           ..
T Consensus        14 ~~~i~v~G~~~~GKssli~~l~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~~~Dt~G~~~~~-----------~~   79 (179)
T 2y8e_A           14 KFKLVFLGEQSVGKTSLITRFMYDSFDNTYQ--ATIGIDFLSKTMY-LEDRTVRLQLWDTAGQERFR-----------SL   79 (179)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSCC--CCCSEEEEEEEEE-ETTEEEEEEEEEECCSGGGG-----------GG
T ss_pred             ceEEEEECCCCCCHHHHHHHHHcCCCCCCCC--CceeeEEEEEEEE-ECCeEEEEEEEECCCcHHHH-----------HH
Confidence            4899999999999999999999765432221  1222222222222 233  478999999975322           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+... ..++..+....+  ...|+++|+||+|...
T Consensus        80 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~piilv~nK~Dl~~  133 (179)
T 2y8e_A           80 IPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERG--SDVIIMLVGNKTDLSD  133 (179)
T ss_dssp             SHHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT--TSSEEEEEEECGGGGG
T ss_pred             HHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC--CCCcEEEEEECCcccc
Confidence            2334457799999999985433222 334444444332  2358999999999864

>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=99.63  E-value=1.6e-15  Score=118.24  Aligned_cols=116  Identities=15%  Similarity=0.133  Sum_probs=77.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|.+|+|||||+|+|++....... ...+.+    ...+. .++..+.+|||||.....           ..
T Consensus        19 ~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~-~t~~~~----~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~   81 (181)
T 2h17_A           19 SQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIGSN----VEEIV-INNTRFLMWDIGGQESLR-----------SS   81 (181)
T ss_dssp             --CEEEEEEEETTSSHHHHHHHHHTTSCEEEE-CCSSSS----CEEEE-ETTEEEEEEEESSSGGGT-----------CG
T ss_pred             CceeEEEEECCCCCCHHHHHHHHhcCCCCccC-CcCcee----eEEEE-ECCEEEEEEECCCCHhHH-----------HH
Confidence            35589999999999999999999987652111 122222    12233 367899999999985432           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+...  ...++......  ....|+++|+||+|...
T Consensus        82 ~~~~~~~~d~ii~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  136 (181)
T 2h17_A           82 WNTYYTNTEFVIVVVDSTDRERISV--TREELYKMLAHEDLRKAGLLIFANKQDVKE  136 (181)
T ss_dssp             GGGGGTTCCEEEEEEETTCTTTHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHHhChhhCCCeEEEEEECCCccc
Confidence            3456688899999999987655443  22333333221  13468999999999975

>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=99.63  E-value=1.3e-15  Score=116.36  Aligned_cols=118  Identities=19%  Similarity=0.162  Sum_probs=72.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +..+|+++|.+|+|||||+|+|++.........+.+...   ..... ..+  ..+.+|||||....           ..
T Consensus         3 ~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~l~D~~G~~~~-----------~~   67 (168)
T 1u8z_A            3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY---RKKVV-LDGEEVQIDILDTAGQEDY-----------AA   67 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE---EEEEE-ETTEEEEEEEEECCC---C-----------HH
T ss_pred             ceEEEEEECCCCCCHHHHHHHHHhCccCCCCCCCcceEE---EEEEE-ECCEEEEEEEEECCCcchh-----------HH
Confidence            348999999999999999999998764222111111111   11122 233  47899999997542           12


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        68 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  123 (168)
T 1u8z_A           68 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDLED  123 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHC-CTTSCEEEEEECGGGGG
T ss_pred             HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEECccccc
Confidence            33344456799999999985433332 334444444432 12358999999999864

>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=99.63  E-value=3.5e-15  Score=113.64  Aligned_cols=117  Identities=21%  Similarity=0.209  Sum_probs=72.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|.+|+|||||+|.|++...........+   ........ ..+  ..+.+|||||.....           ..
T Consensus         3 ~~~i~v~G~~~~GKssl~~~l~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~~~D~~G~~~~~-----------~~   67 (166)
T 2ce2_X            3 EYKLVVVGAGGVGKSALTIQLIQNHFVDECDPTIE---DSYRKQVV-IDGETCLLDILDTAGQEEYS-----------AM   67 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSSCCSCCCTTCC---EEEEEEEE-ETTEEEEEEEEECCCCSSCC-----------HH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCcCccccCCccc---eEEEEEEE-ECCEEEEEEEEECCCchhhh-----------HH
Confidence            37899999999999999999998754322111111   11111122 233  457899999986543           12


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|+++..+... ..++..+..... ....|+++|+||+|...
T Consensus        68 ~~~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~i~~~~~-~~~~p~iiv~nK~Dl~~  122 (166)
T 2ce2_X           68 RDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKD-SDDVPMVLVGNKSDLAA  122 (166)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHT-CSCCCEEEEEECTTCSC
T ss_pred             HHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEEchhhhh
Confidence            2233345689999999884433222 334444444332 12358999999999875

>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=99.63  E-value=1.4e-15  Score=119.82  Aligned_cols=117  Identities=15%  Similarity=0.119  Sum_probs=77.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ....+|+++|.+|+|||||+|+|++........    .|....+.......+  ..+.+|||||...+.           
T Consensus        21 ~~~~ki~~vG~~~~GKSsl~~~l~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~-----------   85 (194)
T 3reg_A           21 KKALKIVVVGDGAVGKTCLLLAFSKGEIPTAYV----PTVFENFSHVMKYKNEEFILHLWDTAGQEEYD-----------   85 (194)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSCCCSSCC----CCSEEEEEEEEEETTEEEEEEEEEECCSGGGT-----------
T ss_pred             ceeeEEEEECcCCCCHHHHHHHHhcCCCCCccC----CeeeeeeEEEEEECCEEEEEEEEECCCcHHHH-----------
Confidence            345899999999999999999999876422211    122222222222233  356899999975432           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++.++|++|+|+|++++.+...  ..++..+.....   ..|+++|+||+|...
T Consensus        86 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~  141 (194)
T 3reg_A           86 RLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID---TAKTVLVGLKVDLRK  141 (194)
T ss_dssp             TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TSEEEEEEECGGGCC
T ss_pred             HHhHhhccCCcEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhcc
Confidence            334566788999999999986544433  344455554322   358999999999874

>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=99.62  E-value=1.5e-15  Score=121.84  Aligned_cols=118  Identities=13%  Similarity=0.052  Sum_probs=77.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ....+|+|+|.+|+|||||++.|++.........+.+...   ...+.. .....+.+|||||...+.           .
T Consensus        25 ~~~~ki~vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~l~i~Dt~G~~~~~-----------~   90 (214)
T 3q3j_B           25 VARCKLVLVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY---TACLETEEQRVELSLWDTSGSPYYD-----------N   90 (214)
T ss_dssp             --CEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE---EEEEEC--CEEEEEEEEECCSGGGT-----------T
T ss_pred             cceEEEEEECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE---EEEEEECCEEEEEEEEECCCCHhHH-----------H
Confidence            3458999999999999999999998764322121211111   111111 123578999999975432           3


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++|++|+|+|++++.+...  ..++..+.....   ..|+++|+||+|...
T Consensus        91 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  145 (214)
T 3q3j_B           91 VRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYCP---STRVLLIGCKTDLRT  145 (214)
T ss_dssp             TGGGGCTTCSEEEEEEETTCTHHHHHHHTHHHHHHHHHCT---TSEEEEEEECGGGGG
T ss_pred             HHHHHcCCCeEEEEEEECcCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhcc
Confidence            34466788999999999986554443  345555555432   358999999999975

>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=99.62  E-value=5.7e-15  Score=112.74  Aligned_cols=113  Identities=14%  Similarity=0.081  Sum_probs=76.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+++|++|+|||||+|++++...... .    .|.......+. ..+..+.+|||||...           +......
T Consensus         1 ~ki~~~G~~~~GKssl~~~l~~~~~~~~-~----~t~~~~~~~~~-~~~~~~~i~Dt~G~~~-----------~~~~~~~   63 (164)
T 1r8s_A            1 MRILMVGLDAAGKTTILYKLKLGEIVTT-I----PTIGFNVETVE-YKNISFTVWDVGGQDK-----------IRPLWRH   63 (164)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCC-C----CCSSCCEEEEE-CSSCEEEEEECCCCGG-----------GHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCcCcc-c----CcCceeEEEEE-ECCEEEEEEEcCCChh-----------hHHHHHH
Confidence            4899999999999999999987654221 1    12222222333 3678899999999843           2244455


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ++.++|++++|+|++++-+...  ...++......  ....|+++|+||+|...
T Consensus        64 ~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  115 (164)
T 1r8s_A           64 YFQNTQGLIFVVDSNDRERVNE--AREELMRMLAEDELRDAVLLVFANKQDLPN  115 (164)
T ss_dssp             HTTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HhccCCEEEEEEECCCHHHHHH--HHHHHHHHHhchhhcCCeEEEEEECcCCcC
Confidence            6788999999999986544333  22344443321  12468999999999975

>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=99.62  E-value=1e-14  Score=113.83  Aligned_cols=116  Identities=17%  Similarity=0.153  Sum_probs=77.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|++|+|||||++.|++.......     .|.......+. .++..+.+|||||...           +...
T Consensus        14 ~~~~ki~ivG~~~vGKSsL~~~l~~~~~~~~~-----~t~g~~~~~~~-~~~~~l~i~Dt~G~~~-----------~~~~   76 (181)
T 1fzq_A           14 DQEVRILLLGLDNAGKTTLLKQLASEDISHIT-----PTQGFNIKSVQ-SQGFKLNVWDIGGQRK-----------IRPY   76 (181)
T ss_dssp             SSCEEEEEEESTTSSHHHHHHHHCCSCCEEEE-----EETTEEEEEEE-ETTEEEEEEECSSCGG-----------GHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHhcCCCCccc-----CcCCeEEEEEE-ECCEEEEEEECCCCHH-----------HHHH
Confidence            45689999999999999999999987532111     11111222233 3578899999999743           2234


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++-+...  ...++...+..  ....|+++|+||+|...
T Consensus        77 ~~~~~~~~~~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (181)
T 1fzq_A           77 WRSYFENTDILIYVIDSADRKRFEE--TGQELTELLEEEKLSCVPVLIFANKQDLLT  131 (181)
T ss_dssp             HHHHHTTCSEEEEEEETTCGGGHHH--HHHHHHHHTTCGGGTTCCEEEEEECTTSTT
T ss_pred             HHHHhCCCCEEEEEEECcCHHHHHH--HHHHHHHHHhChhhcCCCEEEEEECcCccc
Confidence            4556678899999999986544433  22333333221  12468999999999975

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.62  E-value=6.2e-14  Score=121.07  Aligned_cols=127  Identities=18%  Similarity=0.107  Sum_probs=83.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|.+|+|||||+|.|+|.......  ....|......... ..+..+.+|||||+.+..........  ...
T Consensus       165 ~~~~~v~lvG~~gvGKSTLin~L~~~~~~~~~--~~~~t~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~~~~~--~~~  239 (357)
T 2e87_A          165 LEIPTVVIAGHPNVGKSTLLKALTTAKPEIAS--YPFTTRGINVGQFE-DGYFRYQIIDTPGLLDRPISERNEIE--KQA  239 (357)
T ss_dssp             SSSCEEEEECSTTSSHHHHHHHHCSSCCEEEC--CTTCSSCEEEEEEE-ETTEEEEEEECTTTSSSCSTTSCHHH--HHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCccCC--CCCeeeceeEEEEE-ecCceEEEEeCCCccccchhhhhHHH--HHH
Confidence            45589999999999999999999998642221  12233333333333 35778999999999764332211111  122


Q ss_pred             HHhhcCCccEEEEEEeCCCCC--CHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRF--SQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~--~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +......+|++|+|+|+++..  +... ..++..+...++   ..|+++|+||+|...
T Consensus       240 ~~~~~~~ad~illV~D~s~~~~~~~~~~~~~~~~i~~~~~---~~piilV~NK~Dl~~  294 (357)
T 2e87_A          240 ILALRYLGNLIIYIFDPSEHCGFPLEEQIHLFEEVHGEFK---DLPFLVVINKIDVAD  294 (357)
T ss_dssp             HHGGGGTCSEEEEEECTTCTTSSCHHHHHHHHHHHHHHTT---TSCEEEEECCTTTCC
T ss_pred             HHHHHhcCCEEEEEEeCCccccCCHHHHHHHHHHHHHhcC---CCCEEEEEECcccCC
Confidence            333445679999999987543  5544 455666666543   358999999999986

>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=99.62  E-value=7.1e-16  Score=123.02  Aligned_cols=119  Identities=14%  Similarity=0.176  Sum_probs=75.5

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      ....++|+|+|++|+|||||+|+|++..........  .+.......+. ..+  ..+.+|||||......         
T Consensus        17 ~~~~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~~~~l~Dt~G~~~~~~---------   84 (213)
T 3cph_A           17 YDSIMKILLIGDSGVGKSCLLVRFVEDKFNPSFITT--IGIDFKIKTVD-INGKKVKLQLWDTAGQERFRT---------   84 (213)
T ss_dssp             ---CEEEEEECSTTSSHHHHHHHHHHCCCCCSSSCC--CSCCEEEEEEE-ETTEEEEEEEECCTTGGGGTC---------
T ss_pred             CCcceEEEEECCCCCCHHHHHHHHHhCCCCcccCCc--ccceEEEEEEE-ECCEEEEEEEEeCCCcHHHHH---------
Confidence            345689999999999999999999987643222222  22222222232 244  5789999999754321         


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                        ....++..+|++|+|+|++++.+... ..++..+....+.  ..|+++|+||+|..
T Consensus        85 --~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~piilv~nK~Dl~  138 (213)
T 3cph_A           85 --ITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHAND--EAQLLLVGNKSDME  138 (213)
T ss_dssp             --CCHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHTTT--CSEEEEEEECTTCS
T ss_pred             --HHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcCC--CCCEEEEEECCCCc
Confidence              22344577899999999985433322 3444555444322  35899999999984

>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=99.62  E-value=1.6e-15  Score=120.39  Aligned_cols=123  Identities=17%  Similarity=0.102  Sum_probs=77.5

Q ss_pred             CCCCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHH
Q 025391           11 ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEF   88 (253)
Q Consensus        11 ~~~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~   88 (253)
                      ...+.....++|+++|.+|+|||||++++++...........+....   ..+. ..+  ..+.+|||||.....     
T Consensus        17 ~~~~m~~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~---~~~~-~~~~~~~l~i~Dt~G~~~~~-----   87 (201)
T 2gco_A           17 RGSHMAAIRKKLVIVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI---ADIE-VDGKQVELALWDTAGQEDYD-----   87 (201)
T ss_dssp             -----CCEEEEEEEEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE---EEEE-ETTEEEEEEEECCCCSGGGT-----
T ss_pred             CCCCCcccceEEEEECCCCCCHHHHHHHHHhCcCCcccCCcccceEE---EEEE-ECCEEEEEEEEECCCchhHH-----
Confidence            33445556689999999999999999999987653222111111111   1122 233  478999999975432     


Q ss_pred             HHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           89 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                            .....++..+|++|+|+|++++.+...  ..++..+.....   ..|+++|+||+|...
T Consensus        88 ------~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  143 (201)
T 2gco_A           88 ------RLRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCP---NVPIILVGNKKDLRQ  143 (201)
T ss_dssp             ------TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECGGGTT
T ss_pred             ------HHHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEecHHhhc
Confidence                  233456788899999999985433333  234455554322   358999999999986

>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=99.62  E-value=7.6e-15  Score=116.30  Aligned_cols=119  Identities=18%  Similarity=0.149  Sum_probs=74.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+.++|+|+|.+|+|||||+|.|++.........+.+.   .....+. ..+  ..+.+|||||.....           
T Consensus        12 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~---~~~~~~~-~~~~~~~~~l~Dt~G~~~~~-----------   76 (206)
T 2bov_A           12 LALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKAD---SYRKKVV-LDGEEVQIDILDTAGQEDYA-----------   76 (206)
T ss_dssp             CCEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCTTCCE---EEEEEEE-ETTEEEEEEEEECCCTTCCH-----------
T ss_pred             CceEEEEEECCCCCCHHHHHHHHHhCCCCCCCCCccce---EEEEEEE-ECCEEEEEEEEcCCChhhhH-----------
Confidence            34589999999999999999999987642221111111   1112222 233  378999999976532           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++++|+|+++..+... ..++..+..... ....|++||+||+|...
T Consensus        77 ~~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  133 (206)
T 2bov_A           77 AIRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDLED  133 (206)
T ss_dssp             HHHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-CSCCCEEEEEECTTCGG
T ss_pred             HHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEeccCccc
Confidence            222333456799999999985433322 334444444332 12468999999999864

>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=99.62  E-value=5.9e-15  Score=127.60  Aligned_cols=132  Identities=17%  Similarity=0.143  Sum_probs=81.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc--cce---------------------------------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG--VTS---------------------------------------   56 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~--~t~---------------------------------------   56 (253)
                      .-++|+|||++|||||||+|+|+|...++.+.....  .+.                                       
T Consensus        33 ~lp~I~vvG~~~sGKSSLln~l~g~~~lp~~~~~vT~~p~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~i~~~~~  112 (360)
T 3t34_A           33 SLPAIAVVGGQSSGKSSVLESIVGKDFLPRGSGIVTRRPLVLQLQKIDDGTREYAEFLHLPRKKFTDFAAVRKEIQDETD  112 (360)
T ss_dssp             CCCEEEEECBTTSSHHHHHHHHHTSCCSCCCSSSCCCSCEEEEEEECSSCSCCEEEETTSTTCCBSCHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCcHHHHHHHHhCCCcCCCCCCcccCcceEEEEecCCCcccceeeeecCCCcccCCHHHHHHHHHHHHH
Confidence            346999999999999999999999775433321110  000                                       


Q ss_pred             -----------eeeeeeeEeeCCeEEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHH
Q 025391           57 -----------TCEMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA  123 (253)
Q Consensus        57 -----------~~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~  123 (253)
                                 ......+.......+++|||||+......  .......+...+..++.++|++|+|+++. ..+.....
T Consensus       113 ~~~g~~~~~s~~~i~l~i~~~~~~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~-~~~~~~~~  191 (360)
T 3t34_A          113 RETGRSKAISSVPIHLSIYSPNVVNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPA-NQDLATSD  191 (360)
T ss_dssp             HTSCTTCCCCCSCEEEEEEETTSCSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEET-TSCGGGCH
T ss_pred             HhcCCCCCcccceEEEEEeCCCCCCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecc-cCCcCCHH
Confidence                       00000111123457899999999875321  22344566666777778999999998765 22222233


Q ss_pred             HHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391          124 ALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus       124 ~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ++..+.....  ...|+++|+||+|....
T Consensus       192 ~~~l~~~~~~--~~~~~i~V~nK~Dl~~~  218 (360)
T 3t34_A          192 AIKISREVDP--SGDRTFGVLTKIDLMDK  218 (360)
T ss_dssp             HHHHHHHSCT--TCTTEEEEEECGGGCCT
T ss_pred             HHHHHHHhcc--cCCCEEEEEeCCccCCC
Confidence            4444444321  23579999999999863

>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=99.62  E-value=2.4e-15  Score=134.15  Aligned_cols=125  Identities=18%  Similarity=0.184  Sum_probs=66.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|++|+|||||+|+|++........ ..++|.......+. .++..+.+|||||+.++....+   ........
T Consensus       233 ~~kV~ivG~~nvGKSSLln~L~~~~~a~vs~-~~gtT~d~~~~~i~-~~g~~l~liDT~G~~~~~~~ve---~~gi~~~~  307 (476)
T 3gee_A          233 GVSTVIAGKPNAGKSTLLNTLLGQERAIVSH-MPGTTRDYIEECFI-HDKTMFRLTDTAGLREAGEEIE---HEGIRRSR  307 (476)
T ss_dssp             CEEEEEECCTTSSHHHHHHHCC-------------------CEEEE-ETTEEEEEEC-----------------------
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCcccCC-CCCceEEEEEEEEE-ECCeEEEEEECCCCCcchhHHH---HHHHHHHH
Confidence            4789999999999999999999985422221 22344444334344 4788999999999975332111   11112234


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      .++..+|++|+|+|++++.+.... ....++.. +.   ..|+++|+||+|....
T Consensus       308 ~~~~~aD~vl~VvD~s~~~s~~~~~~~~~~l~~-l~---~~piIvV~NK~Dl~~~  358 (476)
T 3gee_A          308 MKMAEADLILYLLDLGTERLDDELTEIRELKAA-HP---AAKFLTVANKLDRAAN  358 (476)
T ss_dssp             CCCSSCSEEEEEEETTTCSSGGGHHHHHHHHHH-CT---TSEEEEEEECTTSCTT
T ss_pred             hhcccCCEEEEEEECCCCcchhhhHHHHHHHHh-cC---CCCEEEEEECcCCCCc
Confidence            456889999999999977776321 12222222 22   3589999999999863

>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=99.62  E-value=1.8e-15  Score=117.85  Aligned_cols=124  Identities=23%  Similarity=0.203  Sum_probs=74.6

Q ss_pred             CCCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHH
Q 025391           12 LTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        12 ~~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~   89 (253)
                      +++...+.++|+|+|++|+|||||+|+|++.........    +....+.......+.  .+.+|||||......     
T Consensus        11 ~~~~~~~~~ki~v~G~~~~GKSsl~~~l~~~~~~~~~~~----t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~-----   81 (183)
T 3kkq_A           11 VPSENLPTYKLVVVGDGGVGKSALTIQFFQKIFVDDYDP----TIEDSYLKHTEIDNQWAILDVLDTAGQEEFSA-----   81 (183)
T ss_dssp             ---CCCCEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCT----TCCEEEEEEEEETTEEEEEEEEECCSCGGGCS-----
T ss_pred             CCccCCCceEEEEECCCCCCHHHHHHHHHhCCCCCCCCC----CccceeEEEEEeCCcEEEEEEEECCCchhhHH-----
Confidence            344555678999999999999999999997644222211    111111222223444  466799999754332     


Q ss_pred             HHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                            ....++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        82 ------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~  137 (183)
T 3kkq_A           82 ------MREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKD-RESFPMILVANKVDLMH  137 (183)
T ss_dssp             ------SHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT-SSCCCEEEEEECTTCST
T ss_pred             ------HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCcEEEEEECCCchh
Confidence                  12233345699999999985433322 334444444322 22358999999999864

>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=99.62  E-value=4e-15  Score=116.63  Aligned_cols=118  Identities=19%  Similarity=0.177  Sum_probs=70.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +..+|+++|.+|+|||||+|.|++.........   .+.......+. ..+  ..+.+|||||....           ..
T Consensus        20 ~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~---t~~~~~~~~~~-~~~~~~~~~l~Dt~G~~~~-----------~~   84 (190)
T 3con_A           20 TEYKLVVVGAGGVGKSALTIQLIQNHFVDEYDP---TIEDSYRKQVV-IDGETCLLDILDTAGQEEY-----------SA   84 (190)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSSCCSCCCT---TCCEEEEEEEE-ETTEEEEEEEEECCC-----------------
T ss_pred             ceeEEEEECcCCCCHHHHHHHHHcCCCccccCC---ccceEEEEEEE-ECCEEEEEEEEECCChHHH-----------HH
Confidence            347999999999999999999998754221111   11111111222 233  45889999997532           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|+++..+..+ ..++..+..... ....|+++|+||+|...
T Consensus        85 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~p~ilv~nK~Dl~~  140 (190)
T 3con_A           85 MRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKD-SDDVPMVLVGNKCDLPT  140 (190)
T ss_dssp             -----CTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHT-CSCCCEEEEEECTTCSC
T ss_pred             HHHHhhCcCCEEEEEEECcCHHHHHHHHHHHHHHHHHhC-CCCCeEEEEEECCcCCc
Confidence            44556678899999999985443333 333444444322 12358999999999874

>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=99.62  E-value=7.4e-16  Score=137.30  Aligned_cols=123  Identities=22%  Similarity=0.180  Sum_probs=82.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+|||.+|+|||||+|+|+|...... ....+.|......... +.+..+.+|||||+.....   ....++.....
T Consensus        23 ~~~V~lvG~~nvGKSTL~n~l~~~~~~~v-~~~~g~t~~~~~~~~~-~~~~~~~liDT~G~~~~~~---~~~~~~~~~~~   97 (456)
T 4dcu_A           23 KPVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAE-WLNYDFNLIDTGGIDIGDE---PFLAQIRQQAE   97 (456)
T ss_dssp             CCEEEEECSSSSSHHHHHHHHEEEEEC------------CEEEECT-TCSSCCEEECCCC---------CCHHHHHHHHH
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCccc-CCCCCcceeEEEEEEE-ECCceEEEEECCCCCCcch---HHHHHHHHHHH
Confidence            47999999999999999999999765322 2234556555555444 4678999999999874322   22356666666


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++|+|+|....++..+..+.+++.+     ...|+++|+||+|...
T Consensus        98 ~~~~~ad~il~VvD~~~~~~~~d~~l~~~l~~-----~~~pvilV~NK~D~~~  145 (456)
T 4dcu_A           98 IAMDEADVIIFMVNGREGVTAADEEVAKILYR-----TKKPVVLAVNKLDNTE  145 (456)
T ss_dssp             HHHHHCSEEEEEEESSSCSCHHHHHHHHHHTT-----CCSCEEEEEECC----
T ss_pred             hhHhhCCEEEEEEeCCCCCChHHHHHHHHHHH-----cCCCEEEEEECccchh
Confidence            67778899999999988899998877777654     2358999999999874

>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=99.62  E-value=3.3e-15  Score=119.67  Aligned_cols=117  Identities=14%  Similarity=0.079  Sum_probs=74.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee--eeeEeeC-----------CeEEEEEeCCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM--QRTVLKD-----------GQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~--~~~~~~~-----------~~~~~liDtpG~~~~~~   84 (253)
                      ..++|+|+|.+|+|||||+|+|++......    ...|....+  ..+....           ...+.+|||||.     
T Consensus        24 ~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~----~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~-----   94 (217)
T 2f7s_A           24 YLIKLLALGDSGVGKTTFLYRYTDNKFNPK----FITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ-----   94 (217)
T ss_dssp             EEEEEEEESCTTSSHHHHHHHHHCSCCCCE----EEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESH-----
T ss_pred             eeEEEEEECcCCCCHHHHHHHHhcCCCCcC----CCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCc-----
Confidence            347999999999999999999998754211    111221111  1122111           357999999995     


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                            ..+......++..+|++|+|+|+++..+...  ...++.......  ...|++||+||+|...
T Consensus        95 ------~~~~~~~~~~~~~~d~iilV~D~~~~~s~~~--~~~~l~~i~~~~~~~~~piilV~NK~Dl~~  155 (217)
T 2f7s_A           95 ------ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLN--VRNWMSQLQANAYCENPDIVLIGNKADLPD  155 (217)
T ss_dssp             ------HHHHHHHHHHHTTCCEEEEEEETTCHHHHHH--HHHHHHTCCCCCTTTCCEEEEEEECTTCGG
T ss_pred             ------HhHHhHHHHHhcCCCEEEEEEECcCHHHHHH--HHHHHHHHHHhcCcCCCCEEEEEECCcccc
Confidence                  3444555666788899999999984333222  223444332211  2468999999999864

>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=99.62  E-value=2.4e-15  Score=117.99  Aligned_cols=121  Identities=14%  Similarity=0.068  Sum_probs=77.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..+.++|+|+|.+|+|||||+|+|++...+....   ..|.......+. ..+..+.+|||||.....           .
T Consensus        18 ~~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~---~~t~~~~~~~~~-~~~~~~~l~Dt~G~~~~~-----------~   82 (190)
T 2h57_A           18 GSKEVHVLCLGLDNSGKTTIINKLKPSNAQSQNI---LPTIGFSIEKFK-SSSLSFTVFDMSGQGRYR-----------N   82 (190)
T ss_dssp             ---CEEEEEEECTTSSHHHHHHHTSCGGGCCSSC---CCCSSEEEEEEE-CSSCEEEEEEECCSTTTG-----------G
T ss_pred             CCCccEEEEECCCCCCHHHHHHHHhcCCCCCCCc---CCccceeEEEEE-ECCEEEEEEECCCCHHHH-----------H
Confidence            3456899999999999999999999886322221   123223333333 357899999999976532           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc-cccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~-~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+... ..++..+...... ....|+++|+||+|...
T Consensus        83 ~~~~~~~~~d~ii~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  140 (190)
T 2h57_A           83 LWEHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD  140 (190)
T ss_dssp             GGGGGGGGCSEEEEEEETTCHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT
T ss_pred             HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc
Confidence            33455678899999999985433222 2233333222110 02468999999999975

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.62  E-value=4.2e-15  Score=125.80  Aligned_cols=125  Identities=19%  Similarity=0.178  Sum_probs=83.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH-HHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI-VKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~-~~~~   97 (253)
                      ..+|+|+|.+|+|||||+|.+++....... ...+.|...........++..+.+|||||...+       ...+ ....
T Consensus         3 ~~KI~lvG~~~vGKSSLi~~l~~~~~~~~~-~~~~~Ti~~~~~~~~~~~~~~l~i~Dt~G~~~~-------~~~~~~~~~   74 (307)
T 3r7w_A            3 GSKLLLMGRSGSGKSSMRSIIFSNYSAFDT-RRLGATIDVEHSHLRFLGNMTLNLWDCGGQDVF-------MENYFTKQK   74 (307)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHSCCCTGGG-GGCCCCCSEEEEEEEETTTEEEEEEEECCSHHH-------HHHHHTTTH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHhCCCCccc-cCcCCccceEEEEEEeCCceEEEEEECCCcHHH-------hhhhhhhHH
Confidence            479999999999999999999887432221 123445555555444335778999999997421       1111 2334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++.+..+. .+..++..........|+++|+||+|...
T Consensus        75 ~~~~~~ad~vi~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~  129 (307)
T 3r7w_A           75 DHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQ  129 (307)
T ss_dssp             HHHHTTCSEEEEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSC
T ss_pred             HHHhccCCEEEEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccc
Confidence            4556789999999999966665553 34444544432222368999999999975

>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=99.62  E-value=6.7e-15  Score=113.04  Aligned_cols=119  Identities=18%  Similarity=0.248  Sum_probs=72.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|++|+|||||+|+|+|...+....  .+.|.......+. ..+..+.+|||||+..+.....  .+.+.....
T Consensus         3 ~~~v~lvG~~gvGKStL~~~l~~~~~~~~~~--~~~t~~~~~~~~~-~~~~~l~i~Dt~G~~~~~~~~~--~~~~~~~~~   77 (165)
T 2wji_A            3 SYEIALIGNPNVGKSTIFNALTGENVYIGNW--PGVTVEKKEGEFE-YNGEKFKVVDLPGVYSLTANSI--DEIIARDYI   77 (165)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCCSSSCC-------CCCCCEEEEE-ETTEEEEEEECCCCSCSSSSSH--HHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCeeccCC--CCcceeeeEEEEE-ECCcEEEEEECCCcccCCCcch--hHHHHHHHH
Confidence            3799999999999999999999975432211  1223333333333 3578899999999987543221  122222211


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      . ..++|++++|+|+++ .. ....++..+.+     ...|+++|+||+|..
T Consensus        78 ~-~~~~~~~i~v~D~~~-~~-~~~~~~~~~~~-----~~~p~ilv~nK~Dl~  121 (165)
T 2wji_A           78 I-NEKPDLVVNIVDATA-LE-RNLYLTLQLME-----MGANLLLALNKMDLA  121 (165)
T ss_dssp             H-HHCCSEEEEEEETTC-HH-HHHHHHHHHHH-----TTCCEEEEEECHHHH
T ss_pred             h-cCCCCEEEEEecCCc-hh-HhHHHHHHHHh-----cCCCEEEEEEchHhc
Confidence            1 136799999999974 21 12223333332     135899999999975

>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=99.61  E-value=3.1e-15  Score=114.15  Aligned_cols=117  Identities=18%  Similarity=0.156  Sum_probs=72.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|++|+|||||+|++++.........+.+   ........ ..+  ..+.+|||||.....           ..
T Consensus         3 ~~~i~v~G~~~~GKSsli~~l~~~~~~~~~~~~~~---~~~~~~~~-~~~~~~~~~l~D~~G~~~~~-----------~~   67 (167)
T 1kao_A            3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE---DFYRKEIE-VDSSPSVLEILDTAGTEQFA-----------SM   67 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC---EEEEEEEE-ETTEEEEEEEEECCCTTCCH-----------HH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCcccCCCCcc---eeEEEEEE-ECCEEEEEEEEECCCchhhH-----------HH
Confidence            47999999999999999999997654322211111   11112222 233  358899999975431           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        68 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  122 (167)
T 1kao_A           68 RDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKR-YEKVPVILVGNKVDLES  122 (167)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-TSCCCEEEEEECGGGGG
T ss_pred             HHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECCcccc
Confidence            2233455689999999985433322 333444444322 12468999999999864

>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=99.61  E-value=1.3e-14  Score=113.58  Aligned_cols=116  Identities=15%  Similarity=0.138  Sum_probs=75.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|.+|+|||||+|+|++....... .+.+    .....+. .++..+.+|||||.....           ..
T Consensus        14 ~~~~~i~v~G~~~~GKssl~~~l~~~~~~~~~-~t~~----~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~~   76 (187)
T 1zj6_A           14 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTS-PTIG----SNVEEIV-INNTRFLMWDIGGQESLR-----------SS   76 (187)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEE-CCSC----SSCEEEE-ETTEEEEEEECCC----C-----------GG
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCCCcCc-CCCc----cceEEEE-ECCEEEEEEECCCCHhHH-----------HH
Confidence            34589999999999999999999976653221 1112    1122233 367899999999985432           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++|+|+|++++-+...  ...++......  ....|+++|+||+|...
T Consensus        77 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~  131 (187)
T 1zj6_A           77 WNTYYTNTEFVIVVVDSTDRERISV--TREELYKMLAHEDLRKAGLLIFANKQDVKE  131 (187)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHH--HHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHhcCCCEEEEEEeCCCHHHHHH--HHHHHHHHHhchhhCCCeEEEEEECCCCcC
Confidence            2344578899999999986655444  22233333221  13468999999999975

>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=99.61  E-value=2.7e-15  Score=116.79  Aligned_cols=118  Identities=19%  Similarity=0.167  Sum_probs=74.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +.++|+|+|++|+|||||+|+|++.........+.+   ........ ..+  ..+.+|||||.....           .
T Consensus        17 ~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~---~~~~~~~~-~~~~~~~~~l~Dt~G~~~~~-----------~   81 (187)
T 2a9k_A           17 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEPTKA---DSYRKKVV-LDGEEVQIDILDTAGQEDYA-----------A   81 (187)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCCSCCTTCC---EEEEEEEE-ETTEEEEEEEEECCCTTCCH-----------H
T ss_pred             CceEEEEECCCCCCHHHHHHHHhhCCCCCcCCCccc---eEEEEEEE-ECCEEEEEEEEECCCCcccH-----------H
Confidence            458999999999999999999998764222111111   11111122 233  478999999976431           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        82 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  137 (187)
T 2a9k_A           82 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDLED  137 (187)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHC-CTTCCEEEEEECGGGGG
T ss_pred             HHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEEECccccc
Confidence            22333456799999999985433222 334444444432 12358999999999864

>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=99.61  E-value=3.7e-15  Score=115.95  Aligned_cols=127  Identities=15%  Similarity=0.143  Sum_probs=79.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|+|||||+|++++....... .+.+    .....+. ..+..+.+|||||......           .
T Consensus        16 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~-~t~~----~~~~~~~-~~~~~~~i~Dt~G~~~~~~-----------~   78 (183)
T 1moz_A           16 NKELRILILGLDGAGKTTILYRLQIGEVVTTK-PTIG----FNVETLS-YKNLKLNVWDLGGQTSIRP-----------Y   78 (183)
T ss_dssp             SSCEEEEEEEETTSSHHHHHHHTCCSEEEEEC-SSTT----CCEEEEE-ETTEEEEEEEEC----CCT-----------T
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhcCCcCccC-CcCc----cceEEEE-ECCEEEEEEECCCCHhHHH-----------H
Confidence            45689999999999999999999976542221 1112    1122233 3578999999999865432           2


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCCC-hhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELEDN-DETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~~-~~~~~~~~~  162 (253)
                      ...++..+|++++|+|++++.+...  ...++......  ....|+++|+||+|..... ...+.+++.
T Consensus        79 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~i~~~~~  145 (183)
T 1moz_A           79 WRCYYADTAAVIFVVDSTDKDRMST--ASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELN  145 (183)
T ss_dssp             GGGTTTTEEEEEEEEETTCTTTHHH--HHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTT
T ss_pred             HHHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHHcChhhCCCeEEEEEECCCCCCCCCHHHHHHHhC
Confidence            3455678899999999986655443  23344444322  2346899999999987521 234444443

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.61  E-value=1.2e-15  Score=123.16  Aligned_cols=119  Identities=18%  Similarity=0.136  Sum_probs=74.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...++|+|+|++|+|||||+|.|++.........+.+.+...  ..+. ..+  ..+.+|||||...+.           
T Consensus        11 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~--~~~~-~~~~~~~~~i~Dt~G~~~~~-----------   76 (223)
T 3cpj_B           11 DLLFKIVLIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFAT--RTLE-IEGKRIKAQIWDTAGQERYR-----------   76 (223)
T ss_dssp             CEEEEEEEESCTTSSHHHHHHHHHHCCCCC------CCSEEE--EEEE-ETTEEEEEEEECCTTTTTTT-----------
T ss_pred             CeeeEEEEECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEE--EEEE-ECCEEEEEEEEECCCccchh-----------
Confidence            345899999999999999999999876532222222222221  2222 233  578999999976543           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++.+... ..++..+.....  ...|++||+||+|...
T Consensus        77 ~~~~~~~~~~d~vilV~D~~~~~s~~~~~~~l~~i~~~~~--~~~piilv~nK~Dl~~  132 (223)
T 3cpj_B           77 AITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENAD--DNVAVGLIGNKSDLAH  132 (223)
T ss_dssp             CCCGGGTTTCCEEEEEEC-CCHHHHHHHHHHHHHHHHHCC----CEEEEEECCGGGGG
T ss_pred             hhHHHHhccCCEEEEEEeCCCHHHHHHHHHHHHHHHHhCC--CCCeEEEEEECccccc
Confidence            223456678899999999985544333 333444444322  2358999999999864

>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=99.61  E-value=2.3e-15  Score=115.48  Aligned_cols=152  Identities=20%  Similarity=0.098  Sum_probs=79.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++|+++|++|+|||||+|+|++.........+.  +.......+. ..+  ..+.+|||||......          ..
T Consensus         2 ~~ki~ivG~~~~GKSsli~~l~~~~~~~~~~~~~--~~~~~~~~~~-~~~~~~~~~i~D~~g~~~~~~----------~~   68 (169)
T 3q85_A            2 VFKVMLVGESGVGKSTLAGTFGGLQGDHAHEMEN--SEDTYERRIM-VDKEEVTLIVYDIWEQGDAGG----------WL   68 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHCC--------------CEEEEEEE-ETTEEEEEEEECCCCC-----------------
T ss_pred             cEEEEEECCCCCCHHHHHHHHHhccCcccccCCC--cCCeeeEEEE-ECCeEEEEEEEECCCccccch----------hh
Confidence            3799999999999999999999765422222221  2222222222 233  4678999999865321          01


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++..+|++++|+|++++-+... ..++..+..... ....|+++|+||+|.....   ......+.......++..+
T Consensus        69 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~S  147 (169)
T 3q85_A           69 QDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRP-HHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETS  147 (169)
T ss_dssp             -CHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHST-TSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECB
T ss_pred             hhhhhccCCEEEEEEECCChHHHHHHHHHHHHHHhccc-CCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEec
Confidence            1222345699999999985433222 233333333321 1246899999999986311   2233334433333444444


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      ......+.+++.
T Consensus       148 a~~~~~v~~l~~  159 (169)
T 3q85_A          148 AALHHNTRELFE  159 (169)
T ss_dssp             TTTTBSHHHHHH
T ss_pred             CccCCCHHHHHH
Confidence            444444444443

>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=99.61  E-value=2.8e-15  Score=118.29  Aligned_cols=127  Identities=20%  Similarity=0.140  Sum_probs=73.7

Q ss_pred             CCCCCCCCC-CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCC
Q 025391            8 DDWELTSPS-NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSA   84 (253)
Q Consensus         8 ~~~~~~~~~-~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~   84 (253)
                      .+|++.+.. .+..+|+|+|.+|+|||||+|+|++.........+.+    ..+.......  ...+.+|||||... . 
T Consensus        16 ~~~~~~~~~~~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~----~~~~~~~~~~~~~~~~~l~Dt~G~~~-~-   89 (196)
T 2atv_A           16 ENLYFQSMAKSAEVKLAIFGRAGVGKSALVVRFLTKRFIWEYDPTLE----STYRHQATIDDEVVSMEILDTAGQED-T-   89 (196)
T ss_dssp             -----------CCEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC----EEEEEEEEETTEEEEEEEEECCCCCC-C-
T ss_pred             cccchhccCCCCceEEEEECCCCCCHHHHHHHHHhCCCCcccCCCCC----ceEEEEEEECCEEEEEEEEECCCCCc-c-
Confidence            456665543 4568999999999999999999998764322111111    1111111123  35689999999865 1 


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                                .....++..+|++|+|+|++++.+... ..++..+..... ....|+++|+||+|...
T Consensus        90 ----------~~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~NK~Dl~~  146 (196)
T 2atv_A           90 ----------IQREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKK-PKNVTLILVGNKADLDH  146 (196)
T ss_dssp             ----------HHHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHT-TSCCCEEEEEECGGGGG
T ss_pred             ----------cchhhhhccCCEEEEEEECcCHHHHHHHHHHHHHHHHhhC-CCCCcEEEEEECccccc
Confidence                      122233345689999999985433322 334444544322 22458999999999864

>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=99.61  E-value=4.7e-15  Score=116.66  Aligned_cols=116  Identities=17%  Similarity=0.076  Sum_probs=76.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+++|.+|+|||||++.|++.........+.+...   ...+. ..+  ..+.+|||||...+.           .
T Consensus        17 ~~~ki~v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~i~D~~G~~~~~-----------~   81 (194)
T 2atx_A           17 LMLKCVVVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY---AVSVT-VGGKQYLLGLYDTAGQEDYD-----------R   81 (194)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE---EEEEE-SSSCEEEEEEECCCCSSSST-----------T
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccccee---EEEEE-ECCEEEEEEEEECCCCcchh-----------H
Confidence            457999999999999999999998753221111111111   11122 233  578899999987543           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        82 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  136 (194)
T 2atx_A           82 LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAP---NVPFLLIGTQIDLRD  136 (194)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECTTSTT
T ss_pred             HHHHhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhcc
Confidence            23456788999999999985543333  245555555432   358999999999986

>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=99.61  E-value=3.2e-15  Score=115.87  Aligned_cols=112  Identities=20%  Similarity=0.127  Sum_probs=72.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +..+|+++|.+|+|||||++.+++..... ...+.+ ...  ...+. ..+  ..+.+|||||...              
T Consensus         6 ~~~ki~~vG~~~vGKTsli~~l~~~~~~~-~~~t~~-~~~--~~~~~-~~~~~~~l~i~Dt~G~~~--------------   66 (178)
T 2iwr_A            6 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTES-EQY--KKEML-VDGQTHLVLIREEAGAPD--------------   66 (178)
T ss_dssp             CEEEEEEECCGGGCHHHHHHHHHHSCCCC-CSSCSS-SEE--EEEEE-ETTEEEEEEEEECSSSCC--------------
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCC-cCCCcc-eeE--EEEEE-ECCEEEEEEEEECCCCch--------------
Confidence            45899999999999999999999876532 111111 111  11122 233  4688999999753              


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc-ccCeEEEEEeCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDEL  150 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~  150 (253)
                        ..++.++|++|+|+|++++.+... ..++.++....... ...|+++|+||+|..
T Consensus        67 --~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~  121 (178)
T 2iwr_A           67 --AKFSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRIS  121 (178)
T ss_dssp             --HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCB
T ss_pred             --hHHHHhCCEEEEEEECcCHHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccc
Confidence              122345699999999986554444 33444555543211 246899999999984

>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=99.61  E-value=1.1e-14  Score=123.45  Aligned_cols=129  Identities=16%  Similarity=0.193  Sum_probs=76.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--CCcc----ceee---------------------------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--SSGV----TSTC---------------------------------   58 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--~~~~----t~~~---------------------------------   58 (253)
                      ..++|+|+|.+|+|||||+|+|+|....+.+..  +...    +...                                 
T Consensus        23 ~~~~I~vvG~~~~GKSTlln~l~g~~~lp~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i  102 (315)
T 1jwy_B           23 DLPQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEI  102 (315)
T ss_dssp             CCCEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHH
T ss_pred             CCCeEEEEcCCCCCHHHHHHHHHCCCcCCCCCCceeeeeEEEEEEeCCCcccccchhhhhhhhcccccccCCHHHHHHHH
Confidence            447999999999999999999999876333211  0000    0000                                 


Q ss_pred             ------------------eeeeeEeeCCeEEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhhcCCccEEEEEEeC-CCCC
Q 025391           59 ------------------EMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGKEIVKCIGMAKDGIHAVLVVFSV-RSRF  117 (253)
Q Consensus        59 ------------------~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~l~v~d~-~~~~  117 (253)
                                        ....+....+..+.+|||||+.+....  .......+......++..+|++++|+++ +..+
T Consensus       103 ~~~~~~~~g~~~~~~~~~~~~~i~~~~~~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~  182 (315)
T 1jwy_B          103 IRDTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDL  182 (315)
T ss_dssp             HHHCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCS
T ss_pred             HHHHHHhcCCCCCccCccEEEEEecCCCCCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcch
Confidence                              000011123467999999999752211  1112244555566666788999999987 4344


Q ss_pred             CHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          118 SQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       118 ~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+ ..+++++..     ...|+++|+||+|...
T Consensus       183 ~~~~~~~i~~~~~~-----~~~~~i~v~NK~Dl~~  212 (315)
T 1jwy_B          183 ANSDALQLAKEVDP-----EGKRTIGVITKLDLMD  212 (315)
T ss_dssp             TTCSHHHHHHHHCS-----SCSSEEEEEECTTSSC
T ss_pred             hhhHHHHHHHHhCC-----CCCcEEEEEcCcccCC
Confidence            4333 244444332     2358999999999986

>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=99.60  E-value=9.1e-15  Score=121.81  Aligned_cols=122  Identities=20%  Similarity=0.194  Sum_probs=80.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc--HHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS--EFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~--~~~~~~~~~~   96 (253)
                      .++|+|+|.+|+|||||+|+|+|... ..+. ..++|.......+.. .+..+.+|||||+.+.....  ......+...
T Consensus         3 ~~~I~lvG~~n~GKSTLin~l~g~~~-~v~~-~~g~t~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~   79 (274)
T 3i8s_A            3 KLTIGLIGNPNSGKTTLFNQLTGSRQ-RVGN-WAGVTVERKEGQFST-TDHQVTLVDLPGTYSLTTISSQTSLDEQIACH   79 (274)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTTCE-EEEE-CTTSSSEEEEEEEEC-SSCEEEEEECCCCSCSCC----CCHHHHHHHH
T ss_pred             ccEEEEECCCCCCHHHHHHHHhCCCc-ccCC-CCCeeEEEEEEEEEe-CCCceEEEECcCCCccccccccCCHHHHHHHH
Confidence            47999999999999999999999874 2222 234555554454443 57789999999998765211  1111222222


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +. ....+|++|+|+|+++ + .....+..++.+.     ..|+++|+||+|...
T Consensus        80 ~~-~~~~~d~ii~VvD~~~-~-~~~~~~~~~l~~~-----~~p~ivv~NK~Dl~~  126 (274)
T 3i8s_A           80 YI-LSGDADLLINVVDASN-L-ERNLYLTLQLLEL-----GIPCIVALNMLDIAE  126 (274)
T ss_dssp             HH-HHTCCSEEEEEEEGGG-H-HHHHHHHHHHHHH-----TCCEEEEEECHHHHH
T ss_pred             HH-hhcCCCEEEEEecCCC-h-HHHHHHHHHHHhc-----CCCEEEEEECccchh
Confidence            21 2368899999999984 2 2234444555543     258999999999864

>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=99.60  E-value=5.2e-15  Score=122.06  Aligned_cols=121  Identities=16%  Similarity=0.189  Sum_probs=78.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH--HHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~~~~~   97 (253)
                      ++|+|+|.+|+|||||+|+|+|.......  ..++|.......+. ..+..+.+|||||+.+......  ...+.+.+.+
T Consensus         2 ~kI~lvG~~n~GKSTL~n~L~g~~~~v~~--~pg~Tv~~~~~~~~-~~~~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~   78 (256)
T 3iby_A            2 THALLIGNPNCGKTTLFNALTNANQRVGN--WPGVTVEKKTGEFL-LGEHLIEITDLPGVYSLVANAEGISQDEQIAAQS   78 (256)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTSEEEEE--CTTSSSEEEEEEEE-ETTEEEEEEECCCCSSCC------CHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCCccC--CCCceEEEEEEEEE-ECCeEEEEEeCCCcccccccccCCCHHHHHHHHH
Confidence            58999999999999999999998643222  23455555444444 3678999999999987654210  1112222222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .. ...+|++|+|+|+++ + .....+..++.+     ...|+++|+||+|...
T Consensus        79 ~~-~~~~d~vi~VvDas~-~-~~~~~l~~~l~~-----~~~pvilv~NK~Dl~~  124 (256)
T 3iby_A           79 VI-DLEYDCIINVIDACH-L-ERHLYLTSQLFE-----LGKPVVVALNMMDIAE  124 (256)
T ss_dssp             HH-HSCCSEEEEEEEGGG-H-HHHHHHHHHHTT-----SCSCEEEEEECHHHHH
T ss_pred             Hh-hCCCCEEEEEeeCCC-c-hhHHHHHHHHHH-----cCCCEEEEEEChhcCC
Confidence            11 168899999999984 2 122333333332     2358999999999864

>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=99.60  E-value=2.3e-15  Score=127.12  Aligned_cols=123  Identities=19%  Similarity=0.233  Sum_probs=83.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCC-CCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF-DFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~-~~~~~~~~~~~~~~~~   96 (253)
                      +..+|+|+|++|+|||||+|+|+|........ ..+.|...... +....+..+.++||||+. ..   .......+...
T Consensus         7 r~~~VaIvG~~nvGKSTLln~L~g~~~~i~s~-~~~tTr~~~~g-i~~~~~~~i~~iDTpG~~~~~---~~~l~~~~~~~   81 (301)
T 1ega_A            7 YCGFIAIVGRPNVGKSTLLNKLLGQKISITSR-KAQTTRHRIVG-IHTEGAYQAIYVDTPGLHMEE---KRAINRLMNKA   81 (301)
T ss_dssp             EEEEEEEECSSSSSHHHHHHHHHTCSEEECCC-CSSCCSSCEEE-EEEETTEEEEEESSSSCCHHH---HHHHHHHHTCC
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHCCCccccCC-CCCcceeeEEE-EEEECCeeEEEEECcCCCccc---hhhHHHHHHHH
Confidence            34689999999999999999999987533221 12233322222 233467899999999985 21   01111222233


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++++|+|+++ ++..+..+++.+..     ...|.++++||+|...
T Consensus        82 ~~~~l~~~D~vl~Vvd~~~-~~~~~~~i~~~l~~-----~~~P~ilvlNK~D~~~  130 (301)
T 1ega_A           82 ASSSIGDVELVIFVVEGTR-WTPDDEMVLNKLRE-----GKAPVILAVNKVDNVQ  130 (301)
T ss_dssp             TTSCCCCEEEEEEEEETTC-CCHHHHHHHHHHHS-----SSSCEEEEEESTTTCC
T ss_pred             HHHHHhcCCEEEEEEeCCC-CCHHHHHHHHHHHh-----cCCCEEEEEECcccCc
Confidence            3456678899999999986 99888766655542     1358999999999975

>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=99.60  E-value=1.9e-15  Score=120.24  Aligned_cols=118  Identities=21%  Similarity=0.124  Sum_probs=75.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      ..+..+|+++|.+|+|||||++++++........   + |............+  ..+.+|||||...+.          
T Consensus        27 ~~~~~ki~vvG~~~~GKSsLi~~l~~~~~~~~~~---~-t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~----------   92 (204)
T 4gzl_A           27 QGQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYI---P-TVFDNYSANVMVDGKPVNLGLWDTAGLEDYD----------   92 (204)
T ss_dssp             ---CEEEEEEESTTSSHHHHHHHHHHSCCCC-CC---C-CSEEEEEEEEECC-CEEEEEEEEECCSGGGT----------
T ss_pred             cCCeEEEEEECcCCCCHHHHHHHHHhCCCCCCcC---C-eecceeEEEEEECCEEEEEEEEECCCchhhH----------
Confidence            3456899999999999999999999765422211   1 11111111111233  356699999985432          


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .....++.++|++|+|+|++++.+....  .++..+....   ...|+++|+||+|...
T Consensus        93 -~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~  148 (204)
T 4gzl_A           93 -RLRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC---PNTPIILVGTKLDLRD  148 (204)
T ss_dssp             -TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHC---SSCCEEEEEECHHHHT
T ss_pred             -HHHHHHhccCCEEEEEEECCCHHHHHHHHHHHHHHHHHhC---CCCCEEEEEechhhcc
Confidence             3344567889999999999855444442  3455555443   2358999999999976

>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=99.60  E-value=4.1e-15  Score=119.19  Aligned_cols=116  Identities=21%  Similarity=0.118  Sum_probs=64.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      +..+|+++|.+|+|||||+|+|++.........+   +.......+. ..+  ..+.+|||||...+           ..
T Consensus        33 ~~~ki~vvG~~~vGKSsli~~l~~~~~~~~~~~t---~~~~~~~~~~-~~~~~~~l~l~Dt~G~~~~-----------~~   97 (214)
T 2j1l_A           33 RSVKVVLVGDGGCGKTSLLMVFADGAFPESYTPT---VFERYMVNLQ-VKGKPVHLHIWDTAGQDDY-----------DR   97 (214)
T ss_dssp             CEEEEEEEECTTSSHHHHHHHHHC-------CCC---CCEEEEEEEE-ETTEEEEEEEEEC-------------------
T ss_pred             ceEEEEEECcCCCCHHHHHHHHHcCCCCCCCCCc---cceeEEEEEE-ECCEEEEEEEEECCCchhh-----------hH
Confidence            4589999999999999999999987542221111   1111111122 233  37899999997542           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++|++|+|+|++++.+....  .++..+.....   ..|+++|+||+|...
T Consensus        98 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  152 (214)
T 2j1l_A           98 LRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFCK---KVPIIVVGCKTDLRK  152 (214)
T ss_dssp             -------CEEEEEEEEETTCHHHHHHHHHTHHHHHHHHCS---SCCEEEEEECGGGGS
T ss_pred             HHHHHhccCCEEEEEEECcCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEChhhhc
Confidence            334556788999999999854433332  34444444322   358999999999986

>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=99.60  E-value=7.2e-15  Score=115.78  Aligned_cols=117  Identities=13%  Similarity=0.083  Sum_probs=74.1

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ..+..+|+++|++|+|||||+|++++......     ..|.......+. ..+..+.+|||||.....           .
T Consensus        26 ~~~~~ki~v~G~~~vGKSsLi~~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~i~Dt~G~~~~~-----------~   88 (192)
T 2b6h_A           26 GKKQMRILMVGLDAAGKTTILYKLKLGEIVTT-----IPTIGFNVETVE-YKNICFTVWDVGGQDKIR-----------P   88 (192)
T ss_dssp             TTSCEEEEEEESTTSSHHHHHHHHCSSCCEEE-----EEETTEEEEEEE-ETTEEEEEEECC-----C-----------T
T ss_pred             cCCccEEEEECCCCCCHHHHHHHHHhCCcccc-----CCcCceeEEEEE-ECCEEEEEEECCCCHhHH-----------H
Confidence            34568999999999999999999987654321     112222223333 367899999999986533           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+...  ...++......  ....|+++|+||+|...
T Consensus        89 ~~~~~~~~~d~iilv~D~~~~~s~~~--~~~~l~~~~~~~~~~~~piilv~NK~Dl~~  144 (192)
T 2b6h_A           89 LWRHYFQNTQGLIFVVDSNDRERVQE--SADELQKMLQEDELRDAVLLVFANKQDMPN  144 (192)
T ss_dssp             THHHHHHTCCEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHHHhccCCEEEEEEECCCHHHHHH--HHHHHHHHhcccccCCCeEEEEEECCCCCC
Confidence            22334467799999999986544333  22334333321  12468999999999975

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.59  E-value=9.7e-15  Score=114.36  Aligned_cols=116  Identities=15%  Similarity=0.105  Sum_probs=78.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|+|||||+|+|++....... .    |.......+. ..+..+.+|||||......           .
T Consensus        20 ~~~~~i~v~G~~~~GKssli~~l~~~~~~~~~-~----t~~~~~~~~~-~~~~~~~~~Dt~G~~~~~~-----------~   82 (189)
T 2x77_A           20 DRKIRVLMLGLDNAGKTSILYRLHLGDVVTTV-P----TVGVNLETLQ-YKNISFEVWDLGGQTGVRP-----------Y   82 (189)
T ss_dssp             TSCEEEEEEEETTSSHHHHHHHTCCSCCEEEC-S----STTCCEEEEE-ETTEEEEEEEECCSSSSCC-----------C
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHcCCCCCcC-C----CCceEEEEEE-ECCEEEEEEECCCCHhHHH-----------H
Confidence            45689999999999999999999876643221 1    1112222233 3678999999999865432           1


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++-+...  ...++...+..  ....|+++|+||+|...
T Consensus        83 ~~~~~~~~d~ii~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~nK~Dl~~  137 (189)
T 2x77_A           83 WRCYFSDTDAVIYVVDSTDRDRMGV--AKHELYALLDEDELRKSLLLIFANKQDLPD  137 (189)
T ss_dssp             CSSSSTTCCEEEEEEETTCCTTHHH--HHHHHHHHHTCSTTTTCEEEEEEECTTSTT
T ss_pred             HHHHhhcCCEEEEEEeCCCHHHHHH--HHHHHHHHHhhhhcCCCeEEEEEECCCCcC
Confidence            2345678899999999986655443  22333333321  12468999999999976

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.59  E-value=2.5e-15  Score=118.06  Aligned_cols=119  Identities=10%  Similarity=0.111  Sum_probs=71.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+.++|+++|++|+|||||+|.|++........ ....+...     . ..+..+.+|||||........       ...
T Consensus        46 ~~~~~i~vvG~~g~GKSsll~~l~~~~~~~~~~-~~~~~~~~-----~-~~~~~~~l~Dt~G~~~~~~~~-------~~~  111 (193)
T 2ged_A           46 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQEPLSAA-----D-YDGSGVTLVDFPGHVKLRYKL-------SDY  111 (193)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHHSSCC------------------C-CCCTTCSEEEETTCCBSSCCH-------HHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCcccc-cCCCceee-----e-ecCCeEEEEECCCCchHHHHH-------HHH
Confidence            455899999999999999999999876422111 11111111     1 145678899999997654321       223


Q ss_pred             HHhhcCCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcc-----cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGK-----KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~-----~~~~~~ivv~~k~D~~~  151 (253)
                      +......+|++|+|+|++ +.-+  -.....++...+..     ....|+++|+||+|...
T Consensus       112 ~~~~~~~~~~~i~v~d~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  170 (193)
T 2ged_A          112 LKTRAKFVKGLIFMVDSTVDPKK--LTTTAEFLVDILSITESSCENGIDILIACNKSELFT  170 (193)
T ss_dssp             HHHHGGGEEEEEEEEETTCCHHH--HHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             HHhhcccCCEEEEEEECCCCchh--HHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcC
Confidence            333335579999999987 2211  12222333333211     12368999999999986

>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=99.59  E-value=5.5e-15  Score=116.83  Aligned_cols=123  Identities=23%  Similarity=0.125  Sum_probs=72.5

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      .....++|+|+|.+|||||||+|.+++...........+.....  ..+. .++  ..+.+|||||.....       ..
T Consensus        19 ~~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~l~i~Dt~g~~~~~-------~~   88 (195)
T 3cbq_A           19 QKDGIFKVMLVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYE--RRIM-VDKEEVTLVVYDIWEQGDAG-------GW   88 (195)
T ss_dssp             ---CEEEEEEECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEE--EEEE-ETTEEEEEEEECCCCCSGGG-------HH
T ss_pred             CCCcEEEEEEECCCCCCHHHHHHHHHhccCCccCCCCcccceEE--EEEE-ECCEEEEEEEEecCCCccch-------hh
Confidence            33456899999999999999999998754321211111222111  1222 233  467889999985421       11


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                         ....++..+|++|+|+|++++.+... ..++..+....+ ....|+++|+||+|...
T Consensus        89 ---~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piilv~nK~Dl~~  144 (195)
T 3cbq_A           89 ---LRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRP-HHDLPVILVGNKSDLAR  144 (195)
T ss_dssp             ---HHHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHST-TSCCCEEEEEECTTCTT
T ss_pred             ---hHHHhhccCCEEEEEEECCCHHHHHHHHHHHHHHHHhcC-CCCCCEEEEeechhccc
Confidence               12233456799999999985443322 334444443321 12368999999999874

>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=99.59  E-value=2.7e-15  Score=116.79  Aligned_cols=115  Identities=19%  Similarity=0.083  Sum_probs=75.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+++|.+|+|||||++++++.........+.+...   ..... ..+  ..+.+|||||...+.           ..
T Consensus         5 ~~~i~~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~i~Dt~G~~~~~-----------~~   69 (186)
T 1mh1_A            5 AIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY---SANVM-VDGKPVNLGLWDTAGQEDYD-----------RL   69 (186)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE---EEEEE-ETTEEEEEEEECCCCSGGGT-----------TT
T ss_pred             EEEEEEECCCCCCHHHHHHHHHcCCCCCCcCCccccee---EEEEE-ECCEEEEEEEEECCCCHhHH-----------HH
Confidence            47999999999999999999997654222111111111   11111 233  467799999985432           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+....  .++..+....+   ..|+++|+||+|...
T Consensus        70 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  123 (186)
T 1mh1_A           70 RPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCP---NTPIILVGTKLDLRD  123 (186)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TSCEEEEEECHHHHT
T ss_pred             HHHhccCCcEEEEEEECCChhhHHHHHHHHHHHHHHhCC---CCCEEEEeEcccccc
Confidence            34566788999999999855444332  35555555432   358999999999975

>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=99.59  E-value=1.7e-14  Score=119.90  Aligned_cols=120  Identities=21%  Similarity=0.230  Sum_probs=78.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .++|+|+|++|+|||||+|+|+|.... .+. ..+.|......... ..+..+.+|||||+.+.......  ..+...+ 
T Consensus         3 ~~~i~lvG~~g~GKTTL~n~l~g~~~~-~~~-~~~~t~~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~--~~~~~~~-   76 (271)
T 3k53_A            3 LKTVALVGNPNVGKTTIFNALTGLRQH-VGN-WPGVTVEKKEGIME-YREKEFLVVDLPGIYSLTAHSID--ELIARNF-   76 (271)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHTTCEE-EEE-CTTSSCEEEEEEEE-ETTEEEEEEECCCCSCCCSSCHH--HHHHHHH-
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCcc-cCC-CCCeEEEeeEEEEE-ECCceEEEEeCCCccccccCCHH--HHHHHHh-
Confidence            479999999999999999999998652 222 23345444444444 47788999999999876543321  1122211 


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .....+|++++|+|+++ + .....+...+.+. +   ..|+++|+||+|..
T Consensus        77 ~~~~~~d~vi~v~D~~~-~-~~~~~~~~~~~~~-~---~~p~ilv~NK~Dl~  122 (271)
T 3k53_A           77 ILDGNADVIVDIVDSTC-L-MRNLFLTLELFEM-E---VKNIILVLNKFDLL  122 (271)
T ss_dssp             HHTTCCSEEEEEEEGGG-H-HHHHHHHHHHHHT-T---CCSEEEEEECHHHH
T ss_pred             hhccCCcEEEEEecCCc-c-hhhHHHHHHHHhc-C---CCCEEEEEEChhcC
Confidence            22368899999999984 2 1222233333332 2   15899999999964

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.59  E-value=2.7e-15  Score=132.94  Aligned_cols=122  Identities=22%  Similarity=0.184  Sum_probs=77.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|||++|+|||||+|+|+|...... ....++|......... +.+..+.+|||||+......   ....+......
T Consensus         4 ~~V~ivG~~nvGKStL~n~l~~~~~~~v-~~~~g~T~d~~~~~~~-~~~~~~~l~DT~G~~~~~~~---~~~~~~~~~~~   78 (436)
T 2hjg_A            4 PVVAIVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAE-WLNYDFNLIDTGGIDIGDEP---FLAQIRQQAEI   78 (436)
T ss_dssp             CEEEEECSTTSSHHHHHHHHEEEECC------------CEEEECT-TCSSCCEEEC---------C---HHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceee-cCCCCCccceEEEEEE-ECCceEEEEECCCCCCcchh---HHHHHHHHHHH
Confidence            6899999999999999999998764322 2234555555444443 46788999999998632211   33455555666


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++..+|++|+|+|++++++..+..+.+.+.+     ...|+++|+||+|...
T Consensus        79 ~~~~ad~il~vvD~~~~~~~~d~~~~~~l~~-----~~~pvilv~NK~D~~~  125 (436)
T 2hjg_A           79 AMDEADVIIFMVNGREGVTAADEEVAKILYR-----TKKPVVLAVNKLDNTE  125 (436)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHHHHHHHHHTT-----CCSCEEEEEECCCC--
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH-----cCCCEEEEEECccCcc
Confidence            6678899999999998899888766665543     2358999999999874

>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=99.58  E-value=4.4e-15  Score=115.97  Aligned_cols=118  Identities=15%  Similarity=0.093  Sum_probs=75.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ....+|+++|++|+|||||+|.|++.........+.+...   ...+.. .....+.+|||||...+.           .
T Consensus         5 ~~~~ki~v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~~~i~Dt~G~~~~~-----------~   70 (184)
T 1m7b_A            5 NVKCKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFENY---TASFEIDTQRIELSLWDTSGSPYYD-----------N   70 (184)
T ss_dssp             -CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE---EEEEECSSCEEEEEEEEECCSGGGT-----------T
T ss_pred             ceEEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceeE---EEEEEECCEEEEEEEEECCCChhhh-----------h
Confidence            3458999999999999999999998754221111111111   111111 123578999999975432           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++|++|+|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        71 ~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  125 (184)
T 1m7b_A           71 VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLRT  125 (184)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCEEEEEEECGGGGG
T ss_pred             hHHhhcCCCcEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEEEcchhhc
Confidence            23456788999999999985444333  234444544322   358999999999974

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.58  E-value=1.4e-16  Score=126.20  Aligned_cols=119  Identities=19%  Similarity=0.179  Sum_probs=72.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...++|+|+|.+|+|||||+|+|++........  ...+.......+. ..+  ..+.+|||||......          
T Consensus        31 ~~~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~--~~~~~~~~~~~~~-~~~~~~~~~i~Dt~G~~~~~~----------   97 (199)
T 3l0i_B           31 DYLFKLLLIGDSGVGKSCLLLRFADDTYTESYI--STIGVDFKIRTIE-LDGKTIKLQIWDTAGQERFRT----------   97 (199)
T ss_dssp             SEEEEEEEECCTTSCCTTTTTSSBCCCCCCHHH--HHHCCSEEEEEEE-ETTEEEEEEEECCTTCTTCCC----------
T ss_pred             CcceEEEEECCCCCCHHHHHHHHhcCCCCCCcC--CcccceEEEEEEE-ECCEEEEEEEEECCCcHhHHH----------
Confidence            445899999999999999999999875422211  1122222222222 233  4789999999765432          


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ....++..+|++|+|+|++++.+... ..++..+.....  ...|+++|+||+|...
T Consensus        98 -~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~i~~~~~--~~~p~ilv~nK~Dl~~  152 (199)
T 3l0i_B           98 -ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYAS--ENVNKLLVGNKCDLTT  152 (199)
T ss_dssp             -CSCC--CCCSEEEECC-CCCSHHHHHHHHHHHHHHSCC---CCSEEEEC-CCSSCC-
T ss_pred             -HHHHHhhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhcc--CCCCEEEEEECccCCc
Confidence             22345578899999999985544333 223333332211  2368999999999874

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.58  E-value=5.2e-15  Score=118.13  Aligned_cols=116  Identities=19%  Similarity=0.106  Sum_probs=75.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+|+|.+|+|||||++.+++.........+.+...   ...+. .++  ..+.+|||||...+..           
T Consensus         8 ~~~ki~i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~i~Dt~G~~~~~~-----------   72 (212)
T 2j0v_A            8 KFIKCVTVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF---SANVA-VDGQIVNLGLWDTAGQEDYSR-----------   72 (212)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE---EEEEE-CSSCEEEEEEECCCCCCCCCC-----------
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCccCCCccceeE---EEEEE-ECCEEEEEEEEECCCcHHHHH-----------
Confidence            458999999999999999999997654222111111111   11121 233  4889999999876542           


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+...  ..++..+....+   ..|++||+||.|...
T Consensus        73 ~~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  127 (212)
T 2j0v_A           73 LRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP---NVPIVLVGTKLDLRD  127 (212)
T ss_dssp             --CGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCCEEEEEECHHHHT
T ss_pred             HHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEeCHHhhh
Confidence            23356688899999999985444333  235555554432   358999999999865

>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=99.58  E-value=7.3e-15  Score=116.34  Aligned_cols=127  Identities=14%  Similarity=0.146  Sum_probs=77.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+++|++|||||||++++++....... .+.+.+    ...+. .++..+.+|||||.....           ..
T Consensus        23 ~~~~ki~lvG~~~vGKSsLi~~l~~~~~~~~~-~t~~~~----~~~~~-~~~~~l~i~Dt~G~~~~~-----------~~   85 (198)
T 1f6b_A           23 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHV-PTLHPT----SEELT-IAGMTFTTFDLGGHIQAR-----------RV   85 (198)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC-------CCCCCS----CEEEE-ETTEEEEEEEECC----C-----------CG
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhcCCCCccC-CCCCce----eEEEE-ECCEEEEEEECCCcHhhH-----------HH
Confidence            44589999999999999999999987642211 111121    22233 367899999999975432           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC-ChhhHHHHHc
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED-NDETLEDYLG  162 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~-~~~~~~~~~~  162 (253)
                      ...++.++|++++|+|++++-+...  ...++......  ....|+++|+||+|.... ....+.+++.
T Consensus        86 ~~~~~~~~d~~i~v~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~  152 (198)
T 1f6b_A           86 WKNYLPAINGIVFLVDCADHERLLE--SKEELDSLMTDETIANVPILILGNKIDRPEAISEERLREMFG  152 (198)
T ss_dssp             GGGGGGGCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTSCEEEEEECTTSTTCCCHHHHHHHHT
T ss_pred             HHHHHhcCCEEEEEEECCCHHHHHH--HHHHHHHHHhCcccCCCcEEEEEECCCccccCCHHHHHHHhC
Confidence            3455678899999999986544333  22333333221  134689999999999642 1344555554

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.58  E-value=2.1e-14  Score=112.20  Aligned_cols=121  Identities=19%  Similarity=0.266  Sum_probs=75.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+|+|++|+|||||+|+|++...+....  .+.+.......+. ..+..+.+|||||...+.....  ...+...+
T Consensus         6 ~~~~i~lvG~~gvGKStL~~~l~~~~~~~~~~--~~~t~~~~~~~~~-~~~~~~~l~Dt~G~~~~~~~~~--~~~~~~~~   80 (188)
T 2wjg_A            6 KSYEIALIGNPNVGKSTIFNALTGENVYIGNW--PGVTVEKKEGEFE-YNGEKFKVVDLPGVYSLTANSI--DEIIARDY   80 (188)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHTTCEEEEEC--TTSCCEEEEEEEE-ETTEEEEEEECCCCSCCSSSSH--HHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCccccCC--CCeeccceEEEEE-eCCcEEEEEECCCcCccccccH--HHHHHHHH
Confidence            45899999999999999999999976433222  2334444344444 3678999999999987643221  11222221


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ... ..+|++++|+|+++ +  .  ....++.....  ...|+++|+||+|...
T Consensus        81 ~~~-~~~~~~i~v~d~~~-~--~--~~~~~~~~~~~--~~~piilv~nK~Dl~~  126 (188)
T 2wjg_A           81 IIN-EKPDLVVNIVDATA-L--E--RNLYLTLQLME--MGANLLLALNKMDLAK  126 (188)
T ss_dssp             HHH-HCCSEEEEEEEGGG-H--H--HHHHHHHHHHT--TTCCEEEEEECHHHHH
T ss_pred             Hhc-cCCCEEEEEecchh-H--H--HHHHHHHHHHh--cCCCEEEEEEhhhccc
Confidence            111 24689999999873 2  1  12233333322  2358999999999853

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.58  E-value=3.8e-15  Score=132.01  Aligned_cols=127  Identities=18%  Similarity=0.155  Sum_probs=81.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH-
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC-   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~-   96 (253)
                      ..++|+++|++|+|||||+|+|+|........ ..+.|.......+. .++..+.+|||||+.+.....+.+ +.+... 
T Consensus       174 ~~~ki~lvG~~nvGKSSLin~l~~~~~~~~~~-~~gtT~d~~~~~~~-~~~~~~~l~DT~G~~~~~~~~~~~-e~~~~~~  250 (436)
T 2hjg_A          174 EVIQFCLIGRPNVGKSSLVNAMLGEERVIVSN-VAGTTRDAVDTSFT-YNQQEFVIVDTAGMRKKGKVYETT-EKYSVLR  250 (436)
T ss_dssp             TCEEEEEECSTTSSHHHHHHHHHTSTTEEEC----------CCEEEE-ETTEEEEETTHHHHTCBTTBCCCC-SHHHHHH
T ss_pred             cCcEEEEEcCCCCCHHHHHHHHhCCCceeecC-CCCceeeeeEEEEE-ECCeEEEEEECCCcCcCccccchH-HHHHHHH
Confidence            45899999999999999999999986532221 22344443333333 467889999999986543211100 111111 


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ...++..+|++|+|+|++++.+..+..++..+...     ..++++|+||+|....
T Consensus       251 ~~~~~~~ad~~llv~D~~~~~s~~~~~~~~~~~~~-----~~~iiiv~NK~Dl~~~  301 (436)
T 2hjg_A          251 ALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEA-----GKAVVIVVNKWDAVDK  301 (436)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-----TCEEEEEEECGGGSCC
T ss_pred             HHHHHHhCCEEEEEEcCCcCCcHHHHHHHHHHHHc-----CCcEEEEEECccCCCc
Confidence            11233557999999999988998887766655442     2589999999999863

>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=99.58  E-value=3.8e-14  Score=117.02  Aligned_cols=121  Identities=21%  Similarity=0.230  Sum_probs=79.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+|+|.+|+|||||+|+|+|.......  ..+.|.......+. ..+..+.+|||||..+.......  ..+...+
T Consensus         4 ~~~kI~lvG~~nvGKTsL~n~l~g~~~~~~~--~pg~tv~~~~~~~~-~~~~~~~l~DtpG~~~~~~~~~~--e~v~~~~   78 (258)
T 3a1s_A            4 HMVKVALAGCPNVGKTSLFNALTGTKQYVAN--WPGVTVEKKEGVFT-YKGYTINLIDLPGTYSLGYSSID--EKIARDY   78 (258)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHTTCEEEEE--CTTSCCEEEEEEEE-ETTEEEEEEECCCCSSCCSSSHH--HHHHHHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHCCCCcccC--CCCceEEEEEEEEE-ECCeEEEEEECCCcCccCCCCHH--HHHHHHH
Confidence            3479999999999999999999997754222  22555555544444 36789999999999876543211  2222222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ... ..+|++++|+|+++ +.. ...+...+.+     ...|+++|+||+|...
T Consensus        79 ~~~-~~~d~ii~V~D~t~-~~~-~~~~~~~l~~-----~~~pvilv~NK~Dl~~  124 (258)
T 3a1s_A           79 LLK-GDADLVILVADSVN-PEQ-SLYLLLEILE-----MEKKVILAMTAIDEAK  124 (258)
T ss_dssp             HHH-SCCSEEEEEEETTS-CHH-HHHHHHHHHT-----TTCCEEEEEECHHHHH
T ss_pred             Hhh-cCCCEEEEEeCCCc-hhh-HHHHHHHHHh-----cCCCEEEEEECcCCCC
Confidence            111 57899999999984 322 2223333332     1358999999999863

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.58  E-value=2.4e-14  Score=120.31  Aligned_cols=130  Identities=15%  Similarity=0.129  Sum_probs=77.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC-----CCC------------------c---ccee-------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA-----SSS------------------G---VTST-------------   57 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-----~~~------------------~---~t~~-------------   57 (253)
                      ...++|+|+|.+|+|||||+|+|+|....+...     .+.                  +   .+..             
T Consensus        24 ~~~~~i~vvG~~~~GKSSLln~l~g~~~~~~~~~~~t~~p~~~~~~~~~~~~~~~~~~~g~~~tt~~~~~~~~~~~~~~i  103 (299)
T 2aka_B           24 LDLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRV  103 (299)
T ss_dssp             CCCCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHH
T ss_pred             CCCCeEEEEeCCCCCHHHHHHHHHCCCcCCCCCCcccccceEEEEecCCcccchhhhcCCcccCCHHHHHHHHHHHHHHh
Confidence            345799999999999999999999987632211     010                  0   0000             


Q ss_pred             ----------eeeeeeEeeCCeEEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhhcCCccEEE-EEEeCCCCCCHHHH-H
Q 025391           58 ----------CEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGKEIVKCIGMAKDGIHAVL-VVFSVRSRFSQEEE-A  123 (253)
Q Consensus        58 ----------~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~l-~v~d~~~~~~~~~~-~  123 (253)
                                .....+.......+.+|||||+.....  ..+.....+...+..++..+++++ +|+|++..++..+. .
T Consensus       104 ~g~~~gi~~~~~~~~~~~~~~~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~  183 (299)
T 2aka_B          104 TGTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALK  183 (299)
T ss_dssp             CSSTTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHH
T ss_pred             cccCCCccccceEEEEeCCCCCCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHH
Confidence                      000001111246899999999975331  012222344455555556667665 78898866665552 2


Q ss_pred             HHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          124 ALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       124 ~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +++.+..     ...|+++|+||+|...
T Consensus       184 ~~~~~~~-----~~~~~i~V~NK~Dl~~  206 (299)
T 2aka_B          184 IAKEVDP-----QGQRTIGVITKLDLMD  206 (299)
T ss_dssp             HHHHHCT-----TCSSEEEEEECGGGSC
T ss_pred             HHHHhCC-----CCCeEEEEEEccccCC
Confidence            3333321     2358999999999986

>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=99.58  E-value=2.3e-15  Score=116.90  Aligned_cols=118  Identities=17%  Similarity=0.053  Sum_probs=70.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...+|+++|++|+|||||++++++.........+.+...... ... ......+.+|||||.....           ...
T Consensus         7 ~~~ki~v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~~~-~~~-~~~~~~~~i~Dt~G~~~~~-----------~~~   73 (182)
T 3bwd_D            7 RFIKCVTVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSAN-VVV-NGATVNLGLWDTAGQEDYN-----------RLR   73 (182)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHSCCC----------CBCC-CC--------CEEECCCC-CTTT-----------TTG
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEEEE-EEE-CCEEEEEEEEECCCChhhh-----------hhH
Confidence            458999999999999999999997653221111111111100 001 1123456799999986543           233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++++|+|++++.+....  .++..+....+   ..|+++|+||+|...
T Consensus        74 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  126 (182)
T 3bwd_D           74 PLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP---GVPIVLVGTKLDLRD  126 (182)
T ss_dssp             GGGGTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCCEEEEEECHHHHT
T ss_pred             HhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEechhhhc
Confidence            4556788999999999854443332  35555555432   358999999999875

>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=99.57  E-value=1.6e-14  Score=115.72  Aligned_cols=120  Identities=11%  Similarity=0.182  Sum_probs=73.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|+|++|+|||||+++|++........ ....+....      .....+.+|||||+....       ..+...
T Consensus        10 ~~~~~i~~~G~~g~GKTsl~~~l~~~~~~~~~~-~~~~~~~~~------~~~~~~~l~Dt~G~~~~~-------~~~~~~   75 (218)
T 1nrj_B           10 SYQPSIIIAGPQNSGKTSLLTLLTTDSVRPTVV-SQEPLSAAD------YDGSGVTLVDFPGHVKLR-------YKLSDY   75 (218)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHHSSCCCBCC-CSSCEEETT------GGGSSCEEEECCCCGGGT-------HHHHHH
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhcCCCCCeee-ecCceEEEE------eeCceEEEEECCCcHHHH-------HHHHHH
Confidence            455899999999999999999999876422111 111111111      145678999999986432       222333


Q ss_pred             HHhhcCCccEEEEEEeCC-C--CCCHHHHHHHHHHHHHhc--ccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVR-S--RFSQEEEAALHSLQTLFG--KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~-~--~~~~~~~~~l~~l~~~~g--~~~~~~~ivv~~k~D~~~  151 (253)
                      +......+|++|+|+|++ +  .+...... +..+.....  .....|+++|+||+|...
T Consensus        76 ~~~~~~~~~~~i~v~D~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~  134 (218)
T 1nrj_B           76 LKTRAKFVKGLIFMVDSTVDPKKLTTTAEF-LVDILSITESSCENGIDILIACNKSELFT  134 (218)
T ss_dssp             HHHHGGGEEEEEEEEETTSCTTCCHHHHHH-HHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             HHhccccCCEEEEEEECCCChHHHHHHHHH-HHHHHhcccccccCCCCEEEEEEchHhcc
Confidence            333234479999999998 3  33333332 222222211  112368999999999986

>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=99.57  E-value=3.9e-14  Score=113.48  Aligned_cols=120  Identities=23%  Similarity=0.166  Sum_probs=72.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ...+|+|||.+|||||||+|.++|... +.....+.+.+...  ..+. .++.  .+.+|||+|...          ...
T Consensus        36 ~~~kVvlvG~~~vGKSSLl~r~~~~~~~~~~~~~~~g~d~~~--~~i~-~~~~~~~l~~~Dt~g~~~----------~~~  102 (211)
T 2g3y_A           36 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYE--RTLM-VDGESATIILLDMWENKG----------ENE  102 (211)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEE--EEEE-ETTEEEEEEEECCTTTTH----------HHH
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhCCCCCCCcCCccceeeEE--EEEE-ECCeeeEEEEeecCCCcc----------hhh
Confidence            448999999999999999999997543 22221222222211  1122 2443  567899998642          111


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....++..+|++|+|+|++++-+... ..+...+... ......|+++|.||+|+..
T Consensus       103 ~l~~~~~~~a~~~ilVydvt~~~sf~~~~~~~~~l~~~-~~~~~~piilVgNK~DL~~  159 (211)
T 2g3y_A          103 WLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRA-RQTEDIPIILVGNKSDLVR  159 (211)
T ss_dssp             HHHHCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTS-GGGTTSCEEEEEECTTCGG
T ss_pred             hHHHHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHH-hCCCCCcEEEEEEChHHhc
Confidence            223456678899999999985444333 2233333322 1112468999999999863

>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=99.57  E-value=1.1e-14  Score=114.15  Aligned_cols=119  Identities=24%  Similarity=0.151  Sum_probs=71.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+..+|+|+|.+|+|||||++.+++.........    |....+.......  ...+.+|||||...+..        + 
T Consensus        19 ~~~~ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~----t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~--------~-   85 (187)
T 3c5c_A           19 PLEVNLAILGRRGAGKSALTVKFLTKRFISEYDP----NLEDTYSSEETVDHQPVHLRVMDTADLDTPRN--------C-   85 (187)
T ss_dssp             -CEEEEEEECCTTSSHHHHHHHHHHSSCCSCCCT----TCCEEEEEEEEETTEEEEEEEEECCC---CCC--------T-
T ss_pred             CceEEEEEECCCCCcHHHHHHHHHhCCCCcccCC----CccceeeEEEEECCEEEEEEEEECCCCCcchh--------H-
Confidence            3458999999999999999999998763221111    2211111111123  34688999999865432        1 


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcc-cccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGK-KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~-~~~~~~ivv~~k~D~~~  151 (253)
                         ..++..+|++|+|+|++++-+... ..++..+...... ....|+++|+||+|...
T Consensus        86 ---~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~  141 (187)
T 3c5c_A           86 ---ERYLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQ  141 (187)
T ss_dssp             ---HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGG
T ss_pred             ---HHHHhhCCEEEEEEECCCHHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhh
Confidence               124467799999999985443333 3344444443210 12358999999999863

>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=99.57  E-value=1.4e-14  Score=113.45  Aligned_cols=147  Identities=19%  Similarity=0.089  Sum_probs=86.0

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      ..+..+|+|+|.+|+|||||+|.+++....... .+   |.......+. ..+  ..+.+|||||...+.          
T Consensus        17 ~~~~~ki~ivG~~~vGKSsL~~~~~~~~~~~~~-~~---t~~~~~~~~~-~~~~~~~l~i~Dt~G~~~~~----------   81 (184)
T 3ihw_A           17 QGPELKVGIVGNLSSGKSALVHRYLTGTYVQEE-SP---EGGRFKKEIV-VDGQSYLLLIRDEGGPPELQ----------   81 (184)
T ss_dssp             CCCEEEEEEECCTTSCHHHHHHHHHHSSCCCCC-CT---TCEEEEEEEE-ETTEEEEEEEEECSSSCCHH----------
T ss_pred             CCCeeEEEEECCCCCCHHHHHHHHhcCCCCCCc-CC---CcceEEEEEE-ECCEEEEEEEEECCCChhhh----------
Confidence            345589999999999999999999877543221 11   1111112222 344  467789999986421          


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC-----ChhhHHHHHcccC-C
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED-----NDETLEDYLGREC-P  166 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~-----~~~~~~~~~~~~~-~  166 (253)
                            ++..+|++++|+|++++.+... ..++..+.... .....|+++|+||+|....     .......+..... .
T Consensus        82 ------~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~-~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~  154 (184)
T 3ihw_A           82 ------FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFR-NASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRC  154 (184)
T ss_dssp             ------HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHTTS-CGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTC
T ss_pred             ------eecCCCEEEEEEECcCHHHHHHHHHHHHHHHHhc-CCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCC
Confidence                  2345689999999986544444 33444443321 1134689999999998421     1233444444321 3


Q ss_pred             chhhhhHHHhhhHHHHHH
Q 025391          167 KPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       167 ~~l~~~~~~~~~~~~~~~  184 (253)
                      .++..+......++.++.
T Consensus       155 ~~~e~Sa~~~~gv~~lf~  172 (184)
T 3ihw_A          155 TYYETCATYGLNVERVFQ  172 (184)
T ss_dssp             EEEEEBTTTTBTHHHHHH
T ss_pred             eEEEecCCCCCCHHHHHH
Confidence            444545545555555444

>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=99.56  E-value=6.3e-15  Score=117.49  Aligned_cols=118  Identities=16%  Similarity=0.103  Sum_probs=75.9

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeee-eeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEM-QRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~-~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      .....+|+|+|.+|+|||||+|.|++........    .|....+ ..+.. .....+.+|||||...+.          
T Consensus        25 ~~~~~ki~vvG~~~vGKSsLi~~l~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~----------   90 (205)
T 1gwn_A           25 QNVKCKIVVVGDSQCGKTALLHVFAKDCFPENYV----PTVFENYTASFEIDTQRIELSLWDTSGSPYYD----------   90 (205)
T ss_dssp             --CEEEEEEEESTTSSHHHHHHHHHHSCCCSSCC----CCSEEEEEEEEESSSSEEEEEEEEECCSGGGT----------
T ss_pred             cceeeEEEEECCCCCCHHHHHHHHhcCCCCCCcC----CccceeEEEEEEECCEEEEEEEEeCCCcHhhh----------
Confidence            3455899999999999999999999875432111    1111111 11211 123578999999975432          


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       .....++..+|++|+|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        91 -~~~~~~~~~~d~~ilv~D~~~~~s~~~~~~~~~~~i~~~~~---~~piilv~nK~Dl~~  146 (205)
T 1gwn_A           91 -NVRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP---NTKMLLVGCKSDLRT  146 (205)
T ss_dssp             -TTGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TCEEEEEEECGGGGG
T ss_pred             -HHHHhhccCCCEEEEEEECCCHHHHHHHHHHHHHHHHHHCC---CCCEEEEEechhhcc
Confidence             223456688999999999985444333  234455554422   358999999999974

>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=99.56  E-value=1e-14  Score=129.96  Aligned_cols=128  Identities=19%  Similarity=0.187  Sum_probs=84.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|.+|+|||||+|+|++........ ..+.|.......+. ..+..+.+|||||+.+.....+.. +.+...
T Consensus       193 ~~~~ki~ivG~~~vGKSslin~l~~~~~~~~~~-~~gtt~~~~~~~~~-~~~~~~~l~DT~G~~~~~~~~~~~-e~~~~~  269 (456)
T 4dcu_A          193 EEVIQFCLIGRPNVGKSSLVNAMLGEERVIVSN-VAGTTRDAVDTSFT-YNQQEFVIVDTAGMRKKGKVYETT-EKYSVL  269 (456)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHTSTTEEECC-------CTTSEEEE-ETTEEEEETTGGGTTTBTTBCCCC-SHHHHH
T ss_pred             cccceeEEecCCCCCHHHHHHHHhCCCccccCC-CCCeEEEEEEEEEE-ECCceEEEEECCCCCcCcccchHH-HHHHHH
Confidence            456899999999999999999999886433322 22333333333333 477899999999975432110000 111111


Q ss_pred             -HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           97 -IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        97 -~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                       ...+...+|++|+|+|++..++..+..++..+.+. +    .|+++|+||+|....
T Consensus       270 ~~~~~~~~ad~~llviD~~~~~~~~~~~~~~~~~~~-~----~~~ilv~NK~Dl~~~  321 (456)
T 4dcu_A          270 RALKAIDRSEVVAVVLDGEEGIIEQDKRIAGYAHEA-G----KAVVIVVNKWDAVDK  321 (456)
T ss_dssp             HHHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-T----CEEEEEEECGGGSCC
T ss_pred             HHHHHHhhCCEEEEEEeCCCCcCHHHHHHHHHHHHc-C----CCEEEEEEChhcCCC
Confidence             11234566999999999989998888888777662 3    589999999999853

>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=99.56  E-value=1.4e-14  Score=115.41  Aligned_cols=115  Identities=19%  Similarity=0.148  Sum_probs=74.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++|+++|.+|+|||||+|+|++...........+...   ..... ..+  ..+.+|||||.....           ..
T Consensus        25 ~~ki~vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~---~~~~~-~~~~~~~~~i~Dt~G~~~~~-----------~~   89 (207)
T 2fv8_A           25 RKKLVVVGDGACGKTCLLIVFSKDEFPEVYVPTVFENY---VADIE-VDGKQVELALWDTAGQEDYD-----------RL   89 (207)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSSCC-------CCEE---EEEEE-ETTEEEEEEEEECTTCTTCT-----------TT
T ss_pred             CcEEEEECcCCCCHHHHHHHHhcCCCCCcCCCcccceE---EEEEE-ECCEEEEEEEEECCCcHHHH-----------HH
Confidence            47999999999999999999998764322111111111   11122 233  478899999986543           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..+|++|+|+|++++.+...  ..++..+....+   ..|+++|+||+|...
T Consensus        90 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~piilv~nK~Dl~~  143 (207)
T 2fv8_A           90 RPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFCP---NVPIILVANKKDLRS  143 (207)
T ss_dssp             GGGGCTTCCEEEEEEETTCHHHHHHHHHTHHHHHHHHST---TCCEEEEEECGGGGG
T ss_pred             HHhhcCCCCEEEEEEECCCHHHHHHHHHHHHHHHHHhCC---CCCEEEEEEchhhhc
Confidence            3356678899999999985433222  344555555322   358999999999975

>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=99.56  E-value=5e-15  Score=131.67  Aligned_cols=121  Identities=23%  Similarity=0.233  Sum_probs=74.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|++|+|||||+|+|++........ ..+.|.......+. .++..+.+|||||+.++....+   ........
T Consensus       224 ~~kV~ivG~~nvGKSSLln~L~~~~~a~v~~-~~gtT~d~~~~~i~-~~g~~v~liDT~G~~~~~~~ve---~~gi~~~~  298 (462)
T 3geh_A          224 GLKVAIVGRPNVGKSSLLNAWSQSDRAIVTD-LPGTTRDVVESQLV-VGGIPVQVLDTAGIRETSDQVE---KIGVERSR  298 (462)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHHHBSCCSC-CTTCCHHHHHHEEE-ETTEEEEECC-----------------------
T ss_pred             CCEEEEEcCCCCCHHHHHHHHhCCCcccccC-CCCeeEEEEEEEEE-ECCEEEEEEECCccccchhHHH---HHHHHHHh
Confidence            4789999999999999999999875422221 22334333333333 4788999999999965432111   11112223


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+..+|++|+|+|++++.+..+..+++.+..       .|+++|+||+|...
T Consensus       299 ~~~~~aD~vl~VvD~s~~~~~~~~~i~~~l~~-------~piivV~NK~Dl~~  344 (462)
T 3geh_A          299 QAANTADLVLLTIDAATGWTTGDQEIYEQVKH-------RPLILVMNKIDLVE  344 (462)
T ss_dssp             CCCCSCSEEEEEEETTTCSCHHHHHHHHHHTT-------SCEEEEEECTTSSC
T ss_pred             hhhhcCCEEEEEeccCCCCCHHHHHHHHhccC-------CcEEEEEECCCCCc
Confidence            45678899999999998888877666554432       48999999999986

>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=99.55  E-value=2.3e-15  Score=121.11  Aligned_cols=122  Identities=20%  Similarity=0.129  Sum_probs=76.1

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ......+|+|+|.+|+|||||+|+++............+.+......... ..+..+.+|||||......          
T Consensus        11 ~~~~~~ki~v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~i~Dt~G~~~~~~----------   79 (221)
T 3gj0_A           11 EPQVQFKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTN-RGPIKFNVWDTAGQEKFGG----------   79 (221)
T ss_dssp             CCCCEEEEEEEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEET-TEEEEEEEEEECSGGGTSC----------
T ss_pred             CcccceEEEEECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEEC-CEEEEEEEEeCCChHHHhH----------
Confidence            33455899999999999999999955332211112222333333322221 1345789999999754332          


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ....++.++|++|+|+|++++.+... ..++..+....+   ..|+++|+||+|...
T Consensus        80 -~~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~  133 (221)
T 3gj0_A           80 -LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE---NIPIVLCGNKVDIKD  133 (221)
T ss_dssp             -CCHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHST---TCCEEEEEECTTSSS
T ss_pred             -HHHHHHhcCCEEEEEEECCCHHHHHHHHHHHHHHHHhCC---CCCEEEEEECCcccc
Confidence             12234567899999999985444333 334444444432   358999999999874

>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=99.55  E-value=5.2e-15  Score=132.14  Aligned_cols=119  Identities=22%  Similarity=0.266  Sum_probs=80.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCC-CCCCCcHHH-HHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF-DFSAGSEFV-GKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~-~~~~~~~~~-~~~~~~~~   97 (253)
                      .+|+|+|.+|+|||||+|+|++....... ...++|.......+. .++..+.+|||||+. .+....+.. .....   
T Consensus       244 ~kV~ivG~pnvGKSSLln~L~~~~~a~vs-~~~gTT~d~~~~~i~-~~g~~~~l~DTaG~~~~~~~~ve~~gi~~~~---  318 (482)
T 1xzp_A          244 LRMVIVGKPNVGKSTLLNRLLNEDRAIVT-DIPGTTRDVISEEIV-IRGILFRIVDTAGVRSETNDLVERLGIERTL---  318 (482)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCC-CSSCCSSCSCCEEEE-ETTEEEEEEESSCCCSSCCTTCCCCCHHHHH---
T ss_pred             CEEEEECcCCCcHHHHHHHHHCCCCCccC-CCCCeeeeeEEEEEe-cCCeEEEEEECCCccccchhhHHHHHHHHHH---
Confidence            79999999999999999999997642222 122344444444444 378899999999997 543222110 01111   


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                       ..+..+|++|+|+|++++.+..+..+++.+    .   ..|+++|+||+|...
T Consensus       319 -~~~~~aD~vl~VvD~s~~~s~~~~~il~~l----~---~~piivV~NK~DL~~  364 (482)
T 1xzp_A          319 -QEIEKADIVLFVLDASSPLDEEDRKILERI----K---NKRYLVVINKVDVVE  364 (482)
T ss_dssp             -HHHHHCSEEEEEEETTSCCCHHHHHHHHHH----T---TSSEEEEEEECSSCC
T ss_pred             -HHhhcccEEEEEecCCCCCCHHHHHHHHHh----c---CCCEEEEEECccccc
Confidence             223456999999999878887766555433    2   248999999999975

>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=99.54  E-value=4.1e-13  Score=115.74  Aligned_cols=130  Identities=17%  Similarity=0.135  Sum_probs=75.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--CCccc------------------------ee--------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--SSGVT------------------------ST--------------   57 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--~~~~t------------------------~~--------------   57 (253)
                      ..++|+|+|.+|+|||||+|+|+|....+.+..  ....+                        ..              
T Consensus        30 ~~~~I~vvG~~~~GKSSLln~L~g~~~~p~~~~~~t~~p~~~~~~~~~~~~~~~~~~~~~~~tt~~~v~~~i~~~~~~i~  109 (353)
T 2x2e_A           30 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNATTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  109 (353)
T ss_dssp             CCCEEEEECBTTSSHHHHHHTTTTSCCSCCCSSSCCCSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHhCCCcCCCCCCcccccceEEEEEcCCccceeeeecCCcccCCHHHHHHHHHHHHHHhc
Confidence            347999999999999999999999875322211  00001                        00              


Q ss_pred             ---------eeeeeeEeeCCeEEEEEeCCCCCCCCCC--cHHHHHHHHHHHHhhcCCc-cEEEEEEeCCCCCCHHHHHHH
Q 025391           58 ---------CEMQRTVLKDGQVVNVIDTPGLFDFSAG--SEFVGKEIVKCIGMAKDGI-HAVLVVFSVRSRFSQEEEAAL  125 (253)
Q Consensus        58 ---------~~~~~~~~~~~~~~~liDtpG~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~~l~v~d~~~~~~~~~~~~l  125 (253)
                               .....+.......++||||||+......  .......+...+..++..+ +++|+|++++..+...+  ..
T Consensus       110 g~~~gi~~~~~~~~i~~~~~~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~--~~  187 (353)
T 2x2e_A          110 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD--AL  187 (353)
T ss_dssp             TTTTCCCCCCEEEEEEETTCCSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCH--HH
T ss_pred             ccCCCcccCceEEEEecCCCCCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhH--HH
Confidence                     0000011112467999999999764321  2222334455555444444 45666677765555444  22


Q ss_pred             HHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          126 HSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       126 ~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+....+  ...|+++|+||+|...
T Consensus       188 ~i~~~~~~--~~~~~i~V~NK~Dl~~  211 (353)
T 2x2e_A          188 KVAKEVDP--QGQRTIGVITKLDLMD  211 (353)
T ss_dssp             HHHHHHCT--TCTTEEEEEECGGGSC
T ss_pred             HHHHHhCc--CCCceEEEeccccccC
Confidence            33333322  2358999999999985

>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=99.54  E-value=2.4e-14  Score=111.87  Aligned_cols=122  Identities=20%  Similarity=0.141  Sum_probs=69.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+++|.+|+|||||+|+|++.... .... .+.+......  .. .  .+.+|||||+.............+......
T Consensus         2 ~ki~v~G~~~~GKSsli~~l~~~~~~-~~~~-~~~t~~~~~~--~~-~--~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~   74 (190)
T 2cxx_A            2 ATIIFAGRSNVGKSTLIYRLTGKKVR-RGKR-PGVTRKIIEI--EW-K--NHKIIDMPGFGFMMGLPKEVQERIKDEIVH   74 (190)
T ss_dssp             CEEEEEEBTTSSHHHHHHHHHSCCCS-SSSS-TTCTTSCEEE--EE-T--TEEEEECCCBSCCTTSCHHHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCcCCc-cCCC-CCccceeEEE--ec-C--CEEEEECCCccccccCCHHHHHHHHHHHHH
Confidence            58999999999999999999988642 2221 2333332222  11 2  688999999765443332222333333322


Q ss_pred             h----cCCccEEEEEEeCCCCCCHHHHHHHH---------HHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 A----KDGIHAVLVVFSVRSRFSQEEEAALH---------SLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~----~~~~~~~l~v~d~~~~~~~~~~~~l~---------~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +    ..+++++++|+|.. .+......+..         .+....  ....|+++|+||+|...
T Consensus        75 ~~~~~~~~~~~v~~v~d~~-s~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~piilv~nK~Dl~~  136 (190)
T 2cxx_A           75 FIEDNAKNIDVAVLVVDGK-AAPEIIKRWEKRGEIPIDVEFYQFLR--ELDIPTIVAVNKLDKIK  136 (190)
T ss_dssp             HHHHHGGGCCEEEEEEETT-HHHHHHHHHHHTTCCCHHHHHHHHHH--HTTCCEEEEEECGGGCS
T ss_pred             HHHhhhccCCEEEEEEcch-hhhhHHHhhhccCccHHHHHHHHHHH--hcCCceEEEeehHhccC
Confidence            2    34556777777765 22111011111         111111  12358999999999986

>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=99.54  E-value=5.4e-14  Score=116.93  Aligned_cols=118  Identities=18%  Similarity=0.188  Sum_probs=75.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|+|.+|+|||||+|.|+|...+....  .++|.......+. . +..+.+|||||..+......  .+.+...+.
T Consensus         3 ~~kI~lvG~~nvGKSTL~n~L~g~~~~v~~~--pg~tv~~~~~~~~-~-~~~l~l~DtpG~~~~~~~~~--~e~v~~~~~   76 (272)
T 3b1v_A            3 MTEIALIGNPNSGKTSLFNLITGHNQRVGNW--PGVTVERKSGLVK-K-NKDLEIQDLPGIYSMSPYSP--EAKVARDYL   76 (272)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHCCCCCCCSS--SCCCCSCEEEECT-T-CTTEEEEECCCCSCSSCSSH--HHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHCCCCcccCC--CCCcEEEEEEEEe-c-CCeEEEEECCCcCccCCCCh--HHHHHHHHH
Confidence            4799999999999999999999976433222  2444443333332 2 66899999999987643221  122222221


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      . ...+|++++|+|+++ +. ....+...+.+     ...|+++|+||+|..
T Consensus        77 ~-~~~~d~vi~V~D~t~-~e-~~~~~~~~l~~-----~~~p~ilv~NK~Dl~  120 (272)
T 3b1v_A           77 L-SQRADSILNVVDATN-LE-RNLYLTTQLIE-----TGIPVTIALNMIDVL  120 (272)
T ss_dssp             H-TTCCSEEEEEEEGGG-HH-HHHHHHHHHHH-----TCSCEEEEEECHHHH
T ss_pred             h-cCCCCEEEEEecCCc-hH-hHHHHHHHHHh-----cCCCEEEEEEChhhC
Confidence            1 146899999999973 21 12223333333     125899999999985

>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=99.53  E-value=2.2e-14  Score=112.11  Aligned_cols=117  Identities=18%  Similarity=0.146  Sum_probs=66.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeE------eeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV------LKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~------~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      ..+|+|+|++|+|||||++.|++......+..  ..|....+....      ......+.+|||||..           +
T Consensus         2 ~~kv~ivG~~gvGKStLl~~l~~~~~~~~~~~--~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~-----------~   68 (184)
T 2zej_A            2 RMKLMIVGNTGSGKTTLLQQLMKTKKSDLGMQ--SATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGRE-----------E   68 (184)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHTCC-------------CSEEEEEEEC---------CEEEEEEECSHH-----------H
T ss_pred             ceEEEEECCCCCCHHHHHHHHhcCCCccCCCc--ceeccEEeEEeeeccccCCCCceEEEEEecCCCH-----------H
Confidence            36999999999999999999998632111111  112111111111      0135578999999963           2


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +......++.+.+++++|+|++++.+..+  ..++..+....   ...|+++|.||+|...
T Consensus        69 ~~~~~~~~~~~~~~~i~v~d~~~~~~s~~~~~~~~~~~~~~~---~~~piilv~nK~Dl~~  126 (184)
T 2zej_A           69 FYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARA---SSSPVILVGTHLDVSD  126 (184)
T ss_dssp             HHTTSHHHHHHSEEEEEEEEGGGCHHHHHTHHHHHHHHHHHC---TTCEEEEEEECGGGCC
T ss_pred             HHHhhHHHccCCcEEEEEEeCCcchhHHHHHHHHHHHHHhhC---CCCcEEEEEECCCccc
Confidence            22222334456689999999985432211  23333333321   2358999999999875

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.53  E-value=7.6e-14  Score=119.17  Aligned_cols=115  Identities=14%  Similarity=0.086  Sum_probs=75.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..++|+|+|.+|+|||||++.|++.......     .|.......+. ..+..+.+|||||...+.           ...
T Consensus       164 ~~~kI~ivG~~~vGKSsLl~~l~~~~~~~~~-----pT~~~~~~~~~-~~~~~l~i~Dt~G~~~~~-----------~~~  226 (329)
T 3o47_A          164 KEMRILMVGLDAAGKTTILYKLKLGEIVTTI-----PTIGFNVETVE-YKNISFTVWDVGGQDKIR-----------PLW  226 (329)
T ss_dssp             CSEEEEEEESTTSSHHHHHHHTCSSCCEEEE-----EETTEEEEEEE-ETTEEEEEEECC-----C-----------CSH
T ss_pred             CcceEEEECCCCccHHHHHHHHhCCCCCCcc-----cccceEEEEEe-cCcEEEEEEECCCCHhHH-----------HHH
Confidence            3469999999999999999999987642221     23333344444 467899999999965433           233


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      ..++..+|++|+|+|++++-+...  ...++...+...  ...|++||+||+|...
T Consensus       227 ~~~~~~ad~vilV~D~~~~~s~~~--~~~~~~~~~~~~~~~~~piilV~NK~Dl~~  280 (329)
T 3o47_A          227 RHYFQNTQGLIFVVDSNDRERVNE--AREELMRMLAEDELRDAVLLVFANKQDLPN  280 (329)
T ss_dssp             HHHHTTEEEEEEEEETTCSSSHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             HHHhccCCEEEEEEECCchHHHHH--HHHHHHHHHhhhccCCCeEEEEEECccCCc
Confidence            445578899999999986655443  122222222211  2468999999999975

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.53  E-value=2.8e-14  Score=125.40  Aligned_cols=127  Identities=20%  Similarity=0.188  Sum_probs=82.0

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +....++|+|+|++|+|||||+|+|++....... ...+.|...............+.+|||||+.++..-.......  
T Consensus        30 ~~~~~~kI~IvG~~~vGKSTLin~L~~~~~~~~~-~~~gtT~d~~~~~~~~~~~~~l~liDTpG~~d~~~l~~~~~~~--  106 (423)
T 3qq5_A           30 DAGFRRYIVVAGRRNVGKSSFMNALVGQNVSIVS-DYAGTTTDPVYKSMELHPIGPVTLVDTPGLDDVGELGRLRVEK--  106 (423)
T ss_dssp             --CCCEEEEEECSCSTTTTTTTTSSCC--------------CCCCEEEEEETTTEEEEEEECSSTTCCCTTCCCCHHH--
T ss_pred             CCCCCEEEEEECCCCCCHHHHHHHHHcCCCCccC-CCCCeeeeeEEEEEEECCCCeEEEEECcCCCcccchhHHHHHH--
Confidence            3445689999999999999999999998753222 2334455555555554333489999999998765432211111  


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                        ...++..+|++|+|+|+  ........++.++.+.     ..|+++|+||+|.....
T Consensus       107 --~~~~l~~aD~vllVvD~--~~~~~~~~~l~~l~~~-----~~piIvV~NK~Dl~~~~  156 (423)
T 3qq5_A          107 --ARRVFYRADCGILVTDS--APTPYEDDVVNLFKEM-----EIPFVVVVNKIDVLGEK  156 (423)
T ss_dssp             --HHHHHTSCSEEEEECSS--SCCHHHHHHHHHHHHT-----TCCEEEECCCCTTTTCC
T ss_pred             --HHHHHhcCCEEEEEEeC--CChHHHHHHHHHHHhc-----CCCEEEEEeCcCCCCcc
Confidence              22344678999999998  5666677777777764     24899999999998643

>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=99.51  E-value=1.2e-14  Score=124.45  Aligned_cols=126  Identities=18%  Similarity=0.134  Sum_probs=77.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .+|+|+|.+|||||||+|+|++......  .....|.......+....+..+.+|||||+.+.......+...+.+.+. 
T Consensus       159 a~V~lvG~~nvGKSTLln~L~~~~~~i~--~~~ftTl~p~~g~v~~~~~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~-  235 (342)
T 1lnz_A          159 ADVGLVGFPSVGKSTLLSVVSSAKPKIA--DYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIE-  235 (342)
T ss_dssp             CCEEEESSTTSSHHHHHHHSEEECCEES--STTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHH-
T ss_pred             CeeeeeCCCCCCHHHHHHHHHcCCCccc--cCCccccCceEEEEEeCCCceEEEecCCCCcccccccchhHHHHHHHHH-
Confidence            3689999999999999999998754221  1222344444444443334789999999975322111112233333333 


Q ss_pred             hcCCccEEEEEEeCCC---CCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRS---RFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~---~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                         .+|++|+|+|+++   +-+..+ ..++..+..+.......|+++|+||+|...
T Consensus       236 ---~~d~ll~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~  288 (342)
T 1lnz_A          236 ---RTRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE  288 (342)
T ss_dssp             ---HCCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT
T ss_pred             ---hccEEEEEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCC
Confidence               3589999999985   222233 334444544321123468999999999985

>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=99.51  E-value=2.1e-13  Score=117.86  Aligned_cols=128  Identities=20%  Similarity=0.276  Sum_probs=66.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-----CccceeeeeeeeEe-eCC--eEEEEEeCCCCCCCCCCcH--
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASS-----SGVTSTCEMQRTVL-KDG--QVVNVIDTPGLFDFSAGSE--   87 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~-----~~~t~~~~~~~~~~-~~~--~~~~liDtpG~~~~~~~~~--   87 (253)
                      ..++|+|+|++|+|||||+|+|++...+..+..+     ...|.......... ..+  ..+.+|||||+.+.....+  
T Consensus        36 ~~~~I~vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~  115 (361)
T 2qag_A           36 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF  115 (361)
T ss_dssp             CEECEEECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHH
Confidence            3478999999999999999999988765443221     01222222222111 123  3689999999966432211  


Q ss_pred             -----HHHHHHHHHHHhh---------cCCccEEEEEEeC-CCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           88 -----FVGKEIVKCIGMA---------KDGIHAVLVVFSV-RSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        88 -----~~~~~~~~~~~~~---------~~~~~~~l~v~d~-~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                           .+...+...+...         ..++|+++|+++. ...+...+..+++.+    ..  ..|+++|+||+|...
T Consensus       116 ~~i~~~i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~~~~l~~~d~~~~~~l----~~--~~piIlV~NK~Dl~~  188 (361)
T 2qag_A          116 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HN--KVNIVPVIAKADTLT  188 (361)
T ss_dssp             CCTHHHHHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSSSSSCCHHHHHHHHHT----CS---SCEEEEEECCSSSC
T ss_pred             HHHHHHHHHHHHHHHHHhhhhccccccCCceEEEEEEEecCCCCcchhHHHHHHHh----cc--CCCEEEEEECCCCCC
Confidence                 1111222223221         1245788888876 557877776555543    22  358999999999986

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.50  E-value=8.8e-14  Score=125.60  Aligned_cols=117  Identities=15%  Similarity=0.192  Sum_probs=83.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc----------------cc----CCCCccceeeeeeeeEeeCCeEEEEEeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK----------------SR----ASSSGVTSTCEMQRTVLKDGQVVNVIDTP   77 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~----------------~~----~~~~~~t~~~~~~~~~~~~~~~~~liDtp   77 (253)
                      ..++|+|+|++|+|||||+|+|++.....                ..    ....++|.......+. +.+..+++||||
T Consensus        12 ~~r~IaIiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~-~~~~~i~liDTP   90 (528)
T 3tr5_A           12 MRRTFAIISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFP-YKDYLINLLDTP   90 (528)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEE-ETTEEEEEECCC
T ss_pred             cCCEEEEECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEE-eCCEEEEEEECC
Confidence            45899999999999999999997322110                00    0012334434344444 478899999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           78 GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |+.++.           .....++..+|++|+|+|++...+.....++..+... +    .|+++|+||+|...
T Consensus        91 G~~df~-----------~~~~~~l~~aD~allVvDa~~g~~~~t~~~~~~~~~~-~----iPiivviNK~Dl~~  148 (528)
T 3tr5_A           91 GHADFT-----------EDTYRTLTAVDSALMVIDAAKGVEPRTIKLMEVCRLR-H----TPIMTFINKMDRDT  148 (528)
T ss_dssp             CSTTCC-----------HHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHHTT-T----CCEEEEEECTTSCC
T ss_pred             CchhHH-----------HHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHc-C----CCEEEEEeCCCCcc
Confidence            998765           2234455678999999999988888887777665542 2    48999999999975

>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=99.50  E-value=1.1e-12  Score=115.30  Aligned_cols=120  Identities=16%  Similarity=0.284  Sum_probs=79.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeeeeeeEee--------------C--------CeEEEE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQRTVLK--------------D--------GQVVNV   73 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-~~~~~~t~~~~~~~~~~~--------------~--------~~~~~l   73 (253)
                      .+.++|+++|+.++|||||+++|+|....... ....++|....+......              .        ...+.+
T Consensus         6 ~~~~~I~iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   85 (408)
T 1s0u_A            6 QAEVNIGMVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSF   85 (408)
T ss_dssp             CCCEEEEEESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEE
T ss_pred             CCceEEEEEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEE
Confidence            34589999999999999999999976421111 112334443332221110              0        167999


Q ss_pred             EeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           74 IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        74 iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |||||+           ..+..........+|++|+|+|+++.. .......+..+.. ++.   +|+++++||+|...
T Consensus        86 iDtPGh-----------~~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~-l~~---~~iivv~NK~Dl~~  149 (408)
T 1s0u_A           86 VDSPGH-----------ETLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMALEI-LGI---DKIIIVQNKIDLVD  149 (408)
T ss_dssp             EECSSH-----------HHHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHHHHH-TTC---CCEEEEEECTTSSC
T ss_pred             EECCCH-----------HHHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHHHHH-cCC---CeEEEEEEccCCCC
Confidence            999996           334444445556789999999998776 6666666665543 343   37999999999986

>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=99.49  E-value=3.8e-13  Score=119.08  Aligned_cols=119  Identities=13%  Similarity=0.158  Sum_probs=80.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc------------CC-------------------CCccceeeeeeeeEe
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR------------AS-------------------SSGVTSTCEMQRTVL   65 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------------~~-------------------~~~~t~~~~~~~~~~   65 (253)
                      .+.++|+++|+.|+|||||+|+|++.......            ..                   ..++|....+..+. 
T Consensus        22 ~~~~~i~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~-  100 (434)
T 1zun_B           22 KEMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS-  100 (434)
T ss_dssp             CEEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE-
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEee-
Confidence            34489999999999999999999865411000            00                   02344444444343 


Q ss_pred             eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEe
Q 025391           66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        66 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ..+..+.+|||||+.++           .......+..+|++|+|+|+++.........+..+.. ++.   +++++|+|
T Consensus       101 ~~~~~~~iiDtpGh~~f-----------~~~~~~~~~~aD~~ilVvDa~~g~~~qt~~~l~~~~~-~~~---~~iIvviN  165 (434)
T 1zun_B          101 TAKRKFIIADTPGHEQY-----------TRNMATGASTCDLAIILVDARYGVQTQTRRHSYIASL-LGI---KHIVVAIN  165 (434)
T ss_dssp             CSSEEEEEEECCCSGGG-----------HHHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHH-TTC---CEEEEEEE
T ss_pred             cCCceEEEEECCChHHH-----------HHHHHHHHhhCCEEEEEEECCCCCcHHHHHHHHHHHH-cCC---CeEEEEEE
Confidence            35778999999997542           2233344578899999999998888777777665544 332   36999999


Q ss_pred             CCCCCC
Q 025391          146 GGDELE  151 (253)
Q Consensus       146 k~D~~~  151 (253)
                      |+|...
T Consensus       166 K~Dl~~  171 (434)
T 1zun_B          166 KMDLNG  171 (434)
T ss_dssp             CTTTTT
T ss_pred             cCcCCc
Confidence            999975

>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=99.49  E-value=3.1e-13  Score=107.47  Aligned_cols=125  Identities=16%  Similarity=0.299  Sum_probs=72.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+..+|+|+|++|+|||||+|.|+|...........+.+......  .. .+ .+.++||||+.......+. ...+...
T Consensus        24 ~~~~~v~lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~--~~-~~-~~~l~Dt~G~~~~~~~~~~-~~~~~~~   98 (210)
T 1pui_A           24 DTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLF--EV-AD-GKRLVDLPGYGYAEVPEEM-KRKWQRA   98 (210)
T ss_dssp             SCSEEEEEEECTTSSHHHHHTTTCCC-------------CCEEEE--EE-ET-TEEEEECCCCC------CC-HHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEE--Ee-cC-CEEEEECcCCcccccCHHH-HHHHHHH
Confidence            345899999999999999999999976211111122333322221  11 22 5789999998643221110 1112222


Q ss_pred             HH---hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IG---MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~---~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +.   .....++++++++|++...+..+.....++.. .+    .|.++|.||+|.+.
T Consensus        99 ~~~~~~~~~~~~~~~~v~d~~~~~~~~~~~~~~~~~~-~~----~~~~~v~nK~D~~s  151 (210)
T 1pui_A           99 LGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVD-SN----IAVLVLLTKADKLA  151 (210)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHH-TT----CCEEEEEECGGGSC
T ss_pred             HHHHHHhhhcccEEEEEEECCCCCchhHHHHHHHHHH-cC----CCeEEEEecccCCC
Confidence            22   22356789999999987777665555555543 22    47889999999986

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.49  E-value=4.9e-14  Score=128.00  Aligned_cols=135  Identities=19%  Similarity=0.290  Sum_probs=79.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee-eeeeee----------------------E---------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQRT----------------------V---------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~-~~~~~~----------------------~---------   64 (253)
                      ...++|+|+|.+|+|||||+|+|+|.............|.. ......                      .         
T Consensus        63 ~~~~~V~vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T~~~~~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~  142 (550)
T 2qpt_A           63 DGKPMVLVAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTTDCFVAVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNR  142 (550)
T ss_dssp             SSCCEEEEEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCCCSEEEEECCSSSEEECCC------------------CCCTT
T ss_pred             cCCcEEEEECCCCCCHHHHHHHHhCCccccCccCCCCccceEEEEEECCcccccCCceeeecCcccHHHHhhhccccccc
Confidence            34589999999999999999999998753111111111111 000000                      0         


Q ss_pred             ----eeCC---eEEEEEeCCCCCCCCCCcHHHHHH--HHHHHHhhcCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcc
Q 025391           65 ----LKDG---QVVNVIDTPGLFDFSAGSEFVGKE--IVKCIGMAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGK  134 (253)
Q Consensus        65 ----~~~~---~~~~liDtpG~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~  134 (253)
                          ...+   ..+++|||||+.+....  .+.+.  +......++..+|++|+|+|++. .....+..+++.+...   
T Consensus       143 ~~~~~~~~~ll~~l~lIDTPG~~~~~~~--~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~~---  217 (550)
T 2qpt_A          143 FMCAQLPNQVLESISIIDTPGILSGAKQ--RVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRGH---  217 (550)
T ss_dssp             EEEEECCCHHHHHCEEEECCCBCC---------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTTC---
T ss_pred             ceEEeccccccCCEEEEECcCCCCcchh--HHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHhc---
Confidence                0000   36899999999752210  00000  22333444456799999999985 3666666666555431   


Q ss_pred             cccCeEEEEEeCCCCCCCChhhHHHH
Q 025391          135 KIFDYMIVVFTGGDELEDNDETLEDY  160 (253)
Q Consensus       135 ~~~~~~ivv~~k~D~~~~~~~~~~~~  160 (253)
                        ..++++|+||+|...  ...+...
T Consensus       218 --~~pvilVlNK~Dl~~--~~el~~~  239 (550)
T 2qpt_A          218 --EDKIRVVLNKADMVE--TQQLMRV  239 (550)
T ss_dssp             --GGGEEEEEECGGGSC--HHHHHHH
T ss_pred             --CCCEEEEEECCCccC--HHHHHHH
Confidence              247999999999986  5444433

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.49  E-value=3.1e-13  Score=119.69  Aligned_cols=119  Identities=18%  Similarity=0.213  Sum_probs=80.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------------------CCCCccceeeeeeeeEeeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR-----------------------------ASSSGVTSTCEMQRTVLKD   67 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-----------------------------~~~~~~t~~~~~~~~~~~~   67 (253)
                      .+.++|+++|+.++|||||+|.|++.......                             ....++|.......+.. .
T Consensus        15 k~~~~i~iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~-~   93 (439)
T 3j2k_7           15 KEHVNVVFIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFET-E   93 (439)
T ss_pred             CceeEEEEEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEec-C
Confidence            34589999999999999999999765321100                             01135566666655553 6


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCC-------HHHHHHHHHHHHHhcccccCeE
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS-------QEEEAALHSLQTLFGKKIFDYM  140 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~-------~~~~~~l~~l~~~~g~~~~~~~  140 (253)
                      +..+.+|||||+.+           +.......+..+|++|+|+|++....       ...+..+..+.. .+.   +++
T Consensus        94 ~~~~~iiDTPGh~~-----------f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~-~~v---~~i  158 (439)
T 3j2k_7           94 KKHFTILDAPGHKS-----------FVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT-AGV---KHL  158 (439)
T ss_pred             CeEEEEEECCChHH-----------HHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH-cCC---CeE
Confidence            77999999999743           33444444567899999999986653       345555554443 232   248


Q ss_pred             EEEEeCCCCCC
Q 025391          141 IVVFTGGDELE  151 (253)
Q Consensus       141 ivv~~k~D~~~  151 (253)
                      ++++||+|...
T Consensus       159 IvviNK~Dl~~  169 (439)
T 3j2k_7          159 IVLINKMDDPT  169 (439)
T ss_pred             EEEeecCCCcc
Confidence            99999999864

>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=99.49  E-value=1.1e-13  Score=122.80  Aligned_cols=126  Identities=21%  Similarity=0.211  Sum_probs=76.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH--HH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI--VK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~--~~   95 (253)
                      ..++|+|+|++|||||||+|+|+|........ ..+.|.......+. .++..+.+|||||+.............+  ..
T Consensus       179 ~~~kvaivG~~gvGKSTLln~l~g~~~~~v~~-~~gtT~d~~~~~i~-~~g~~~~l~Dt~G~~~~~~~~~~~~e~~~~~~  256 (439)
T 1mky_A          179 DAIKVAIVGRPNVGKSTLFNAILNKERALVSP-IPGTTRDPVDDEVF-IDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYR  256 (439)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECC-CC------CCEEEE-ETTEEEEESSCSCC-----------CCSCCHH
T ss_pred             cCceEEEECCCCCCHHHHHHHHhCCcccccCC-CCCCcCCceEEEEE-ECCEEEEEEECCCCccccccchhhHHHHHHHH
Confidence            45899999999999999999999986532222 22334333333333 4788899999999853221100000000  01


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      . ..++..+|++++|+|++...+..+..+...+.. .+    .++++|+||+|...
T Consensus       257 ~-~~~i~~ad~vllv~d~~~~~~~~~~~i~~~l~~-~~----~~~ilv~NK~Dl~~  306 (439)
T 1mky_A          257 V-VDSIEKADVVVIVLDATQGITRQDQRMAGLMER-RG----RASVVVFNKWDLVV  306 (439)
T ss_dssp             H-HHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHH-TT----CEEEEEEECGGGST
T ss_pred             H-HHHHhhCCEEEEEEeCCCCCCHHHHHHHHHHHH-cC----CCEEEEEECccCCC
Confidence            1 122345689999999987888777555554443 23    57999999999986

>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=99.49  E-value=1.5e-13  Score=123.27  Aligned_cols=118  Identities=15%  Similarity=0.224  Sum_probs=79.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc-----------------------------cCCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS-----------------------------RASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-----------------------------~~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|.+|+|||||+|+|++......                             .....++|.......+.. .+
T Consensus        32 ~~~ki~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~  110 (483)
T 3p26_A           32 PHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-HR  110 (483)
T ss_dssp             CEEEEEEESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEEC-SS
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEec-CC
Confidence            448999999999999999999976521000                             011125565555555543 67


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..+.+|||||+.+           +.......+..+|++|+|+|+++.       +.......+..+.. ++.   ++++
T Consensus       111 ~~~~iiDTPG~~~-----------f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~-~~~---~~iI  175 (483)
T 3p26_A          111 ANFTIVDAPGHRD-----------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGI---HNLI  175 (483)
T ss_dssp             CEEEEECCCCCGG-----------GHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHH-TTC---CCEE
T ss_pred             ceEEEEECCCcHH-----------HHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHH-cCC---CcEE
Confidence            8999999999853           234444555788999999999865       34455555544443 332   3699


Q ss_pred             EEEeCCCCCC
Q 025391          142 VVFTGGDELE  151 (253)
Q Consensus       142 vv~~k~D~~~  151 (253)
                      ||+||+|...
T Consensus       176 vviNK~Dl~~  185 (483)
T 3p26_A          176 IAMNKMDNVD  185 (483)
T ss_dssp             EEEECGGGGT
T ss_pred             EEEECcCccc
Confidence            9999999875

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.48  E-value=7.8e-14  Score=129.99  Aligned_cols=122  Identities=19%  Similarity=0.209  Sum_probs=77.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee-eeee-----eeEe-------------------eCC----
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST-CEMQ-----RTVL-------------------KDG----   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~-~~~~-----~~~~-------------------~~~----   68 (253)
                      +.++|+|+|.+|+|||||+|+|+|....+.+..+...... ..+.     ....                   ..+    
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            4589999999999999999999999865544332221000 0000     0000                   000    


Q ss_pred             --------------------------eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHH
Q 025391           69 --------------------------QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEE  122 (253)
Q Consensus        69 --------------------------~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~  122 (253)
                                                ..+.+|||||+.+...        ....+..+++.+|++|+|+|++..++..+.
T Consensus       148 ~l~~~~~~~~~~v~~i~i~~p~~~l~~~l~LiDTPGl~~~~~--------~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~  219 (695)
T 2j69_A          148 KLEQEKKQAFPDVDYAVVEYPLTLLQKGIEIVDSPGLNDTEA--------RNELSLGYVNNCHAILFVMRASQPCTLGER  219 (695)
T ss_dssp             HHHTSSCCSCTTEEEEEEEECCHHHHTTEEEEECCCHHHHHT--------CHHHHTHHHHSSSEEEEEEETTSTTCHHHH
T ss_pred             HHhhccccccccceEEEEEccchhccCCeEEEECCCCCchhh--------HHHHHHHHHHhCCEEEEEEeCCCccchhHH
Confidence                                      3689999999864221        122333444678999999999888888776


Q ss_pred             HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          123 AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       123 ~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+...   +. ....|+++|+||+|...
T Consensus       220 ~~l~~~---l~-~~~~~iiiVlNK~Dl~~  244 (695)
T 2j69_A          220 RYLENY---IK-GRGLTVFFLVNAWDQVR  244 (695)
T ss_dssp             HHHHHH---TT-TSCCCEEEEEECGGGGG
T ss_pred             HHHHHH---HH-hhCCCEEEEEECccccc
Confidence            554322   11 11247999999999874

>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=99.48  E-value=7.6e-13  Score=116.03  Aligned_cols=128  Identities=17%  Similarity=0.202  Sum_probs=70.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC----Cccceeeeeeee-EeeC--CeEEEEEeCCCCCCCCCCcHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASS----SGVTSTCEMQRT-VLKD--GQVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~----~~~t~~~~~~~~-~~~~--~~~~~liDtpG~~~~~~~~~~~   89 (253)
                      +-.++|+|+|++|+|||||+|+|+|...+..+...    ...+........ ....  ...+++|||||+...... ...
T Consensus        29 ~vsf~I~lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~-~~~  107 (418)
T 2qag_C           29 GFEFTLMVVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDN-SNC  107 (418)
T ss_dssp             CCCEEEEEECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC------------
T ss_pred             CCCEEEEEECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccc-hhh
Confidence            34478999999999999999999998764332110    011211111111 1111  237899999999764221 111


Q ss_pred             HHHH----HHHHH-----------hhc--CCccEEEEEEeCC-CCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GKEI----VKCIG-----------MAK--DGIHAVLVVFSVR-SRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~~~----~~~~~-----------~~~--~~~~~~l~v~d~~-~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..+    ...+.           ..+  +.+|++||+++++ ..+++.+..+++.+..      ..++|+|+||+|.+.
T Consensus       108 ~~~i~~~i~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~~~L~~~d~~~lk~L~~------~v~iIlVinK~Dll~  181 (418)
T 2qag_C          108 WQPVIDYIDSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE------KVNIIPLIAKADTLT  181 (418)
T ss_dssp             CHHHHHHHHHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-CCSCCHHHHHHHHHHTT------TSEEEEEEESTTSSC
T ss_pred             HHHHHHHHHHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcccCCCHHHHHHHHHHhc------cCcEEEEEEcccCcc
Confidence            1111    11111           112  3456788888887 5899888766665532      258999999999986

>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=99.48  E-value=3.9e-13  Score=120.38  Aligned_cols=116  Identities=18%  Similarity=0.294  Sum_probs=80.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc-----ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK-----SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~-----~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      .++|+++|+.++|||||+++|++.....     ......++|....+..... .+..+.+|||||+           ..+
T Consensus        19 ~~~I~iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~-~~~~i~iiDtPGh-----------~~~   86 (482)
T 1wb1_A           19 NINLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKL-ENYRITLVDAPGH-----------ADL   86 (482)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEEE-TTEEEEECCCSSH-----------HHH
T ss_pred             CCEEEEECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEE-CCEEEEEEECCCh-----------HHH
Confidence            4799999999999999999999876100     1112334565555555543 6789999999997           334


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .......+..+|++|+|+|+++...+.....+..+.. ++    .|.++|+||+|...
T Consensus        87 ~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~-~~----ip~IvviNK~Dl~~  139 (482)
T 1wb1_A           87 IRAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDH-FN----IPIIVVITKSDNAG  139 (482)
T ss_dssp             HHHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHH-TT----CCBCEEEECTTSSC
T ss_pred             HHHHHHHHhhCCEEEEEEecCCCccHHHHHHHHHHHH-cC----CCEEEEEECCCccc
Confidence            4445556678899999999988888888777776554 34    35799999999986

>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=99.22  E-value=3.1e-15  Score=118.77  Aligned_cols=118  Identities=17%  Similarity=0.045  Sum_probs=74.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ....+|+++|.+|+|||||++++++...........+...   ...+.. .....+.+|||||....           ..
T Consensus        28 ~~~~ki~v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~---~~~~~~~~~~~~l~i~Dt~G~~~~-----------~~   93 (204)
T 3th5_A           28 GQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY---SANVMVDGKPVNLGLWDTAGQEDY-----------DR   93 (204)
Confidence            4558999999999999999999987654222111111111   111111 12345679999997542           23


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++|+|+|++++.+....  .++..+....+   ..|+++|+||+|...
T Consensus        94 ~~~~~~~~~d~iilv~D~~~~~s~~~~~~~~~~~l~~~~~---~~piilv~NK~Dl~~  148 (204)
T 3th5_A           94 LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHCP---NTPIILVGTKLDLRD  148 (204)
Confidence            334456778999999999865544442  44444444322   358999999999975

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=99.47  E-value=9.4e-13  Score=109.28  Aligned_cols=135  Identities=20%  Similarity=0.254  Sum_probs=79.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC-----ccc-eeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCc---HH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSS-----GVT-STCEMQRTVLKD--GQVVNVIDTPGLFDFSAGS---EF   88 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~-----~~t-~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~---~~   88 (253)
                      ++++|+|+||+|||||+|+|+|...+..+....     ..+ .......+....  ...++++|+||+.......   ..
T Consensus         3 f~v~lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~~   82 (270)
T 3sop_A            3 FNIMVVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWEP   82 (270)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSHH
T ss_pred             eEEEEECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHHH
Confidence            789999999999999999999987655442110     011 111111111111  2378999999997543221   11


Q ss_pred             HHH----HHHHHHHhh----------cCCccEEEEEEeC-CCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           89 VGK----EIVKCIGMA----------KDGIHAVLVVFSV-RSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        89 ~~~----~~~~~~~~~----------~~~~~~~l~v~d~-~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      +..    .+.......          ...+++.++++|. ++.+++.+...++.+.+.      .++++|++|+|.+.  
T Consensus        83 i~~~~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD~~~l~~L~~~------~~vI~Vi~K~D~lt--  154 (270)
T 3sop_A           83 IEKYINEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLDLEFMKHLSKV------VNIIPVIAKADTMT--  154 (270)
T ss_dssp             HHHHHHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHHHHHHHHHHTT------SEEEEEETTGGGSC--
T ss_pred             HHHHHHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHHHHHHHHHHhc------CcEEEEEeccccCC--
Confidence            211    122222111          1235888888875 578999998888777653      37999999999998  


Q ss_pred             hhhHHHHHc
Q 025391          154 DETLEDYLG  162 (253)
Q Consensus       154 ~~~~~~~~~  162 (253)
                      ...+..+..
T Consensus       155 ~~e~~~~k~  163 (270)
T 3sop_A          155 LEEKSEFKQ  163 (270)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            665555544

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.47  E-value=2.4e-13  Score=117.44  Aligned_cols=123  Identities=15%  Similarity=0.145  Sum_probs=81.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|||.++||||||+|+|+|.....  ....++|..+....+. ..+.++.++||||+.............+...+.
T Consensus        72 ~a~V~ivG~PNvGKSTL~n~Lt~~~~~v--~~~pftT~~~~~g~~~-~~~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~  148 (376)
T 4a9a_A           72 VASVGFVGFPSVGKSTLLSKLTGTESEA--AEYEFTTLVTVPGVIR-YKGAKIQMLDLPGIIDGAKDGRGRGKQVIAVAR  148 (376)
T ss_dssp             SEEEEEECCCCHHHHHHHHHHHSBCCCG--GGTCSSCCCEEEEEEE-ETTEEEEEEECGGGCCC-----CHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHhCCCCcc--cCCCCceeeeeeEEEE-eCCcEEEEEeCCCccCCchhhhHHHHHHHHHHH
Confidence            3699999999999999999999986432  2234566666665555 588999999999998654444434444444444


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc-ccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK-IFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~  150 (253)
                      .    +|++++|+|+++++.  +...+..-...++.. ..+|.++++||.|.-
T Consensus       149 ~----ad~il~vvD~~~p~~--~~~~i~~EL~~~~~~l~~k~~~i~~nK~d~~  195 (376)
T 4a9a_A          149 T----CNLLFIILDVNKPLH--HKQIIEKELEGVGIRLNKTPPDILIKKKEKG  195 (376)
T ss_dssp             H----CSEEEEEEETTSHHH--HHHHHHHHHHHTTEEETCCCCCEEEEECSSS
T ss_pred             h----cCccccccccCccHH--HHHHHHHHHHHhhHhhccCChhhhhhHhhhh
Confidence            4    489999999874433  233333223333433 345788999999974

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.46  E-value=3.6e-13  Score=113.87  Aligned_cols=120  Identities=14%  Similarity=0.100  Sum_probs=76.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+++|.+|+|||||++.+.+...+. .....+.|.......+  .....+.+|||||...+..+.      +  ....+
T Consensus         1 KIvllGdsgvGKTSLl~~~~~~~~~~-~~~~~~~Tig~~~~~v--~~~v~LqIWDTAGQErf~~~~------l--~~~~y   69 (331)
T 3r7w_B            1 MVLLMGVRRCGKSSICKVVFHNMQPL-DTLYLESTSNPSLEHF--STLIDLAVMELPGQLNYFEPS------Y--DSERL   69 (331)
T ss_dssp             CEEEECSTTSSTTHHHHHHHSCCCSG-GGTTCCCCCSCCCEEE--CSSSCEEEEECCSCSSSCCCS------H--HHHHH
T ss_pred             CEEEECCCCCCHHHHHHHHHcCCCCC-ccceecCeeeeeeEEE--ccEEEEEEEECCCchhccchh------h--hhhhh
Confidence            68999999999999999888664322 1112233333333222  134689999999998764210      0  12355


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +++++++|+|+|+++++...-..+.+++..........|+++|+||+|...
T Consensus        70 yr~a~~~IlV~Ditd~~~~~~~~l~~~l~~~~~~~~~ipillvgNK~DL~~  120 (331)
T 3r7w_B           70 FKSVGALVYVIDSQDEYINAITNLAMIIEYAYKVNPSINIEVLIHKVDGLS  120 (331)
T ss_dssp             HTTCSEEEEECCCSSCTTHHHHHHHHHHHHHHHHCTTCEEEEECCCCCSSC
T ss_pred             ccCCCEEEEEEECCchHHHHHHHHHHHHHHHhhcCCCCcEEEEEECcccCc
Confidence            689999999999987743333333333433211122358999999999986

>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=99.46  E-value=1e-13  Score=109.61  Aligned_cols=117  Identities=21%  Similarity=0.194  Sum_probs=71.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++|+|+|++|||||||++.|+|.........+.+  .......+. .++  ..+.+|||||......           .
T Consensus         5 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~--~~~~~~~i~-~~g~~~~~~i~Dt~g~~~~~~-----------~   70 (199)
T 2f9l_A            5 LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIG--VEFATRSIQ-VDGKTIKAQIWDTAGQERYRR-----------I   70 (199)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHSCCCC---CCCS--CEEEEEEEE-ETTEEEEEEEEECSSGGGTTC-----------C
T ss_pred             eEEEEEECcCCCCHHHHHHHHhcCCCCCCCCCccc--eeEEEEEEE-ECCEEEEEEEEECCCchhhhh-----------h
Confidence            47999999999999999999998764222211111  122222232 244  3567899999754321           1


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..++++++|+|+++..+... ..++..+....  ....|+++|+||+|...
T Consensus        71 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~i~~v~nK~Dl~~  124 (199)
T 2f9l_A           71 TSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHA--DSNIVIMLVGNKSDLRH  124 (199)
T ss_dssp             CHHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHS--CTTCEEEEEEECTTCGG
T ss_pred             hHHHHhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhc--CCCCeEEEEEECccccc
Confidence            2233457799999999875444332 22333333321  12358999999999863

>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=99.46  E-value=6e-13  Score=116.69  Aligned_cols=120  Identities=17%  Similarity=0.199  Sum_probs=76.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-C------------CCCccceeeeee--eeE--eeCCeEEEEEeCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR-A------------SSSGVTSTCEMQ--RTV--LKDGQVVNVIDTPGL   79 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-~------------~~~~~t~~~~~~--~~~--~~~~~~~~liDtpG~   79 (253)
                      .+.++|+++|++|+|||||+|+|++....... .            .....+......  ...  ......+.+|||||+
T Consensus         6 ~~~~~I~vvG~~~~GKSTLi~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPGh   85 (403)
T 3sjy_A            6 QPEVNIGVVGHVDHGKTTLVQAITGIWTSKKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGH   85 (403)
T ss_dssp             CCCCEEEEECSTTSSHHHHHHHHHSCCCCSSSEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCCC
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHhCcccccccCccccceeeccccccccceecccccccccccccccccceEEEEECCCc
Confidence            34589999999999999999999985321100 0            000000000000  000  011268999999997


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+           +.......+..+|++|+|+|+++.. ......++..+... +.   +|+++|+||+|...
T Consensus        86 ~~-----------~~~~~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~-~~---~~iivviNK~Dl~~  143 (403)
T 3sjy_A           86 EV-----------LMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGII-GV---KNLIIVQNKVDVVS  143 (403)
T ss_dssp             GG-----------GHHHHHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSC
T ss_pred             HH-----------HHHHHHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHc-CC---CCEEEEEECccccc
Confidence            43           2333444457789999999998776 56666666655543 43   37999999999986

>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=99.46  E-value=1.8e-13  Score=107.85  Aligned_cols=153  Identities=18%  Similarity=0.103  Sum_probs=81.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      +..+|+|+|.+|||||||+|.++|... +.....+.+.+...  ..+. .++.  .+.+|||+|......          
T Consensus         5 ~~~kv~lvG~~~vGKSsL~~~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~l~~~Dt~~~~~~~~----------   71 (192)
T 2cjw_A            5 TYYRVVLIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYE--RTLM-VDGESATIILLDMWENKGENE----------   71 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHSCCC----GGGCTTEEE--EEEE-ETTEEEEEEEECCCCC----C----------
T ss_pred             ceEEEEEECCCCCCHHHHHHHHhcCcCCcCccccccceeEEE--EEEE-ECCeEEEEEEEEeccCcchhh----------
Confidence            348999999999999999999997432 21211112222211  1122 2443  567899998653100          


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHH---HHHcccCCchhh
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE---DYLGRECPKPLK  170 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~---~~~~~~~~~~l~  170 (253)
                      .....++..+|++++|+|++++-+... ..++..+..... ....|+++|.||+|.........+   .+.......++.
T Consensus        72 ~~~~~~~~~~~~~i~v~dv~~~~s~~~~~~~~~~l~~~~~-~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e  150 (192)
T 2cjw_A           72 WLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ-TEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIE  150 (192)
T ss_dssp             TTGGGHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-TSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEE
T ss_pred             hHHHhhcccCCEEEEEEECCCHHHHHHHHHHHHHHHHhhC-CCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEE
Confidence            011233345689999999986544433 233344444321 123589999999998641111111   221212224445


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+......+..++.
T Consensus       151 ~SA~~g~~v~~lf~  164 (192)
T 2cjw_A          151 TSAAVQHNVKELFE  164 (192)
T ss_dssp             CBTTTTBSHHHHHH
T ss_pred             eccccCCCHHHHHH
Confidence            55555555555554

>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=99.46  E-value=6.9e-13  Score=119.86  Aligned_cols=118  Identities=16%  Similarity=0.180  Sum_probs=79.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------------CCCCccceeeeeeeeEeeCCeEEEEEeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------------ASSSGVTSTCEMQRTVLKDGQVVNVIDTP   77 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~--------------------~~~~~~t~~~~~~~~~~~~~~~~~liDtp   77 (253)
                      ..++|+|+|++|+|||||+++|++.......                    ....+.|.......+. +.+..+++||||
T Consensus        12 ~~~~I~IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~-~~~~~i~liDTP   90 (529)
T 2h5e_A           12 KRRTFAIISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFP-YHDCLVNLLDTP   90 (529)
T ss_dssp             TEEEEEEEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEE-ETTEEEEEECCC
T ss_pred             CCCEEEEECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEE-ECCeEEEEEECC
Confidence            4589999999999999999999864211100                    0012233333333333 467899999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           78 GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      |+.++.           .....++..+|++|+|+|++.........++..+...     ..|+++++||+|....
T Consensus        91 G~~df~-----------~~~~~~l~~aD~~IlVvDa~~g~~~~t~~~~~~~~~~-----~ipiivviNK~Dl~~~  149 (529)
T 2h5e_A           91 GHEDFS-----------EDTYRTLTAVDCCLMVIDAAKGVEDRTRKLMEVTRLR-----DTPILTFMNKLDRDIR  149 (529)
T ss_dssp             CSTTCC-----------HHHHHGGGGCSEEEEEEETTTCSCHHHHHHHHHHTTT-----TCCEEEEEECTTSCCS
T ss_pred             CChhHH-----------HHHHHHHHHCCEEEEEEeCCccchHHHHHHHHHHHHc-----CCCEEEEEcCcCCccc
Confidence            997764           2233445678999999999888877666665544321     2479999999999763

>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=99.45  E-value=1.2e-12  Score=115.13  Aligned_cols=120  Identities=16%  Similarity=0.254  Sum_probs=79.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeEee----------------------CCeEEEE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLK----------------------DGQVVNV   73 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~~~----------------------~~~~~~l   73 (253)
                      .+.++|+++|+.++|||||+++|+|...... .....++|....+......                      ....+.+
T Consensus         8 ~~~~~I~iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~i   87 (410)
T 1kk1_A            8 QAEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSF   87 (410)
T ss_dssp             SEEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEE
T ss_pred             CCccEEEEECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEE
Confidence            3458999999999999999999997642111 1112334444333222110                      0167999


Q ss_pred             EeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           74 IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        74 iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |||||+.           .+..........+|++|+|+|+++.. .......+..+.. ++.   +|+++++||+|...
T Consensus        88 iDtPGh~-----------~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~~~~-~~~---~~iivviNK~Dl~~  151 (410)
T 1kk1_A           88 IDAPGHE-----------ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQI-IGQ---KNIIIAQNKIELVD  151 (410)
T ss_dssp             EECSSHH-----------HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHH-HTC---CCEEEEEECGGGSC
T ss_pred             EECCChH-----------HHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHHHHH-cCC---CcEEEEEECccCCC
Confidence            9999963           33344444446779999999998776 6677666665544 343   37999999999986

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.45  E-value=4.4e-13  Score=123.09  Aligned_cols=119  Identities=15%  Similarity=0.220  Sum_probs=81.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC-----------------------------CCCccceeeeeeeeEeeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA-----------------------------SSSGVTSTCEMQRTVLKD   67 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-----------------------------~~~~~t~~~~~~~~~~~~   67 (253)
                      .+.++|++||++|+|||||+|+|++........                             ...++|.......+.. .
T Consensus       165 k~~lkV~ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~-~  243 (611)
T 3izq_1          165 LPHLSFVVLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFST-H  243 (611)
T ss_dssp             CCCCEEEEECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEEC-S
T ss_pred             CCceEEEEEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEec-C
Confidence            445899999999999999999999774311110                             0134565555555543 6


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeE
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYM  140 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~  140 (253)
                      +..+.||||||+.+           +.......+..+|++|+|+|++..       ........+..+.. +|.   +++
T Consensus       244 ~~~~~iiDTPG~e~-----------f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~-lgi---~~i  308 (611)
T 3izq_1          244 RANFTIVDAPGHRD-----------FVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS-LGI---HNL  308 (611)
T ss_dssp             SCEEEEEECCSSSC-----------HHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT-TTC---CEE
T ss_pred             CceEEEEECCCCcc-----------cHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH-cCC---CeE
Confidence            78999999999854           334455666889999999999742       23344444443332 232   369


Q ss_pred             EEEEeCCCCCC
Q 025391          141 IVVFTGGDELE  151 (253)
Q Consensus       141 ivv~~k~D~~~  151 (253)
                      +||+||+|...
T Consensus       309 IVVvNKiDl~~  319 (611)
T 3izq_1          309 IIAMNKMDNVD  319 (611)
T ss_dssp             EEEEECTTTTT
T ss_pred             EEEEecccccc
Confidence            99999999875

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.45  E-value=8.3e-15  Score=132.05  Aligned_cols=116  Identities=16%  Similarity=0.249  Sum_probs=85.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+++|++|+|||||+++|++......  ...+.|.......+....+..++||||||+.++..           ..
T Consensus         3 r~pkV~IvG~~~vGKTSLl~~L~~~~~~~~--~~~giT~~i~~~~v~~~~g~~i~~iDTPGhe~f~~-----------~~   69 (537)
T 3izy_P            3 RSPVVTIMGHVDHGKTTLLDKLRKTQVAAM--EAGGITQHIGAFLVSLPSGEKITFLDTPGHAAFSA-----------MR   69 (537)
T ss_dssp             CCCBCEEEESTTTTHHHHHHHHHHHHHHHS--SSCCBCCCTTSCCBCSSCSSCCBCEECSSSCCTTT-----------SB
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCcccc--cCCceeEEEeEEEEEeCCCCEEEEEECCChHHHHH-----------HH
Confidence            357999999999999999999997654322  33445555544444433566899999999876542           22


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+..+|++|+|+|+++...+.....+..+... +    .|+++++||+|...
T Consensus        70 ~~~~~~aD~vILVVDa~dg~~~qt~e~l~~~~~~-~----vPiIVViNKiDl~~  118 (537)
T 3izy_P           70 ARGTQVTDIVILVVAADDGVMKQTVESIQHAKDA-H----VPIVLAINKCDKAE  118 (537)
T ss_dssp             BSSSBSBSSCEEECBSSSCCCHHHHHHHHHHHTT-T----CCEEECCBSGGGTT
T ss_pred             HHHHccCCEEEEEEECCCCccHHHHHHHHHHHHc-C----CcEEEEEecccccc
Confidence            3455778999999999988888887777665542 2    47999999999874

>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=99.44  E-value=5.8e-13  Score=116.56  Aligned_cols=117  Identities=17%  Similarity=0.205  Sum_probs=81.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC------cc----cc----CCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA------FK----SR----ASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~------~~----~~----~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      +.++|+++|+.|+|||||+++|++...      +.    ..    ....+.|.......+. ..+..+.+|||||+.   
T Consensus         2 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~-~~~~~~~iiDtpG~~---   77 (397)
T 1d2e_A            2 PHVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYS-TAARHYAHTDCPGHA---   77 (397)
T ss_dssp             CEEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEE-CSSCEEEEEECSSHH---
T ss_pred             CeEEEEEEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEec-cCCeEEEEEECCChH---
Confidence            347999999999999999999987411      00    00    0023445544333333 256899999999973   


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe-EEEEEeCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELE  151 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~-~ivv~~k~D~~~  151 (253)
                              .+.......+..+|++|+|+|+++.........+..+.. .+    .| +++++||+|...
T Consensus        78 --------~f~~~~~~~~~~aD~~ilVvda~~g~~~qt~e~l~~~~~-~~----vp~iivviNK~Dl~~  133 (397)
T 1d2e_A           78 --------DYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQ-IG----VEHVVVYVNKADAVQ  133 (397)
T ss_dssp             --------HHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHH-TT----CCCEEEEEECGGGCS
T ss_pred             --------HHHHHHHhhHhhCCEEEEEEECCCCCCHHHHHHHHHHHH-cC----CCeEEEEEECcccCC
Confidence                    344445556788999999999998888877777755544 23    24 789999999974

>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=99.44  E-value=1.2e-12  Score=113.16  Aligned_cols=124  Identities=15%  Similarity=0.122  Sum_probs=73.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|++|||||||+|.|+|......  ...+.|.......+. ..+..+.++||||+.... +. .....+...+. 
T Consensus       180 ~~V~lvG~~naGKSTLln~L~~~~~~~~--~~~~~T~d~~~~~i~-~~g~~v~l~DT~G~i~~l-p~-~lve~f~~tl~-  253 (364)
T 2qtf_A          180 PSIGIVGYTNSGKTSLFNSLTGLTQKVD--TKLFTTMSPKRYAIP-INNRKIMLVDTVGFIRGI-PP-QIVDAFFVTLS-  253 (364)
T ss_dssp             CEEEEECBTTSSHHHHHHHHHCC-------------CCSCEEEEE-ETTEEEEEEECCCBCSSC-CG-GGHHHHHHHHH-
T ss_pred             cEEEEECCCCCCHHHHHHHHHCCCcccc--CCcccccCCEEEEEE-ECCEEEEEEeCCCchhcC-CH-HHHHHHHHHHH-
Confidence            4599999999999999999999865221  122334333333343 366889999999975421 11 12233333333 


Q ss_pred             hcCCccEEEEEEeCCCCC--CHHHHH-HHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRF--SQEEEA-ALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~--~~~~~~-~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....+|++++|+|++++.  ...... +...+.. ++. ...|+++|+||+|.+.
T Consensus       254 ~~~~aD~il~VvD~s~~~~~~~~~~~~~~~~L~~-l~~-~~~p~ilV~NK~Dl~~  306 (364)
T 2qtf_A          254 EAKYSDALILVIDSTFSENLLIETLQSSFEILRE-IGV-SGKPILVTLNKIDKIN  306 (364)
T ss_dssp             GGGGSSEEEEEEETTSCHHHHHHHHHHHHHHHHH-HTC-CSCCEEEEEECGGGCC
T ss_pred             HHHhCCEEEEEEECCCCcchHHHHHHHHHHHHHH-hCc-CCCCEEEEEECCCCCC
Confidence            346789999999997543  122222 2233333 332 1358999999999986

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.44  E-value=1.2e-12  Score=122.00  Aligned_cols=119  Identities=24%  Similarity=0.346  Sum_probs=80.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccc--c-CC-------------CCccceeeeeeeeEeeCCeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKS--R-AS-------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~--~-~~-------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~   80 (253)
                      ...++|+|+|++|+|||||+|+|++......  + ..             ..++|.......+. +.+..+++|||||+.
T Consensus         8 ~~~~~I~IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~-~~~~~i~liDTPG~~   86 (693)
T 2xex_A            8 EKTRNIGIMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAA-WEGHRVNIIDTPGHV   86 (693)
T ss_dssp             TTEEEEEEECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEE-ETTEEEEEECCCCCS
T ss_pred             ccceEEEEECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEE-ECCeeEEEEECcCCc
Confidence            4458999999999999999999984211000  0 00             12334444444343 467899999999998


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ++.       ......+    ..+|++|+|+|++...+..+...+..+... +    .|+++|+||+|....
T Consensus        87 df~-------~~~~~~l----~~aD~~llVvDa~~g~~~~~~~~~~~~~~~-~----~p~ilviNK~Dl~~~  142 (693)
T 2xex_A           87 DFT-------VEVERSL----RVLDGAVTVLDAQSGVEPQTETVWRQATTY-G----VPRIVFVNKMDKLGA  142 (693)
T ss_dssp             SCC-------HHHHHHH----HHCSEEEEEEETTTBSCHHHHHHHHHHHHT-T----CCEEEEEECTTSTTC
T ss_pred             chH-------HHHHHHH----HHCCEEEEEECCCCCCcHHHHHHHHHHHHc-C----CCEEEEEECCCcccc
Confidence            754       2233333    346999999999988888887777766542 2    479999999999863

>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=99.43  E-value=4.4e-13  Score=113.96  Aligned_cols=116  Identities=21%  Similarity=0.117  Sum_probs=75.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ...+|+++|.+|+|||||++.+++........    .|............+.  .+.+|||||...+.           .
T Consensus       154 ~~~~i~i~G~~~~GKssli~~~~~~~~~~~~~----~t~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~-----------~  218 (332)
T 2wkq_A          154 ELIKCVVVGDGAVGKTCLLISYTTNAFPGEYI----PTVFDNYSANVMVDGKPVNLGLWDTAGLEDYD-----------R  218 (332)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHSCCCCSCC----CCSEEEEEEEEEETTEEEEEEEEEECCCGGGT-----------T
T ss_pred             ceeEEEEECCCCCChHHHHHHHHhCCCCcccC----CcccceeEEEEEECCEEEEEEEEeCCCchhhh-----------H
Confidence            34899999999999999999999765422211    1221212212223444  45599999985432           3


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++..+|++++|+|++++.+..+.  .++..+....+   ..|+++|+||+|...
T Consensus       219 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~---~~p~ilv~nK~Dl~~  273 (332)
T 2wkq_A          219 LRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHCP---NTPIILVGTKLDLRD  273 (332)
T ss_dssp             TGGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT---TSCEEEEEECHHHHT
T ss_pred             HHHHhccCCCEEEEEEeCCCHHHHHHHHHHHHHHHHhhCC---CCcEEEEEEchhccc
Confidence            334566788999999999865544442  34455555432   358999999999865

>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=99.42  E-value=1.6e-12  Score=121.01  Aligned_cols=122  Identities=20%  Similarity=0.246  Sum_probs=80.3

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhC---CCCccccC-------------CCCccceeeeeeeeEeeCCeEEEEEeCC
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILG---RRAFKSRA-------------SSSGVTSTCEMQRTVLKDGQVVNVIDTP   77 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g---~~~~~~~~-------------~~~~~t~~~~~~~~~~~~~~~~~liDtp   77 (253)
                      ......++|+|+|+.|+|||||+++|+.   ........             ...+.|.......+. +.+..+++||||
T Consensus         7 ~~~~~~~~I~IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~-~~~~~i~liDTP   85 (691)
T 1dar_A            7 YDLKRLRNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCF-WKDHRINIIDTP   85 (691)
T ss_dssp             CCGGGEEEEEEEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEE-ETTEEEEEECCC
T ss_pred             CccccccEEEEECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEE-ECCeEEEEEECc
Confidence            3445568999999999999999999983   21000000             022344444444444 467899999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           78 GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      |+.++.       ....+.    +..+|++|+|+|++...+......+..+...     ..|+++|+||+|....
T Consensus        86 G~~df~-------~~~~~~----l~~aD~~ilVvDa~~g~~~~t~~~~~~~~~~-----~~p~ivviNKiD~~~~  144 (691)
T 1dar_A           86 GHVDFT-------IEVERS----MRVLDGAIVVFDSSQGVEPQSETVWRQAEKY-----KVPRIAFANKMDKTGA  144 (691)
T ss_dssp             SSTTCH-------HHHHHH----HHHCSEEEEEEETTTCSCHHHHHHHHHHHHT-----TCCEEEEEECTTSTTC
T ss_pred             CccchH-------HHHHHH----HHHCCEEEEEEECCCCcchhhHHHHHHHHHc-----CCCEEEEEECCCcccC
Confidence            997643       222333    3446999999999988888887777665542     2479999999999864

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.42  E-value=2.2e-12  Score=117.11  Aligned_cols=119  Identities=18%  Similarity=0.254  Sum_probs=87.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc----------------c----cCCCCccceeeeeeeeEeeCCeEEEEEeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK----------------S----RASSSGVTSTCEMQRTVLKDGQVVNVIDTP   77 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~----------------~----~~~~~~~t~~~~~~~~~~~~~~~~~liDtp   77 (253)
                      +.++|+|+|+.++|||||..+|+-.....                .    .....++|.......+. +++..++|||||
T Consensus        30 r~RNiaIiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~EreRGITI~s~~~~~~-~~~~~iNlIDTP  108 (548)
T 3vqt_A           30 RRRTFAIISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAMERERGISVTTSVMQFP-YRDRVVNLLDTP  108 (548)
T ss_dssp             TEEEEEEECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC--------------------CTTTEEEEE-ETTEEEEEECCC
T ss_pred             ccceEEEEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHHHHHCCCcEeeceEEEE-ECCEEEEEEeCC
Confidence            45899999999999999999986322100                0    01134566666666565 589999999999


Q ss_pred             CCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           78 GLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        78 G~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      |+.||.       .+..+++..+    |++|+|+|+..........+++.+.+. +    .|.++++||+|....+
T Consensus       109 GHvDF~-------~Ev~raL~~~----DgAvlVvda~~GV~~qT~~v~~~a~~~-~----lp~i~fINK~Dr~~ad  168 (548)
T 3vqt_A          109 GHQDFS-------EDTYRVLTAV----DSALVVIDAAKGVEAQTRKLMDVCRMR-A----TPVMTFVNKMDREALH  168 (548)
T ss_dssp             CGGGCS-------HHHHHHHHSC----SEEEEEEETTTBSCHHHHHHHHHHHHT-T----CCEEEEEECTTSCCCC
T ss_pred             CcHHHH-------HHHHHHHHhc----CceEEEeecCCCcccccHHHHHHHHHh-C----CceEEEEecccchhcc
Confidence            999987       4555555554    899999999999999999888877764 3    4799999999997543

>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=99.42  E-value=2.1e-12  Score=120.21  Aligned_cols=129  Identities=15%  Similarity=0.134  Sum_probs=82.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc--------------------------------------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG--------------------------------------------   53 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~--------------------------------------------   53 (253)
                      ..++|+|+|.+++|||||+|+|+|...++.+.....                                            
T Consensus        50 ~lp~I~vvG~~saGKSSllnaL~g~~~LP~g~g~~Tr~Pl~l~l~~~~~~~~~~l~~~~~~~~~~~~v~~~I~~~~~~~~  129 (772)
T 3zvr_A           50 DLPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVT  129 (772)
T ss_dssp             CCSEEEEEECTTTCHHHHHHHHHSSCCSCCSSSCSCSSCEEEEEEECSSCEEECSTTTTCCBCCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhCCCccCcCCccccccceEEEeecCCcchhheeccCCcccCCHHHHHHHHHHHHhhhc
Confidence            347999999999999999999999876444321100                                            


Q ss_pred             -----cceeeeeeeeEeeCCeEEEEEeCCCCCCCCC--CcHHHHHHHHHHHHhhc-CCccEEEEEEeCCCCCCHHHH-HH
Q 025391           54 -----VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA--GSEFVGKEIVKCIGMAK-DGIHAVLVVFSVRSRFSQEEE-AA  124 (253)
Q Consensus        54 -----~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~--~~~~~~~~~~~~~~~~~-~~~~~~l~v~d~~~~~~~~~~-~~  124 (253)
                           ++.......+.......++||||||+.....  ........+...+..+. ..+|++|+|+|++..+...+. .+
T Consensus       130 g~~~~is~~~i~l~I~~P~~~qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~l  209 (772)
T 3zvr_A          130 GTNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKI  209 (772)
T ss_dssp             CSTTCCCSCCEEEEEEETTCCSEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHH
T ss_pred             CCCCcccccceEEEEecCCCCceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHH
Confidence                 0000001111122345689999999987432  12223334444443333 577999999999877776664 45


Q ss_pred             HHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          125 LHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       125 l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.+..     ...|+++|+||+|.+.
T Consensus       210 l~~L~~-----~g~pvIlVlNKiDlv~  231 (772)
T 3zvr_A          210 AKEVDP-----QGQRTIGVITKLDLMD  231 (772)
T ss_dssp             HHHHCT-----TCSSEEEEEECTTSSC
T ss_pred             HHHHHh-----cCCCEEEEEeCcccCC
Confidence            544433     1358999999999986

>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=99.41  E-value=4.1e-13  Score=117.80  Aligned_cols=117  Identities=15%  Similarity=0.193  Sum_probs=80.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC-------Ccccc--C------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR-------AFKSR--A------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~-------~~~~~--~------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      +.++|+++|+.|+|||||+++|++..       .+...  .      ...+.|.......+. ..+..+.+|||||+.++
T Consensus        10 ~~~~I~iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~-~~~~~~~iiDtpG~~~f   88 (405)
T 2c78_A           10 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE-TAKRHYSHVDCPGHADY   88 (405)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE-CSSCEEEEEECCCSGGG
T ss_pred             CeEEEEEEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEec-cCCeEEEEEECCChHHH
Confidence            45899999999999999999998731       00000  0      012344444333333 35688999999998642


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe-EEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~-~ivv~~k~D~~~  151 (253)
                                 .......+..+|++|+|+|+++........++..+... +    .| +++++||+|...
T Consensus        89 -----------~~~~~~~~~~aD~~ilVvda~~g~~~qt~~~l~~~~~~-~----ip~iivviNK~Dl~~  142 (405)
T 2c78_A           89 -----------IKNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-G----VPYIVVFMNKVDMVD  142 (405)
T ss_dssp             -----------HHHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT-T----CCCEEEEEECGGGCC
T ss_pred             -----------HHHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc-C----CCEEEEEEECccccC
Confidence                       23333445688999999999888887777777665542 3    24 889999999984

>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=99.41  E-value=3.7e-13  Score=123.04  Aligned_cols=116  Identities=17%  Similarity=0.227  Sum_probs=79.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-----------------eCCeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-----------------KDGQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-----------------~~~~~~~liDtpG~~   80 (253)
                      +.++|+|+|++|+|||||+++|++.....  ..+++.|..........                 .....+++|||||+.
T Consensus         4 r~~~V~IvGh~d~GKTTLl~~L~~~~v~~--~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe   81 (594)
T 1g7s_A            4 RSPIVSVLGHVDHGKTTLLDHIRGSAVAS--REAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHE   81 (594)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHHHSC--C----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTS
T ss_pred             CCcEEEEECCCCCcHHHHHHHHhcccCcc--ccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcH
Confidence            34799999999999999999999764321  11223332221111110                 112269999999998


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++...           ....+..+|++|+|+|+++.+.+.....+..+... +    .|+++++||+|...
T Consensus        82 ~F~~~-----------~~r~~~~aD~aILVvDa~~Gv~~qT~e~l~~l~~~-~----vPiIVViNKiDl~~  136 (594)
T 1g7s_A           82 AFTTL-----------RKRGGALADLAILIVDINEGFKPQTQEALNILRMY-R----TPFVVAANKIDRIH  136 (594)
T ss_dssp             CCTTS-----------BCSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHT-T----CCEEEEEECGGGST
T ss_pred             HHHHH-----------HHHHHhhCCEEEEEEECCCCccHhHHHHHHHHHHc-C----CeEEEEeccccccc
Confidence            76532           12345678999999999988888887777766542 2    47999999999974

>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=99.40  E-value=6.7e-14  Score=125.17  Aligned_cols=115  Identities=16%  Similarity=0.228  Sum_probs=81.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +.++|+++|+.++|||||+++|++......  ...++|.......+. ..+..+++|||||+.++...           .
T Consensus         3 R~~~V~IvGhvd~GKTTLl~~L~~~~v~~~--e~~GIT~~i~~~~v~-~~~~~i~~iDTPGhe~f~~~-----------~   68 (501)
T 1zo1_I            3 RAPVVTIMGHVDHGKTSLLEYIRSTKVASG--EAGGITQHIGAYHVE-TENGMITFLDTPGHAAFTSM-----------R   68 (501)
T ss_dssp             CCCCEEEEESTTSSSHHHHHHHHHHHHSBT--TBCCCCCCSSCCCCC-TTSSCCCEECCCTTTCCTTS-----------B
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHcCCCccc--cCCCeeEeEEEEEEE-ECCEEEEEEECCCcHHHHHH-----------H
Confidence            457999999999999999999987543221  123444444444443 35678999999999776532           2


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+..+|++|+|+|+++...+.....+..+.. .+    .|+++++||+|...
T Consensus        69 ~~~~~~aD~aILVVda~~g~~~qT~e~l~~~~~-~~----vPiIVviNKiDl~~  117 (501)
T 1zo1_I           69 ARGAQATDIVVLVVAADDGVMPQTIEAIQHAKA-AQ----VPVVVAVNKIDKPE  117 (501)
T ss_dssp             CSSSBSCSSEEEEEETTTBSCTTTHHHHHHHHH-TT----CCEEEEEECSSSST
T ss_pred             HHHHhhCCEEEEEeecccCccHHHHHHHHHHHh-cC----ceEEEEEEeccccc
Confidence            244567899999999987766666666655443 22    47999999999974

>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=99.40  E-value=6.5e-13  Score=104.44  Aligned_cols=117  Identities=21%  Similarity=0.220  Sum_probs=71.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCe--EEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQ--VVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~--~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+|+|++|||||||++.|+|.........+  .+.......+. .++.  .+.+|||||......           .
T Consensus        29 ~~kv~lvG~~g~GKSTLl~~l~~~~~~~~~~~t--~~~~~~~~~i~-~~g~~~~~~i~Dt~g~~~~~~-----------~   94 (191)
T 1oix_A           29 LFKVVLIGDSGVGKSNLLSRFTRNEFNLESKST--IGVEFATRSIQ-VDGKTIKAQIWDTAGLERYRA-----------I   94 (191)
T ss_dssp             EEEEEEEECTTSSHHHHHHHHHHSCCCCSCCCC--CSEEEEEEEEE-ETTEEEEEEEEEECSCCSSSC-----------C
T ss_pred             ceEEEEECcCCCCHHHHHHHHhcCCCCCCCCCc--cceEEEEEEEE-ECCEEEEEEEEECCCCcchhh-----------h
Confidence            479999999999999999999987653222222  22222222233 3454  455799999865432           1


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +...+..++++++|+|.++..+... ..++..+....  ....++++++||.|...
T Consensus        95 ~~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~i~~v~nK~Dl~~  148 (191)
T 1oix_A           95 TSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHA--DSNIVIMLVGNKSDLRH  148 (191)
T ss_dssp             CHHHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHS--CTTCEEEEEEECGGGGG
T ss_pred             hHHHhhcCCEEEEEEECcCHHHHHHHHHHHHHHHHhc--CCCCcEEEEEECccccc
Confidence            2233456789999999874433222 22333333321  12358999999999853

>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=99.39  E-value=1.2e-12  Score=116.59  Aligned_cols=117  Identities=19%  Similarity=0.242  Sum_probs=76.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC-Cccc-------------cC---------------CCCccceeeeeeeeEeeCCe
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR-AFKS-------------RA---------------SSSGVTSTCEMQRTVLKDGQ   69 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~-~~~~-------------~~---------------~~~~~t~~~~~~~~~~~~~~   69 (253)
                      .++|+++|+.++|||||+|+|++.. .+..             +.               ...++|.......+. ..+.
T Consensus         7 ~~~i~iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~-~~~~   85 (458)
T 1f60_A            7 HINVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFE-TPKY   85 (458)
T ss_dssp             EEEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEE-CSSE
T ss_pred             eeEEEEEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEe-cCCc
Confidence            4899999999999999999998641 1100             00               013445554444444 3677


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCH-------HHHHHHHHHHHHhcccccCeEEE
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ-------EEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~-------~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                      .+.+|||||+.+           +.......+..+|++|+|+|+++...+       .....+..+.. .+-   ++++|
T Consensus        86 ~~~iiDtPGh~~-----------f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~-~~v---~~iiv  150 (458)
T 1f60_A           86 QVTVIDAPGHRD-----------FIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT-LGV---RQLIV  150 (458)
T ss_dssp             EEEEEECCCCTT-----------HHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH-TTC---CEEEE
T ss_pred             eEEEEECCCcHH-----------HHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH-cCC---CeEEE
Confidence            899999999753           334445566889999999999844322       33333333322 232   35899


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      |+||+|...
T Consensus       151 viNK~Dl~~  159 (458)
T 1f60_A          151 AVNKMDSVK  159 (458)
T ss_dssp             EEECGGGGT
T ss_pred             EEEcccccc
Confidence            999999973

>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=99.38  E-value=5.7e-12  Score=117.55  Aligned_cols=118  Identities=19%  Similarity=0.260  Sum_probs=79.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc---CC-------------CCccceeeeeeeeEeeCC-------eEEEE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR---AS-------------SSGVTSTCEMQRTVLKDG-------QVVNV   73 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~---~~-------------~~~~t~~~~~~~~~~~~~-------~~~~l   73 (253)
                      ...++|+|+|+.|+|||||++.|+........   ..             ..++|......... +.+       ..++|
T Consensus         8 ~~~~~I~IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~-~~~~~~~~~~~~i~l   86 (704)
T 2rdo_7            8 ARYRNIGISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAF-WSGMAKQYEPHRINI   86 (704)
T ss_pred             ccccEEEEECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEE-ECCccccCCceeEEE
Confidence            45589999999999999999999753210000   00             12344444444443 244       78999


Q ss_pred             EeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           74 IDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        74 iDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      |||||+.++.           ..+..++..+|++|+|+|++..........+..+...     ..|+++++||+|...
T Consensus        87 iDTPG~~df~-----------~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~~~~~-----~ip~ilviNKiD~~~  148 (704)
T 2rdo_7           87 IDTPGHVDFT-----------IEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQANKY-----KVPRIAFVNKMDRMG  148 (704)
T ss_pred             EeCCCccchH-----------HHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHHHHHc-----CCCEEEEEeCCCccc
Confidence            9999997643           2223334556999999999978777776666554432     247999999999875

>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=99.38  E-value=6.8e-13  Score=117.46  Aligned_cols=118  Identities=24%  Similarity=0.321  Sum_probs=73.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC-Ccccc----------------------------CCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR-AFKSR----------------------------ASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~-~~~~~----------------------------~~~~~~t~~~~~~~~~~~~~   68 (253)
                      +.++|+++|+.|+|||||+++|++.. .+...                            ....++|.......+. ..+
T Consensus         5 ~~~~I~iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~-~~~   83 (435)
T 1jny_A            5 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFE-TKK   83 (435)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEE-CSS
T ss_pred             CEEEEEEEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEe-cCC
Confidence            44899999999999999999998641 11000                            0023455555444444 367


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..+.+|||||+.++           .......+..+|++|+|+|+++.       .....+..+..+.. ++.   ++++
T Consensus        84 ~~~~iiDtpG~~~f-----------~~~~~~~~~~aD~~ilVvDa~~gsfe~~~~~~~qt~~~~~~~~~-~~~---~~ii  148 (435)
T 1jny_A           84 YFFTIIDAPGHRDF-----------VKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKT-MGL---DQLI  148 (435)
T ss_dssp             CEEEECCCSSSTTH-----------HHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHH-TTC---TTCE
T ss_pred             eEEEEEECCCcHHH-----------HHHHHhhhhhcCEEEEEEECCCCccccccccchHHHHHHHHHHH-cCC---CeEE
Confidence            88999999998652           23344566889999999999853       22233444433333 232   3689


Q ss_pred             EEEeCCCCCC
Q 025391          142 VVFTGGDELE  151 (253)
Q Consensus       142 vv~~k~D~~~  151 (253)
                      |++||+|...
T Consensus       149 vviNK~Dl~~  158 (435)
T 1jny_A          149 VAVNKMDLTE  158 (435)
T ss_dssp             EEEECGGGSS
T ss_pred             EEEEcccCCC
Confidence            9999999975

>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=99.37  E-value=3.3e-12  Score=111.74  Aligned_cols=125  Identities=15%  Similarity=0.202  Sum_probs=69.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC--CCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHH------
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS--SSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEF------   88 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~--~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~------   88 (253)
                      .++++|+|+||+|||||+|+|+|.........  ..+.+.. ....+....+  ..++++|+||+.... ....      
T Consensus        42 i~~vaLvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~-~i~~v~Q~~~l~~~ltv~D~~~~g~~~-~~~~~~~~i~  119 (427)
T 2qag_B           42 CFNILCVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQ-SNTYDLQESNVRLKLTIVSTVGFGDQI-NKEDSYKPIV  119 (427)
T ss_dssp             EEEEEEECSTTSSSHHHHHHHHTSCC-------CCSSCEEE-EEEEEEEC--CEEEEEEEEEECCCC-C-CHHHHSHHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCccccCCcCCCCCccceEe-eEEEEeecCccccccchhhhhhhhhcc-ccchhhhHHH
Confidence            35599999999999999999999853211111  1122221 2222222122  278999999997532 2211      


Q ss_pred             --HHHHHHHHHHhh---------cC--CccE-EEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           89 --VGKEIVKCIGMA---------KD--GIHA-VLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        89 --~~~~~~~~~~~~---------~~--~~~~-~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                        +...+...+...         .+  .+|+ ++||.|++..++..+..+++.+.    .  ..|+|+|+||+|.+.
T Consensus       120 ~~i~~q~~~~L~e~~~i~r~l~~~~d~rVh~~v~fI~d~~~~l~~~Dieilk~L~----~--~~~vI~Vi~KtD~Lt  190 (427)
T 2qag_B          120 EFIDAQFEAYLQEELKIRRVLHTYHDSRIHVCLYFIAPTGHSLKSLDLVTMKKLD----S--KVNIIPIIAKADAIS  190 (427)
T ss_dssp             HHHHHHHHHHHHHC--CCCCCCCSCC--CCEEEEEECCCC---CHHHHHHHHHTC----S--CSEEEEEESCGGGSC
T ss_pred             HHHHHHHHHHHHHHHhhhhhhcccccccccEEEEEEeCCCCCCCHHHHHHHHHHh----h--CCCEEEEEcchhccc
Confidence              112222223221         11  1355 55566777788888877766654    1  248999999999997

>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=99.36  E-value=3.6e-12  Score=111.30  Aligned_cols=91  Identities=14%  Similarity=0.062  Sum_probs=45.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeE--------------------eeC---CeEEEEEeC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV--------------------LKD---GQVVNVIDT   76 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~--------------------~~~---~~~~~liDt   76 (253)
                      ++|+|+|.+|+|||||+|+|+|... .... ..+.|.........                    ...   ...+.+|||
T Consensus         1 ~kI~ivG~pnvGKSTL~n~L~~~~~-~~~~-~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDt   78 (397)
T 1wxq_A            1 MEIGVVGKPNVGKSTFFSAATLVDV-EIAN-YPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDV   78 (397)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEEC
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCC-cccC-CCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEEC
Confidence            4799999999999999999999862 1111 11122222221100                    012   247899999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR  116 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~  116 (253)
                      ||+....+..    +.+...+...+..+|++++|+|+++.
T Consensus        79 pG~~~~a~~~----~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           79 AGLVPGAHEG----RGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             C-------------------CCCSSTTCSEEEEEEETTCC
T ss_pred             CCcccchhhh----hhHHHHHHHHHhcCCEEEEEEecccc
Confidence            9996532211    11222222445788999999999754

>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=99.36  E-value=3.2e-12  Score=116.68  Aligned_cols=119  Identities=22%  Similarity=0.260  Sum_probs=74.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------CCCCccceeeeeeeeEee--C--CeEEEEEeCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-------------ASSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLF   80 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------------~~~~~~t~~~~~~~~~~~--~--~~~~~liDtpG~~   80 (253)
                      ..++|+|+|+.|+|||||+++|++.......             ....++|.........+.  +  ...+++|||||+.
T Consensus         5 ~irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~   84 (600)
T 2ywe_A            5 NVRNFCIIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHV   84 (600)
T ss_dssp             GEEEEEEECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcH
Confidence            3479999999999999999999753210000             001234443333333221  1  2578899999997


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ++.       .++.    .++..+|++|+|+|+++..+......+......     ..|+++++||+|....
T Consensus        85 dF~-------~ev~----r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~~-----~ipiIvviNKiDl~~a  140 (600)
T 2ywe_A           85 DFS-------YEVS----RALAACEGALLLIDASQGIEAQTVANFWKAVEQ-----DLVIIPVINKIDLPSA  140 (600)
T ss_dssp             GGH-------HHHH----HHHHTCSEEEEEEETTTBCCHHHHHHHHHHHHT-----TCEEEEEEECTTSTTC
T ss_pred             hHH-------HHHH----HHHHhCCEEEEEEECCCCccHHHHHHHHHHHHC-----CCCEEEEEeccCcccc
Confidence            643       2222    333566999999999988888776665544432     2479999999999753

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.36  E-value=3.4e-12  Score=116.59  Aligned_cols=118  Identities=21%  Similarity=0.212  Sum_probs=70.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------------CCCCccceeeeeeeeEee--C--CeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR-------------ASSSGVTSTCEMQRTVLK--D--GQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------------~~~~~~t~~~~~~~~~~~--~--~~~~~liDtpG~~~   81 (253)
                      .++|+|+|+.|+|||||+++|+........             ....++|.......+.+.  +  +..+++|||||+.+
T Consensus         4 irnI~IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~d   83 (599)
T 3cb4_D            4 IRNFSIIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVD   83 (599)
T ss_dssp             EEEEEEECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGG
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchH
Confidence            479999999999999999999863211000             012344544433334332  1  35789999999976


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      +.       .++.+.    +..+|++|+|+|+++..+......+......     ..|+++|+||+|....
T Consensus        84 F~-------~ev~~~----l~~aD~aILVVDa~~gv~~qt~~~~~~~~~~-----~ipiIvViNKiDl~~a  138 (599)
T 3cb4_D           84 FS-------YEVSRS----LAACEGALLVVDAGQGVEAQTLANCYTAMEM-----DLEVVPVLNKIDLPAA  138 (599)
T ss_dssp             GH-------HHHHHH----HHHCSEEEEEEETTTCCCTHHHHHHHHHHHT-----TCEEEEEEECTTSTTC
T ss_pred             HH-------HHHHHH----HHHCCEEEEEEECCCCCCHHHHHHHHHHHHC-----CCCEEEeeeccCcccc
Confidence            43       233333    3445899999999888887776655444332     2489999999999753

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.36  E-value=2.8e-12  Score=111.01  Aligned_cols=103  Identities=16%  Similarity=0.231  Sum_probs=73.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+++|+.++|||||+++|+          ..++|.......+. ..+..+.+|||||+.++.           ......
T Consensus        23 ~i~iiG~~d~GKSTL~~~L~----------~~giTi~~~~~~~~-~~~~~i~iiDtPGh~~f~-----------~~~~~~   80 (370)
T 2elf_A           23 NVAIIGTEKSGRTSLAANLG----------KKGTSSDITMYNND-KEGRNMVFVDAHSYPKTL-----------KSLITA   80 (370)
T ss_dssp             EEEEEESTTSSHHHHHHTTS----------EEEEESSSEEEEEC-SSSSEEEEEECTTTTTCH-----------HHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHH----------hCCEEEEeeEEEEe-cCCeEEEEEECCChHHHH-----------HHHHHH
Confidence            89999999999999999998          12334444444444 356789999999997642           222223


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEe-CCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT-GGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~-k~D~~~  151 (253)
                      +..+|++|+|+| +.......+..+..+.. ++.+   .+++++| |+|. .
T Consensus        81 ~~~aD~ailVvd-~~g~~~qt~e~~~~~~~-~~i~---~~ivvvNNK~Dl-~  126 (370)
T 2elf_A           81 LNISDIAVLCIP-PQGLDAHTGECIIALDL-LGFK---HGIIALTRSDST-H  126 (370)
T ss_dssp             HHTCSEEEEEEC-TTCCCHHHHHHHHHHHH-TTCC---EEEEEECCGGGS-C
T ss_pred             HHHCCEEEEEEc-CCCCcHHHHHHHHHHHH-cCCC---eEEEEEEeccCC-C
Confidence            357799999999 77777777777665544 3422   3488888 9999 5

>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=99.35  E-value=7.5e-12  Score=105.47  Aligned_cols=128  Identities=21%  Similarity=0.186  Sum_probs=64.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-----CccceeeeeeeeE-e--eCCeEEEEEeCCCCCCCCCCc---
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASS-----SGVTSTCEMQRTV-L--KDGQVVNVIDTPGLFDFSAGS---   86 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~-----~~~t~~~~~~~~~-~--~~~~~~~liDtpG~~~~~~~~---   86 (253)
                      -.++|+|+|++|+|||||+|+|+|...++....+     ...+.......+. .  .....+++|||||+.......   
T Consensus        17 ~~~~I~lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~   96 (301)
T 2qnr_A           17 FEFTLMVVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCF   96 (301)
T ss_dssp             -CEEEEEEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------C
T ss_pred             CCEEEEEECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHH
Confidence            3489999999999999999999997333221110     0011111111111 1  123578999999995332100   


Q ss_pred             HHHHHHHH----HHHHhh---------cCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           87 EFVGKEIV----KCIGMA---------KDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        87 ~~~~~~~~----~~~~~~---------~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+...+.    ..+...         ...+++++|+++++. .+++.+..+++.+    ..  ..++++|+||.|...
T Consensus        97 ~~l~~~l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~~Ld~~~~~~l~~l----~~--~~~iilV~~K~Dl~~  169 (301)
T 2qnr_A           97 KTIISYIDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGHGLKPLDVAFMKAI----HN--KVNIVPVIAKADTLT  169 (301)
T ss_dssp             TTHHHHHHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSSSCCHHHHHHHHHH----TT--TSCEEEEECCGGGSC
T ss_pred             HHHHHHHHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCcccCCCHHHHHHHHHH----Hh--cCCEEEEEEeCCCCC
Confidence            11111111    222211         123567888888865 4998875444333    22  247999999999986

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.35  E-value=3.4e-12  Score=115.81  Aligned_cols=119  Identities=16%  Similarity=0.132  Sum_probs=72.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeee----eeEe---eCCeEEEEEeCCCCCCCCCCcHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQ----RTVL---KDGQVVNVIDTPGLFDFSAGSEFV   89 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~----~~~~---~~~~~~~liDtpG~~~~~~~~~~~   89 (253)
                      ....+|+|+|.+|||||||+|+|++.........+.+.+......    .+..   ..+..+.+|||||.........  
T Consensus        39 ~~~~kV~lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~--  116 (535)
T 3dpu_A           39 LQEIKVHLIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQ--  116 (535)
T ss_dssp             CCEEEEEEESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCH--
T ss_pred             ccceEEEEECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHH--
Confidence            345899999999999999999999876432222222222221100    1111   1257899999999765443211  


Q ss_pred             HHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           90 GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               .++..+|++|+|+|+++.  .....++..+....+   ..|+++|+||+|...
T Consensus       117 ---------~~l~~~d~ii~V~D~s~~--~~~~~~~~~l~~~~~---~~pvilV~NK~Dl~~  164 (535)
T 3dpu_A          117 ---------FFMTRSSVYMLLLDSRTD--SNKHYWLRHIEKYGG---KSPVIVVMNKIDENP  164 (535)
T ss_dssp             ---------HHHHSSEEEEEEECGGGG--GGHHHHHHHHHHHSS---SCCEEEEECCTTTCT
T ss_pred             ---------HHccCCcEEEEEEeCCCc--hhHHHHHHHHHHhCC---CCCEEEEEECCCccc
Confidence                     223457999999998733  233556666666532   358999999999875

>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=99.33  E-value=5.6e-12  Score=117.03  Aligned_cols=116  Identities=29%  Similarity=0.298  Sum_probs=80.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc--ccCC--------------CCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK--SRAS--------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~--~~~~--------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      +..+|+|+|++|+|||||+++|++.....  .+..              ..+++.......+. +.+..+++|||||+.+
T Consensus         8 ~~~~i~IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~-~~~~~~nliDTpG~~~   86 (665)
T 2dy1_A            8 MIRTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLL-FRGHRVFLLDAPGYGD   86 (665)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEE-ETTEEEEEEECCCSGG
T ss_pred             CCcEEEEECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEe-eCCEEEEEEeCCCccc
Confidence            45799999999999999999999543210  0000              11334433333333 4678999999999865


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +.       .....    ++..+|++++|+|+++.++.....+++.+... +    .|+++++||+|..
T Consensus        87 f~-------~~~~~----~l~~ad~~ilVvD~~~g~~~qt~~~~~~~~~~-~----ip~ilv~NKiD~~  139 (665)
T 2dy1_A           87 FV-------GEIRG----ALEAADAALVAVSAEAGVQVGTERAWTVAERL-G----LPRMVVVTKLDKG  139 (665)
T ss_dssp             GH-------HHHHH----HHHHCSEEEEEEETTTCSCHHHHHHHHHHHHT-T----CCEEEEEECGGGC
T ss_pred             hH-------HHHHH----HHhhcCcEEEEEcCCcccchhHHHHHHHHHHc-c----CCEEEEecCCchh
Confidence            32       22223    33455899999999988998888777776652 3    4799999999987

>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=99.31  E-value=1.5e-11  Score=118.23  Aligned_cols=119  Identities=16%  Similarity=0.202  Sum_probs=79.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCC------cc--------ccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRA------FK--------SRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~------~~--------~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      .+.++|+++|+.++|||||++.|++...      +.        ......++|.......+. ..+..+.+|||||+.  
T Consensus       294 k~~lnIvIIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~-~~~~kI~IIDTPGHe--  370 (1289)
T 3avx_A          294 KPHVNVGTIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYD-TPTRHYAHVDCPGHA--  370 (1289)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEE-CSSCEEEEEECCCHH--
T ss_pred             CCeeEEEEEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEc-CCCEEEEEEECCChH--
Confidence            3458999999999999999999987410      00        001123444443333333 256899999999973  


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                               .+.......+..+|++|+|+|+++.........+..+.. .+-   ++++|++||+|...
T Consensus       371 ---------dF~~~mi~gas~AD~aILVVDAtdGv~~QTrEhL~ll~~-lgI---P~IIVVINKiDLv~  426 (1289)
T 3avx_A          371 ---------DYVKNMITGAAQMDGAILVVAATDGPMPQTREHILLGRQ-VGV---PYIIVFLNKCDMVD  426 (1289)
T ss_dssp             ---------HHHHHHHHTSCCCSEEEEEEETTTCSCTTHHHHHHHHHH-HTC---SCEEEEEECCTTCC
T ss_pred             ---------HHHHHHHHHHhhCCEEEEEEcCCccCcHHHHHHHHHHHH-cCC---CeEEEEEeeccccc
Confidence                     344555556788999999999988777777777765554 232   23789999999985

>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=99.30  E-value=4.3e-12  Score=113.25  Aligned_cols=119  Identities=18%  Similarity=0.206  Sum_probs=67.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCC-cc-------------cc---------------CCCCccceeeeeeeeEeeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRA-FK-------------SR---------------ASSSGVTSTCEMQRTVLKD   67 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~-~~-------------~~---------------~~~~~~t~~~~~~~~~~~~   67 (253)
                      .+.++|+++|+.++|||||++.|++... +.             .+               ....++|.......+. ..
T Consensus        41 k~~~~i~iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~-~~  119 (467)
T 1r5b_A           41 KEHVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFE-TE  119 (467)
T ss_dssp             CEEEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEE-CS
T ss_pred             CCeeEEEEEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEe-cC
Confidence            3457999999999999999999974221 00             00               0023455555544444 36


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCC-------HHHHHHHHHHHHHhcccccCeE
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS-------QEEEAALHSLQTLFGKKIFDYM  140 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~-------~~~~~~l~~l~~~~g~~~~~~~  140 (253)
                      +..+.+|||||+.++.           ......+..+|++|+|+|+++...       ...+..+..+.. .|-   +++
T Consensus       120 ~~~~~iiDtPGh~~f~-----------~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~-~~v---p~i  184 (467)
T 1r5b_A          120 HRRFSLLDAPGHKGYV-----------TNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART-QGI---NHL  184 (467)
T ss_dssp             SEEEEECCCCC----------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH-TTC---SSE
T ss_pred             CeEEEEEECCCcHHHH-----------HHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHH-cCC---CEE
Confidence            7899999999986542           333344578899999999986531       233344433322 232   248


Q ss_pred             EEEEeCCCCCC
Q 025391          141 IVVFTGGDELE  151 (253)
Q Consensus       141 ivv~~k~D~~~  151 (253)
                      +|++||+|...
T Consensus       185 ivviNK~Dl~~  195 (467)
T 1r5b_A          185 VVVINKMDEPS  195 (467)
T ss_dssp             EEEEECTTSTT
T ss_pred             EEEEECccCCC
Confidence            99999999964

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.29  E-value=2e-11  Score=114.24  Aligned_cols=120  Identities=27%  Similarity=0.340  Sum_probs=85.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccc----------------cCCCCccceeeeeeeeEee------CCeEEEEE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTVLK------DGQVVNVI   74 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~----------------~~~~~~~t~~~~~~~~~~~------~~~~~~li   74 (253)
                      ++.++|+|||+.++|||||..+|+-......                .....++|......+..+.      ++..+++|
T Consensus        11 ~~IRNi~IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlI   90 (709)
T 4fn5_A           11 NRYRNIGICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVI   90 (709)
T ss_dssp             GGEEEEEEECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEE
T ss_pred             HHCeEEEEEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEE
Confidence            4458999999999999999999863321000                0112355665555555432      24689999


Q ss_pred             eCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           75 DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        75 DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      ||||+.||.       .+..+++..+    |++|+|+|+..........+++...+. +    .|.++++||+|....
T Consensus        91 DTPGHvDF~-------~Ev~~aLr~~----DgavlvVDaveGV~~qT~~v~~~a~~~-~----lp~i~~iNKiDr~~a  152 (709)
T 4fn5_A           91 DTPGHVDFT-------IEVERSLRVL----DGAVVVFCGTSGVEPQSETVWRQANKY-G----VPRIVYVNKMDRQGA  152 (709)
T ss_dssp             CCCSCTTCH-------HHHHHHHHHC----SEEEEEEETTTCSCHHHHHHHHHHHHH-T----CCEEEEEECSSSTTC
T ss_pred             eCCCCcccH-------HHHHHHHHHh----CeEEEEEECCCCCchhHHHHHHHHHHc-C----CCeEEEEccccccCc
Confidence            999999987       5666777666    899999999999999999888887764 3    479999999999753

>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=99.29  E-value=8e-12  Score=118.70  Aligned_cols=117  Identities=24%  Similarity=0.290  Sum_probs=77.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccC--------------CCCccceeeeeeeeEee---------------CC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRA--------------SSSGVTSTCEMQRTVLK---------------DG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~--------------~~~~~t~~~~~~~~~~~---------------~~   68 (253)
                      ..++|+|+|+.|+|||||+++|++........              ...++|.........+.               .+
T Consensus        18 ~~rnI~IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~   97 (842)
T 1n0u_A           18 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   97 (842)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cccEEEEECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCC
Confidence            44799999999999999999998652111100              01223333322222221               25


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+++|||||+.++.       .+    +..++..+|++|+|+|+++..+......+..+...     ..|+++++||+|
T Consensus        98 ~~i~liDTPG~~df~-------~~----~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~~-----~~p~ilviNK~D  161 (842)
T 1n0u_A           98 FLINLIDSPGHVDFS-------SE----VTAALRVTDGALVVVDTIEGVCVQTETVLRQALGE-----RIKPVVVINKVD  161 (842)
T ss_dssp             EEEEEECCCCCCSSC-------HH----HHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHHT-----TCEEEEEEECHH
T ss_pred             ceEEEEECcCchhhH-------HH----HHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHHc-----CCCeEEEEECCC
Confidence            689999999998865       22    22334567999999999988888876665544332     247999999999


Q ss_pred             CC
Q 025391          149 EL  150 (253)
Q Consensus       149 ~~  150 (253)
                      ..
T Consensus       162 ~~  163 (842)
T 1n0u_A          162 RA  163 (842)
T ss_dssp             HH
T ss_pred             cc
Confidence            86

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.28  E-value=2.4e-13  Score=124.46  Aligned_cols=119  Identities=18%  Similarity=0.200  Sum_probs=61.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-----------------------------CCCCccceeeeeeeeEeeC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR-----------------------------ASSSGVTSTCEMQRTVLKD   67 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-----------------------------~~~~~~t~~~~~~~~~~~~   67 (253)
                      .+.++|+++|++++|||||+|.|++.......                             ....++|.......+.. .
T Consensus       175 k~~~~I~iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~-~  253 (592)
T 3mca_A          175 KPVVHLVVTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFES-D  253 (592)
T ss_dssp             CCEEEEEEECCSSSTHHHHHHHHHHHHHCC--------------------------------------------------
T ss_pred             CCccEEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEe-C
Confidence            34578999999999999999999753210000                             00224555555444443 5


Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-----C--CHHHHHHHHHHHHHhcccccCeE
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-----F--SQEEEAALHSLQTLFGKKIFDYM  140 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-----~--~~~~~~~l~~l~~~~g~~~~~~~  140 (253)
                      +..+.||||||+.++..           .....+..+|++|+|+|++..     +  .......+..+.. +|.   +++
T Consensus       254 ~~~i~iiDTPGh~~f~~-----------~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~-lgi---p~i  318 (592)
T 3mca_A          254 KKIYEIGDAPGHRDFIS-----------GMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA-LGI---SEI  318 (592)
T ss_dssp             -----CCEEESSSEEEE-----------ECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH-SSC---CCE
T ss_pred             CeEEEEEECCChHHHHH-----------HHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH-cCC---CeE
Confidence            67899999999875431           112334567999999999753     2  5555556555544 342   248


Q ss_pred             EEEEeCCCCCC
Q 025391          141 IVVFTGGDELE  151 (253)
Q Consensus       141 ivv~~k~D~~~  151 (253)
                      +||+||+|...
T Consensus       319 IvviNKiDl~~  329 (592)
T 3mca_A          319 VVSVNKLDLMS  329 (592)
T ss_dssp             EEEEECGGGGT
T ss_pred             EEEEecccccc
Confidence            99999999874

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.24  E-value=5.3e-12  Score=116.63  Aligned_cols=117  Identities=19%  Similarity=0.309  Sum_probs=86.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccc---cCC-------------CCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKS---RAS-------------SSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~---~~~-------------~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ++|+|+|+.++|||||..+|+.......   ...             ..++|......++. +++..+++|||||+.||.
T Consensus         3 RNi~IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~-~~~~~iNlIDTPGH~DF~   81 (638)
T 3j25_A            3 INIGVLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQ-WENTKVNIIDTPGHMDFL   81 (638)
T ss_dssp             CCCEEECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCB-CSSCBCCCEECCCSSSTH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEE-ECCEEEEEEECCCcHHHH
Confidence            6899999999999999999863221100   000             11456665555555 478899999999999976


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                             .+..+.+    .-+|++|+|+|+..........+++.+.+. +    .|.++++||+|....+
T Consensus        82 -------~Ev~raL----~~~DgavlVVDa~~GV~~qT~~v~~~a~~~-~----lp~i~~INKmDr~~a~  135 (638)
T 3j25_A           82 -------AEVYRSL----SVLDGAILLISAKDGVQAQTRILFHALRKM-G----IPTIFFINKIDQNGID  135 (638)
T ss_dssp             -------HHHHHHH----TTCSEEECCEESSCTTCSHHHHHHHHHHHH-T----CSCEECCEECCSSSCC
T ss_pred             -------HHHHHHH----HHhCEEEEEEeCCCCCcHHHHHHHHHHHHc-C----CCeEEEEeccccccCC
Confidence                   3444444    445999999999999999998888887765 3    3689999999997543

>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=99.24  E-value=5.6e-11  Score=104.11  Aligned_cols=125  Identities=16%  Similarity=0.133  Sum_probs=71.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|||++|||||||+++|++.......  ....|.......+.......++++||||+.+.......+...+.+    
T Consensus       158 ~~VgLVG~~gAGKSTLL~~Lsg~~~~i~~--~~ftTl~p~~G~V~~~~~~~~~l~DtpGli~~a~~~~~L~~~fl~----  231 (416)
T 1udx_A          158 ADVGLVGYPNAGKSSLLAAMTRAHPKIAP--YPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLR----  231 (416)
T ss_dssp             CSEEEECCGGGCHHHHHHHHCSSCCEECC--CTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHH----
T ss_pred             CEEEEECCCCCcHHHHHHHHHcCCccccC--cccceecceeeEEEecCcceEEEEeccccccchhhhhhhhHHHHH----
Confidence            45899999999999999999998542221  112233333333443223789999999996532111001111111    


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.+|+++|++ +-...+ ....+.+..+...-...|.++|+||+|...
T Consensus       232 ~~era~~lL~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~  283 (416)
T 1udx_A          232 HIARTRVLLYVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLE  283 (416)
T ss_dssp             HHTSSSEEEEEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSC
T ss_pred             HHHHHHhhhEEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhh
Confidence            124678999999986 222222 222222222211112358899999999986

>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=99.16  E-value=2.8e-11  Score=99.59  Aligned_cols=48  Identities=19%  Similarity=0.137  Sum_probs=31.2

Q ss_pred             CccEEEEEEeCCCC--CCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          103 GIHAVLVVFSVRSR--FSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       103 ~~~~~l~v~d~~~~--~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++|++|+|+|++++  .+... ..++..+..... ....|++||+||+|...
T Consensus       162 ~ad~vilV~D~t~~~~~s~~~~~~~l~~i~~~~~-~~~~piilV~NK~Dl~~  212 (255)
T 3c5h_A          162 LVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLA-KTKKPIVVVLTKCDEGV  212 (255)
T ss_dssp             ECCEEEEEEECBC----CHHHHHHHHHHHHHHHH-HTTCCEEEEEECGGGBC
T ss_pred             cCCEEEEEEECCCCchhhHHHHHHHHHHHHHHhc-cCCCCEEEEEEcccccc
Confidence            57999999999865  55544 334444443311 12358999999999865

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=99.13  E-value=1.9e-10  Score=105.68  Aligned_cols=128  Identities=19%  Similarity=0.162  Sum_probs=69.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc-cccCCCCccce------------eeeeee------------------------
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF-KSRASSSGVTS------------TCEMQR------------------------   62 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~-~~~~~~~~~t~------------~~~~~~------------------------   62 (253)
                      +.|+|||++|||||||+++|+|...+ ..|......+.            ......                        
T Consensus        46 p~iaIvG~nGsGKSTLL~~I~Gl~~P~~sG~vt~~g~~i~~~~~~~~~~~~~~i~~v~Q~~~l~~~~tv~e~i~~~~~~~  125 (608)
T 3szr_A           46 PAIAVIGDQSSGKSSVLEALSGVALPRGSGIVTRCPLVLKLKKLVNEDKWRGKVSYQDYEIEISDASEVEKEINKAQNAI  125 (608)
T ss_dssp             CCEECCCCTTSCHHHHHHHHHSCC-------CCCSCEEEEEEECSSSSCCEEEESCC---CCCCCHHHHHTTHHHHHHHH
T ss_pred             CeEEEECCCCChHHHHHHHHhCCCCCCCCCeEEEcCEEEEEecCCccccceeEEeeecccccCCCHHHHHHHHHHHHHHh
Confidence            45999999999999999999998644 23322111000            000000                        


Q ss_pred             ---------------eEeeCCeEEEEEeCCCCCCCC--CCcHHHHHHHHHHHHhhcCCc-cEEEEEEeCCCCCCHHHHHH
Q 025391           63 ---------------TVLKDGQVVNVIDTPGLFDFS--AGSEFVGKEIVKCIGMAKDGI-HAVLVVFSVRSRFSQEEEAA  124 (253)
Q Consensus        63 ---------------~~~~~~~~~~liDtpG~~~~~--~~~~~~~~~~~~~~~~~~~~~-~~~l~v~d~~~~~~~~~~~~  124 (253)
                                     ........+.++|.||+....  +-+......+...+..+...+ ..++++++.+  .+......
T Consensus       126 ~~~~~~~s~~~i~l~i~~~~~p~LlLlDePGi~~~~t~~LD~~~~~~i~~li~~~l~~~~~iil~vvt~~--~d~a~~~~  203 (608)
T 3szr_A          126 AGEGMGISHELITLEISSRDVPDLTLIDLPGITRVAVGNQPADIGYKIKTLIKKYIQRQETISLVVVPSN--VDIATTEA  203 (608)
T ss_dssp             HCSSSCCCSCCEEEEEEESSSCCEEEEECCC------CCSSCSHHHHHHHHHHHHTTSSSCCEEEEEESS--SCTTTCHH
T ss_pred             cCCccccchHHHHHHhcCCCCCceeEeeCCCccccccCCCCHHHHHHHHHHHHHHHhcCCCCceEEEecc--chhccHHH
Confidence                           001123468999999987532  222334466777776654544 4445555543  33223334


Q ss_pred             HHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          125 LHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       125 l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++.+...-..  ..++++|+||.|.+.
T Consensus       204 l~la~~v~~~--g~rtI~VlTK~Dlv~  228 (608)
T 3szr_A          204 LSMAQEVDPE--GDRTIGILTKPDLVD  228 (608)
T ss_dssp             HHHHHHHCSS--CCSEEEEEECGGGSS
T ss_pred             HHHHHHHhhc--CCceEEEecchhhcC
Confidence            5555554222  247999999999985

>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=99.11  E-value=2.1e-10  Score=98.79  Aligned_cols=25  Identities=24%  Similarity=0.252  Sum_probs=22.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...++|+|+|.+|+|||||++.|++
T Consensus        77 ~~~~~I~i~G~~G~GKSTl~~~L~~  101 (355)
T 3p32_A           77 GNAHRVGITGVPGVGKSTAIEALGM  101 (355)
T ss_dssp             CCSEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHH
Confidence            4558999999999999999999863

>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=99.10  E-value=7.5e-11  Score=101.32  Aligned_cols=90  Identities=16%  Similarity=0.016  Sum_probs=53.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC----------------CeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~liDtpG~~~~~   83 (253)
                      .+|+|||.+|+|||||+|+|++.... ... ..++|.......+...+                +..+.+|||||+....
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 FKCGIVGLPNVGKSTLFNALTKAGIE-AAN-YPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (363)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC--------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             CEEEEECCCCCCHHHHHHHHHCCCCc-ccC-CCCceECceEEEEecCCcccceeeeeecccceeeeEEEEEECCCCcccc
Confidence            68999999999999999999987621 111 11223222222222111                2479999999997542


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS  115 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~  115 (253)
                      +..+.    +...+...++.+|++++|+|+++
T Consensus        81 ~~~~g----l~~~fl~~ir~ad~il~VvD~~~  108 (363)
T 1jal_A           81 SKGEG----LGNKFLANIRETDAIGHVVRCFE  108 (363)
T ss_dssp             HHHGG----GTCCHHHHHHTCSEEEEEEECSC
T ss_pred             cccch----HHHHHHHHHHhcCeEEEEEecCC
Confidence            11111    11111123357799999999874

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.09  E-value=1.4e-10  Score=100.54  Aligned_cols=93  Identities=16%  Similarity=0.106  Sum_probs=47.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC----------------CeEEEEEeCCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLF   80 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~liDtpG~~   80 (253)
                      ....+|+|||.+|+|||||+|+|+|.... .. ...++|.......+...+                ...+.+|||||+.
T Consensus        20 ~~~~kvgIVG~pnvGKSTL~n~Ltg~~~~-~~-~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~   97 (396)
T 2ohf_A           20 GTSLKIGIVGLPNVGKSTFFNVLTNSQAS-AE-NFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLV   97 (396)
T ss_dssp             SSCCCEEEECCSSSSHHHHHHHHHC---------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC--
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHCCCcc-cc-CCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcc
Confidence            34579999999999999999999998641 11 111223222222222111                2358999999997


Q ss_pred             CCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC
Q 025391           81 DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS  115 (253)
Q Consensus        81 ~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~  115 (253)
                      ...+..+.    +...+...+..+|++++|+|+++
T Consensus        98 ~~as~~~g----lg~~~l~~ir~aD~Il~VvD~~~  128 (396)
T 2ohf_A           98 KGAHNGQG----LGNAFLSHISACDGIFHLTRAFE  128 (396)
T ss_dssp             -------------CCHHHHHHHTSSSEEEEEEC--
T ss_pred             cccchhhH----HHHHHHHHHHhcCeEEEEEecCC
Confidence            64432221    11122333467799999999863

>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=99.06  E-value=6.3e-10  Score=101.19  Aligned_cols=109  Identities=19%  Similarity=0.197  Sum_probs=63.6

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeeeeeeE--eeCCeEEEEEeCCCCCCCCC-CcHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTV--LKDGQVVNVIDTPGLFDFSA-GSEFVGK   91 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~~~~~~~--~~~~~~~~liDtpG~~~~~~-~~~~~~~   91 (253)
                      ..+..+|+|+|.+|+|||||+|.|+|... +..+..+.+.|.....+..+  ...+..+.|+||||+.+... .......
T Consensus        35 ~~~~~~VaivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~~~~~~~~~~~~~  114 (592)
T 1f5n_A           35 TQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDSW  114 (592)
T ss_dssp             CSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHHH
T ss_pred             cCCCcEEEEECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcCcccccchhHHHH
Confidence            44568999999999999999999999864 22221122333333222211  12567899999999987543 2221112


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHH
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQT  130 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~  130 (253)
                      .++-....+    +  ++|+++...++..+...+..+.+
T Consensus       115 ~fala~lls----s--~lv~n~~~~i~~~dl~~l~~v~e  147 (592)
T 1f5n_A          115 IFALAVLLS----S--TFVYNSIGTINQQAMDQLYYVTE  147 (592)
T ss_dssp             HHHHHHHHC----S--EEEEEEESCSSHHHHHTTHHHHT
T ss_pred             HHHHHHHhc----C--eEEEECCCCccHHHHHHHHHHHH
Confidence            111111111    1  45555555888888666655443

>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=99.04  E-value=3e-10  Score=98.02  Aligned_cols=90  Identities=20%  Similarity=0.149  Sum_probs=55.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe--------------------eCCeEEEEEeCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL--------------------KDGQVVNVIDTPGL   79 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~--------------------~~~~~~~liDtpG~   79 (253)
                      ++|+|||.+|+|||||+|+|++.... ... ....|..........                    ..+..+.+|||||+
T Consensus         2 ~~v~IVG~pnvGKSTL~n~L~~~~~~-v~~-~p~~Ti~pn~g~~~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl   79 (368)
T 2dby_A            2 LAVGIVGLPNVGKSTLFNALTRANAL-AAN-YPFATIDKNVGVVPLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGL   79 (368)
T ss_dssp             CSEEEECCSSSSHHHHHHHHHHHHTT-CSS-CCGGGGSTTEEEEECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSC
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCCc-ccC-CCCceeccceeeEecChHHHHHHHHHhcccccccccCCceEEEEECCCc
Confidence            57999999999999999999986421 111 111222222221111                    12457999999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS  115 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~  115 (253)
                      ....+..+.+...+...    ...+|++++|+|+++
T Consensus        80 ~~~a~~~~~lg~~fl~~----ir~ad~ii~VvD~~~  111 (368)
T 2dby_A           80 VKGAHKGEGLGNQFLAH----IREVAAIAHVLRCFP  111 (368)
T ss_dssp             CCCCCSSSCTTHHHHHH----HHTCSEEEEEEECCC
T ss_pred             cccccccchHHHHHHHH----HHhCCEEEEEEECCC
Confidence            86543322222333322    356699999999874

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.04  E-value=6.8e-12  Score=108.57  Aligned_cols=122  Identities=16%  Similarity=0.140  Sum_probs=67.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc----c-cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHH-HHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK----S-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV-GKE   92 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~----~-~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~-~~~   92 (253)
                      ..+|+++|.+|+|||||+|+|+|.....    . .....+.|......  .  -+..+.++||||+.+...-.+.. ...
T Consensus       160 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~--~--~~~~~~liDtPG~~~~~~~~~~l~~~~  235 (368)
T 3h2y_A          160 GKDVYVVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDI--P--LDEESSLYDTPGIINHHQMAHYVGKQS  235 (368)
T ss_dssp             TSCEEEEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEE--E--SSSSCEEEECCCBCCTTSGGGGSCHHH
T ss_pred             cceEEEecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEE--E--ecCCeEEEeCCCcCcHHHHHHHhhHHH
Confidence            3689999999999999999999863211    1 11122333333222  2  12238999999998754222222 122


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +..++.  ...++.+++++++...+-..+...+..+.   +  ...|+++++||.|.+.
T Consensus       236 l~~~~~--~~~i~~~~~~l~~~~~~~~g~l~~~d~l~---~--~~~~~~~v~nk~d~~~  287 (368)
T 3h2y_A          236 LKLITP--TKEIKPMVFQLNEEQTLFFSGLARFDYVS---G--GRRAFTCHFSNRLTIH  287 (368)
T ss_dssp             HHHHSC--SSCCCCEEEEECTTEEEEETTTEEEEEEE---S--SSEEEEEEECTTSCEE
T ss_pred             HHHhcc--ccccCceEEEEcCCCEEEEcceEEEEEec---C--CCceEEEEecCccccc
Confidence            222221  25678889998874221111111111111   1  1247999999999986

>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=99.03  E-value=3.7e-10  Score=96.75  Aligned_cols=62  Identities=13%  Similarity=0.086  Sum_probs=37.5

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      .+..+++|||||+.++.       ..       ....+|++|+|++++..-.   ...+..  ...    ..|.++|+||
T Consensus       147 ~~~~i~liDTpG~~~~~-------~~-------~~~~aD~vl~Vvd~~~~~~---~~~l~~--~~~----~~p~ivv~NK  203 (341)
T 2p67_A          147 AGYDVVIVETVGVGQSE-------TE-------VARMVDCFISLQIAGGGDD---LQGIKK--GLM----EVADLIVINK  203 (341)
T ss_dssp             TTCSEEEEEEECCTTHH-------HH-------HHTTCSEEEEEECC---------CCCCH--HHH----HHCSEEEECC
T ss_pred             cCCCEEEEeCCCccchH-------HH-------HHHhCCEEEEEEeCCccHH---HHHHHH--hhh----cccCEEEEEC
Confidence            46789999999986521       11       1267899999999863211   111110  111    1368999999


Q ss_pred             CCCCC
Q 025391          147 GDELE  151 (253)
Q Consensus       147 ~D~~~  151 (253)
                      +|...
T Consensus       204 ~Dl~~  208 (341)
T 2p67_A          204 DDGDN  208 (341)
T ss_dssp             CCTTC
T ss_pred             CCCCC
Confidence            99975

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=99.03  E-value=2.3e-09  Score=95.97  Aligned_cols=122  Identities=15%  Similarity=0.157  Sum_probs=71.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh------CCCCccccCCCCccce-----------eeeeeee--------------E-
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL------GRRAFKSRASSSGVTS-----------TCEMQRT--------------V-   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~------g~~~~~~~~~~~~~t~-----------~~~~~~~--------------~-   64 (253)
                      .+..+|+|+|.+|+||||+++.|+      |..+.....++.....           ...+...              . 
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            345789999999999999999999      7654322221111000           0000000              0 


Q ss_pred             -eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe-EEE
Q 025391           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY-MIV  142 (253)
Q Consensus        65 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~-~iv  142 (253)
                       ...+.+++||||||....   ......++......  ..||.+++|+|++...+  .....+.+.+.      .| .+|
T Consensus       179 ~~~~~~DvvIIDTpG~~~~---~~~l~~el~~~~~~--i~pd~vllVvDa~~g~~--~~~~a~~~~~~------~~i~gv  245 (504)
T 2j37_W          179 FKNENFEIIIVDTSGRHKQ---EDSLFEEMLQVANA--IQPDNIVYVMDASIGQA--CEAQAKAFKDK------VDVASV  245 (504)
T ss_dssp             HHHTTCCEEEEEECCCCTT---CHHHHHHHHHHHHH--HCCSEEEEEEETTCCTT--HHHHHHHHHHH------HCCCCE
T ss_pred             HHHCCCcEEEEeCCCCccc---chhHHHHHHHHHhh--hcCceEEEEEecccccc--HHHHHHHHHhh------cCceEE
Confidence             015678999999998752   22333444333322  26799999999976554  22333333332      24 489


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      |+||+|...
T Consensus       246 VlNK~D~~~  254 (504)
T 2j37_W          246 IVTKLDGHA  254 (504)
T ss_dssp             EEECTTSCC
T ss_pred             EEeCCcccc
Confidence            999999875

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.03  E-value=2.3e-10  Score=98.37  Aligned_cols=24  Identities=29%  Similarity=0.111  Sum_probs=22.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...|+|+|++|||||||+|.|+|
T Consensus        73 ~~~~v~lvG~pgaGKSTLln~L~~   96 (349)
T 2www_A           73 LAFRVGLSGPPGAGKSTFIEYFGK   96 (349)
T ss_dssp             SCEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHH
Confidence            358999999999999999999997

>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=98.98  E-value=1.2e-09  Score=94.91  Aligned_cols=95  Identities=17%  Similarity=0.115  Sum_probs=58.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC----------------CeEEEEEeCCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGL   79 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~liDtpG~   79 (253)
                      .....+|+|||+||||||||+|+|+|........ ..++|.......+...+                +..+.+|||||+
T Consensus        17 v~~g~~vgiVG~pnaGKSTL~n~Ltg~~~a~~~~-~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl   95 (392)
T 1ni3_A           17 PGNNLKTGIVGMPNVGKSTFFRAITKSVLGNPAN-YPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGL   95 (392)
T ss_dssp             SSSCCEEEEEECSSSSHHHHHHHHHHSTTTSTTC-CSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGG
T ss_pred             ccCCCEEEEECCCCCCHHHHHHHHHCCCcccccC-CCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEecccc
Confidence            3455899999999999999999999965412221 11223322222222211                135789999999


Q ss_pred             CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC
Q 025391           80 FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS  115 (253)
Q Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~  115 (253)
                      ....+..+.+...+.    .....+|++++|+++..
T Consensus        96 ~~~~s~~e~L~~~fl----~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A           96 TKGASTGVGLGNAFL----SHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             CCCCCSSSSSCHHHH----HHHTTCSEEEEEEECCC
T ss_pred             ccCCcHHHHHHHHHH----HHHHHHHHHHHHHhccc
Confidence            865443332222222    23356799999999753

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.98  E-value=6.1e-12  Score=108.93  Aligned_cols=122  Identities=20%  Similarity=0.184  Sum_probs=69.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC-----CCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR-----RAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~-----~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      ..+|+++|.+|+|||||+|+|++.     .....+. ..+.|.......    -+..+.++||||+.+...-......+.
T Consensus       162 ~~~i~~vG~~nvGKStliN~L~~~~~~~~~~~~~~~-~~gtT~~~~~~~----~~~~~~liDtPG~~~~~~~~~~l~~~~  236 (369)
T 3ec1_A          162 GGDVYVVGCTNVGKSTFINRIIEEATGKGNVITTSY-FPGTTLDMIEIP----LESGATLYDTPGIINHHQMAHFVDARD  236 (369)
T ss_dssp             TSCEEEECCTTSSHHHHHHHHHHHHHHTTCCCEEEE-CTTSSCEEEEEE----CSTTCEEEECCSCCCCSSGGGGSCTTT
T ss_pred             cCcEEEEcCCCCchHHHHHHHHhhccCCccceeecC-CCCeEEeeEEEE----eCCCeEEEeCCCcCcHHHHHHHHhHHH
Confidence            368999999999999999999987     2222222 223444333222    223479999999986542222221211


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+. ....+|++++++++...+-......+..+.   +  ...|+++++||.|.+.
T Consensus       237 l~~~~-~~~~i~~~~~~l~~~~~~~~g~l~~l~~l~---~--~~~~~~~v~~k~d~~~  288 (369)
T 3ec1_A          237 LKIIT-PKREIHPRVYQLNEGQTLFFGGLARLDYIK---G--GRRSFVCYMANELTVH  288 (369)
T ss_dssp             HHHHS-CSSCCCCEEEEECTTEEEEETTTEEEEEEE---S--SSEEEEEEECTTSCEE
T ss_pred             HHHHh-cccccCceEEEEcCCceEEECCEEEEEEcc---C--CCceEEEEecCCcccc
Confidence            11111 125679999999884221111111111111   1  1247999999999985

>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=98.92  E-value=2.8e-09  Score=88.79  Aligned_cols=66  Identities=21%  Similarity=0.309  Sum_probs=41.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE   87 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~   87 (253)
                      ....+|+++|.+|+|||||+|+|+|......+..+ +.|.....  +.  -+..+.++||||+........
T Consensus       118 ~~~~~v~~vG~~nvGKSsliN~l~~~~~~~~~~~~-g~T~~~~~--~~--~~~~~~l~DtpG~~~~~~~~~  183 (282)
T 1puj_A          118 PRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP-GITTSQQW--VK--VGKELELLDTPGILWPKFEDE  183 (282)
T ss_dssp             CCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CC--EE--ETTTEEEEECCCCCCSCCCCH
T ss_pred             CCCceEEEEecCCCchHHHHHHHhcCceeecCCCC-CeeeeeEE--EE--eCCCEEEEECcCcCCCCCCCH
Confidence            34579999999999999999999998764444322 34443322  21  245789999999987655444

>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=98.89  E-value=1.1e-08  Score=89.38  Aligned_cols=119  Identities=18%  Similarity=0.169  Sum_probs=69.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ...|+|+|+||||||||+|.|+|...+..+....+.+.......+.. .....++++|+||+......   . .++...+
T Consensus        69 ~~~valvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~---~-~~~L~~~  144 (413)
T 1tq4_A           69 VLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFP---P-DTYLEKM  144 (413)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCC---H-HHHHHHT
T ss_pred             CeEEEEECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHH---H-HHHHHHc
Confidence            35899999999999999999999765544433221111000011111 12236899999998642111   1 2222222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .  ....+.+++ ++.+ +.......+.+.+... +    .|+++|.|+.|.+
T Consensus       145 ~--L~~~~~~~~-lS~G-~~~kqrv~la~aL~~~-~----~p~~lV~tkpdll  188 (413)
T 1tq4_A          145 K--FYEYDFFII-ISAT-RFKKNDIDIAKAISMM-K----KEFYFVRTKVDSD  188 (413)
T ss_dssp             T--GGGCSEEEE-EESS-CCCHHHHHHHHHHHHT-T----CEEEEEECCHHHH
T ss_pred             C--CCccCCeEE-eCCC-CccHHHHHHHHHHHhc-C----CCeEEEEecCccc
Confidence            1  223345554 6765 4566666666666553 2    4899999998876

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=98.89  E-value=9.3e-10  Score=94.06  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.3

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+...|+|+|+||||||||+|.|+|
T Consensus        53 ~~g~~v~i~G~~GaGKSTLl~~l~g   77 (337)
T 2qm8_A           53 GRAIRVGITGVPGVGKSTTIDALGS   77 (337)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457999999999999999999984

>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=98.89  E-value=4e-09  Score=86.51  Aligned_cols=128  Identities=14%  Similarity=0.039  Sum_probs=69.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh-----CCCCccccCCCCcccee----------eeeeee------------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL-----GRRAFKSRASSSGVTST----------CEMQRT------------------   63 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~-----g~~~~~~~~~~~~~t~~----------~~~~~~------------------   63 (253)
                      .....++++|+.|+|||||++.|+     |..+......+......          ......                  
T Consensus        12 ~~~~i~~~~GkgGvGKTTl~~~La~~l~~g~~v~vvd~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (262)
T 1yrb_A           12 MASMIVVFVGTAGSGKTTLTGEFGRYLEDNYKVAYVNLDTGVKELPYEPSIDVREFVTVEEIMREGYGPNGAIVESYDRL   91 (262)
T ss_dssp             CCCEEEEEECSTTSSHHHHHHHHHHHHTTTSCEEEEECCSSCSCCSSCCSEEGGGTCCHHHHHTTTCCHHHHHHHHHHHH
T ss_pred             cceEEEEEeCCCCCCHHHHHHHHHHHHHCCCeEEEEeCCCCccccCCCCCCChhhcccHHHHhhccCCCCCcEEecHHHH
Confidence            345789999999999999999998     66553333222111000          000000                  


Q ss_pred             ------------EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHH-HHHHHHH
Q 025391           64 ------------VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEA-ALHSLQT  130 (253)
Q Consensus        64 ------------~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~-~l~~l~~  130 (253)
                                  ....+..+++|||||..+..     ....+...+...+.. +++++++|+....+..+.. .......
T Consensus        92 ~~~~~~l~~~l~~~~~~~d~iiiDtpG~~~~~-----~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~  165 (262)
T 1yrb_A           92 MEKFNEYLNKILRLEKENDYVLIDTPGQMETF-----LFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALL  165 (262)
T ss_dssp             HTTHHHHHHHHHHHHHHCSEEEEECCSSHHHH-----HHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHHhhcCCEEEEeCCCccchh-----hhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHH
Confidence                        00012378999999985311     001111122223345 8999999887566655522 1111111


Q ss_pred             HhcccccCeEEEEEeCCCCCC
Q 025391          131 LFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       131 ~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ... ....|+++|+||+|...
T Consensus       166 ~~~-~~~~p~~iv~NK~D~~~  185 (262)
T 1yrb_A          166 IDL-RLGATTIPALNKVDLLS  185 (262)
T ss_dssp             HHH-HHTSCEEEEECCGGGCC
T ss_pred             Hhc-ccCCCeEEEEecccccc
Confidence            111 11247999999999986

>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=98.81  E-value=3.7e-08  Score=82.89  Aligned_cols=127  Identities=16%  Similarity=0.110  Sum_probs=70.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-----------ceeeeeeeeE----------------
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-----------TSTCEMQRTV----------------   64 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~------~~~~~-----------t~~~~~~~~~----------------   64 (253)
                      +...|+|+|+||||||||++.|+|...+..+.      .....           .....+....                
T Consensus       101 ~g~vi~lvG~nGsGKTTll~~Lagll~~~~g~V~l~g~D~~r~~a~~ql~~~~~~~~i~~v~q~~~~~p~~~v~~~v~~~  180 (304)
T 1rj9_A          101 KGRVVLVVGVNGVGKTTTIAKLGRYYQNLGKKVMFCAGDTFRAAGGTQLSEWGKRLSIPVIQGPEGTDSAALAYDAVQAM  180 (304)
T ss_dssp             SSSEEEEECSTTSSHHHHHHHHHHHHHTTTCCEEEECCCCSSTTTTHHHHHHHHHHTCCEECCCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHHHHhcCCEEEEEeecCCChhHHHHHHHHHHhcCceEEEeCCCCCHHHHHHHHHHHH
Confidence            45689999999999999999998654322211      10000           0001111000                


Q ss_pred             eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH-hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEE
Q 025391           65 LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG-MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  143 (253)
Q Consensus        65 ~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv  143 (253)
                      ...+..+.++||+|........-......+..+. .....|+.+++++|++....  ....+..+.+..|     .++|+
T Consensus       181 ~~~~~d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~--~~~~~~~~~~~~~-----~t~ii  253 (304)
T 1rj9_A          181 KARGYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQN--GLEQAKKFHEAVG-----LTGVI  253 (304)
T ss_dssp             HHHTCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTH--HHHHHHHHHHHHC-----CSEEE
T ss_pred             HhCCCCEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHH--HHHHHHHHHHHcC-----CcEEE
Confidence            0123457799999986432111111122333333 33456888888999874533  2333444444333     48999


Q ss_pred             EeCCCCCC
Q 025391          144 FTGGDELE  151 (253)
Q Consensus       144 ~~k~D~~~  151 (253)
                      +||.|...
T Consensus       254 vTh~d~~a  261 (304)
T 1rj9_A          254 VTKLDGTA  261 (304)
T ss_dssp             EECTTSSC
T ss_pred             EECCcccc
Confidence            99998764

>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=98.78  E-value=6e-08  Score=85.24  Aligned_cols=122  Identities=15%  Similarity=0.109  Sum_probs=70.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh------CCCCccccCCCCcc-----------ceeeeeeeeE--------------e-
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL------GRRAFKSRASSSGV-----------TSTCEMQRTV--------------L-   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~------g~~~~~~~~~~~~~-----------t~~~~~~~~~--------------~-   65 (253)
                      ++..|+++|++|+||||++..|+      |..+.....++...           ......+...              . 
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            45799999999999999999987      44432211111100           0000000000              0 


Q ss_pred             -eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           66 -KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        66 -~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                       ..+.++++|||||....   ......++......  ..||.+++|+|++...+  .....+.+.+..     ....||+
T Consensus       179 ~~~~~DvVIIDTaGrl~~---d~~lm~el~~i~~~--~~pd~vlLVvDA~~gq~--a~~~a~~f~~~~-----~i~gVIl  246 (443)
T 3dm5_A          179 KSKGVDIIIVDTAGRHKE---DKALIEEMKQISNV--IHPHEVILVIDGTIGQQ--AYNQALAFKEAT-----PIGSIIV  246 (443)
T ss_dssp             HHTTCSEEEEECCCCSSC---CHHHHHHHHHHHHH--HCCSEEEEEEEGGGGGG--HHHHHHHHHHSC-----TTEEEEE
T ss_pred             HhCCCCEEEEECCCcccc---hHHHHHHHHHHHHh--hcCceEEEEEeCCCchh--HHHHHHHHHhhC-----CCeEEEE
Confidence             13468999999997642   23344555444332  35789999999874322  222333333322     3578999


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||.|...
T Consensus       247 TKlD~~~  253 (443)
T 3dm5_A          247 TKLDGSA  253 (443)
T ss_dssp             ECCSSCS
T ss_pred             ECCCCcc
Confidence            9999874

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.73  E-value=7.1e-09  Score=82.79  Aligned_cols=25  Identities=28%  Similarity=0.464  Sum_probs=22.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|+|+|.+|+|||||++.|++.
T Consensus        29 ~~~~i~i~G~~g~GKTTl~~~l~~~   53 (221)
T 2wsm_A           29 GTVAVNIMGAIGSGKTLLIERTIER   53 (221)
T ss_dssp             TCEEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEEEcCCCCCHHHHHHHHHHH
Confidence            3479999999999999999999865

>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=98.70  E-value=1.7e-08  Score=89.63  Aligned_cols=125  Identities=14%  Similarity=0.153  Sum_probs=70.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-------c----eeeeeeeeE---------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-------T----STCEMQRTV---------------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~------~~~~~-------t----~~~~~~~~~---------------   64 (253)
                      .....|+|+|+||+|||||++.|+|...+..+.      .....       .    ....+....               
T Consensus       291 ~~GeVI~LVGpNGSGKTTLl~~LAgll~~~~G~V~l~g~D~~r~aa~eQL~~~~~r~~I~vV~Q~~~~~p~~tV~e~l~~  370 (503)
T 2yhs_A          291 KAPFVILMVGVNGVGKTTTIGKLARQFEQQGKSVMLAAGDTFRAAAVEQLQVWGQRNNIPVIAQHTGADSASVIFDAIQA  370 (503)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEECCCTTCHHHHHHHHHHHHHHTCCEECCSTTCCHHHHHHHHHHH
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHhhhcCCeEEEecCcccchhhHHHHHHHHHhcCceEEecccCcCHHHHHHHHHHH
Confidence            345789999999999999999998754322211      11000       0    000011000               


Q ss_pred             -eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH---Hhh-cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe
Q 025391           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI---GMA-KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  139 (253)
Q Consensus        65 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~---~~~-~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~  139 (253)
                       ...+.+++++||+|....   ......++...+   ... ...|+-++||+|++...  .....++.+.+.++     .
T Consensus       371 a~~~~~DvVLIDTaGrl~~---~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq--~al~~ak~f~~~~~-----i  440 (503)
T 2yhs_A          371 AKARNIDVLIADTAGRLQN---KSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQ--NAVSQAKLFHEAVG-----L  440 (503)
T ss_dssp             HHHTTCSEEEECCCCSCCC---HHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTH--HHHHHHHHHHHHTC-----C
T ss_pred             HHhcCCCEEEEeCCCccch---hhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccH--HHHHHHHHHHhhcC-----C
Confidence             013457889999998643   233333443332   222 23478899999986332  22333444444433     4


Q ss_pred             EEEEEeCCCCCC
Q 025391          140 MIVVFTGGDELE  151 (253)
Q Consensus       140 ~ivv~~k~D~~~  151 (253)
                      +.+|+||.|...
T Consensus       441 tgvIlTKLD~ta  452 (503)
T 2yhs_A          441 TGITLTKLDGTA  452 (503)
T ss_dssp             SEEEEECGGGCS
T ss_pred             CEEEEEcCCCcc
Confidence            778999999753

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.70  E-value=1.1e-08  Score=84.40  Aligned_cols=60  Identities=30%  Similarity=0.416  Sum_probs=39.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      .+|+++|.+|+|||||+|+|+|......+.. .+.|.....  +  ..+..+.+|||||+.+...
T Consensus       100 ~~v~~vG~~~vGKSslin~l~~~~~~~~~~~-~g~T~~~~~--~--~~~~~~~l~DtpG~~~~~~  159 (262)
T 3cnl_A          100 ARVLIVGVPNTGKSTIINKLKGKRASSVGAQ-PGITKGIQW--F--SLENGVKILDTPGILYKNI  159 (262)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHTTCC-----------CCSCE--E--ECTTSCEEESSCEECCCCC
T ss_pred             hheEEeCCCCCCHHHHHHHHhcccccccCCC-CCCccceEE--E--EeCCCEEEEECCCcccCcC
Confidence            5999999999999999999999876444332 233433321  1  1245789999999987654

>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=98.67  E-value=2.1e-08  Score=88.28  Aligned_cols=121  Identities=17%  Similarity=0.136  Sum_probs=67.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC------CccccCCCC----------------------c-cceee-ee--eeeEee
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR------AFKSRASSS----------------------G-VTSTC-EM--QRTVLK   66 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~------~~~~~~~~~----------------------~-~t~~~-~~--~~~~~~   66 (253)
                      ...|+++|++|+||||+++.|++..      +......+.                      + .+... ..  ..+...
T Consensus        99 ~~vI~ivG~~GvGKTTla~~La~~l~~~G~kVllv~~D~~r~~a~~qL~~~~~~~gv~v~~~~~~~~dp~~i~~~~l~~~  178 (432)
T 2v3c_C           99 QNVILLVGIQGSGKTTTAAKLARYIQKRGLKPALIAADTYRPAAYEQLKQLAEKIHVPIYGDETRTKSPVDIVKEGMEKF  178 (432)
T ss_dssp             CCCEEEECCSSSSTTHHHHHHHHHHHHHHCCEEEECCSCCCTTGGGSSHHHHHHSSCCEECCSSSCCSSSTTHHHHHHTT
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEeccccCchHHHHHHHhhhccCcceEecCCCCCCHHHHHHHHHHHh
Confidence            4689999999999999999998732      111110000                      0 00000 00  001112


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccccc-CeEEEEEe
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIF-DYMIVVFT  145 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~-~~~ivv~~  145 (253)
                      .+.++++|||||....   ......++.. + .....||.+++|+|++...+     .+..+. .|... . ..+.+|+|
T Consensus       179 ~~~D~vIIDT~G~~~~---~~~l~~~l~~-i-~~~~~~d~vllVvda~~g~~-----~~~~~~-~~~~~-~~~i~gvVln  246 (432)
T 2v3c_C          179 KKADVLIIDTAGRHKE---EKGLLEEMKQ-I-KEITNPDEIILVIDGTIGQQ-----AGIQAK-AFKEA-VGEIGSIIVT  246 (432)
T ss_dssp             SSCSEEEEECCCSCSS---HHHHHHHHHH-T-TSSSCCSEEEEEEEGGGGGG-----HHHHHH-HHHTT-SCSCEEEEEE
T ss_pred             hCCCEEEEcCCCCccc---cHHHHHHHHH-H-HHHhcCcceeEEeeccccHH-----HHHHHH-HHhhc-ccCCeEEEEe
Confidence            4568999999998642   2223333322 1 12236899999999864432     222222 23321 2 24899999


Q ss_pred             CCCCCC
Q 025391          146 GGDELE  151 (253)
Q Consensus       146 k~D~~~  151 (253)
                      |+|...
T Consensus       247 K~D~~~  252 (432)
T 2v3c_C          247 KLDGSA  252 (432)
T ss_dssp             CSSSCS
T ss_pred             CCCCcc
Confidence            999864

>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=98.67  E-value=2.6e-08  Score=87.42  Aligned_cols=124  Identities=18%  Similarity=0.164  Sum_probs=70.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh------CCCCccccCCCC---------------ccceeeeee----------eeEe-
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL------GRRAFKSRASSS---------------GVTSTCEMQ----------RTVL-   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~------g~~~~~~~~~~~---------------~~t~~~~~~----------~~~~-   65 (253)
                      ++..|+++|++|+||||++..|+      |..+.....+..               +........          .... 
T Consensus        96 ~~~vI~lvG~~GsGKTTt~~kLA~~l~~~G~kVllv~~D~~r~~a~eqL~~~~~~~gv~~~~~~~~~dp~~i~~~al~~a  175 (433)
T 3kl4_A           96 LPFIIMLVGVQGSGKTTTAGKLAYFYKKRGYKVGLVAADVYRPAAYDQLLQLGNQIGVQVYGEPNNQNPIEIAKKGVDIF  175 (433)
T ss_dssp             SSEEEEECCCTTSCHHHHHHHHHHHHHHTTCCEEEEEECCSCHHHHHHHHHHHHTTTCCEECCTTCSCHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEEecCccchhHHHHHHHHHHhcCCceeeccccCCHHHHHHHHHHHH
Confidence            45789999999999999999987      433311111100               000000000          0000 


Q ss_pred             -eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           66 -KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        66 -~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                       ..+.+++++||||..... .......++.......  .||.+++|+|+....  ......+.+.+.+     .+..||+
T Consensus       176 ~~~~~DvvIIDTaGr~~~~-~d~~lm~el~~i~~~~--~pd~vlLVlDa~~gq--~a~~~a~~f~~~~-----~~~gVIl  245 (433)
T 3kl4_A          176 VKNKMDIIIVDTAGRHGYG-EETKLLEEMKEMYDVL--KPDDVILVIDASIGQ--KAYDLASRFHQAS-----PIGSVII  245 (433)
T ss_dssp             TTTTCSEEEEEECCCSSSC-CTTHHHHHHHHHHHHH--CCSEEEEEEEGGGGG--GGHHHHHHHHHHC-----SSEEEEE
T ss_pred             HhcCCCEEEEECCCCcccc-CCHHHHHHHHHHHHhh--CCcceEEEEeCccch--HHHHHHHHHhccc-----CCcEEEE
Confidence             135689999999975411 1223445555544433  468999999986332  2233334444333     3588999


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||.|...
T Consensus       246 TKlD~~a  252 (433)
T 3kl4_A          246 TKMDGTA  252 (433)
T ss_dssp             ECGGGCS
T ss_pred             ecccccc
Confidence            9999864

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=98.63  E-value=7.4e-08  Score=80.96  Aligned_cols=125  Identities=17%  Similarity=0.233  Sum_probs=70.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-------ce----eeeeeeeEe--------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-------TS----TCEMQRTVL--------------   65 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~------~~~~~-------t~----~~~~~~~~~--------------   65 (253)
                      .++..++|+|+||||||||++.|+|...+..+.      .....       ..    ...+.....              
T Consensus        98 ~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~g~V~l~g~d~~r~~a~~ql~~~~~~~~i~~v~q~~~~~~~~~~v~e~l~  177 (302)
T 3b9q_A           98 RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVK  177 (302)
T ss_dssp             SSCEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCC--CCCHHHHHHHHHH
T ss_pred             CCCcEEEEEcCCCCCHHHHHHHHHHHHHHcCCeEEEEeecccchhHHHHHHHHHHhcCceEEEecCCccCHHHHHHHHHH
Confidence            345789999999999999999998864322221      11000       00    011110000              


Q ss_pred             ---eCCeEEEEEeCCCCCCCCCCcHHHHHHH---HHHHHh-hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccC
Q 025391           66 ---KDGQVVNVIDTPGLFDFSAGSEFVGKEI---VKCIGM-AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFD  138 (253)
Q Consensus        66 ---~~~~~~~liDtpG~~~~~~~~~~~~~~~---~~~~~~-~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~  138 (253)
                         ..+....++||.|.....   .....++   +.++.. ....|+-+++|+|++..++....  ++.+.+..|     
T Consensus       178 ~~~~~~~d~~lldt~gl~~~~---~~~~~eLSkqr~~iaral~~~P~e~lLvLDptsglD~~~~--~~~~~~~~g-----  247 (302)
T 3b9q_A          178 RGKEEGYDVVLCDTSGRLHTN---YSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQ--AREFNEVVG-----  247 (302)
T ss_dssp             HHHHTTCSEEEECCCCCSSCC---HHHHHHHHHHHHHHHTTSTTCCSEEEEEEEGGGGGGGHHH--HHHHHHHTC-----
T ss_pred             HHHHcCCcchHHhcCCCCcch---hHHHHHHHHHHHHHHHhhccCCCeeEEEEeCCCCcCHHHH--HHHHHHhcC-----
Confidence               012346789999986432   2222223   233332 33467777777778767765542  333433333     


Q ss_pred             eEEEEEeCCCCCC
Q 025391          139 YMIVVFTGGDELE  151 (253)
Q Consensus       139 ~~ivv~~k~D~~~  151 (253)
                      .+++++||.|...
T Consensus       248 ~t~iiiThlD~~~  260 (302)
T 3b9q_A          248 ITGLILTKLDGSA  260 (302)
T ss_dssp             CCEEEEECCSSCS
T ss_pred             CCEEEEeCCCCCC
Confidence            4789999988764

>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=98.63  E-value=2.1e-08  Score=85.17  Aligned_cols=123  Identities=15%  Similarity=0.074  Sum_probs=68.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCccc-----------eeeeeeeeE---------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA------SSSGVT-----------STCEMQRTV---------------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~------~~~~~t-----------~~~~~~~~~---------------   64 (253)
                      .++..|+|+|+||+|||||++.|+|...+..+.      ......           ....+....               
T Consensus       127 ~~g~vi~lvG~nGaGKTTll~~Lag~l~~~~g~V~l~g~D~~r~~a~eql~~~~~~~gv~~v~q~~~~~p~~~v~e~l~~  206 (328)
T 3e70_C          127 EKPYVIMFVGFNGSGKTTTIAKLANWLKNHGFSVVIAASDTFRAGAIEQLEEHAKRIGVKVIKHSYGADPAAVAYDAIQH  206 (328)
T ss_dssp             CSSEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECCSSTTHHHHHHHHHHHTTCEEECCCTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHhcCCEEEEEeecccccchHHHHHHHHHHcCceEEeccccCCHHHHHHHHHHH
Confidence            455799999999999999999998764322211      000000           000000000               


Q ss_pred             -eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEE
Q 025391           65 -LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  143 (253)
Q Consensus        65 -~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv  143 (253)
                       ...+..+.++||+|......   ....++.......  .||..++++|++...  .-...++.+.+.++     .++++
T Consensus       207 ~~~~~~d~vliDtaG~~~~~~---~l~~eL~~i~ral--~~de~llvLDa~t~~--~~~~~~~~~~~~~~-----it~ii  274 (328)
T 3e70_C          207 AKARGIDVVLIDTAGRSETNR---NLMDEMKKIARVT--KPNLVIFVGDALAGN--AIVEQARQFNEAVK-----IDGII  274 (328)
T ss_dssp             HHHHTCSEEEEEECCSCCTTT---CHHHHHHHHHHHH--CCSEEEEEEEGGGTT--HHHHHHHHHHHHSC-----CCEEE
T ss_pred             HHhccchhhHHhhccchhHHH---HHHHHHHHHHHHh--cCCCCEEEEecHHHH--HHHHHHHHHHHhcC-----CCEEE
Confidence             01234577899999864332   2334444333222  367888888876442  22223333333322     57899


Q ss_pred             EeCCCCCC
Q 025391          144 FTGGDELE  151 (253)
Q Consensus       144 ~~k~D~~~  151 (253)
                      +||.|...
T Consensus       275 lTKlD~~a  282 (328)
T 3e70_C          275 LTKLDADA  282 (328)
T ss_dssp             EECGGGCS
T ss_pred             EeCcCCcc
Confidence            99999753

>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=98.63  E-value=1.3e-07  Score=80.21  Aligned_cols=75  Identities=11%  Similarity=0.148  Sum_probs=52.7

Q ss_pred             eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC-------CCCCHH-HHHHHHHHHHHhccc--
Q 025391           66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR-------SRFSQE-EEAALHSLQTLFGKK--  135 (253)
Q Consensus        66 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~-------~~~~~~-~~~~l~~l~~~~g~~--  135 (253)
                      .++..+.+|||+|.           +..+..+..++.+++++|||+|++       +.-+.. -...+.++......+  
T Consensus       164 ~~~v~l~iwDtgGQ-----------e~~R~~w~~yf~~~~~iIfV~dls~ydq~l~d~~~~nr~~es~~~~~~i~~~~~~  232 (327)
T 3ohm_A          164 LQSVIFRMVDVGGQ-----------RSERRKWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWF  232 (327)
T ss_dssp             ETTEEEEEEEECCS-----------HHHHTTGGGGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTSGGG
T ss_pred             eeceeeEEEEcCCc-----------hhHHHHHHHHhCCCCEEEEEEECccccccccccccHhHHHHHHHHHHHHhhhhcc
Confidence            36778999999997           566677788999999999999765       111111 133455555554332  


Q ss_pred             ccCeEEEEEeCCCCCC
Q 025391          136 IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 ~~~~~ivv~~k~D~~~  151 (253)
                      ...|+++++||+|.+.
T Consensus       233 ~~~~iiL~~NK~DL~~  248 (327)
T 3ohm_A          233 QNSSVILFLNKKDLLE  248 (327)
T ss_dssp             TTCEEEEEEECHHHHH
T ss_pred             CCceEEEEEECchhhh
Confidence            2368999999999863

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=98.61  E-value=8.8e-08  Score=82.22  Aligned_cols=125  Identities=17%  Similarity=0.256  Sum_probs=70.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC------CCCcc-------c----eeeeeeeeEe--------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA------SSSGV-------T----STCEMQRTVL--------------   65 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~------~~~~~-------t----~~~~~~~~~~--------------   65 (253)
                      .++..|+|+|+||||||||++.|+|...+..+.      .....       .    ....+.....              
T Consensus       155 ~~g~vi~lvG~nGsGKTTll~~Lag~l~~~~G~V~l~g~D~~r~~a~eql~~~~~r~~i~~v~q~~~~~~p~~tv~e~l~  234 (359)
T 2og2_A          155 RKPAVIMIVGVNGGGKTTSLGKLAHRLKNEGTKVLMAAGDTFRAAASDQLEIWAERTGCEIVVAEGDKAKAATVLSKAVK  234 (359)
T ss_dssp             SSSEEEEEECCTTSCHHHHHHHHHHHHHHTTCCEEEECCCCSCHHHHHHHHHHHHHHTCEEECCSSSSCCHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHhhccccCCEEEEecccccccchhHHHHHHHHhcCeEEEEecccccChhhhHHHHHH
Confidence            345789999999999999999998864322211      11000       0    0011111000              


Q ss_pred             ---eCCeEEEEEeCCCCCCCCCCcHHHHHHH---HHHHH-hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccC
Q 025391           66 ---KDGQVVNVIDTPGLFDFSAGSEFVGKEI---VKCIG-MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFD  138 (253)
Q Consensus        66 ---~~~~~~~liDtpG~~~~~~~~~~~~~~~---~~~~~-~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~  138 (253)
                         ..+....++||.|.....   .....++   +..+. .....|+-+++|+|++..++....  ++.+.+..|     
T Consensus       235 ~~~~~~~d~~lldt~Gl~~~~---~~~~~eLSkqr~~iaral~~~P~e~lLvLDpttglD~~~~--~~~~~~~~g-----  304 (359)
T 2og2_A          235 RGKEEGYDVVLCDTSGRLHTN---YSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQ--AREFNEVVG-----  304 (359)
T ss_dssp             HHHHTTCSEEEEECCCCSSCC---HHHHHHHHHHHHHHHHHSTTCCSEEEEEEEGGGGGGGHHH--HHHHHHHTC-----
T ss_pred             HHHhCCCHHHHHHhcCCChhh---hhHHHHHHHHHHHHHHHHhcCCCceEEEEcCCCCCCHHHH--HHHHHHhcC-----
Confidence               012346789999986532   2222222   23333 334567777777788767765543  333333333     


Q ss_pred             eEEEEEeCCCCCC
Q 025391          139 YMIVVFTGGDELE  151 (253)
Q Consensus       139 ~~ivv~~k~D~~~  151 (253)
                      .++|++||.|...
T Consensus       305 ~t~iiiThlD~~~  317 (359)
T 2og2_A          305 ITGLILTKLDGSA  317 (359)
T ss_dssp             CCEEEEESCTTCS
T ss_pred             CeEEEEecCcccc
Confidence            4889999988764

>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=98.59  E-value=9.3e-07  Score=75.19  Aligned_cols=74  Identities=11%  Similarity=0.087  Sum_probs=52.1

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC-------CCC-HHHHHHHHHHHHHhccc--c
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS-------RFS-QEEEAALHSLQTLFGKK--I  136 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~-------~~~-~~~~~~l~~l~~~~g~~--~  136 (253)
                      ++..+.+|||+|.           +.++..+..++.+++++|||+|+++       .-+ ..-...+.++.......  .
T Consensus       159 ~~v~l~iwDtaGQ-----------e~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e~~~~nr~~es~~~~~~i~~~~~~~  227 (340)
T 4fid_A          159 KDIPFHLIDVGGQ-----------RSERKXWVSFFSDVDCAIFVTSLAEYDMKLYEDGNTSRLTESIAVFKDIMTNEFLK  227 (340)
T ss_dssp             SSCEEEEEECCSC-----------HHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC--CCSBHHHHHHHHHHHHHHCGGGT
T ss_pred             eeeeeccccCCCc-----------ccccccHHHHhccCCEEEEEEECCccccccccccccchHHHHHHHHHHHhhhhccC
Confidence            5678999999997           6677888889999999999999871       001 11123444444443322  2


Q ss_pred             cCeEEEEEeCCCCCC
Q 025391          137 FDYMIVVFTGGDELE  151 (253)
Q Consensus       137 ~~~~ivv~~k~D~~~  151 (253)
                      ..|++|++||+|.+.
T Consensus       228 ~~piiLv~NK~DL~~  242 (340)
T 4fid_A          228 GAVKLIFLNKMDLFE  242 (340)
T ss_dssp             TSEEEEEEECHHHHH
T ss_pred             CCeEEEEEECchhhh
Confidence            368999999999874

>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=98.58  E-value=1.5e-07  Score=80.97  Aligned_cols=73  Identities=15%  Similarity=0.123  Sum_probs=46.4

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC--------CHHHHHHHHHHHHHhccc--c
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF--------SQEEEAALHSLQTLFGKK--I  136 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~--------~~~~~~~l~~l~~~~g~~--~  136 (253)
                      ++..+.+|||||..           ..+..+..++.+++++|||+|+++.-        ...-...+.++.......  .
T Consensus       199 ~~~~l~i~Dt~Gq~-----------~~r~~w~~~f~~~~~iIfv~dls~~dq~l~ed~~~n~~~es~~~~~~i~~~~~~~  267 (362)
T 1zcb_A          199 KNVPFKMVDVGGQR-----------SERKRWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFS  267 (362)
T ss_dssp             TTEEEEEEEECC------------------CTTSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             CCeEEEEEeccchh-----------hhhhhHHHHhCCCCEEEEEEECccccccccccccccHHHHHHHHHHHHhcchhhC
Confidence            56789999999984           33455667889999999999998410        111223444444443321  2


Q ss_pred             cCeEEEEEeCCCCC
Q 025391          137 FDYMIVVFTGGDEL  150 (253)
Q Consensus       137 ~~~~ivv~~k~D~~  150 (253)
                      ..|++|++||.|.+
T Consensus       268 ~~piILv~NK~DL~  281 (362)
T 1zcb_A          268 NVSIILFLNKTDLL  281 (362)
T ss_dssp             TSEEEEEEECHHHH
T ss_pred             CCCEEEEEEChhhh
Confidence            36899999999986

>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=98.55  E-value=2.1e-06  Score=69.46  Aligned_cols=30  Identities=27%  Similarity=0.210  Sum_probs=25.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        31 Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G   60 (235)
T 3tif_A           31 GEFVSIMGPSGSGKSTMLNIIGCLDKPTEG   60 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCCCCCce
Confidence            358999999999999999999998765444

>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=98.51  E-value=3e-07  Score=81.04  Aligned_cols=110  Identities=17%  Similarity=0.144  Sum_probs=60.0

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC-----------------CCccccCCCCccceeeeeeee----EeeC--CeEEE
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR-----------------RAFKSRASSSGVTSTCEMQRT----VLKD--GQVVN   72 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~-----------------~~~~~~~~~~~~t~~~~~~~~----~~~~--~~~~~   72 (253)
                      ..+...|+|+|+.++|||||+|.|+|.                 ..|..+......|.-......    ....  ...+.
T Consensus        64 ~~~v~vVsV~G~~~~GKStLLN~llg~~~~~~~~~wl~~~~~~~~~f~~~~t~~~~T~GIw~~~~p~~~~~~~~~~~~vv  143 (447)
T 3q5d_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVL  143 (447)
T ss_dssp             TSBEEEEEEEESTTSSHHHHHHHHHHHHHCCSTTTSSCCTTSBCCSSCSCCSSCCCCCEEEEESSCEEEECSSSCEEEEE
T ss_pred             CCceEEEEEECCCCCcHHHHHHHHhhhcccccccccccccccccceecCCCCCCCceeEEEEecCccccccCCCCcceEE
Confidence            345578999999999999999999974                 122222222222322222211    1111  35799


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHH
Q 025391           73 VIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTL  131 (253)
Q Consensus        73 liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~  131 (253)
                      ++||||+++...+ ......+.......   .+.+||-.  ...++..+...|..+.++
T Consensus       144 llDTeG~~~~~~~-~~~d~~ifal~~lL---Ss~~IyN~--~~~i~~~~l~~L~~~~e~  196 (447)
T 3q5d_A          144 LMDTQGTFDSQST-LRDSATVFALSTMI---SSIQVYNL--SQNVQEDDLQHLQLFTEY  196 (447)
T ss_dssp             EEEEECCCSSHHH-HHHHHHHHHHHHHH---CSEEEEEE--SSSCCHHHHHHHHHHHHH
T ss_pred             EEcCCcccccccc-hhhhHHHHHHHHHH---hhHHHHhh--cccccHHHHHHHHHHHHH
Confidence            9999999865321 11112222211111   13444444  347888887777665553

>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=98.50  E-value=7.1e-07  Score=73.17  Aligned_cols=31  Identities=26%  Similarity=0.178  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        40 ~Gei~~l~G~NGsGKSTLlk~l~Gl~~p~~G   70 (256)
T 1vpl_A           40 EGEIFGLIGPNGAGKTTTLRIISTLIKPSSG   70 (256)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            3358999999999999999999998655443

>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=98.46  E-value=4.2e-06  Score=68.80  Aligned_cols=31  Identities=26%  Similarity=0.341  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        49 ~Gei~~liG~NGsGKSTLlk~l~Gl~~p~~G   79 (263)
T 2olj_A           49 EGEVVVVIGPSGSGKSTFLRCLNLLEDFDEG   79 (263)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEEcCCCCcHHHHHHHHHcCCCCCCc
Confidence            3458999999999999999999998665443

>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=98.44  E-value=7e-07  Score=72.50  Aligned_cols=30  Identities=30%  Similarity=0.427  Sum_probs=25.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        32 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   61 (240)
T 1ji0_A           32 GQIVTLIGANGAGKTTTLSAIAGLVRAQKG   61 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            358999999999999999999998765444

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=98.43  E-value=2.2e-06  Score=70.10  Aligned_cols=30  Identities=23%  Similarity=0.318  Sum_probs=25.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        31 Ge~~~l~G~nGsGKSTLl~~l~Gl~~p~~G   60 (253)
T 2nq2_C           31 GDILAVLGQNGCGKSTLLDLLLGIHRPIQG   60 (253)
T ss_dssp             TCEEEEECCSSSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            358999999999999999999998654443

>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=98.42  E-value=1.3e-06  Score=74.95  Aligned_cols=73  Identities=11%  Similarity=0.116  Sum_probs=51.0

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCC--------HHHHHHHHHHHHHhccc--c
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFS--------QEEEAALHSLQTLFGKK--I  136 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~--------~~~~~~l~~l~~~~g~~--~  136 (253)
                      ++..+.+|||+|...           ++..+..++.+++++|||+|+++.-+        ..-.....++.......  .
T Consensus       191 ~~~~l~iwDt~GQe~-----------~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~~~~~~~  259 (353)
T 1cip_A          191 KDLHFKMFDVGGQRS-----------ERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFT  259 (353)
T ss_dssp             TTEEEEEEEECCSGG-----------GGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHHTCGGGT
T ss_pred             CCeeEEEEeCCCchh-----------hhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHHcCcccc
Confidence            577899999999743           34556788899999999999984211        11233445555554322  2


Q ss_pred             cCeEEEEEeCCCCC
Q 025391          137 FDYMIVVFTGGDEL  150 (253)
Q Consensus       137 ~~~~ivv~~k~D~~  150 (253)
                      ..|++|++||.|.+
T Consensus       260 ~~piiLv~NK~DL~  273 (353)
T 1cip_A          260 DTSIILFLNKKDLF  273 (353)
T ss_dssp             TSEEEEEEECHHHH
T ss_pred             CCcEEEEEECcCch
Confidence            46899999999986

>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=98.42  E-value=1.5e-06  Score=72.86  Aligned_cols=123  Identities=15%  Similarity=0.122  Sum_probs=66.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC------CCCccccCCCCcc-ce----------eeeeee--------------eEe--
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG------RRAFKSRASSSGV-TS----------TCEMQR--------------TVL--   65 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g------~~~~~~~~~~~~~-t~----------~~~~~~--------------~~~--   65 (253)
                      ...|+++|++|+||||++..|++      ..+.......... ..          ......              ...  
T Consensus        98 ~~vi~i~G~~G~GKTT~~~~la~~~~~~g~~v~l~~~D~~r~~a~~ql~~~~~~~~v~v~~~~~~~~p~~~~~~~l~~~~  177 (297)
T 1j8m_F           98 PYVIMLVGVQGTGKTTTAGKLAYFYKKKGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVEKFL  177 (297)
T ss_dssp             SEEEEEECSSCSSTTHHHHHHHHHHHHTTCCEEEEECCCSSSHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEecCCCCHHHHHHHHHHhccCCeEEEecCCCCCHHHHHHHHHHHHH
Confidence            57899999999999999999873      3322111111100 00          000000              000  


Q ss_pred             eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEe
Q 025391           66 KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        66 ~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ..+.+++++||||.... ...+....++......  ..+|.+++|++++..  .   ..+..+.. |... .....+|+|
T Consensus       178 ~~~~D~ViIDTpg~~~~-~~~~~l~~el~~i~~~--~~~d~vllVvda~~g--~---~~~~~~~~-~~~~-~~i~gvVln  247 (297)
T 1j8m_F          178 SEKMEIIIVDTAGRHGY-GEEAALLEEMKNIYEA--IKPDEVTLVIDASIG--Q---KAYDLASK-FNQA-SKIGTIIIT  247 (297)
T ss_dssp             HTTCSEEEEECCCSCCT-TCHHHHHHHHHHHHHH--HCCSEEEEEEEGGGG--G---GHHHHHHH-HHHT-CTTEEEEEE
T ss_pred             hCCCCEEEEeCCCCccc-ccHHHHHHHHHHHHHH--hcCCEEEEEeeCCch--H---HHHHHHHH-HHhh-CCCCEEEEe
Confidence            14567999999998651 1222233333332222  257899999998632  1   22333322 2221 223788999


Q ss_pred             CCCCCC
Q 025391          146 GGDELE  151 (253)
Q Consensus       146 k~D~~~  151 (253)
                      |.|...
T Consensus       248 k~D~~~  253 (297)
T 1j8m_F          248 KMDGTA  253 (297)
T ss_dssp             CGGGCT
T ss_pred             CCCCCc
Confidence            999864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=98.41  E-value=3.2e-06  Score=67.87  Aligned_cols=30  Identities=23%  Similarity=0.155  Sum_probs=25.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        30 Ge~~~iiG~nGsGKSTLl~~l~Gl~~p~~G   59 (224)
T 2pcj_A           30 GEFVSIIGASGSGKSTLLYILGLLDAPTEG   59 (224)
T ss_dssp             TCEEEEEECTTSCHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCce
Confidence            358999999999999999999998665443

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=98.38  E-value=2.8e-06  Score=74.80  Aligned_cols=123  Identities=16%  Similarity=0.126  Sum_probs=68.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh-------CCCCccccCCCCccc-----------eeeeeee--------------eE
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL-------GRRAFKSRASSSGVT-----------STCEMQR--------------TV   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~-------g~~~~~~~~~~~~~t-----------~~~~~~~--------------~~   64 (253)
                      .+...|+++|++|+||||++..|+       |..+.....++....           .......              +.
T Consensus        98 ~~~~vI~ivG~~GvGKTT~a~~LA~~l~~~~G~kVllvd~D~~r~~a~~ql~~~~~~~~l~v~~~~~~~dp~~i~~~~l~  177 (433)
T 2xxa_A           98 QPPAVVLMAGLQGAGKTTSVGKLGKFLREKHKKKVLVVSADVYRPAAIKQLETLAEQVGVDFFPSDVGQKPVDIVNAALK  177 (433)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHHHHHTSCCCEEEEECCCSSTTHHHHHHHHHHHHTCEECCCCSSSCHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHhcCCeEEEEecCCCCccHHHHHHhhcccCCeeEEeCCCCCCHHHHHHHHHH
Confidence            345789999999999999999987       655432222211100           0000000              00


Q ss_pred             e--eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEE
Q 025391           65 L--KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        65 ~--~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                      .  ..+.+++||||||.....   ..+...+.....  ...|+.+++|++++...+.     +..+.. |.... ....+
T Consensus       178 ~~~~~~~D~VIIDTpG~l~~~---~~l~~~L~~~~~--~~~p~~vllVvda~~g~~~-----~~~~~~-f~~~l-~i~gv  245 (433)
T 2xxa_A          178 EAKLKFYDVLLVDTAGRLHVD---EAMMDEIKQVHA--SINPVETLFVVDAMTGQDA-----ANTAKA-FNEAL-PLTGV  245 (433)
T ss_dssp             HHHHTTCSEEEEECCCCCTTC---HHHHHHHHHHHH--HSCCSEEEEEEETTBCTTH-----HHHHHH-HHHHS-CCCCE
T ss_pred             HHHhCCCCEEEEECCCccccc---HHHHHHHHHHHH--hhcCcceeEEeecchhHHH-----HHHHHH-HhccC-CCeEE
Confidence            0  135689999999976432   223333333321  2367899999998744332     222222 22211 22567


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      |+||.|...
T Consensus       246 VlnK~D~~~  254 (433)
T 2xxa_A          246 VLTKVDGDA  254 (433)
T ss_dssp             EEECTTSSS
T ss_pred             EEecCCCCc
Confidence            999999864

>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=98.37  E-value=3.4e-06  Score=67.90  Aligned_cols=30  Identities=23%  Similarity=0.319  Sum_probs=25.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        34 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   63 (229)
T 2pze_A           34 GQLLAVAGSTGAGKTSLLMMIMGELEPSEG   63 (229)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCcCCcc
Confidence            358999999999999999999998654433

>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=98.37  E-value=3.2e-07  Score=76.85  Aligned_cols=122  Identities=18%  Similarity=0.199  Sum_probs=64.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-------CCCCcccee-----------eeeee----------eEeeCCe
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-------ASSSGVTST-----------CEMQR----------TVLKDGQ   69 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-------~~~~~~t~~-----------~~~~~----------~~~~~~~   69 (253)
                      +...|+|+|++|+||||++..|++......+       ..+...+..           .....          +....+.
T Consensus       104 ~g~vi~lvG~~GsGKTTl~~~LA~~l~~~~G~~V~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~~~~~l~~al~~~~~~  183 (296)
T 2px0_A          104 HSKYIVLFGSTGAGKTTTLAKLAAISMLEKHKKIAFITTDTYRIAAVEQLKTYAELLQAPLEVCYTKEEFQQAKELFSEY  183 (296)
T ss_dssp             CSSEEEEEESTTSSHHHHHHHHHHHHHHTTCCCEEEEECCCSSTTHHHHHHHHHTTTTCCCCBCSSHHHHHHHHHHGGGS
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHHHHhcCCEEEEEecCcccchHHHHHHHHHHhcCCCeEecCCHHHHHHHHHHhcCC
Confidence            4568999999999999999998754321111       111000000           00000          0011345


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCC
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDE  149 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~  149 (253)
                      ++.++||||.....   .....++...+.  ...++.+++|++++...  .   .+..+.+.|.  .....-+|+||.|.
T Consensus       184 dlvIiDT~G~~~~~---~~~~~el~~~l~--~~~~~~~~lVl~at~~~--~---~~~~~~~~~~--~l~~~giVltk~D~  251 (296)
T 2px0_A          184 DHVFVDTAGRNFKD---PQYIDELKETIP--FESSIQSFLVLSATAKY--E---DMKHIVKRFS--SVPVNQYIFTKIDE  251 (296)
T ss_dssp             SEEEEECCCCCTTS---HHHHHHHHHHSC--CCTTEEEEEEEETTBCH--H---HHHHHTTTTS--SSCCCEEEEECTTT
T ss_pred             CEEEEeCCCCChhh---HHHHHHHHHHHh--hcCCCeEEEEEECCCCH--H---HHHHHHHHHh--cCCCCEEEEeCCCc
Confidence            89999999987432   222222322221  12467888888876321  1   2222233333  12345677899998


Q ss_pred             CC
Q 025391          150 LE  151 (253)
Q Consensus       150 ~~  151 (253)
                      ..
T Consensus       252 ~~  253 (296)
T 2px0_A          252 TT  253 (296)
T ss_dssp             CS
T ss_pred             cc
Confidence            74

>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=98.35  E-value=2.5e-07  Score=77.85  Aligned_cols=125  Identities=17%  Similarity=0.211  Sum_probs=66.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCCccc-----------eeeeeee--------------e--
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR------ASSSGVT-----------STCEMQR--------------T--   63 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------~~~~~~t-----------~~~~~~~--------------~--   63 (253)
                      .+...|+|+|++|+||||++..|++......+      .+.....           .......              +  
T Consensus       102 ~~~~vi~ivG~~GsGKTTl~~~LA~~l~~~g~kV~lv~~D~~r~~a~eqL~~~~~~~gl~~~~~~s~~~~~~v~~~al~~  181 (306)
T 1vma_A          102 EPPFVIMVVGVNGTGKTTSCGKLAKMFVDEGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFDAVAH  181 (306)
T ss_dssp             SSCEEEEEECCTTSSHHHHHHHHHHHHHHTTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHHHHHH
T ss_pred             CCCeEEEEEcCCCChHHHHHHHHHHHHHhcCCEEEEEccccccHHHHHHHHHHHHHcCCcEEecCCccCHHHHHHHHHHH
Confidence            34568999999999999999998764321111      0000000           0000000              0  


Q ss_pred             EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh----hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCe
Q 025391           64 VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM----AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY  139 (253)
Q Consensus        64 ~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~  139 (253)
                      ....+.++.++||||..   ........++......    ....||.+++|++++   +.  ...++....+ ... ...
T Consensus       182 a~~~~~dvvIiDtpg~~---~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~---t~--~~~l~~a~~~-~~~-~~i  251 (306)
T 1vma_A          182 ALARNKDVVIIDTAGRL---HTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDAT---TG--QNGLVQAKIF-KEA-VNV  251 (306)
T ss_dssp             HHHTTCSEEEEEECCCC---SCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGG---GH--HHHHHHHHHH-HHH-SCC
T ss_pred             HHhcCCCEEEEECCCch---hhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECC---CC--HHHHHHHHHH-Hhc-CCC
Confidence            01134579999999963   2233344444433322    224589999999886   22  2223333222 111 234


Q ss_pred             EEEEEeCCCCCC
Q 025391          140 MIVVFTGGDELE  151 (253)
Q Consensus       140 ~ivv~~k~D~~~  151 (253)
                      .-+|+||.|...
T Consensus       252 ~gvVlTk~D~~~  263 (306)
T 1vma_A          252 TGIILTKLDGTA  263 (306)
T ss_dssp             CEEEEECGGGCS
T ss_pred             CEEEEeCCCCcc
Confidence            678889999864

>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=98.35  E-value=6.5e-06  Score=67.12  Aligned_cols=28  Identities=32%  Similarity=0.361  Sum_probs=24.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK   46 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~   46 (253)
                      .-.++|+|+||+|||||++.|+|...+.
T Consensus        26 Ge~~~liG~NGsGKSTLlk~l~Gl~~p~   53 (249)
T 2qi9_C           26 GEILHLVGPNGAGKSTLLARMAGMTSGK   53 (249)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCC
Confidence            3589999999999999999999986554

>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=98.34  E-value=1.4e-07  Score=79.27  Aligned_cols=59  Identities=29%  Similarity=0.379  Sum_probs=33.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC------ccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS------GVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~------~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      ...++|+|+||+|||||+|.|+|...+..+....      .+|.....  .. ..  ...++||||+..+
T Consensus       173 G~~~~lvG~sG~GKSTLln~L~g~~~~~~G~I~~~~~~G~~tt~~~~~--~~-~~--~g~v~dtpg~~~~  237 (307)
T 1t9h_A          173 DKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVEL--IH-TS--GGLVADTPGFSSL  237 (307)
T ss_dssp             TSEEEEEESHHHHHHHHHHHHCC-------------------CCCCCE--EE-ET--TEEEESSCSCSSC
T ss_pred             CCEEEEECCCCCCHHHHHHHhcccccccccceeeecCCCcccccHHHH--hh-cC--CEEEecCCCcccc
Confidence            4689999999999999999999987655543321      22221111  11 11  3478999998753

>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=98.33  E-value=1.1e-05  Score=69.24  Aligned_cols=31  Identities=16%  Similarity=0.119  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||||||||++.|+|...+..+
T Consensus        53 ~Gei~~IiGpnGaGKSTLlr~i~GL~~p~~G   83 (366)
T 3tui_C           53 AGQIYGVIGASGAGKSTLIRCVNLLERPTEG   83 (366)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCCEEEEEcCCCchHHHHHHHHhcCCCCCce
Confidence            3468999999999999999999998765444

>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=98.30  E-value=4.4e-06  Score=71.57  Aligned_cols=30  Identities=20%  Similarity=0.321  Sum_probs=25.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        30 Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G   59 (359)
T 3fvq_A           30 GEILFIIGASGCGKTTLLRCLAGFEQPDSG   59 (359)
T ss_dssp             TCEEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCCCCCc
Confidence            358999999999999999999998765544

>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=98.30  E-value=1.1e-06  Score=77.02  Aligned_cols=122  Identities=20%  Similarity=0.198  Sum_probs=65.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc------cCCCCcc-c----------eeeeeee--------------eEe-
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS------RASSSGV-T----------STCEMQR--------------TVL-   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~------~~~~~~~-t----------~~~~~~~--------------~~~-   65 (253)
                      +...|+++|++|+||||++..|++......      ..+.... .          .......              +.. 
T Consensus        97 ~~~vi~i~G~~GsGKTT~~~~LA~~l~~~g~~Vllvd~D~~r~aa~~qL~~~~~~~gv~v~~~~~~~~p~~i~~~~l~~~  176 (425)
T 2ffh_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (425)
T ss_dssp             SSEEEEEECCTTSSHHHHHHHHHHHHHTTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEeeccccCchhHHHHHHhcccCCccEEecCCCCCHHHHHHHHHHHH
Confidence            456899999999999999998875432111      1111000 0          0000000              000 


Q ss_pred             -eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           66 -KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        66 -~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                       ..+.++++|||||....   ......++.......  .||.+++|+|++...     ..+..+.. |... .....||+
T Consensus       177 ~~~~~DvVIIDTaG~l~~---d~~l~~el~~i~~~~--~pd~vlLVvDa~tgq-----~av~~a~~-f~~~-l~i~GVIl  244 (425)
T 2ffh_A          177 RLEARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTGQ-----EALSVARA-FDEK-VGVTGLVL  244 (425)
T ss_dssp             HHTTCSEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGTT-----HHHHHHHH-HHHH-TCCCEEEE
T ss_pred             HHCCCCEEEEcCCCcccc---cHHHHHHHHHhhhcc--CCceEEEEEeccchH-----HHHHHHHH-HHhc-CCceEEEE
Confidence             14557999999997643   233334443333322  578889999986331     12222222 2211 12477899


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||.|...
T Consensus       245 TKlD~~~  251 (425)
T 2ffh_A          245 TKLDGDA  251 (425)
T ss_dssp             ESGGGCS
T ss_pred             eCcCCcc
Confidence            9998753

>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=98.29  E-value=1.8e-06  Score=74.00  Aligned_cols=71  Identities=13%  Similarity=0.118  Sum_probs=47.6

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC----------CCCCHHHHHHHHHHHHHhccc--
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR----------SRFSQEEEAALHSLQTLFGKK--  135 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~----------~~~~~~~~~~l~~l~~~~g~~--  135 (253)
                      ...+.+|||+|...           ++.....++++++++|+|+|++          +.-+.  ..+..++.......  
T Consensus       182 ~v~l~iwDtaGQe~-----------~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~--~~~~~~~~~i~~~~~~  248 (354)
T 2xtz_A          182 GEVYRLFDVGGQRN-----------ERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRM--METKELFDWVLKQPCF  248 (354)
T ss_dssp             --EEEEEEECCSTT-----------GGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHH--HHHHHHHHHHHTCGGG
T ss_pred             ceeeEEEECCCchh-----------hhHHHHHHhCCCCEEEEEEECcccccccccccchhHH--HHHHHHHHHHHhcccc
Confidence            45789999999854           3355568889999999999987          22222  23444454443321  


Q ss_pred             ccCeEEEEEeCCCCCC
Q 025391          136 IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 ~~~~~ivv~~k~D~~~  151 (253)
                      ...|++||+||+|...
T Consensus       249 ~~~piiLvgNK~DL~~  264 (354)
T 2xtz_A          249 EKTSFMLFLNKFDIFE  264 (354)
T ss_dssp             SSCEEEEEEECHHHHH
T ss_pred             CCCeEEEEEECcchhh
Confidence            2468999999999863

>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=98.29  E-value=5.8e-06  Score=71.34  Aligned_cols=30  Identities=37%  Similarity=0.422  Sum_probs=25.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        29 Ge~~~llGpsGsGKSTLLr~iaGl~~p~~G   58 (381)
T 3rlf_A           29 GEFVVFVGPSGCGKSTLLRMIAGLETITSG   58 (381)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEEcCCCchHHHHHHHHHcCCCCCCe
Confidence            358999999999999999999998765444

>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=98.29  E-value=1.3e-06  Score=73.48  Aligned_cols=31  Identities=29%  Similarity=0.335  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        79 ~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G  109 (306)
T 3nh6_A           79 PGQTLALVGPSGAGKSTILRLLFRFYDISSG  109 (306)
T ss_dssp             TTCEEEEESSSCHHHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCchHHHHHHHHHcCCCCCCc
Confidence            4468999999999999999999998654443

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=98.27  E-value=7.2e-06  Score=70.18  Aligned_cols=30  Identities=27%  Similarity=0.303  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        41 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   70 (355)
T 1z47_A           41 GEMVGLLGPSGSGKTTILRLIAGLERPTKG   70 (355)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            358999999999999999999998765444

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=98.26  E-value=1.7e-05  Score=68.11  Aligned_cols=30  Identities=30%  Similarity=0.323  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (362)
T 2it1_A           29 GEFMALLGPSGSGKSTLLYTIAGIYKPTSG   58 (362)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCchHHHHHHHHhcCCCCCce
Confidence            358999999999999999999998765443

>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=98.26  E-value=1.5e-05  Score=68.69  Aligned_cols=30  Identities=27%  Similarity=0.351  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (372)
T 1g29_1           29 GEFMILLGPSGCGKTTTLRMIAGLEEPSRG   58 (372)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCcHHHHHHHHHHcCCCCCcc
Confidence            357999999999999999999998765444

>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=98.24  E-value=4.8e-06  Score=71.78  Aligned_cols=30  Identities=30%  Similarity=0.361  Sum_probs=25.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        37 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   66 (372)
T 1v43_A           37 GEFLVLLGPSGCGKTTTLRMIAGLEEPTEG   66 (372)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCce
Confidence            358999999999999999999998765444

>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=98.24  E-value=1.2e-05  Score=70.73  Aligned_cols=108  Identities=18%  Similarity=0.183  Sum_probs=63.3

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHh-------C----------CCCccccCCCCccceeeeeeeeE----eeC--CeEEE
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSIL-------G----------RRAFKSRASSSGVTSTCEMQRTV----LKD--GQVVN   72 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~-------g----------~~~~~~~~~~~~~t~~~~~~~~~----~~~--~~~~~   72 (253)
                      ..+...|+|+|+.++|||+|+|.|+       |          ...|..+....+.|.-...+..+    ...  +..+.
T Consensus        64 ~~~v~vvsv~G~~~~gks~l~N~ll~~~~~~~~~~w~~~~~~~~~gF~~~~~~~~~TkGIWmw~~p~~~~~~~g~~~~vl  143 (457)
T 4ido_A           64 DKEVVAVSVAGAFRKGKSFLMDFMLRYMYNQESVDWVGDYNEPLTGFSWRGGSERETTGIQIWSEIFLINKPDGKKVAVL  143 (457)
T ss_dssp             TSBEEEEEEEEBTTSSHHHHHHHHHHHHHCTTCTTTTCCTTCCCCSSCCCCSSSCCCCSEEEESSCEEEECTTSCEEEEE
T ss_pred             CCceEEEEEECCCCCchhHHHHHHHHHhhcccccccccccccCCCCceeCCCCCCcCceEEEecCcccccCCCCCeeEEE
Confidence            4466789999999999999999765       2          23344433334445444444322    112  34699


Q ss_pred             EEeCCCCCCCCCCcHHHHHHHHHH-HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHH
Q 025391           73 VIDTPGLFDFSAGSEFVGKEIVKC-IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQT  130 (253)
Q Consensus        73 liDtpG~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~  130 (253)
                      ++||.|+++...+.+. ...+... +-.+    ..+||=..  ..++..+.+.|..+.+
T Consensus       144 llDTEG~~d~~~~~~~-d~~ifaLa~LLS----S~~IyN~~--~~i~~~~L~~L~~~te  195 (457)
T 4ido_A          144 LMDTQGTFDSQSTLRD-SATVFALSTMIS----SIQVYNLS--QNVQEDDLQHLQLFTE  195 (457)
T ss_dssp             EEEECCBTCTTCCHHH-HHHHHHHHHHHC----SEEEEEEE--SSCCHHHHHHHHHHHH
T ss_pred             EEeccCCCCcccCccc-cHHHHHHHHHHh----hheeeccc--ccCCHHHHHHHHHHHH
Confidence            9999999887664322 2222222 2222    35555443  3677777666665554

>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=98.22  E-value=9.8e-06  Score=67.54  Aligned_cols=31  Identities=23%  Similarity=0.298  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        63 ~Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G   93 (290)
T 2bbs_A           63 RGQLLAVAGSTGAGKTSLLMMIMGELEPSEG   93 (290)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHTTSSCEEEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            3458999999999999999999998654443

>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=98.22  E-value=1.7e-05  Score=67.74  Aligned_cols=30  Identities=30%  Similarity=0.306  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   55 (348)
T 3d31_A           26 GEYFVILGPTGAGKTLFLELIAGFHVPDSG   55 (348)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCccHHHHHHHHHcCCCCCCc
Confidence            358999999999999999999998765444

>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=98.21  E-value=9.6e-06  Score=69.46  Aligned_cols=30  Identities=20%  Similarity=0.255  Sum_probs=25.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        31 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   60 (353)
T 1oxx_K           31 GERFGILGPSGAGKTTFMRIIAGLDVPSTG   60 (353)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCCce
Confidence            358999999999999999999998765444

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=98.18  E-value=3e-06  Score=76.59  Aligned_cols=32  Identities=16%  Similarity=0.227  Sum_probs=27.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      +.-.++|+|+||||||||++.|+|...+..+.
T Consensus        24 ~Gei~gLiGpNGaGKSTLlkiL~Gl~~p~~G~   55 (538)
T 3ozx_A           24 NNTILGVLGKNGVGKTTVLKILAGEIIPNFGD   55 (538)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSCCCTTC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCCCCCc
Confidence            44689999999999999999999987665543

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=98.18  E-value=5.1e-06  Score=70.23  Aligned_cols=125  Identities=21%  Similarity=0.204  Sum_probs=67.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccc------cCCCCcc-------ce-----eeeeeee-E-------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKS------RASSSGV-------TS-----TCEMQRT-V-------------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~------~~~~~~~-------t~-----~~~~~~~-~-------------   64 (253)
                      .+...|+++|++|+||||++..|++......      +.+....       ..     ......+ .             
T Consensus       103 ~~~~vI~ivG~~G~GKTT~~~~LA~~l~~~g~kVllid~D~~r~~a~~ql~~~~~~~~~~~l~vip~~~~~~~p~~~~~~  182 (320)
T 1zu4_A          103 NRLNIFMLVGVNGTGKTTSLAKMANYYAELGYKVLIAAADTFRAGATQQLEEWIKTRLNNKVDLVKANKLNADPASVVFD  182 (320)
T ss_dssp             TSCEEEEEESSTTSSHHHHHHHHHHHHHHTTCCEEEEECCCSCHHHHHHHHHHHTTTSCTTEEEECCSSTTCCHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHHHHHCCCeEEEEeCCCcchhHHHHHHHHHhccccCCceEEeCCCCCCCHHHHHHH
Confidence            4457899999999999999998865432111      1111000       00     0001111 0             


Q ss_pred             -----eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH---HHHhh-cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc
Q 025391           65 -----LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK---CIGMA-KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK  135 (253)
Q Consensus        65 -----~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~---~~~~~-~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~  135 (253)
                           ...+.++++|||||....   ......++..   .+... ...+|.+++|++++..     ...+..+.. |...
T Consensus       183 ~l~~~~~~~yD~VIIDTpg~l~~---~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~-----~~~l~~~~~-~~~~  253 (320)
T 1zu4_A          183 AIKKAKEQNYDLLLIDTAGRLQN---KTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG-----QNGVIQAEE-FSKV  253 (320)
T ss_dssp             HHHHHHHTTCSEEEEECCCCGGG---HHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT-----HHHHHHHHH-HTTT
T ss_pred             HHHHHHhcCCCEEEEcCCCcccc---cHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc-----HHHHHHHHH-Hhhc
Confidence                 013457999999998531   1222233332   22212 2357899999988732     223344443 3322


Q ss_pred             ccCeEEEEEeCCCCCC
Q 025391          136 IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 ~~~~~ivv~~k~D~~~  151 (253)
                       ....-+|+||.|...
T Consensus       254 -~~i~GvVltk~d~~~  268 (320)
T 1zu4_A          254 -ADVSGIILTKMDSTS  268 (320)
T ss_dssp             -SCCCEEEEECGGGCS
T ss_pred             -CCCcEEEEeCCCCCC
Confidence             234568899999754

>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=98.18  E-value=1.5e-05  Score=68.38  Aligned_cols=30  Identities=30%  Similarity=0.284  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        29 Ge~~~llGpnGsGKSTLLr~iaGl~~p~~G   58 (359)
T 2yyz_A           29 GEFVALLGPSGCGKTTTLLMLAGIYKPTSG   58 (359)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEEcCCCchHHHHHHHHHCCCCCCcc
Confidence            358999999999999999999998765443

>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=98.16  E-value=2.8e-06  Score=71.35  Aligned_cols=58  Identities=26%  Similarity=0.322  Sum_probs=36.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ...++|+|+||+|||||+|.|+ ...+..+....    +  .|....  ... . .....++||||+..
T Consensus       165 G~i~~l~G~sG~GKSTLln~l~-~~~~~~G~i~~~~~~G~~~t~~~~--~~~-~-~~~g~v~d~pg~~~  228 (302)
T 2yv5_A          165 GFICILAGPSGVGKSSILSRLT-GEELRTQEVSEKTERGRHTTTGVR--LIP-F-GKGSFVGDTPGFSK  228 (302)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHH-SCCCCCSCC---------CCCCEE--EEE-E-TTTEEEESSCCCSS
T ss_pred             CcEEEEECCCCCCHHHHHHHHH-HhhCcccccccccCCCCCceeeEE--EEE-c-CCCcEEEECcCcCc
Confidence            3689999999999999999999 66555443322    1  121111  111 1 12347899999864

>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=98.16  E-value=1.2e-06  Score=74.98  Aligned_cols=29  Identities=31%  Similarity=0.549  Sum_probs=25.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCC-cccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRA-FKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~   48 (253)
                      ..++|+|+||+|||||+|.|+|... +..+
T Consensus       216 ~~~~lvG~sG~GKSTLln~L~g~~~~~~~G  245 (358)
T 2rcn_A          216 RISIFAGQSGVGKSSLLNALLGLQNEILTN  245 (358)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHCCSSCCCCC
T ss_pred             CEEEEECCCCccHHHHHHHHhccccccccC
Confidence            5899999999999999999999876 5444

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.14  E-value=4.4e-06  Score=75.64  Aligned_cols=33  Identities=24%  Similarity=0.263  Sum_probs=27.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+.
T Consensus        45 ~~Ge~~~LvG~NGaGKSTLlk~l~Gl~~p~~G~   77 (538)
T 1yqt_A           45 KEGMVVGIVGPNGTGKSTAVKILAGQLIPNLCG   77 (538)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTT
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCCCCCc
Confidence            455799999999999999999999987655443

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.14  E-value=9.3e-07  Score=70.57  Aligned_cols=25  Identities=20%  Similarity=0.379  Sum_probs=22.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|+|+|.+|+|||||++.|++.
T Consensus        37 ~~~~i~ivG~~gvGKTtl~~~l~~~   61 (226)
T 2hf9_A           37 GVVAFDFMGAIGSGKTLLIEKLIDN   61 (226)
T ss_dssp             TCEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            4589999999999999999999865

>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=98.12  E-value=9e-06  Score=74.52  Aligned_cols=31  Identities=19%  Similarity=0.250  Sum_probs=26.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      .-.++|+|+||+|||||++.|+|...+..+.
T Consensus       382 Gei~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  412 (607)
T 3bk7_A          382 GEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  412 (607)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSBSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCceE
Confidence            4589999999999999999999987655543

>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=98.11  E-value=1.1e-05  Score=73.68  Aligned_cols=31  Identities=39%  Similarity=0.474  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..|
T Consensus       368 ~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  398 (582)
T 3b5x_A          368 QGKTVALVGRSGSGKSTIANLFTRFYDVDSG  398 (582)
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            4468999999999999999999998665444

>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=98.10  E-value=2.4e-06  Score=71.70  Aligned_cols=59  Identities=27%  Similarity=0.320  Sum_probs=35.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCC----c--cceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSS----G--VTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~----~--~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ...++|+|+||+|||||+|.|+|...+..+....    +  .|.....  ..  ......++|+||+..
T Consensus       169 geiv~l~G~sG~GKSTll~~l~g~~~~~~G~i~~~~~~g~~~t~~~~~--~~--~~~~g~v~q~p~~~~  233 (301)
T 1u0l_A          169 GKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQL--LK--FDFGGYVVDTPGFAN  233 (301)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCE--EE--CTTSCEEESSCSSTT
T ss_pred             CCeEEEECCCCCcHHHHHHHhcccccccccceecccCCCCCceeeeEE--EE--cCCCCEEEECcCCCc
Confidence            3579999999999999999999987665553322    1  1211111  11  112347899999864

>1ls1_A Signal recognition particle protein; FFH, SRP54, SRP, GTPase, ultrahigh resolution, protein transport; 1.10A {Thermus aquaticus} SCOP: a.24.13.1 c.37.1.10 PDB: 1jpn_B* 1jpj_A* 1ry1_U* 2j45_A* 1o87_A* 2c04_A* 2j46_A* 1rj9_B* 2c03_A* 2j7p_A* 1okk_A* 2cnw_A* 1ng1_A* 2xkv_A 3ng1_A 1ffh_A 2ng1_A*

Probab=98.08  E-value=4.4e-06  Score=69.89  Aligned_cols=122  Identities=22%  Similarity=0.229  Sum_probs=66.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc------CCCCcc-ce----------eeeeee--------------eEe-
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR------ASSSGV-TS----------TCEMQR--------------TVL-   65 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~------~~~~~~-t~----------~~~~~~--------------~~~-   65 (253)
                      +...|+++|++|+||||++..|++......+      ...... ..          ......              +.. 
T Consensus        97 ~~~~i~i~g~~G~GKTT~~~~la~~~~~~~~~v~l~~~d~~~~~~~~ql~~~~~~~~l~~~~~~~~~~p~~l~~~~l~~~  176 (295)
T 1ls1_A           97 DRNLWFLVGLQGSGKTTTAAKLALYYKGKGRRPLLVAADTQRPAAREQLRLLGEKVGVPVLEVMDGESPESIRRRVEEKA  176 (295)
T ss_dssp             SSEEEEEECCTTTTHHHHHHHHHHHHHHTTCCEEEEECCSSCHHHHHHHHHHHHHHTCCEEECCTTCCHHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHHHHcCCeEEEecCCcccHhHHHHHHHhcccCCeEEEEcCCCCCHHHHHHHHHHHH
Confidence            4578999999999999999998764321111      110000 00          000000              000 


Q ss_pred             -eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEE
Q 025391           66 -KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVF  144 (253)
Q Consensus        66 -~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~  144 (253)
                       ..+.+++++||||....   ......++.......  .|+.+++|++++..  .   ..++.+.. |... ....-+|+
T Consensus       177 ~~~~~D~viiDtpp~~~~---d~~~~~~l~~~~~~~--~~~~~~lv~~~~~~--~---~~~~~~~~-~~~~-~~i~givl  244 (295)
T 1ls1_A          177 RLEARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTG--Q---EALSVARA-FDEK-VGVTGLVL  244 (295)
T ss_dssp             HHHTCCEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGT--H---HHHHHHHH-HHHH-TCCCEEEE
T ss_pred             HhCCCCEEEEeCCCCccc---cHHHHHHHHHHhhhc--CCCEEEEEEeCCCc--H---HHHHHHHH-Hhhc-CCCCEEEE
Confidence             13457999999987543   233334444444333  46788899987632  2   22233322 2211 12466889


Q ss_pred             eCCCCCC
Q 025391          145 TGGDELE  151 (253)
Q Consensus       145 ~k~D~~~  151 (253)
                      ||.|...
T Consensus       245 nk~d~~~  251 (295)
T 1ls1_A          245 TKLDGDA  251 (295)
T ss_dssp             ECGGGCS
T ss_pred             ECCCCCc
Confidence            9998764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.06  E-value=1.9e-05  Score=72.37  Aligned_cols=33  Identities=24%  Similarity=0.296  Sum_probs=28.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+.
T Consensus       101 ~~Gei~~LvGpNGaGKSTLLkiL~Gll~P~~G~  133 (608)
T 3j16_B          101 RPGQVLGLVGTNGIGKSTALKILAGKQKPNLGR  133 (608)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHHTSSCCCTTT
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhcCCCCCCce
Confidence            455789999999999999999999987766554

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=98.05  E-value=1.7e-05  Score=72.70  Aligned_cols=30  Identities=20%  Similarity=0.329  Sum_probs=25.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      -.++|+|+||+|||||++.|+|...+..+.
T Consensus       379 Eiv~iiG~NGsGKSTLlk~l~Gl~~p~~G~  408 (608)
T 3j16_B          379 EILVMMGENGTGKTTLIKLLAGALKPDEGQ  408 (608)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHTSSCCSBCC
T ss_pred             eEEEEECCCCCcHHHHHHHHhcCCCCCCCc
Confidence            358999999999999999999987766553

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=98.01  E-value=1.5e-05  Score=72.19  Aligned_cols=31  Identities=19%  Similarity=0.250  Sum_probs=26.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      .-.++|+|+||+|||||++.|+|...+..+.
T Consensus       312 Ge~~~i~G~NGsGKSTLlk~l~Gl~~p~~G~  342 (538)
T 1yqt_A          312 GEVIGIVGPNGIGKTTFVKMLAGVEEPTEGK  342 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSBCC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCeE
Confidence            4589999999999999999999987655543

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=97.97  E-value=1.1e-05  Score=73.77  Aligned_cols=31  Identities=35%  Similarity=0.309  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..|
T Consensus       366 ~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  396 (578)
T 4a82_A          366 KGETVAFVGMSGGGKSTLINLIPRFYDVTSG  396 (578)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSSCCSEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCCCCCCc
Confidence            4468999999999999999999998665443

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=97.96  E-value=1.1e-05  Score=72.85  Aligned_cols=30  Identities=17%  Similarity=0.327  Sum_probs=25.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus       294 Gei~~i~G~nGsGKSTLl~~l~Gl~~p~~G  323 (538)
T 3ozx_A          294 GEIIGILGPNGIGKTTFARILVGEITADEG  323 (538)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSBC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            357999999999999999999998765544

>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=97.94  E-value=7.1e-06  Score=66.61  Aligned_cols=31  Identities=16%  Similarity=0.150  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        27 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   57 (243)
T 1mv5_A           27 PNSIIAFAGPSGGGKSTIFSLLERFYQPTAG   57 (243)
T ss_dssp             TTEEEEEECCTTSSHHHHHHHHTTSSCCSBS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            4468999999999999999999998765443

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=97.93  E-value=5.4e-06  Score=67.23  Aligned_cols=29  Identities=34%  Similarity=0.299  Sum_probs=24.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      -.++|+|+||||||||++.|+|...+..+
T Consensus        25 e~~~liG~nGsGKSTLl~~l~Gl~~p~~G   53 (240)
T 2onk_A           25 DYCVLLGPTGAGKSVFLELIAGIVKPDRG   53 (240)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            47999999999999999999998755443

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=97.93  E-value=6e-06  Score=67.83  Aligned_cols=31  Identities=19%  Similarity=0.199  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||||||||++.|+|...+..+
T Consensus        31 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G   61 (262)
T 1b0u_A           31 AGDVISIIGSSGSGKSTFLRCINFLEKPSEG   61 (262)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            3358999999999999999999998765443

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.93  E-value=2e-05  Score=72.09  Aligned_cols=31  Identities=29%  Similarity=0.235  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus       368 ~Ge~~~ivG~sGsGKSTll~~l~g~~~~~~G  398 (587)
T 3qf4_A          368 PGSLVAVLGETGSGKSTLMNLIPRLIDPERG  398 (587)
T ss_dssp             TTCEEEEECSSSSSHHHHHHTTTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCccCCCc
Confidence            4468999999999999999999998665443

>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=97.92  E-value=6.7e-06  Score=67.71  Aligned_cols=31  Identities=23%  Similarity=0.289  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||||||||++.|+|...+..+
T Consensus        36 ~Ge~~~liG~nGsGKSTLl~~l~Gl~~p~~G   66 (266)
T 4g1u_C           36 SGEMVAIIGPNGAGKSTLLRLLTGYLSPSHG   66 (266)
T ss_dssp             TTCEEEEECCTTSCHHHHHHHHTSSSCCSSC
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCCCCCCc
Confidence            3468999999999999999999998765443

>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=97.92  E-value=5.6e-06  Score=65.95  Aligned_cols=30  Identities=20%  Similarity=0.100  Sum_probs=25.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        35 Ge~~~iiG~NGsGKSTLlk~l~Gl~~p~~G   64 (214)
T 1sgw_A           35 GNVVNFHGPNGIGKTTLLKTISTYLKPLKG   64 (214)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCe
Confidence            357999999999999999999998654443

>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=97.92  E-value=6.3e-06  Score=67.54  Aligned_cols=31  Identities=26%  Similarity=0.321  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        32 ~Ge~~~liG~nGsGKSTLlk~l~Gl~~p~~G   62 (257)
T 1g6h_A           32 KGDVTLIIGPNGSGKSTLINVITGFLKADEG   62 (257)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCc
Confidence            3358999999999999999999998765444

>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=97.91  E-value=5.8e-06  Score=66.92  Aligned_cols=31  Identities=26%  Similarity=0.296  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        30 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   60 (237)
T 2cbz_A           30 EGALVAVVGQVGCGKSSLLSALLAEMDKVEG   60 (237)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTCSEEEEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            3458999999999999999999998654433

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=97.91  E-value=1.3e-05  Score=73.40  Aligned_cols=31  Identities=29%  Similarity=0.369  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..|
T Consensus       380 ~G~~~~ivG~sGsGKSTll~~l~g~~~p~~G  410 (598)
T 3qf4_B          380 PGQKVALVGPTGSGKTTIVNLLMRFYDVDRG  410 (598)
T ss_dssp             TTCEEEEECCTTSSTTHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcCcCCCCe
Confidence            4569999999999999999999998665443

>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=97.90  E-value=6.7e-06  Score=68.01  Aligned_cols=30  Identities=23%  Similarity=0.220  Sum_probs=25.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        34 Ge~~~iiGpnGsGKSTLl~~l~Gl~~p~~G   63 (275)
T 3gfo_A           34 GEVTAILGGNGVGKSTLFQNFNGILKPSSG   63 (275)
T ss_dssp             TSEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHHcCCCCCCe
Confidence            358999999999999999999998655443

>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=97.90  E-value=4.7e-06  Score=64.42  Aligned_cols=23  Identities=26%  Similarity=0.527  Sum_probs=21.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +++|+|+||+|||||++.|+|..
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            78999999999999999999874

>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=97.90  E-value=5.1e-06  Score=66.42  Aligned_cols=27  Identities=19%  Similarity=0.289  Sum_probs=23.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +...++|+|+||||||||++.|+|...
T Consensus        15 ~G~ii~l~GpsGsGKSTLlk~L~g~~~   41 (219)
T 1s96_A           15 QGTLYIVSAPSGAGKSSLIQALLKTQP   41 (219)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHHSC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhccCC
Confidence            446899999999999999999998754

>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=97.89  E-value=2.4e-05  Score=71.54  Aligned_cols=31  Identities=35%  Similarity=0.479  Sum_probs=26.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      ++-.++|+|+||+|||||++.|+|...+..|
T Consensus       368 ~G~~~~ivG~sGsGKSTLl~~l~g~~~p~~G  398 (582)
T 3b60_A          368 AGKTVALVGRSGSGKSTIASLITRFYDIDEG  398 (582)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTTCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhhccCCCCC
Confidence            4468999999999999999999998655443

>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=97.88  E-value=7.8e-06  Score=66.56  Aligned_cols=30  Identities=27%  Similarity=0.309  Sum_probs=25.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        35 Ge~~~i~G~nGsGKSTLl~~l~Gl~~p~~G   64 (247)
T 2ff7_A           35 GEVIGIVGRSGSGKSTLTKLIQRFYIPENG   64 (247)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCc
Confidence            358999999999999999999998665443

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.88  E-value=1e-05  Score=80.52  Aligned_cols=31  Identities=26%  Similarity=0.202  Sum_probs=25.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|||++|+|||||++.|+|-..+..|
T Consensus      1104 ~Ge~vaIVG~SGsGKSTL~~lL~rl~~p~~G 1134 (1321)
T 4f4c_A         1104 PGQTLALVGPSGCGKSTVVALLERFYDTLGG 1134 (1321)
T ss_dssp             TTCEEEEECSTTSSTTSHHHHHTTSSCCSSS
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcCccCCCC
Confidence            4568999999999999999999997654433

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=97.87  E-value=8.3e-06  Score=67.63  Aligned_cols=30  Identities=23%  Similarity=0.224  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        47 Ge~~~liG~NGsGKSTLlk~l~Gl~~p~~G   76 (279)
T 2ihy_A           47 GDKWILYGLNGAGKTTLLNILNAYEPATSG   76 (279)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCCCe
Confidence            358999999999999999999998765444

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=97.87  E-value=8.7e-06  Score=67.02  Aligned_cols=30  Identities=27%  Similarity=0.320  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..+
T Consensus        33 Ge~~~liG~nGsGKSTLl~~i~Gl~~p~~G   62 (266)
T 2yz2_A           33 GECLLVAGNTGSGKSTLLQIVAGLIEPTSG   62 (266)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCCCc
Confidence            358999999999999999999998765444

>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=97.87  E-value=8.4e-06  Score=61.72  Aligned_cols=30  Identities=23%  Similarity=0.204  Sum_probs=25.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|++|||||||++.|+|.. +..+
T Consensus        32 ~Ge~v~L~G~nGaGKTTLlr~l~g~l-~~~G   61 (158)
T 1htw_A           32 KAIMVYLNGDLGAGKTTLTRGMLQGI-GHQG   61 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHT-TCCS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHhC-CCCC
Confidence            34689999999999999999999976 4444

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=97.87  E-value=9e-06  Score=67.11  Aligned_cols=31  Identities=23%  Similarity=0.274  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|+|+||+|||||++.|+|...+..+
T Consensus        44 ~Ge~~~i~G~nGsGKSTLlk~l~Gl~~p~~G   74 (271)
T 2ixe_A           44 PGKVTALVGPNGSGKSTVAALLQNLYQPTGG   74 (271)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            3458999999999999999999998765443

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=97.86  E-value=5.1e-06  Score=65.24  Aligned_cols=24  Identities=38%  Similarity=0.551  Sum_probs=21.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...++|+|+||||||||++.|+|.
T Consensus         4 g~~i~lvGpsGaGKSTLl~~L~~~   27 (198)
T 1lvg_A            4 PRPVVLSGPSGAGKSTLLKKLFQE   27 (198)
T ss_dssp             -CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhh
Confidence            357999999999999999999985

>3thx_A DNA mismatch repair protein MSH2; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 2o8c_A* 2o8d_A* 2o8f_A* 3thw_A* 2o8b_A* 3thy_A* 3thz_A* 2o8e_A*

Probab=97.84  E-value=0.0002  Score=68.53  Aligned_cols=116  Identities=10%  Similarity=0.004  Sum_probs=59.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHH--------hCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC-CCcHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSI--------LGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS-AGSEFV   89 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l--------~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~-~~~~~~   89 (253)
                      ...++|+|+||+|||||++.|        .|..++...            ..... -..-+.-+......... ++...-
T Consensus       662 g~i~~ItGpNGsGKSTlLr~ial~~~~aq~G~~vpa~~------------~~~~~-~d~i~~~ig~~d~l~~~lStf~~e  728 (934)
T 3thx_A          662 QMFHIITGPNMGGKSTYIRQTGVIVLMAQIGCFVPCES------------AEVSI-VDCILARVGAGDSQLKGVSTFMAE  728 (934)
T ss_dssp             BCEEEEECCTTSSHHHHHHHHHHHHHHHHHTCCBSEEE------------EEEEC-CSEEEEECC---------CHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHHHHHHhcCCcccccc------------ccchH-HHHHHHhcCchhhHHHhHhhhHHH
Confidence            467999999999999999999        554332211            00110 11111111111110001 111111


Q ss_pred             HHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCCCCC
Q 025391           90 GKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        90 ~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      ..++...+.. ...+ .++++++++..+++.+...+ ..+.+.+... ...+++++||...+
T Consensus       729 ~~~~a~il~~-a~~~-sLlLLDEp~~GlD~~~~~~i~~~il~~l~~~-~g~~vl~aTH~~el  787 (934)
T 3thx_A          729 MLETASILRS-ATKD-SLIIIDELGRGTSTYDGFGLAWAISEYIATK-IGAFCMFATHFHEL  787 (934)
T ss_dssp             HHHHHHHHHH-CCTT-CEEEEESCSCSSCHHHHHHHHHHHHHHHHHT-TCCEEEEEESCGGG
T ss_pred             HHHHHHHHHh-ccCC-cEEEEeCCCCCCCHHHHHHHHHHHHHHHHhc-CCCEEEEEcCcHHH
Confidence            2334444433 3344 78889999989998875443 3333333211 12588889997554

>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=97.84  E-value=3.4e-05  Score=65.46  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=23.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF   45 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~   45 (253)
                      ..++|+|+||+|||||++.|+|...+
T Consensus       172 ~~v~i~G~~GsGKTTll~~l~g~~~~  197 (330)
T 2pt7_A          172 KNVIVCGGTGSGKTTYIKSIMEFIPK  197 (330)
T ss_dssp             CCEEEEESTTSCHHHHHHHGGGGSCT
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCcC
Confidence            57999999999999999999997543

>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=97.83  E-value=7.7e-06  Score=64.57  Aligned_cols=26  Identities=35%  Similarity=0.357  Sum_probs=23.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +.-.++|+|+||||||||++.|+|..
T Consensus        19 ~Gei~~l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           19 VGRVVVLSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999864

>4f4c_A Multidrug resistance protein PGP-1; ABC transporter, ATPase, multi-drug transporter, exporter, A binding, hydrolase,protein transport; HET: NDG NAG BMA MAN 0SA; 3.40A {Caenorhabditis elegans}

Probab=97.79  E-value=1.9e-05  Score=78.65  Aligned_cols=31  Identities=32%  Similarity=0.352  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|||++|+|||||++.|+|...+..|
T Consensus       443 ~G~~vaivG~sGsGKSTll~ll~~~~~~~~G  473 (1321)
T 4f4c_A          443 AGQTVALVGSSGCGKSTIISLLLRYYDVLKG  473 (1321)
T ss_dssp             TTCEEEEEECSSSCHHHHHHHHTTSSCCSEE
T ss_pred             CCcEEEEEecCCCcHHHHHHHhccccccccC
Confidence            4468999999999999999999998655444

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=97.78  E-value=1.3e-05  Score=65.79  Aligned_cols=28  Identities=29%  Similarity=0.386  Sum_probs=24.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      -.++|+|+||+|||||++.|+|.. +..+
T Consensus        31 e~~~i~G~NGsGKSTLlk~l~Gl~-p~~G   58 (263)
T 2pjz_A           31 EKVIILGPNGSGKTTLLRAISGLL-PYSG   58 (263)
T ss_dssp             SEEEEECCTTSSHHHHHHHHTTSS-CCEE
T ss_pred             EEEEEECCCCCCHHHHHHHHhCCC-CCCc
Confidence            589999999999999999999987 5544

>4b4t_J 26S protease regulatory subunit 8 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.77  E-value=0.00019  Score=62.22  Aligned_cols=72  Identities=15%  Similarity=0.220  Sum_probs=44.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ++.-|+|.||+|+|||+|+++|++...                        ..+..++.+.+.+...+.  ....++..+
T Consensus       181 ~prGvLL~GPPGTGKTllAkAiA~e~~------------------------~~f~~v~~s~l~sk~vGe--se~~vr~lF  234 (405)
T 4b4t_J          181 QPKGVILYGPPGTGKTLLARAVAHHTD------------------------CKFIRVSGAELVQKYIGE--GSRMVRELF  234 (405)
T ss_dssp             CCCCEEEESCSSSSHHHHHHHHHHHHT------------------------CEEEEEEGGGGSCSSTTH--HHHHHHHHH
T ss_pred             CCCceEEeCCCCCCHHHHHHHHHHhhC------------------------CCceEEEhHHhhccccch--HHHHHHHHH
Confidence            446799999999999999999987521                        112234444444332222  124444555


Q ss_pred             HhhcCCccEEEEEEeCCC
Q 025391           98 GMAKDGIHAVLVVFSVRS  115 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~  115 (253)
                      ..+.....++||+++++.
T Consensus       235 ~~Ar~~aP~IIFiDEiDa  252 (405)
T 4b4t_J          235 VMAREHAPSIIFMDEIDS  252 (405)
T ss_dssp             HHHHHTCSEEEEEESSSC
T ss_pred             HHHHHhCCceEeeecchh
Confidence            444344458999988763

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=97.77  E-value=1.2e-05  Score=63.05  Aligned_cols=25  Identities=12%  Similarity=0.286  Sum_probs=22.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +..|+|+|+||||||||++.|+|..
T Consensus         7 g~ii~l~Gp~GsGKSTl~~~L~~~~   31 (205)
T 3tr0_A            7 ANLFIISAPSGAGKTSLVRALVKAL   31 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHHS
T ss_pred             CcEEEEECcCCCCHHHHHHHHHhhC
Confidence            3589999999999999999999863

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.77  E-value=0.00021  Score=62.76  Aligned_cols=72  Identities=18%  Similarity=0.259  Sum_probs=45.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++.-|+|.||+|+|||+|+++|++...                        ..+..++.+.+.+...+..  ...++..
T Consensus       213 ~~prGvLL~GPPGtGKTllAkAiA~e~~------------------------~~~~~v~~s~l~sk~~Ges--e~~ir~~  266 (437)
T 4b4t_L          213 KPPKGVLLYGPPGTGKTLLAKAVAATIG------------------------ANFIFSPASGIVDKYIGES--ARIIREM  266 (437)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHHHT------------------------CEEEEEEGGGTCCSSSSHH--HHHHHHH
T ss_pred             CCCCeEEEECCCCCcHHHHHHHHHHHhC------------------------CCEEEEehhhhccccchHH--HHHHHHH
Confidence            3457899999999999999999986521                        1233455555554333221  2334444


Q ss_pred             HHhhcCCccEEEEEEeCC
Q 025391           97 IGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~  114 (253)
                      +..+.....++||+.+++
T Consensus       267 F~~A~~~~P~IifiDEiD  284 (437)
T 4b4t_L          267 FAYAKEHEPCIIFMDEVD  284 (437)
T ss_dssp             HHHHHHSCSEEEEEECCC
T ss_pred             HHHHHhcCCceeeeeccc
Confidence            444433445899988776

>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=97.76  E-value=1.4e-05  Score=65.16  Aligned_cols=24  Identities=33%  Similarity=0.565  Sum_probs=22.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-.++|+|+||+|||||++.|+|.
T Consensus        29 Ge~~~l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           29 GEVHALMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTC
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCC
Confidence            358999999999999999999996

>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=97.76  E-value=1.6e-05  Score=65.46  Aligned_cols=25  Identities=28%  Similarity=0.534  Sum_probs=22.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-.++|+|+||+|||||++.|+|.
T Consensus        45 ~Ge~~~l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           45 PGEVHAIMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             TTCEEEEECCTTSSHHHHHHHHHTC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3358999999999999999999997

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.75  E-value=4.5e-05  Score=75.77  Aligned_cols=31  Identities=32%  Similarity=0.295  Sum_probs=26.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+++|||+||+|||||++.|+|...+..|
T Consensus       415 ~G~~~~ivG~sGsGKSTl~~ll~g~~~~~~G  445 (1284)
T 3g5u_A          415 SGQTVALVGNSGCGKSTTVQLMQRLYDPLDG  445 (1284)
T ss_dssp             TTCEEEEECCSSSSHHHHHHHTTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCCCCCCCe
Confidence            4468999999999999999999998654443

>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=97.75  E-value=2.7e-05  Score=66.71  Aligned_cols=26  Identities=35%  Similarity=0.445  Sum_probs=22.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      .-.|+|+|+||+|||||+++|+|...
T Consensus       123 ~g~i~I~GptGSGKTTlL~~l~g~~~  148 (356)
T 3jvv_A          123 RGLVLVTGPTGSGKSTTLAAMLDYLN  148 (356)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhccc
Confidence            35899999999999999999988643

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=97.75  E-value=7.3e-05  Score=55.89  Aligned_cols=26  Identities=19%  Similarity=0.261  Sum_probs=22.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...++|+|++|+|||||++.|++..
T Consensus        35 ~g~~~~l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           35 HGQFIYVWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             CCSEEEEESSSTTTTCHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            34689999999999999999998763

>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=97.75  E-value=1.9e-05  Score=61.12  Aligned_cols=25  Identities=28%  Similarity=0.550  Sum_probs=22.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|+||||||||++.|++.
T Consensus         8 ~g~~i~l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A            8 GGNILLLSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             TTEEEEEEECTTSCHHHHHHHHHTC
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHhc
Confidence            3468999999999999999999986

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=97.74  E-value=1.6e-05  Score=65.13  Aligned_cols=27  Identities=33%  Similarity=0.425  Sum_probs=23.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-.++|+|+||+|||||++.|+|...
T Consensus        45 ~Ge~~~i~G~nGsGKSTLl~~l~Gl~~   71 (260)
T 2ghi_A           45 SGTTCALVGHTGSGKSTIAKLLYRFYD   71 (260)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhccCC
Confidence            346899999999999999999999854

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=97.73  E-value=1.4e-05  Score=61.62  Aligned_cols=25  Identities=28%  Similarity=0.619  Sum_probs=22.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...++|+|++|||||||++.|++..
T Consensus         5 g~~i~i~GpsGsGKSTL~~~L~~~~   29 (180)
T 1kgd_A            5 RKTLVLLGAHGVGRRHIKNTLITKH   29 (180)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhC
Confidence            3589999999999999999998854

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=97.73  E-value=6.3e-06  Score=65.34  Aligned_cols=29  Identities=24%  Similarity=0.307  Sum_probs=25.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      -.++|+|+||+|||||++.|+|. .+..+.
T Consensus        23 e~~~liG~nGsGKSTLl~~l~Gl-~p~~G~   51 (208)
T 3b85_A           23 TIVFGLGPAGSGKTYLAMAKAVQ-ALQSKQ   51 (208)
T ss_dssp             SEEEEECCTTSSTTHHHHHHHHH-HHHTTS
T ss_pred             CEEEEECCCCCCHHHHHHHHhcC-CCcCCe
Confidence            57999999999999999999998 655543

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=97.73  E-value=1.2e-05  Score=64.21  Aligned_cols=26  Identities=23%  Similarity=0.333  Sum_probs=22.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...++|+|+||||||||++.|+|..
T Consensus        22 ~G~~~~lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           22 NIYPLVICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             CCCCEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999864

>4b4t_I 26S protease regulatory subunit 4 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.71  E-value=0.00019  Score=62.63  Aligned_cols=25  Identities=24%  Similarity=0.496  Sum_probs=22.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +..-|+|.|++|+|||+|+++|++.
T Consensus       215 ~prGvLLyGPPGTGKTlLAkAiA~e  239 (437)
T 4b4t_I          215 PPKGVILYGAPGTGKTLLAKAVANQ  239 (437)
T ss_dssp             CCSEEEEESSTTTTHHHHHHHHHHH
T ss_pred             CCCCCceECCCCchHHHHHHHHHHH
Confidence            4468999999999999999999875

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=97.71  E-value=1.5e-05  Score=62.90  Aligned_cols=28  Identities=32%  Similarity=0.499  Sum_probs=24.3

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ..+...|+|+|+||+|||||++.|+|..
T Consensus        19 ~~~g~~v~I~G~sGsGKSTl~~~l~~~~   46 (208)
T 3c8u_A           19 QPGRQLVALSGAPGSGKSTLSNPLAAAL   46 (208)
T ss_dssp             CCSCEEEEEECCTTSCTHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            3455799999999999999999998864

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.70  E-value=0.00027  Score=61.91  Aligned_cols=72  Identities=14%  Similarity=0.240  Sum_probs=43.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++.-|+|.||+|+|||+|+++|++...                        ..+..++.+.+.+...+.  ....++..
T Consensus       204 ~~prGiLL~GPPGtGKT~lakAiA~~~~------------------------~~~~~v~~~~l~~~~~Ge--~e~~ir~l  257 (428)
T 4b4t_K          204 DPPRGVLLYGPPGTGKTMLVKAVANSTK------------------------AAFIRVNGSEFVHKYLGE--GPRMVRDV  257 (428)
T ss_dssp             CCCCEEEEESCTTTTHHHHHHHHHHHHT------------------------CEEEEEEGGGTCCSSCSH--HHHHHHHH
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHhC------------------------CCeEEEecchhhccccch--hHHHHHHH
Confidence            3446799999999999999999986521                        122334555554433222  12344444


Q ss_pred             HHhhcCCccEEEEEEeCC
Q 025391           97 IGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~  114 (253)
                      +..+.....++||+.+++
T Consensus       258 F~~A~~~aP~IifiDEiD  275 (428)
T 4b4t_K          258 FRLARENAPSIIFIDEVD  275 (428)
T ss_dssp             HHHHHHTCSEEEEEECTH
T ss_pred             HHHHHHcCCCeeechhhh
Confidence            444433445888887753

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=97.68  E-value=1.2e-05  Score=64.57  Aligned_cols=25  Identities=28%  Similarity=0.492  Sum_probs=16.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHh-CCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSIL-GRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~-g~~   43 (253)
                      ...|+|+|+||||||||++.|+ |..
T Consensus        27 G~ii~l~Gp~GsGKSTl~~~L~~~~~   52 (231)
T 3lnc_A           27 GVILVLSSPSGCGKTTVANKLLEKQK   52 (231)
T ss_dssp             CCEEEEECSCC----CHHHHHHC---
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhcCC
Confidence            4689999999999999999999 764

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=97.66  E-value=2e-05  Score=62.10  Aligned_cols=25  Identities=16%  Similarity=0.278  Sum_probs=22.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|+|||||++.|.|.
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            4468999999999999999999885

>3g5u_A MCG1178, multidrug resistance protein 1A; P-glycoprotein, PGP, cyclic peptide, membrane protein; 3.80A {Mus musculus} PDB: 3g61_A* 3g60_A*

Probab=97.65  E-value=8.6e-05  Score=73.73  Aligned_cols=31  Identities=26%  Similarity=0.223  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+++|+|+||+|||||++.|+|...+..|
T Consensus      1058 ~Ge~v~ivG~sGsGKSTl~~~l~g~~~p~~G 1088 (1284)
T 3g5u_A         1058 KGQTLALVGSSGCGKSTVVQLLERFYDPMAG 1088 (1284)
T ss_dssp             SSSEEEEECSSSTTHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCcCCCCC
Confidence            4468999999999999999999998665443

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=97.63  E-value=3.2e-05  Score=59.15  Aligned_cols=22  Identities=36%  Similarity=0.555  Sum_probs=19.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHh
Q 025391           19 ERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      .-.++|+|+||||||||++.++
T Consensus         9 gei~~l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A            9 LSLVVLIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             SEEEEEECCTTSCHHHHHHHHS
T ss_pred             CEEEEEECCCCCCHHHHHHHHc
Confidence            4689999999999999999654

>1ewq_A DNA mismatch repair protein MUTS; multiple domains of protein, mostly mixed alpha-beta structures, one domain is entirely helical; HET: DNA; 2.20A {Thermus aquaticus} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1nne_A* 1fw6_A* 1ewr_A*

Probab=97.63  E-value=0.00019  Score=67.39  Aligned_cols=25  Identities=20%  Similarity=0.098  Sum_probs=22.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...++|+|+||+|||||++.|.|..
T Consensus       576 g~i~~I~GpNGsGKSTlLr~iagl~  600 (765)
T 1ewq_A          576 HELVLITGPNMAGKSTFLRQTALIA  600 (765)
T ss_dssp             SCEEEEESCSSSSHHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCChHHHHHHHHhhh
Confidence            4689999999999999999998754

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.61  E-value=0.00012  Score=70.23  Aligned_cols=25  Identities=28%  Similarity=0.326  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++-+++|+|+||+|||||++.|+|.
T Consensus       460 ~Ge~v~LiGpNGsGKSTLLk~LagG  484 (986)
T 2iw3_A          460 RARRYGICGPNGCGKSTLMRAIANG  484 (986)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHHHT
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCC
Confidence            3458999999999999999999954

>3thx_B DNA mismatch repair protein MSH3; ABC family ATPase, mismatch recognition, mismatched unpaired DNA binding protein-DNA complex; HET: DNA ADP; 2.70A {Homo sapiens} PDB: 3thw_B* 3thy_B* 3thz_B*

Probab=97.61  E-value=0.00016  Score=69.07  Aligned_cols=124  Identities=10%  Similarity=0.046  Sum_probs=57.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC-CCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS-AGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~-~~~~~~~~~~~~~~   97 (253)
                      ...++|+|+||+|||||++.|.+...........+.. ..   .+.. -..-+.-+......... +.-..-..++...+
T Consensus       673 g~i~~ItGPNGaGKSTlLr~i~~i~~~aq~g~~vpa~-~~---~i~~-~d~i~~~ig~~d~l~~~~stfs~em~~~~~il  747 (918)
T 3thx_B          673 ERVMIITGPNMGGKSSYIKQVALITIMAQIGSYVPAE-EA---TIGI-VDGIFTRMGAADNIYKGRSTFMEELTDTAEII  747 (918)
T ss_dssp             CCEEEEESCCCHHHHHHHHHHHHHHHHHHHTCCBSSS-EE---EEEC-CSEEEEEC----------CCHHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCchHHHHHHHHHHHHHhhcCccccch-hh---hhhH-HHHHHHhCChHHHHHHhHHHhhHHHHHHHHHH
Confidence            3689999999999999999986421100000000000 00   0110 01111111111100000 11111123333333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHH-HHHHHhcccccCeEEEEEeCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALH-SLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~-~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      .. ... ..+|++++++..+++.+...+. .+.+.+... ...++|++||.-.+
T Consensus       748 ~~-a~~-p~LlLLDEP~~GlD~~~~~~i~~~il~~L~~~-~g~tvl~vTH~~el  798 (918)
T 3thx_B          748 RK-ATS-QSLVILDELGRGTSTHDGIAIAYATLEYFIRD-VKSLTLFVTHYPPV  798 (918)
T ss_dssp             HH-CCT-TCEEEEESTTTTSCHHHHHHHHHHHHHHHHHT-TCCEEEEECSCGGG
T ss_pred             Hh-ccC-CCEEEEeCCCCCCCHHHHHHHHHHHHHHHHHh-cCCeEEEEeCcHHH
Confidence            33 233 3688899999899998754443 333332111 12488889997544

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=97.61  E-value=2.9e-05  Score=62.90  Aligned_cols=25  Identities=24%  Similarity=0.262  Sum_probs=22.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|||||||++.|+|.
T Consensus        24 ~g~iigI~G~~GsGKSTl~k~L~~~   48 (245)
T 2jeo_A           24 RPFLIGVSGGTASGKSTVCEKIMEL   48 (245)
T ss_dssp             CSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHHH
Confidence            3478999999999999999999874

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.60  E-value=0.00011  Score=68.13  Aligned_cols=43  Identities=12%  Similarity=0.180  Sum_probs=28.2

Q ss_pred             CCcc-EEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCC
Q 025391          102 DGIH-AVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus       102 ~~~~-~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      ..|+ .+|+++++++.+++.....+ +.+.+.-..   ..++|+++|.
T Consensus       219 ~~p~~~lLlLDEPtsgLD~~~~~~l~~~l~~l~~~---g~tvi~vtHd  263 (670)
T 3ux8_A          219 SRLTGVLYVLDEPSIGLHQRDNDRLIATLKSMRDL---GNTLIVVEHD  263 (670)
T ss_dssp             TCCCSCEEEEECTTTTCCGGGHHHHHHHHHHHHHT---TCEEEEECCC
T ss_pred             hCCCCCEEEEECCccCCCHHHHHHHHHHHHHHHHc---CCEEEEEeCC
Confidence            3443 48888999999999875444 444443211   2588889985

>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=97.59  E-value=3.6e-05  Score=62.34  Aligned_cols=28  Identities=25%  Similarity=0.424  Sum_probs=24.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHh---CCCCcc
Q 025391           19 ERTVVLVGRTGNGKSATGNSIL---GRRAFK   46 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~---g~~~~~   46 (253)
                      ...|+|+|++|||||||++.|+   |...+.
T Consensus        27 ~~~i~l~G~~GsGKSTl~k~La~~lg~~~~~   57 (246)
T 2bbw_A           27 LLRAVILGPPGSGKGTVCQRIAQNFGLQHLS   57 (246)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHHHCCCCEE
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHHhCCeEec
Confidence            4689999999999999999999   876543

>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=97.59  E-value=4e-05  Score=58.48  Aligned_cols=25  Identities=32%  Similarity=0.534  Sum_probs=21.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|+||||+++.|.+.
T Consensus         7 ~g~~i~l~G~~GsGKSTl~~~l~~~   31 (175)
T 1knq_A            7 DHHIYVLMGVSGSGKSAVASEVAHQ   31 (175)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCCHHHHHHHHHHh
Confidence            4468999999999999999998753

>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=97.58  E-value=0.00035  Score=54.47  Aligned_cols=81  Identities=7%  Similarity=0.015  Sum_probs=47.7

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      ..+++|+|||+...         ......+..    +|.+|+++.++ ..+.....+++.+..........++.+|+|+.
T Consensus        75 ~yD~viiD~~~~~~---------~~~~~~l~~----ad~viiv~~~~-~~~~~~~~~~~~l~~~~~~~~~~~~~vv~N~~  140 (206)
T 4dzz_A           75 DYDFAIVDGAGSLS---------VITSAAVMV----SDLVIIPVTPS-PLDFSAAGSVVTVLEAQAYSRKVEARFLITRK  140 (206)
T ss_dssp             TSSEEEEECCSSSS---------HHHHHHHHH----CSEEEEEECSC-TTTHHHHHHHHHHHTTSCGGGCCEEEEEECSB
T ss_pred             CCCEEEEECCCCCC---------HHHHHHHHH----CCEEEEEecCC-HHHHHHHHHHHHHHHHHHhCCCCcEEEEEecc
Confidence            45789999998653         222233333    48899999887 44444456666665542112223568999999


Q ss_pred             CCCCCChhhHHHHHc
Q 025391          148 DELEDNDETLEDYLG  162 (253)
Q Consensus       148 D~~~~~~~~~~~~~~  162 (253)
                      +.-......+.++++
T Consensus       141 ~~~~~~~~~~~~~l~  155 (206)
T 4dzz_A          141 IEMATMLNVLKESIK  155 (206)
T ss_dssp             CTTEEEEHHHHHHHH
T ss_pred             CCCchHHHHHHHHHH
Confidence            864321234445544

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=97.57  E-value=3.5e-05  Score=62.79  Aligned_cols=29  Identities=17%  Similarity=0.290  Sum_probs=24.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh---CCCCc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL---GRRAF   45 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~---g~~~~   45 (253)
                      .+...|+|+|++||||||+++.|+   |...+
T Consensus        25 ~~g~~I~I~G~~GsGKSTl~k~La~~Lg~~~~   56 (252)
T 4e22_A           25 AIAPVITVDGPSGAGKGTLCKALAESLNWRLL   56 (252)
T ss_dssp             TTSCEEEEECCTTSSHHHHHHHHHHHTTCEEE
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHHhcCCCcC
Confidence            345789999999999999999999   76543

>1wb9_A DNA mismatch repair protein MUTS; DNA-binding, ATP-binding, DNA binding, DNA repair, mismatch recognition; HET: DNA ADP; 2.10A {Escherichia coli} SCOP: a.113.1.1 c.37.1.12 c.55.6.1 d.75.2.1 PDB: 1wbb_A* 1e3m_A* 1oh5_A* 1oh6_A* 1oh7_A* 1oh8_A* 1w7a_A* 2wtu_A* 1wbd_A* 1ng9_A* 3k0s_A*

Probab=97.57  E-value=0.00022  Score=67.34  Aligned_cols=25  Identities=20%  Similarity=0.181  Sum_probs=22.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...++|+|+||+|||||++.|.|.
T Consensus       606 ~g~i~~ItGpNGsGKSTlLr~iagl  630 (800)
T 1wb9_A          606 QRRMLIITGPNMGGKSTYMRQTALI  630 (800)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCChHHHHHHHHHH
Confidence            4468999999999999999999875

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=97.56  E-value=3.7e-05  Score=63.05  Aligned_cols=28  Identities=29%  Similarity=0.367  Sum_probs=24.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      .+.-.++|+|+||+|||||++.|+|...
T Consensus        23 ~~g~~v~i~Gp~GsGKSTll~~l~g~~~   50 (261)
T 2eyu_A           23 RKMGLILVTGPTGSGKSTTIASMIDYIN   50 (261)
T ss_dssp             CSSEEEEEECSTTCSHHHHHHHHHHHHH
T ss_pred             CCCCEEEEECCCCccHHHHHHHHHHhCC
Confidence            3456899999999999999999998643

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=97.55  E-value=2.8e-05  Score=60.62  Aligned_cols=24  Identities=25%  Similarity=0.231  Sum_probs=21.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +++|+|+||+|||||++.|+|...
T Consensus         3 ~i~i~G~nG~GKTTll~~l~g~~~   26 (189)
T 2i3b_A            3 HVFLTGPPGVGKTTLIHKASEVLK   26 (189)
T ss_dssp             CEEEESCCSSCHHHHHHHHHHHHH
T ss_pred             EEEEECCCCChHHHHHHHHHhhcc
Confidence            689999999999999999998643

>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=97.54  E-value=3.6e-05  Score=64.44  Aligned_cols=25  Identities=24%  Similarity=0.383  Sum_probs=22.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-.++|+|+||+|||||++.|+|.
T Consensus       125 ~Ge~vaIvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          125 KKNCLAFIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             TCSEEEEECSSSSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhhh
Confidence            4468999999999999999999975

>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=97.54  E-value=4.3e-05  Score=60.31  Aligned_cols=26  Identities=23%  Similarity=0.391  Sum_probs=23.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...|+|+|++|||||||++.|++..
T Consensus         7 ~g~~i~l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A            7 RGLLIVLSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHST
T ss_pred             CCcEEEEECcCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999874

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.00025  Score=62.24  Aligned_cols=26  Identities=15%  Similarity=0.371  Sum_probs=22.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++.-|+|.||+|+|||+|+++|++.
T Consensus       213 ~~prGvLLyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          213 RAPKGALMYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             CCCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCCCeeEEECcCCCCHHHHHHHHHHH
Confidence            34578999999999999999999875

>4b4t_H 26S protease regulatory subunit 7 homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=97.53  E-value=0.00049  Score=60.56  Aligned_cols=26  Identities=23%  Similarity=0.525  Sum_probs=22.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+..-|+|.|++|+|||+|+++|++.
T Consensus       241 ~pprGILLyGPPGTGKTlLAkAiA~e  266 (467)
T 4b4t_H          241 DPPKGILLYGPPGTGKTLCARAVANR  266 (467)
T ss_dssp             CCCSEEEECSCTTSSHHHHHHHHHHH
T ss_pred             CCCCceEeeCCCCCcHHHHHHHHHhc
Confidence            34578999999999999999999875

>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=97.53  E-value=4.6e-05  Score=59.71  Aligned_cols=26  Identities=38%  Similarity=0.760  Sum_probs=22.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...|+|+|++|+|||||++.|++..
T Consensus        18 ~g~~ivl~GPSGaGKsTL~~~L~~~~   43 (197)
T 3ney_A           18 GRKTLVLIGASGVGRSHIKNALLSQN   43 (197)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHHHHC
T ss_pred             CCCEEEEECcCCCCHHHHHHHHHhhC
Confidence            34689999999999999999999754

>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=97.52  E-value=4.4e-05  Score=64.29  Aligned_cols=29  Identities=21%  Similarity=0.143  Sum_probs=24.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      ..++..|+|+|+||||||||++.|.|...
T Consensus        87 ~~~g~ivgI~G~sGsGKSTL~~~L~gll~  115 (312)
T 3aez_A           87 RPVPFIIGVAGSVAVGKSTTARVLQALLA  115 (312)
T ss_dssp             SCCCEEEEEECCTTSCHHHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCchHHHHHHHHHhhcc
Confidence            34567999999999999999999998643

>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=97.51  E-value=0.0009  Score=52.59  Aligned_cols=24  Identities=13%  Similarity=-0.031  Sum_probs=21.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.-.++|+|++|+|||||+..|++
T Consensus        19 ~G~~~~i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           19 PGVLTQVYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            345899999999999999999987

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=97.49  E-value=5.4e-05  Score=59.24  Aligned_cols=25  Identities=28%  Similarity=0.417  Sum_probs=22.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +..|+|+|++||||||+++.|.+..
T Consensus         6 g~~i~l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A            6 GLLIVLSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             CCEEEEECSTTSCHHHHHHHHHHCT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHhh
Confidence            3689999999999999999998875

>3ux8_A Excinuclease ABC, A subunit; UVRA, nucleotide excision repair, DNA repair, ABC ATPase, DN binding protein; HET: ADP; 2.10A {Geobacillus}

Probab=97.49  E-value=0.00018  Score=66.87  Aligned_cols=39  Identities=13%  Similarity=0.207  Sum_probs=27.4

Q ss_pred             EEEEEEeCCCCCCHHHHH-HHHHHHHHhcccccCeEEEEEeCC
Q 025391          106 AVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~~~-~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      -+|+++++++.+++.... +++.+.+....   ..++|+++|.
T Consensus       566 ~llllDEPt~~LD~~~~~~i~~~l~~l~~~---g~tvi~vtHd  605 (670)
T 3ux8_A          566 TLYILDEPTTGLHVDDIARLLDVLHRLVDN---GDTVLVIEHN  605 (670)
T ss_dssp             EEEEEESTTTTCCHHHHHHHHHHHHHHHHT---TCEEEEECCC
T ss_pred             cEEEEeCCCCCCCHHHHHHHHHHHHHHHHC---CCEEEEEeCC
Confidence            688889999999998844 44444444221   2589999995

>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=97.48  E-value=0.00029  Score=59.89  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++|+|++|+||||+++.|++.
T Consensus        38 ~~ll~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           38 HLLLYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             CEEEECSTTSSHHHHHHTHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999999873

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=97.47  E-value=5.4e-05  Score=59.29  Aligned_cols=25  Identities=28%  Similarity=0.565  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++||||||+++.|.+.
T Consensus        28 ~g~~i~l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           28 PTRHVVVMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999764

>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=97.47  E-value=0.00076  Score=54.59  Aligned_cols=25  Identities=20%  Similarity=0.381  Sum_probs=21.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....|+|.|++|+|||++++.|...
T Consensus        38 ~~~~vll~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           38 VPKGALLLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             CCCEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            3457999999999999999999754

>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=97.47  E-value=7.8e-05  Score=68.34  Aligned_cols=33  Identities=21%  Similarity=0.260  Sum_probs=27.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRA   49 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~   49 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+.
T Consensus       115 ~~Ge~~~LiG~NGsGKSTLlkiL~Gll~p~~G~  147 (607)
T 3bk7_A          115 KDGMVVGIVGPNGTGKTTAVKILAGQLIPNLCE  147 (607)
T ss_dssp             CTTSEEEEECCTTSSHHHHHHHHTTSSCCCTTT
T ss_pred             CCCCEEEEECCCCChHHHHHHHHhCCCCCCCCc
Confidence            455789999999999999999999987665544

>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=97.43  E-value=5.9e-05  Score=58.35  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..++|+|+||||||||++.|++
T Consensus         3 ~ii~l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            3 KLYIITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHhc
Confidence            4689999999999999999986

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=97.42  E-value=8.1e-05  Score=63.95  Aligned_cols=28  Identities=32%  Similarity=0.574  Sum_probs=24.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAF   45 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~   45 (253)
                      +...++|+|+||+|||||++.|+|...+
T Consensus       174 ~G~~i~ivG~sGsGKSTll~~l~~~~~~  201 (361)
T 2gza_A          174 LERVIVVAGETGSGKTTLMKALMQEIPF  201 (361)
T ss_dssp             TTCCEEEEESSSSCHHHHHHHHHTTSCT
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHhcCCC
Confidence            3468999999999999999999997543

>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=97.40  E-value=0.00023  Score=61.81  Aligned_cols=72  Identities=17%  Similarity=0.180  Sum_probs=51.1

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCC----------CCCHHHHHHHHHHHHHhccc-
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRS----------RFSQEEEAALHSLQTLFGKK-  135 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~----------~~~~~~~~~l~~l~~~~g~~-  135 (253)
                      ++..+.+|||+|...           ++..+..++.+++++|||+|+++          .-+.  ..+..++....... 
T Consensus       215 ~~v~l~iwDtaGQe~-----------~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~--~e~~~~~~~i~~~~~  281 (402)
T 1azs_C          215 DKVNFHMFDVGGQRD-----------ERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRL--QEALNLFKSIWNNRW  281 (402)
T ss_dssp             TTEEEEEEEECCSGG-----------GGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHH--HHHHHHHHHHHTCTT
T ss_pred             CCccceecccchhhh-----------hhhhhHhhccCCCEEEEEEECcccccccccccccchH--HHHHHHHHHHHhccc
Confidence            578899999999843           34556788899999999999985          2222  33445555544321 


Q ss_pred             -ccCeEEEEEeCCCCCC
Q 025391          136 -IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 -~~~~~ivv~~k~D~~~  151 (253)
                       ...|++||+||.|+..
T Consensus       282 ~~~~piiLvgNK~DL~~  298 (402)
T 1azs_C          282 LRTISVILFLNKQDLLA  298 (402)
T ss_dssp             CSSCCEEEEEECHHHHH
T ss_pred             CCCCeEEEEEEChhhhh
Confidence             2458999999999863

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=97.39  E-value=0.0006  Score=56.06  Aligned_cols=24  Identities=21%  Similarity=0.476  Sum_probs=21.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...++|.|++|+|||+|++.|+..
T Consensus        51 ~~~~ll~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           51 PKGILLYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             CSEEEEESSSSSSHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCcHHHHHHHHHHH
Confidence            457999999999999999999764

>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=97.39  E-value=9.3e-05  Score=64.12  Aligned_cols=27  Identities=37%  Similarity=0.425  Sum_probs=23.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-.++|+|+||+|||||++.|+|...
T Consensus        46 ~Ge~~~llGpsGsGKSTLLr~iaGl~~   72 (390)
T 3gd7_A           46 PGQRVGLLGRTGSGKSTLLSAFLRLLN   72 (390)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTCSE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCC
Confidence            346899999999999999999999754

>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=97.38  E-value=9.1e-05  Score=62.16  Aligned_cols=26  Identities=19%  Similarity=0.220  Sum_probs=23.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+...|+|+|++|+|||||++.|.|.
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            44578999999999999999999885

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=97.37  E-value=6.9e-05  Score=56.94  Aligned_cols=23  Identities=39%  Similarity=0.702  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|++|+||||+++.|.+.
T Consensus         5 ~~i~l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            5 RNIFLVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            47999999999999999999875

>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=97.36  E-value=9.5e-05  Score=57.86  Aligned_cols=25  Identities=20%  Similarity=0.266  Sum_probs=22.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|+||||+++.|.+.
T Consensus        24 ~g~~i~l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           24 KGCVIWVTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999999875

>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=97.36  E-value=8.7e-05  Score=58.95  Aligned_cols=26  Identities=15%  Similarity=0.249  Sum_probs=22.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +.-.++|+|+||+|||||++.|+|..
T Consensus        24 ~G~~~~l~G~nGsGKSTll~~l~g~~   49 (231)
T 4a74_A           24 TQAITEVFGEFGSGKTQLAHTLAVMV   49 (231)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHHH
Confidence            44689999999999999999999843

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=97.32  E-value=0.0017  Score=52.55  Aligned_cols=23  Identities=35%  Similarity=0.680  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|++|+|||||+++|.+.
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            46999999999999999999864

>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=97.31  E-value=0.00021  Score=56.08  Aligned_cols=27  Identities=15%  Similarity=0.246  Sum_probs=23.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+...|+|+|++|+||||+++.|.+.
T Consensus        18 ~~~~~~i~i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           18 GSKTFIIGISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             SCCCEEEEEEESTTSSHHHHHHHHHTT
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            345578999999999999999999986

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=97.31  E-value=6.5e-05  Score=66.56  Aligned_cols=31  Identities=19%  Similarity=0.238  Sum_probs=25.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +..+++|+|+||+|||||++.|+|...+..+
T Consensus       137 ~Ge~v~IvGpnGsGKSTLlr~L~Gl~~p~~G  167 (460)
T 2npi_A          137 EGPRVVIVGGSQTGKTSLSRTLCSYALKFNA  167 (460)
T ss_dssp             SCCCEEEEESTTSSHHHHHHHHHHTTHHHHC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhCcccccCC
Confidence            4468999999999999999999998654433

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=97.31  E-value=0.0021  Score=54.06  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|++.|+..
T Consensus        44 ~~~~iLL~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           44 PWRGILLFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCccHHHHHHHHHHH
Confidence            4468999999999999999999864

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=97.30  E-value=0.0019  Score=53.44  Aligned_cols=25  Identities=24%  Similarity=0.478  Sum_probs=22.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+||||+++.|.+.
T Consensus        53 ~~~~vll~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           53 PAKGLLLFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             CCSEEEEESSSSSCHHHHHHHHHHH
T ss_pred             CCCeEEEECcCCCCHHHHHHHHHHH
Confidence            3468999999999999999999864

>2o8b_B DNA mismatch repair protein MSH6; DNA damage response, somatic hypermutat protein-DNA complex, DNA mispair, cancer; HET: DNA ADP; 2.75A {Homo sapiens} PDB: 2o8c_B* 2o8d_B* 2o8e_B* 2o8f_B*

Probab=97.30  E-value=0.0014  Score=63.51  Aligned_cols=24  Identities=25%  Similarity=0.245  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...++|+|+||+|||||++.| |..
T Consensus       789 g~i~~ItGpNgsGKSTlLr~i-Gl~  812 (1022)
T 2o8b_B          789 AYCVLVTGPNMGGKSTLMRQA-GLL  812 (1022)
T ss_dssp             CCEEEEECCTTSSHHHHHHHH-HHH
T ss_pred             CcEEEEECCCCCChHHHHHHH-HHH
Confidence            468999999999999999998 654

>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=97.27  E-value=5.8e-05  Score=58.63  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -|+|+||+|||||||++.|+..
T Consensus         3 pIVi~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHh
Confidence            3899999999999999999754

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=97.26  E-value=0.00016  Score=61.05  Aligned_cols=27  Identities=19%  Similarity=0.202  Sum_probs=23.2

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ......|+|+|++|||||||++.|.+.
T Consensus        89 ~~~p~iigI~GpsGSGKSTl~~~L~~l  115 (321)
T 3tqc_A           89 PKVPYIIGIAGSVAVGKSTTSRVLKAL  115 (321)
T ss_dssp             CCCCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            345578999999999999999999765

>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=97.25  E-value=0.00011  Score=63.02  Aligned_cols=28  Identities=25%  Similarity=0.311  Sum_probs=24.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK   46 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~   46 (253)
                      ..+++|+|+||+|||||++.|+|...+.
T Consensus       170 g~k~~IvG~nGsGKSTLlk~L~gl~~~~  197 (365)
T 1lw7_A          170 AKTVAILGGESSGKSVLVNKLAAVFNTT  197 (365)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHHTTCE
T ss_pred             hCeEEEECCCCCCHHHHHHHHHHHhCCC
Confidence            5799999999999999999999875543

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=97.25  E-value=0.00016  Score=56.76  Aligned_cols=25  Identities=24%  Similarity=0.373  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++||||||+++.|...
T Consensus        11 ~~~~i~l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           11 RIPPLVVCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             CCCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4468999999999999999999764

>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=97.25  E-value=0.00017  Score=56.46  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|++||||||+++.|.+
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            5799999999999999999987

>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=97.23  E-value=0.00015  Score=58.06  Aligned_cols=26  Identities=27%  Similarity=0.293  Sum_probs=23.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++..|+|+|++||||||+++.|.+.
T Consensus        18 ~~g~~i~i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           18 TQPFTVLIEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             CCCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHhc
Confidence            44578999999999999999999875

>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=97.21  E-value=0.00016  Score=62.41  Aligned_cols=26  Identities=31%  Similarity=0.395  Sum_probs=23.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +.-.|+|+|+||+|||||++.|+|..
T Consensus       135 ~g~~i~ivG~~GsGKTTll~~l~~~~  160 (372)
T 2ewv_A          135 KMGLILVTGPTGSGKSTTIASMIDYI  160 (372)
T ss_dssp             SSEEEEEECSSSSSHHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            44689999999999999999999864

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=97.21  E-value=0.00013  Score=62.29  Aligned_cols=27  Identities=19%  Similarity=0.155  Sum_probs=24.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-+++|+|+||+|||||++.|+|...
T Consensus        70 ~Gq~~gIiG~nGaGKTTLl~~I~g~~~   96 (347)
T 2obl_A           70 IGQRIGIFAGSGVGKSTLLGMICNGAS   96 (347)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcCCC
Confidence            456999999999999999999999854

>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=97.21  E-value=0.00012  Score=64.94  Aligned_cols=29  Identities=24%  Similarity=0.202  Sum_probs=24.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      -.++|+|+||+|||||++.|+|...+..+
T Consensus        30 e~~~liG~nGsGKSTLl~~l~Gl~~p~~G   58 (483)
T 3euj_A           30 LVTTLSGGNGAGKSTTMAGFVTALIPDLT   58 (483)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHHHCCCTT
T ss_pred             ceEEEECCCCCcHHHHHHHHhcCCCCCCC
Confidence            58999999999999999999986554333

>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=97.20  E-value=0.00016  Score=57.47  Aligned_cols=23  Identities=17%  Similarity=0.362  Sum_probs=21.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|+|+|++|+||||+++.|.+.
T Consensus         6 ~~i~i~G~~GsGKSTl~~~L~~~   28 (227)
T 1cke_A            6 PVITIDGPSGAGKGTLCKAMAEA   28 (227)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            58999999999999999999764

>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=97.20  E-value=0.00015  Score=56.71  Aligned_cols=22  Identities=27%  Similarity=0.422  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+|+|+|++||||||+++.|.+
T Consensus         2 ~~i~i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            2 KRIGLTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCcCHHHHHHHHHH
Confidence            3799999999999999999987

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=97.20  E-value=0.00016  Score=64.86  Aligned_cols=26  Identities=31%  Similarity=0.408  Sum_probs=22.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      ...|+|+|+||||||||+++|+|...
T Consensus       260 g~~i~I~GptGSGKTTlL~aL~~~i~  285 (511)
T 2oap_1          260 KFSAIVVGETASGKTTTLNAIMMFIP  285 (511)
T ss_dssp             TCCEEEEESTTSSHHHHHHHHGGGSC
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhCC
Confidence            34699999999999999999998753

>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=97.19  E-value=0.00012  Score=56.21  Aligned_cols=25  Identities=24%  Similarity=0.359  Sum_probs=22.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...++|+|++|+|||||++.|++..
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            4679999999999999999998764

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=97.18  E-value=0.0002  Score=56.11  Aligned_cols=26  Identities=19%  Similarity=0.300  Sum_probs=22.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+...|+|+|++|+|||||++.|.+.
T Consensus        20 ~~~~~i~i~G~~GsGKstl~~~l~~~   45 (201)
T 1rz3_A           20 AGRLVLGIDGLSRSGKTTLANQLSQT   45 (201)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            34578999999999999999999864

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=97.17  E-value=7.6e-05  Score=57.15  Aligned_cols=24  Identities=17%  Similarity=0.260  Sum_probs=21.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ..|+|+|++|+|||||++.|++..
T Consensus         3 ~~v~IvG~SGsGKSTL~~~L~~~~   26 (171)
T 2f1r_A            3 LILSIVGTSDSGKTTLITRMMPIL   26 (171)
T ss_dssp             CEEEEEESCHHHHHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHHh
Confidence            479999999999999999998864

>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=97.16  E-value=0.00016  Score=55.41  Aligned_cols=22  Identities=41%  Similarity=0.605  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+|+|+||+|||||+++|.+.
T Consensus        28 ~~~i~G~NGsGKStll~ai~~~   49 (182)
T 3kta_A           28 FTAIVGANGSGKSNIGDAILFV   49 (182)
T ss_dssp             EEEEEECTTSSHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            6889999999999999998764

>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=97.15  E-value=0.0002  Score=62.65  Aligned_cols=27  Identities=30%  Similarity=0.327  Sum_probs=23.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-.|+|+|+||+|||||+++|+|...
T Consensus       166 ~ggii~I~GpnGSGKTTlL~allg~l~  192 (418)
T 1p9r_A          166 PHGIILVTGPTGSGKSTTLYAGLQELN  192 (418)
T ss_dssp             SSEEEEEECSTTSCHHHHHHHHHHHHC
T ss_pred             cCCeEEEECCCCCCHHHHHHHHHhhcC
Confidence            345799999999999999999998643

>2iw3_A Elongation factor 3A; acetylation, ATP-binding, protein biosynthesis, nucleotide-binding, phosphorylation, RNA- binding, rRNA-binding; HET: ADP; 2.4A {Saccharomyces cerevisiae} PDB: 2iwh_A* 2ix3_A 2ix8_A

Probab=97.12  E-value=0.00015  Score=69.45  Aligned_cols=30  Identities=27%  Similarity=0.364  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +-+++|+|+||+|||||++.|+|...+..|
T Consensus       699 GeivaIiGpNGSGKSTLLklLaGll~P~sG  728 (986)
T 2iw3_A          699 SSRIAVIGPNGAGKSTLINVLTGELLPTSG  728 (986)
T ss_dssp             TCEEEECSCCCHHHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCCCCce
Confidence            358999999999999999999998765443

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=97.09  E-value=0.00032  Score=54.73  Aligned_cols=25  Identities=24%  Similarity=0.462  Sum_probs=21.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|+||||+++.|++.
T Consensus        24 ~~~~i~l~G~~GsGKsTl~~~La~~   48 (199)
T 3vaa_A           24 AMVRIFLTGYMGAGKTTLGKAFARK   48 (199)
T ss_dssp             CCCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999754

>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=97.07  E-value=0.0038  Score=53.32  Aligned_cols=22  Identities=32%  Similarity=0.504  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++|.|++|+|||||++.+++.
T Consensus        46 ~~li~G~~G~GKTtl~~~l~~~   67 (389)
T 1fnn_A           46 RATLLGRPGTGKTVTLRKLWEL   67 (389)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999865

>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=97.05  E-value=0.00038  Score=57.90  Aligned_cols=28  Identities=25%  Similarity=0.299  Sum_probs=23.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ..+...|+|+|++|+|||||++.|.+..
T Consensus        28 ~~~~~ii~I~G~sGsGKSTla~~L~~~l   55 (290)
T 1odf_A           28 NKCPLFIFFSGPQGSGKSFTSIQIYNHL   55 (290)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHHHHH
T ss_pred             CCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3456799999999999999999987653

>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=97.04  E-value=0.00029  Score=59.32  Aligned_cols=25  Identities=28%  Similarity=0.368  Sum_probs=22.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ...++|+|++|||||||+|.|+|..
T Consensus         4 i~v~~i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            4 IAVTLLTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEEEEEEESSSSSCHHHHHHHHHSC
T ss_pred             ccEEEEEecCCCCHHHHHHHHHhhc
Confidence            3678999999999999999999864

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=97.01  E-value=0.00025  Score=62.47  Aligned_cols=27  Identities=19%  Similarity=0.131  Sum_probs=24.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-+++|+|+||+|||||++.|+|...
T Consensus       156 ~Gq~~~IvG~sGsGKSTLl~~Iag~~~  182 (438)
T 2dpy_A          156 RGQRMGLFAGSGVGKSVLLGMMARYTR  182 (438)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHHHHSC
T ss_pred             CCCEEEEECCCCCCHHHHHHHHhcccC
Confidence            446999999999999999999999754

>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=97.01  E-value=0.00046  Score=53.61  Aligned_cols=26  Identities=19%  Similarity=0.289  Sum_probs=22.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .....|+|+|.+||||||+.+.|...
T Consensus         6 ~~~~~I~i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A            6 KHPIIIGITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             CCCEEEEEEECTTSCHHHHHHHHHHT
T ss_pred             cCceEEEEECCCCCCHHHHHHHHHHC
Confidence            34578999999999999999999864

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=96.99  E-value=0.00053  Score=53.69  Aligned_cols=25  Identities=20%  Similarity=0.345  Sum_probs=21.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+..|+|+|.+|+||||+++.|..
T Consensus         8 ~~~~~I~l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A            8 KKGKFIVFEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             BCSCEEEEEESTTSSHHHHHHHHHH
T ss_pred             hcCCEEEEEcCCCCCHHHHHHHHHH
Confidence            3457899999999999999999964

>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=96.97  E-value=0.00043  Score=52.20  Aligned_cols=20  Identities=25%  Similarity=0.579  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l   39 (253)
                      ..|+|+|++||||||+++.|
T Consensus         2 ~~I~l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            2 KVILITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             CEEEEECCTTSCHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            47999999999999999999

>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=96.97  E-value=0.0027  Score=51.90  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=21.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...++|.|++|+|||+++..|...
T Consensus        63 ~~~~vLl~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           63 PLVSVLLEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             SEEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            4468999999999999999999754

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=96.97  E-value=0.0015  Score=54.28  Aligned_cols=24  Identities=21%  Similarity=0.303  Sum_probs=20.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-++|.|++|+|||+|+++|+..
T Consensus        36 p~~lLl~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           36 PLILGIWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             CSEEEEEECTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHHH
Confidence            356777899999999999999865

>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=96.97  E-value=0.00036  Score=53.52  Aligned_cols=23  Identities=13%  Similarity=0.289  Sum_probs=21.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|+|++|+|||||++.|++.
T Consensus         7 ~~i~i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A            7 PLLAFAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHHH
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHh
Confidence            68999999999999999999875

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.96  E-value=0.00045  Score=53.88  Aligned_cols=23  Identities=35%  Similarity=0.683  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|.+||||||+++.|.+.
T Consensus        19 ~~I~l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           19 GSIVVMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             SCEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57999999999999999998653

>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=96.95  E-value=0.00045  Score=52.09  Aligned_cols=22  Identities=18%  Similarity=0.154  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|+|++||||||+++.|...
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            6899999999999999998643

>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=96.94  E-value=0.00099  Score=52.63  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|.|++|+|||||++.++..
T Consensus        46 ~~~ll~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           46 HAYLFSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             SEEEEECSTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            36899999999999999998754

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.94  E-value=0.0031  Score=59.43  Aligned_cols=72  Identities=18%  Similarity=0.306  Sum_probs=45.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .++.-|+|.|++|+|||+|+++|++...                        ..+..++.|.+.....+  .....++..
T Consensus       236 ~~p~GILL~GPPGTGKT~LAraiA~elg------------------------~~~~~v~~~~l~sk~~g--ese~~lr~l  289 (806)
T 3cf2_A          236 KPPRGILLYGPPGTGKTLIARAVANETG------------------------AFFFLINGPEIMSKLAG--ESESNLRKA  289 (806)
T ss_dssp             CCCCEEEEECCTTSCHHHHHHHHHTTTT------------------------CEEEEEEHHHHHSSCTT--HHHHHHHHH
T ss_pred             CCCCeEEEECCCCCCHHHHHHHHHHHhC------------------------CeEEEEEhHHhhcccch--HHHHHHHHH
Confidence            3557899999999999999999997631                        11223344333221111  222555566


Q ss_pred             HHhhcCCccEEEEEEeCC
Q 025391           97 IGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~  114 (253)
                      +..+.....++||+.+++
T Consensus       290 F~~A~~~~PsIIfIDEiD  307 (806)
T 3cf2_A          290 FEEAEKNAPAIIFIDELD  307 (806)
T ss_dssp             HHHHTTSCSEEEEEESGG
T ss_pred             HHHHHHcCCeEEEEehhc
Confidence            666655666899998775

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=96.93  E-value=0.00034  Score=57.66  Aligned_cols=21  Identities=29%  Similarity=0.537  Sum_probs=20.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 025391           22 VVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++|+|++|+|||||+++|+|.
T Consensus        47 vlL~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           47 VLLAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EEEESSTTSCHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            999999999999999999875

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.91  E-value=0.00059  Score=51.86  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|.+|+||||+++.|..
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            5799999999999999999975

>3pih_A Uvrabc system protein A; hydrolase, ABC ATPase, DNA repair, nucleotide excision repai hydrolase-DNA complex; HET: DNA; 2.90A {Thermotoga maritima}

Probab=96.91  E-value=0.014  Score=55.84  Aligned_cols=40  Identities=13%  Similarity=0.211  Sum_probs=27.9

Q ss_pred             cEEEEEEeCCCCCCHHHHHHH-HHHHHHhcccccCeEEEEEeCC
Q 025391          105 HAVLVVFSVRSRFSQEEEAAL-HSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus       105 ~~~l~v~d~~~~~~~~~~~~l-~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      .-+++++++|+.++..+...+ +.+.+....   ..++|+++|.
T Consensus       827 p~LLILDEPTsGLD~~~~~~L~~lL~~L~~~---G~TVIvI~Hd  867 (916)
T 3pih_A          827 RTLYILDEPTVGLHFEDVRKLVEVLHRLVDR---GNTVIVIEHN  867 (916)
T ss_dssp             SEEEEEESTTTTCCHHHHHHHHHHHHHHHHT---TCEEEEECCC
T ss_pred             CCEEEEECCCCCCCHHHHHHHHHHHHHHHhc---CCEEEEEeCC
Confidence            368889999999999984444 444443221   2589999984

>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=96.91  E-value=0.0006  Score=51.87  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|.+||||||+.+.|...
T Consensus         4 ~~i~l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHh
Confidence            57999999999999999999754

>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=96.91  E-value=0.0007  Score=52.11  Aligned_cols=24  Identities=21%  Similarity=0.475  Sum_probs=21.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+|+|+|.+|+||||+.+.|...
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            468999999999999999999754

>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=96.90  E-value=0.00069  Score=50.46  Aligned_cols=21  Identities=33%  Similarity=0.615  Sum_probs=18.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ...+|+|+||+||||++.+|.
T Consensus        24 g~~~I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           24 GINLIIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            467899999999999999975

>3vfd_A Spastin; ATPase, microtubule severing, hydrolase; 3.30A {Homo sapiens}

Probab=96.90  E-value=0.0038  Score=53.85  Aligned_cols=25  Identities=28%  Similarity=0.539  Sum_probs=21.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|++.|+..
T Consensus       147 ~~~~vLL~GppGtGKT~la~aia~~  171 (389)
T 3vfd_A          147 PARGLLLFGPPGNGKTMLAKAVAAE  171 (389)
T ss_dssp             CCSEEEEESSTTSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHh
Confidence            3468999999999999999999654

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=96.90  E-value=0.00058  Score=52.35  Aligned_cols=23  Identities=22%  Similarity=0.527  Sum_probs=20.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +..|+|+|.+||||||+++.|..
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            36899999999999999999973

>2ce7_A Cell division protein FTSH; metalloprotease; HET: ADP; 2.44A {Thermotoga maritima} SCOP: a.269.1.1 c.37.1.20 PDB: 2cea_A* 3kds_E*

Probab=96.89  E-value=0.0048  Score=54.76  Aligned_cols=23  Identities=30%  Similarity=0.673  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|+|++|+|||+|+++|.+.
T Consensus        50 ~gvLL~GppGtGKT~Laraia~~   72 (476)
T 2ce7_A           50 KGILLVGPPGTGKTLLARAVAGE   72 (476)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            45999999999999999999875

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=96.88  E-value=0.00085  Score=51.57  Aligned_cols=26  Identities=23%  Similarity=0.322  Sum_probs=22.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+...|+|+|.+|+||||+++.|...
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            34578999999999999999999764

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=96.85  E-value=0.00053  Score=54.30  Aligned_cols=24  Identities=21%  Similarity=0.386  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-.++|+|+||+|||||++.|++.
T Consensus        23 G~~~~i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           23 GFFIALTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEcCCCCCHHHHHHHHHHH
Confidence            357999999999999999999854

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=96.83  E-value=0.00069  Score=51.91  Aligned_cols=22  Identities=27%  Similarity=0.608  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|++|+||||+.+.|..
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            5899999999999999999964

>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=96.83  E-value=0.00064  Score=51.95  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|.+|+||||+++.|.+.
T Consensus         4 ~g~~i~l~G~~GsGKST~~~~L~~~   28 (179)
T 2pez_A            4 RGCTVWLTGLSGAGKTTVSMALEEY   28 (179)
T ss_dssp             CCEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999764

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=96.82  E-value=0.00058  Score=58.66  Aligned_cols=20  Identities=35%  Similarity=0.429  Sum_probs=18.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~   40 (253)
                      -.+|+|+||||||||+++|+
T Consensus        25 ~~~i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           25 ITVVEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EEEEECCTTSSHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            56799999999999999987

>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=96.81  E-value=0.00082  Score=51.73  Aligned_cols=23  Identities=13%  Similarity=0.395  Sum_probs=20.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         5 ~~~I~l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A            5 PALIIVTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>3lda_A DNA repair protein RAD51; DNA binding protein, ATP-binding, DNA damage, DNA recombinat repair, nucleotide-binding; HET: DNA; 2.50A {Saccharomyces cerevisiae} PDB: 1szp_A*

Probab=96.81  E-value=0.01  Score=51.55  Aligned_cols=23  Identities=22%  Similarity=0.242  Sum_probs=19.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      +.-.++|+|++|+|||||+..|+
T Consensus       177 ~Gei~~I~G~sGsGKTTLl~~la  199 (400)
T 3lda_A          177 TGSITELFGEFRTGKSQLCHTLA  199 (400)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCcEEEEEcCCCCChHHHHHHHH
Confidence            34589999999999999999654

>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=96.81  E-value=0.0016  Score=54.32  Aligned_cols=100  Identities=13%  Similarity=-0.001  Sum_probs=60.0

Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHH-HHHHHHHHHHhcccccCeEEEEEeC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEE-EAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ..+.+|||  +..+.           .....++.++|++|+|+|++++. +... ..++..+..     ...|+++|+||
T Consensus        63 ~~~~iwD~--qer~~-----------~l~~~~~~~ad~vilV~D~~~~~~s~~~l~~~l~~~~~-----~~~piilv~NK  124 (301)
T 1u0l_A           63 GSGVIENV--LHRKN-----------LLTKPHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK-----NELETVMVINK  124 (301)
T ss_dssp             SSEEEEEE--CCCSC-----------EETTTTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH-----TTCEEEEEECC
T ss_pred             CeEEEEEE--ccccc-----------eeeccccccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH-----CCCCEEEEEeH
Confidence            37899999  32221           22335678999999999998664 4432 233333322     13589999999


Q ss_pred             CCCCCCChhh---HHHHHcccC--CchhhhhHHHhhhHHHHHHHcCC
Q 025391          147 GDELEDNDET---LEDYLGREC--PKPLKKGATKLRDQQFEVDSLKG  188 (253)
Q Consensus       147 ~D~~~~~~~~---~~~~~~~~~--~~~l~~~~~~~~~~~~~~~~~~g  188 (253)
                      +|+..  ...   ..++.....  ..++..+......+++++....+
T Consensus       125 ~DL~~--~~~v~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          125 MDLYD--EDDLRKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             GGGCC--HHHHHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             HHcCC--chhHHHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            99975  433   334443222  34555666666666666655443

>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=96.79  E-value=0.00078  Score=51.70  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|++||||||+++.|..
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            5899999999999999999864

>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=96.79  E-value=0.00062  Score=56.49  Aligned_cols=27  Identities=19%  Similarity=0.230  Sum_probs=22.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      +.-.++|+|+||+|||||++.|++...
T Consensus        34 ~G~~~~i~G~~G~GKTTl~~~ia~~~~   60 (296)
T 1cr0_A           34 GGEVIMVTSGSGMGKSTFVRQQALQWG   60 (296)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHHHH
Confidence            345899999999999999999987643

>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=96.79  E-value=0.00053  Score=55.51  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -++|+|++|+|||||+++|++.
T Consensus        51 g~ll~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           51 GVLLVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            3999999999999999999875

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=96.78  E-value=0.0011  Score=51.55  Aligned_cols=25  Identities=16%  Similarity=0.417  Sum_probs=21.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .....|+|+|.+|+||||+++.|..
T Consensus        13 ~~~~~I~l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           13 DQVSVIFVLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             TTCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999999874

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=96.78  E-value=6.1e-05  Score=60.39  Aligned_cols=25  Identities=28%  Similarity=0.296  Sum_probs=21.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCc
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAF   45 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~   45 (253)
                      .++|+|+||+|||||+++|+|...+
T Consensus        29 ~~~i~GpnGsGKSTll~~i~g~~~~   53 (227)
T 1qhl_A           29 VTTLSGGNGAGKSTTMAAFVTALIP   53 (227)
T ss_dssp             HHHHHSCCSHHHHHHHHHHHHHHSC
T ss_pred             EEEEECCCCCCHHHHHHHHhccccc
Confidence            4678999999999999999987543

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=96.78  E-value=0.0038  Score=45.96  Aligned_cols=23  Identities=22%  Similarity=0.264  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|.|.|++|+|||++++.|...
T Consensus        25 ~~vll~G~~GtGKt~lA~~i~~~   47 (145)
T 3n70_A           25 IAVWLYGAPGTGRMTGARYLHQF   47 (145)
T ss_dssp             SCEEEESSTTSSHHHHHHHHHHS
T ss_pred             CCEEEECCCCCCHHHHHHHHHHh
Confidence            56999999999999999999754

>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=96.77  E-value=0.001  Score=51.84  Aligned_cols=25  Identities=24%  Similarity=0.433  Sum_probs=21.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+..|+|+|.+|+||||+++.|..
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            3446899999999999999999864

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=96.77  E-value=0.00086  Score=55.62  Aligned_cols=25  Identities=24%  Similarity=0.492  Sum_probs=21.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+..|+|+|++||||||+++.|+.
T Consensus        31 ~~~~livl~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           31 ESPTAFLLGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             SSCEEEEEECCTTSCTHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999964

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=96.76  E-value=0.00081  Score=52.19  Aligned_cols=22  Identities=27%  Similarity=0.527  Sum_probs=20.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|+|.+||||||+++.|...
T Consensus         2 ~I~i~G~~GsGKsT~~~~L~~~   23 (205)
T 2jaq_A            2 KIAIFGTVGAGKSTISAEISKK   23 (205)
T ss_dssp             EEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCccCHHHHHHHHHHh
Confidence            6899999999999999999754

>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=96.75  E-value=0.00091  Score=52.90  Aligned_cols=24  Identities=25%  Similarity=0.455  Sum_probs=21.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...|+|+|.+||||||+++.|..
T Consensus         3 ~~~~I~l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            3 ESIRMVLIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             CCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999999864

>4aby_A DNA repair protein RECN; hydrolase, double strand break repair, ATPase, nucleotide binding domain; HET: DNA; 3.00A {Deinococcus radiodurans}

Probab=96.74  E-value=0.00021  Score=62.22  Aligned_cols=40  Identities=13%  Similarity=0.067  Sum_probs=27.2

Q ss_pred             EEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391          106 AVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus       106 ~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      -+|+++++++.++......+..+.+.+..   ..++|++||.-
T Consensus       317 ~~LlLDEpt~~LD~~~~~~l~~~L~~l~~---~~~vi~itH~~  356 (415)
T 4aby_A          317 PSVVFDEVDAGIGGAAAIAVAEQLSRLAD---TRQVLVVTHLA  356 (415)
T ss_dssp             SEEEESSTTTTCCHHHHHHHHHHHHHHTT---TSEEEEECSCH
T ss_pred             CEEEEECCCCCCCHHHHHHHHHHHHHHhC---CCEEEEEeCcH
Confidence            57788889989999885555444333332   25888899963

>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=96.71  E-value=0.0097  Score=46.87  Aligned_cols=59  Identities=7%  Similarity=0.045  Sum_probs=34.8

Q ss_pred             HHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc---ccCeEEEEEeCC-CC
Q 025391           91 KEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK---IFDYMIVVFTGG-DE  149 (253)
Q Consensus        91 ~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~---~~~~~ivv~~k~-D~  149 (253)
                      ..++..+..++.+.|++|||+|.+++-....+.-+..+..++...   ...|++|+.||. |.
T Consensus       113 ~klRplWr~Yy~~TdglIfVVDSsD~~R~eak~EL~eL~~mL~ee~~L~gapLLVlANKqqDl  175 (227)
T 3l82_B          113 YSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGD  175 (227)
T ss_dssp             ----CCHHHHHHHCSEEEEEEECBTTCCCCHHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTT
T ss_pred             HHHHHHHHHHhcCCCEEEEEeccccHhHHHHHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCc
Confidence            456666777888889999999987553222333333334444322   235888999984 44

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=96.71  E-value=0.001  Score=51.08  Aligned_cols=23  Identities=26%  Similarity=0.432  Sum_probs=20.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +..|+|+|.+||||||+.+.|..
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            36899999999999999998863

>3a8t_A Adenylate isopentenyltransferase; rossmann fold protein; HET: ATP; 2.37A {Humulus lupulus}

Probab=96.71  E-value=0.0022  Score=54.24  Aligned_cols=24  Identities=33%  Similarity=0.494  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ..|+|+|++|+|||||...|+...
T Consensus        41 ~lIvI~GPTgsGKTtLa~~LA~~l   64 (339)
T 3a8t_A           41 KLLVLMGATGTGKSRLSIDLAAHF   64 (339)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTTS
T ss_pred             ceEEEECCCCCCHHHHHHHHHHHC
Confidence            479999999999999999998764

>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=96.69  E-value=0.00071  Score=57.29  Aligned_cols=24  Identities=29%  Similarity=0.418  Sum_probs=21.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ..++|+|++|+|||||++.|++..
T Consensus        52 ~~~ll~Gp~G~GKTTLa~~ia~~l   75 (334)
T 1in4_A           52 DHVLLAGPPGLGKTTLAHIIASEL   75 (334)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHHh
Confidence            468999999999999999998763

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=96.69  E-value=0.001  Score=51.09  Aligned_cols=23  Identities=22%  Similarity=0.265  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|.+|+||||+++.|...
T Consensus         2 ~~I~i~G~~GsGKsT~~~~L~~~   24 (194)
T 1nks_A            2 KIGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999653

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=96.69  E-value=0.0011  Score=51.06  Aligned_cols=23  Identities=26%  Similarity=0.520  Sum_probs=20.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         9 ~~~I~l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A            9 TNIIFVVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999864

>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=96.69  E-value=0.0066  Score=51.77  Aligned_cols=25  Identities=28%  Similarity=0.575  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|++.|+..
T Consensus       116 ~~~~vLl~GppGtGKT~la~aia~~  140 (357)
T 3d8b_A          116 PPKGILLFGPPGTGKTLIGKCIASQ  140 (357)
T ss_dssp             CCSEEEEESSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999754

>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=96.68  E-value=0.0011  Score=50.48  Aligned_cols=24  Identities=17%  Similarity=0.166  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+.|+|+|++|+|||||++.|+..
T Consensus         4 ~~~i~i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            4 MNVWQVVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHh
Confidence            368999999999999999998764

>3k9g_A PF-32 protein; ssgcid, SBRI, decode biostructures, UW, NIH, niaid, borellia burgdorferi, plasmid partition protein, iodide; 2.25A {Borrelia burgdorferi} PDB: 3k9h_A

Probab=96.68  E-value=0.0053  Score=49.91  Aligned_cols=77  Identities=17%  Similarity=0.084  Sum_probs=43.6

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      ..+++|+|||+..+         .    ........+|.+|+++.++ ..+... ..+++.+... +..  .++.+|+|+
T Consensus       144 ~yD~viiD~pp~~~---------~----~~~~~l~~aD~vivv~~~~-~~s~~~~~~~~~~l~~~-~~~--~~~~vv~N~  206 (267)
T 3k9g_A          144 KYDYIVIDTNPSLD---------V----TLKNALLCSDYVIIPMTAE-KWAVESLDLFNFFVRKL-NLF--LPIFLIITR  206 (267)
T ss_dssp             TCSEEEEEECSSCS---------H----HHHHHHTTCSEEEEEEESC-TTHHHHHHHHHHHHHTT-TCC--CCEEEEEEE
T ss_pred             CCCEEEEECcCCcc---------H----HHHHHHHHCCeEEEEeCCC-hHHHHHHHHHHHHHHHH-hcc--CCEEEEEec
Confidence            34789999988643         1    1222234468999999886 544443 3444444443 322  356788898


Q ss_pred             CCCCCCChhhHHHHHc
Q 025391          147 GDELEDNDETLEDYLG  162 (253)
Q Consensus       147 ~D~~~~~~~~~~~~~~  162 (253)
                      .+.-. ....+.+.+.
T Consensus       207 ~~~~~-~~~~~~~~l~  221 (267)
T 3k9g_A          207 FKKNR-THKTLFEILK  221 (267)
T ss_dssp             ECTTC-SCCHHHHHHT
T ss_pred             ccCcc-hHHHHHHHHh
Confidence            84332 1334445554

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=96.67  E-value=0.00088  Score=50.94  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +|+|+|++|+||||+.+.|...
T Consensus         6 ~i~i~G~~GsGKsTla~~La~~   27 (175)
T 1via_A            6 NIVFIGFMGSGKSTLARALAKD   27 (175)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            6999999999999999999653

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=96.66  E-value=0.0012  Score=51.46  Aligned_cols=23  Identities=22%  Similarity=0.333  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|.+||||||+++.|...
T Consensus         5 ~~I~i~G~~GsGKsT~~~~L~~~   27 (213)
T 2plr_A            5 VLIAFEGIDGSGKSSQATLLKDW   27 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEEcCCCCCHHHHHHHHHHH
Confidence            68999999999999999999753

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=96.66  E-value=0.001  Score=52.34  Aligned_cols=21  Identities=33%  Similarity=0.664  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +|+|+|++||||||+++.|..
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            699999999999999999853

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=96.66  E-value=0.00074  Score=55.53  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=20.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -|+|+|++|+|||||+++|++.
T Consensus        75 gvll~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           75 GVLLVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCcChHHHHHHHHHHH
Confidence            3999999999999999999875

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=96.66  E-value=0.00075  Score=54.84  Aligned_cols=24  Identities=33%  Similarity=0.594  Sum_probs=21.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...|+|+|++|+||||+++.|.+.
T Consensus        48 g~~i~l~G~~GsGKSTl~~~La~~   71 (250)
T 3nwj_A           48 GRSMYLVGMMGSGKTTVGKIMARS   71 (250)
T ss_dssp             TCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHHHh
Confidence            468999999999999999999763

>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=96.65  E-value=0.0013  Score=51.09  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=21.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +..|+|+|.+||||||+++.|...
T Consensus         4 ~~~I~l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            4 GALIVFEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHT
T ss_pred             CcEEEEEcCCCCCHHHHHHHHHHH
Confidence            368999999999999999999765

>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=96.65  E-value=0.00091  Score=57.64  Aligned_cols=25  Identities=20%  Similarity=0.324  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|++|+|||||++.|++.
T Consensus       168 ~~~~i~l~G~~GsGKSTl~~~l~~~  192 (377)
T 1svm_A          168 KKRYWLFKGPIDSGKTTLAAALLEL  192 (377)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhh
Confidence            3468999999999999999999864

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=96.63  E-value=0.0027  Score=49.89  Aligned_cols=77  Identities=17%  Similarity=0.170  Sum_probs=42.8

Q ss_pred             CeEEEEEeCCCC-CCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEe
Q 025391           68 GQVVNVIDTPGL-FDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        68 ~~~~~liDtpG~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ..+++++|||+. ...         .....+    ..+|.+|+++.++ ..+... ..+++.+... .   ..++.+|+|
T Consensus        67 ~yD~viiD~p~~~~~~---------~~~~~l----~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~-~---~~~~~vv~N  128 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDE---------DLEALA----DGCDLLVIPSTPD-ALALDALMLTIETLQKL-G---NNRFRILLT  128 (209)
T ss_dssp             GCSEEEEEEECCCSSS---------HHHHHH----HTSSEEEEEECSS-HHHHHHHHHHHHHHHHT-C---SSSEEEEEC
T ss_pred             cCCEEEEeCCCCcCcH---------HHHHHH----HHCCEEEEEecCC-chhHHHHHHHHHHHHhc-c---CCCEEEEEE
Confidence            457899999986 431         112222    3458888888765 322222 3344444442 1   235789999


Q ss_pred             CCCCCC-CChhhHHHHHc
Q 025391          146 GGDELE-DNDETLEDYLG  162 (253)
Q Consensus       146 k~D~~~-~~~~~~~~~~~  162 (253)
                      +.+.-. .....+.++++
T Consensus       129 ~~~~~~~~~~~~~~~~l~  146 (209)
T 3cwq_A          129 IIPPYPSKDGDEARQLLT  146 (209)
T ss_dssp             SBCCTTSCHHHHHHHHHH
T ss_pred             ecCCccchHHHHHHHHHH
Confidence            988753 22334445554

>3hr8_A Protein RECA; alpha and beta proteins (A/B, A+B), ATP-binding, cytoplasm, damage, DNA recombination, DNA repair, DNA-binding; 1.95A {Thermotoga maritima}

Probab=96.63  E-value=0.022  Score=48.59  Aligned_cols=25  Identities=20%  Similarity=0.359  Sum_probs=21.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...+.|+|++|+|||||+..++..
T Consensus        60 ~G~i~~I~GppGsGKSTLal~la~~   84 (356)
T 3hr8_A           60 RGRIVEIFGQESSGKTTLALHAIAE   84 (356)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3457899999999999999988754

>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=96.63  E-value=0.0014  Score=52.96  Aligned_cols=24  Identities=17%  Similarity=0.390  Sum_probs=21.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ++.+|+|+|++||||||+++.|..
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            457999999999999999999863

>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=96.62  E-value=0.0011  Score=52.12  Aligned_cols=21  Identities=38%  Similarity=0.718  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +|+|+|++||||||+++.|..
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            699999999999999999964

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=96.62  E-value=0.0011  Score=52.49  Aligned_cols=23  Identities=22%  Similarity=0.293  Sum_probs=20.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|++||||||+++.|..
T Consensus         5 ~~~I~l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A            5 PLKVMISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             SCCEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=96.61  E-value=0.0012  Score=53.60  Aligned_cols=22  Identities=23%  Similarity=0.271  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|+|++|+|||||.+.|++.
T Consensus         3 li~I~G~~GSGKSTla~~La~~   24 (253)
T 2ze6_A            3 LHLIYGPTCSGKTDMAIQIAQE   24 (253)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCcCHHHHHHHHHhc
Confidence            6899999999999999998753

>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=96.60  E-value=0.0012  Score=50.46  Aligned_cols=22  Identities=27%  Similarity=0.552  Sum_probs=20.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHh
Q 025391           19 ERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ...|+|+|.+|+||||+++.|.
T Consensus        11 ~~~i~i~G~~GsGKst~~~~l~   32 (180)
T 3iij_A           11 LPNILLTGTPGVGKTTLGKELA   32 (180)
T ss_dssp             CCCEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEeCCCCCHHHHHHHHH
Confidence            3579999999999999999987

>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=96.60  E-value=0.0014  Score=51.05  Aligned_cols=24  Identities=21%  Similarity=0.356  Sum_probs=21.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-..|+|+|.+||||||+.+.|..
T Consensus        11 ~~~iIgltG~~GSGKSTva~~L~~   34 (192)
T 2grj_A           11 HHMVIGVTGKIGTGKSTVCEILKN   34 (192)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHH
T ss_pred             cceEEEEECCCCCCHHHHHHHHHH
Confidence            347999999999999999999864

>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=96.60  E-value=0.012  Score=45.52  Aligned_cols=22  Identities=27%  Similarity=0.493  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++|.|++|+|||++++.+...
T Consensus        40 ~~ll~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           40 HLLFSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             CEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999998754

>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=96.59  E-value=0.0015  Score=51.43  Aligned_cols=23  Identities=35%  Similarity=0.521  Sum_probs=20.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+++.|..
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            36899999999999999999975

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=96.58  E-value=0.0062  Score=54.40  Aligned_cols=22  Identities=36%  Similarity=0.632  Sum_probs=20.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -|+|+|++|+|||||+++|.+.
T Consensus        66 GvLL~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           66 GVLLVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EEEEECSSSSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHH
Confidence            4999999999999999999875

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=96.57  E-value=0.001  Score=53.96  Aligned_cols=27  Identities=22%  Similarity=0.313  Sum_probs=22.7

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...+..|+|+|++||||||+++.|...
T Consensus        29 ~~~~~~i~l~G~~GsGKSTla~~L~~~   55 (253)
T 2p5t_B           29 SKQPIAILLGGQSGAGKTTIHRIKQKE   55 (253)
T ss_dssp             CSSCEEEEEESCGGGTTHHHHHHHHHH
T ss_pred             ccCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            334578999999999999999998754

>1jr3_A DNA polymerase III subunit gamma; processivity, processivity clamp, clamp loader, AAA+ ATPase, transferase; HET: DNA; 2.70A {Escherichia coli} SCOP: a.80.1.1 c.37.1.20 PDB: 1xxh_B* 3glh_B* 3glf_B* 3gli_B* 3glg_B* 1xxi_B*

Probab=96.57  E-value=0.0024  Score=54.33  Aligned_cols=23  Identities=17%  Similarity=0.342  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-++|.|++|+||||+++.++..
T Consensus        39 ~~~ll~G~~G~GKT~la~~la~~   61 (373)
T 1jr3_A           39 HAYLFSGTRGVGKTSIARLLAKG   61 (373)
T ss_dssp             SEEEEESCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            35899999999999999998654

>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=96.56  E-value=0.0018  Score=53.48  Aligned_cols=24  Identities=29%  Similarity=0.465  Sum_probs=21.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      .....|+|+|.+||||||+++.|.
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            345789999999999999999997

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=96.56  E-value=0.0014  Score=52.19  Aligned_cols=23  Identities=26%  Similarity=0.433  Sum_probs=20.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         7 ~~~I~l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A            7 LLRAVIMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             CCEEEEEECTTSSHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHH
Confidence            36899999999999999999874

>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=96.55  E-value=0.0012  Score=52.80  Aligned_cols=25  Identities=12%  Similarity=0.161  Sum_probs=22.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-.++|+|++|+|||||+..|++.
T Consensus        23 ~G~~~~i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           23 TGSITEMFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCcHHHHHHHHHHH
Confidence            3468999999999999999999984

>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=96.55  E-value=0.0021  Score=54.92  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=21.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|++.|+..
T Consensus        83 ~~~~iLL~GppGtGKT~la~ala~~  107 (355)
T 2qp9_X           83 PTSGILLYGPPGTGKSYLAKAVATE  107 (355)
T ss_dssp             CCCCEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCcHHHHHHHHHHH
Confidence            3456999999999999999999864

>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=96.54  E-value=0.0016  Score=51.01  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +..|+|+|.+||||||+++.|..
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            36899999999999999999974

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=96.53  E-value=0.0015  Score=50.47  Aligned_cols=22  Identities=18%  Similarity=0.576  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|.+|+||||+.+.|..
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            6899999999999999999864

>3kjh_A CO dehydrogenase/acetyl-COA synthase complex, accessory protein COOC; Zn-bound dimer, nickel binding protein, ATPase; 1.90A {Carboxydothermus hydrogenoformans} PDB: 3kjg_A* 3kje_A 3kji_A*

Probab=96.51  E-value=0.0011  Score=53.15  Aligned_cols=65  Identities=11%  Similarity=0.005  Sum_probs=36.3

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEe
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFT  145 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~  145 (253)
                      ...+++|+|||+..+...             ......+|.+|+++.++ ..+... ..+.+.+ ..++.   ..+.+|+|
T Consensus       130 ~~yD~viiD~pp~~~~~~-------------~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~-~~~~~---~~~~~v~N  191 (254)
T 3kjh_A          130 DKKEAVVMDMGAGIEHLT-------------RGTAKAVDMMIAVIEPN-LNSIKTGLNIEKLA-GDLGI---KKVRYVIN  191 (254)
T ss_dssp             TCCSEEEEEECTTCTTCC-------------HHHHTTCSEEEEEECSS-HHHHHHHHHHHHHH-HHHTC---SCEEEEEE
T ss_pred             CCCCEEEEeCCCcccHHH-------------HHHHHHCCEEEEecCCC-HHHHHHHHHHHHHH-HHcCC---ccEEEEEe
Confidence            345788999977553211             11224558899988765 333333 2222322 22332   45789999


Q ss_pred             CCCC
Q 025391          146 GGDE  149 (253)
Q Consensus       146 k~D~  149 (253)
                      +.+.
T Consensus       192 ~~~~  195 (254)
T 3kjh_A          192 KVRN  195 (254)
T ss_dssp             EECC
T ss_pred             CCCC
Confidence            9883

>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=96.48  E-value=0.0057  Score=51.34  Aligned_cols=25  Identities=24%  Similarity=0.399  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|+++|+..
T Consensus        50 ~~~~vLl~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           50 PTSGILLYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             CCCEEEEECSSSSCHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcHHHHHHHHHHH
Confidence            4468999999999999999999754

>3qks_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATPase, exonuclease, endonucle binding, DNA binding; HET: DNA; 2.10A {Pyrococcus furiosus} PDB: 3qkr_A*

Probab=96.47  E-value=0.002  Score=50.54  Aligned_cols=21  Identities=33%  Similarity=0.615  Sum_probs=18.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      .-.+|+|+||+||||++.+|.
T Consensus        24 ~~~~I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           24 GINLIIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEEcCCCCCHHHHHHHHH
Confidence            467899999999999999874

>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=96.47  E-value=0.0023  Score=49.07  Aligned_cols=22  Identities=27%  Similarity=0.528  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|.+|+||||+++.|..
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            6899999999999999999864

>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=96.47  E-value=0.0014  Score=50.14  Aligned_cols=22  Identities=41%  Similarity=0.626  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+|+|+|.+|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            3 PKAVLVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999854

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=96.45  E-value=0.0018  Score=48.64  Aligned_cols=21  Identities=29%  Similarity=0.450  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +|+|+|.+||||||+.+.|..
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            699999999999999999864

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=96.44  E-value=0.002  Score=51.58  Aligned_cols=24  Identities=21%  Similarity=0.292  Sum_probs=21.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...|+|+|++|+||||+++.|.+
T Consensus        15 ~~~~i~i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           15 KTIQIAIDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             CCCEEEEECSSCSSHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999999875

>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=96.44  E-value=0.0021  Score=50.50  Aligned_cols=25  Identities=24%  Similarity=0.271  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+|.+|+||||+++.|.+.
T Consensus        24 ~~~~i~~~G~~GsGKsT~~~~l~~~   48 (211)
T 1m7g_A           24 RGLTIWLTGLSASGKSTLAVELEHQ   48 (211)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999764

>2zan_A Vacuolar protein sorting-associating protein 4B; SKD1, VPS4B, AAA ATPase, ATP-binding, coiled coil, membrane, nucleotide-binding, phosphorylation; HET: ATP; 3.00A {Mus musculus} PDB: 2zam_A* 2zao_A* 2jqh_A 2jqk_A 1wr0_A 2jq9_A 2k3w_A 1yxr_A

Probab=96.44  E-value=0.0056  Score=53.91  Aligned_cols=25  Identities=28%  Similarity=0.424  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|+++|+..
T Consensus       166 ~~~~vLL~GppGtGKT~lA~aia~~  190 (444)
T 2zan_A          166 PWRGILLFGPPGTGKSYLAKAVATE  190 (444)
T ss_dssp             CCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999865

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=96.40  E-value=0.016  Score=49.26  Aligned_cols=25  Identities=36%  Similarity=0.543  Sum_probs=21.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....++|.|++|+|||||++.+...
T Consensus        43 ~~~~vll~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           43 KPSNALLYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             CCCCEEECBCTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEECCCCCCHHHHHHHHHHH
Confidence            3467999999999999999999754

>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=96.39  E-value=0.0022  Score=51.92  Aligned_cols=24  Identities=25%  Similarity=0.279  Sum_probs=21.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ....|+|.|.+||||||+.+.|..
T Consensus        21 ~~~iI~I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           21 EPFLIGVSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHH
Confidence            447899999999999999999865

>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=96.39  E-value=0.0021  Score=51.60  Aligned_cols=23  Identities=26%  Similarity=0.416  Sum_probs=20.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|++|+||||+++.|..
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            36899999999999999999973

>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A {Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20 c.37.1.20

Probab=96.37  E-value=0.0038  Score=59.51  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|+|++|+||||+++.|+..
T Consensus       192 ~~vlL~G~pG~GKT~la~~la~~  214 (854)
T 1qvr_A          192 NNPVLIGEPGVGKTAIVEGLAQR  214 (854)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHHH
T ss_pred             CceEEEcCCCCCHHHHHHHHHHH
Confidence            46899999999999999999865

>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=96.37  E-value=0.0023  Score=52.09  Aligned_cols=23  Identities=26%  Similarity=0.384  Sum_probs=20.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+++.|..
T Consensus         4 ~~lIvl~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            4 IMLIILTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHH
T ss_pred             CEEEEEEcCCCCCHHHHHHHHHH
Confidence            36899999999999999999864

>3cr8_A Sulfate adenylyltranferase, adenylylsulfate kinase; APS kinase, transferase, sulfate metabolism, nucleotide 2 kinase; 2.95A {Thiobacillus denitrificans}

Probab=96.37  E-value=0.001  Score=60.22  Aligned_cols=26  Identities=31%  Similarity=0.424  Sum_probs=23.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...|+|+|.+|||||||++.|++..
T Consensus       368 ~G~iI~LiG~sGSGKSTLar~La~~L  393 (552)
T 3cr8_A          368 QGFTVFFTGLSGAGKSTLARALAARL  393 (552)
T ss_dssp             SCEEEEEEESSCHHHHHHHHHHHHHH
T ss_pred             cceEEEEECCCCChHHHHHHHHHHhh
Confidence            45789999999999999999998864

>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=96.36  E-value=0.002  Score=50.71  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=19.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +|+|+|.+||||||+++.|..
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            699999999999999999854

>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=96.35  E-value=0.0019  Score=48.76  Aligned_cols=22  Identities=23%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|.+|+||||+.+.|..
T Consensus         3 ~~I~l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            3 EPIFMVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             ceEEEECCCCCCHHHHHHHHHH
Confidence            4699999999999999999864

>2o5v_A DNA replication and repair protein RECF; ABC ATPase, walker A motif, P-loop, signature motif, replication/recombination complex; HET: DNA; 1.61A {Deinococcus radiodurans}

Probab=96.35  E-value=0.0017  Score=55.65  Aligned_cols=21  Identities=19%  Similarity=0.229  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+|+|+||+||||++++|.+
T Consensus        28 ~~~i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           28 VTGIYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EEEEECCTTSSHHHHHHHHHH
T ss_pred             eEEEECCCCCChhHHHHHHHH
Confidence            789999999999999999875

>3qkt_A DNA double-strand break repair RAD50 ATPase; RECA-like fold, coiled-coils, ATP binding, DNA bindi MRE11, replication; HET: DNA ANP; 1.90A {Pyrococcus furiosus} PDB: 3qku_A* 1ii8_A 3qks_B* 3qkr_B* 1ii8_B

Probab=96.34  E-value=0.0024  Score=54.20  Aligned_cols=21  Identities=33%  Similarity=0.615  Sum_probs=18.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ...+|+|+||+||||++.+|+
T Consensus        24 ~~~~i~G~NGsGKS~lleAi~   44 (339)
T 3qkt_A           24 GINLIIGQNGSGKSSLLDAIL   44 (339)
T ss_dssp             EEEEEECCTTSSHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHH
Confidence            456899999999999999874

>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=96.34  E-value=0.00084  Score=52.61  Aligned_cols=22  Identities=23%  Similarity=0.410  Sum_probs=19.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|+|.+||||||+++.|...
T Consensus         2 ~I~i~G~~GsGKsTl~~~L~~~   23 (214)
T 1gtv_A            2 LIAIEGVDGAGKRTLVEKLSGA   23 (214)
T ss_dssp             EEEEEEEEEEEHHHHHHHHHHH
T ss_pred             EEEEEcCCCCCHHHHHHHHHHH
Confidence            5899999999999999999754

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=96.34  E-value=0.0022  Score=49.25  Aligned_cols=21  Identities=19%  Similarity=0.461  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .|+|.|.+||||||+++.|..
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            589999999999999999964

>1w1w_A Structural maintenance of chromosome 1; cohesin, chromosome segregation, cell adhesion, kleisin, MIT cell cycle; HET: ATG; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.12

Probab=96.34  E-value=0.0018  Score=56.80  Aligned_cols=26  Identities=23%  Similarity=0.268  Sum_probs=22.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA   44 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~   44 (253)
                      ...++|+|+||+|||||+++|.+...
T Consensus        26 ~~~~~i~G~nG~GKstll~ai~~~~~   51 (430)
T 1w1w_A           26 SNFTSIIGPNGSGKSNMMDAISFVLG   51 (430)
T ss_dssp             CSEEEEECSTTSSHHHHHHHHHHHTT
T ss_pred             CCEEEEECCCCCCHHHHHHHHHhhhc
Confidence            35789999999999999999987543

>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=96.34  E-value=0.0017  Score=53.34  Aligned_cols=24  Identities=25%  Similarity=0.255  Sum_probs=21.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.-.++|+|++|+|||||+..|++
T Consensus        29 ~G~i~~i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           29 AGTVGALVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEcCCCCCHHHHHHHHHH
Confidence            456899999999999999999886

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=96.33  E-value=0.0016  Score=49.63  Aligned_cols=23  Identities=22%  Similarity=0.349  Sum_probs=16.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ...|+|+|.+||||||+.+.|..
T Consensus         5 ~~~I~l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A            5 SPIIWINGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             CCEEEEECCC----CHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHH
Confidence            35799999999999999999864

>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=96.33  E-value=0.0026  Score=50.78  Aligned_cols=25  Identities=24%  Similarity=0.367  Sum_probs=21.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .....|+|+|.+|+||||+++.|..
T Consensus        14 ~~~~~I~l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           14 PKGVRAVLLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             CCCCEEEEECCTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3446899999999999999999864

>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=96.28  E-value=0.003  Score=50.49  Aligned_cols=25  Identities=24%  Similarity=0.375  Sum_probs=22.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....|+|.|++||||||+++.|...
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            4578999999999999999999765

>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=96.23  E-value=0.0027  Score=49.96  Aligned_cols=22  Identities=23%  Similarity=0.505  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +|+|+|++||||+|....|+..
T Consensus         2 ~Iil~GpPGsGKgTqa~~La~~   23 (206)
T 3sr0_A            2 ILVFLGPPGAGKGTQAKRLAKE   23 (206)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            6899999999999999998754

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=96.23  E-value=0.0024  Score=50.44  Aligned_cols=22  Identities=27%  Similarity=0.522  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|.+||||||+++.|..
T Consensus         6 ~~I~l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A            6 HNLILIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            6899999999999999999854

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=96.23  E-value=0.0027  Score=50.39  Aligned_cols=21  Identities=29%  Similarity=0.670  Sum_probs=19.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .|+|+|.+||||||+++.|..
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            689999999999999999863

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=96.22  E-value=0.0033  Score=47.70  Aligned_cols=24  Identities=33%  Similarity=0.537  Sum_probs=20.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...++|.|++|+|||++++.++..
T Consensus        43 ~~~~ll~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           43 KNNPVLIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCceEEECCCCCCHHHHHHHHHHH
Confidence            356899999999999999998754

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=96.21  E-value=0.003  Score=47.54  Aligned_cols=23  Identities=30%  Similarity=0.421  Sum_probs=20.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      -..|+|+|.+||||||+.+.|..
T Consensus         7 ~~~i~l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A            7 MQHLVLIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             -CEEEEESCTTSSHHHHHHHHHH
T ss_pred             cceEEEECCCCCCHHHHHHHHHH
Confidence            46899999999999999999854

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.18  E-value=0.0018  Score=54.57  Aligned_cols=20  Identities=35%  Similarity=0.531  Sum_probs=19.0

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ..+|+|+||+|||||+.+|.
T Consensus        26 ~~~i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           26 VTAIVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             EEEEECCTTTCSTHHHHHHH
T ss_pred             cEEEECCCCCcHHHHHHHHH
Confidence            78899999999999999997

>3hu3_A Transitional endoplasmic reticulum ATPase; VCP, transport protein; HET: AGS; 2.20A {Homo sapiens} PDB: 3hu2_A* 3hu1_A* 1e32_A* 1s3s_A*

Probab=96.17  E-value=0.012  Score=52.39  Aligned_cols=25  Identities=24%  Similarity=0.485  Sum_probs=21.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+++++|...
T Consensus       237 ~~~~vLL~GppGtGKT~lAraia~~  261 (489)
T 3hu3_A          237 PPRGILLYGPPGTGKTLIARAVANE  261 (489)
T ss_dssp             CCCEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCcEEEECcCCCCHHHHHHHHHHH
Confidence            3457999999999999999999754

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=96.16  E-value=0.0046  Score=49.05  Aligned_cols=23  Identities=17%  Similarity=0.563  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|++||||+|....|+..
T Consensus        30 kiI~llGpPGsGKgTqa~~L~~~   52 (217)
T 3umf_A           30 KVIFVLGGPGSGKGTQCEKLVQK   52 (217)
T ss_dssp             EEEEEECCTTCCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHHHH
Confidence            46778999999999999998754

>1r6b_X CLPA protein; AAA+, N-terminal domain, CLPS, crystal, binding mechanism, hydrolase; HET: ADP; 2.25A {Escherichia coli} SCOP: a.174.1.1 c.37.1.20 c.37.1.20 PDB: 1ksf_X*

Probab=96.13  E-value=0.0064  Score=57.12  Aligned_cols=25  Identities=32%  Similarity=0.514  Sum_probs=21.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....++|+|++|+|||++++.|...
T Consensus       206 ~~~~vlL~G~~GtGKT~la~~la~~  230 (758)
T 1r6b_X          206 RKNNPLLVGESGVGKTAIAEGLAWR  230 (758)
T ss_dssp             SSCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCeEEEcCCCCCHHHHHHHHHHH
Confidence            3467999999999999999998764

>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=96.11  E-value=0.0028  Score=54.04  Aligned_cols=26  Identities=15%  Similarity=0.249  Sum_probs=22.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +...++|+|++|+|||||++.|++..
T Consensus       130 ~G~i~~I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          130 TQAITEVFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHHHT
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            44689999999999999999998864

>3eph_A TRNA isopentenyltransferase; transferase, alternative initiation, ATP-binding, cytoplasm, mitochondrion, nucleotide-binding, nucleus; 2.95A {Saccharomyces cerevisiae} PDB: 3epj_A 3epk_A* 3epl_A*

Probab=96.09  E-value=0.0043  Score=53.69  Aligned_cols=24  Identities=29%  Similarity=0.531  Sum_probs=20.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...|+|+|++|+|||||...|+..
T Consensus         2 ~~~i~i~GptgsGKttla~~La~~   25 (409)
T 3eph_A            2 KKVIVIAGTTGVGKSQLSIQLAQK   25 (409)
T ss_dssp             CEEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CcEEEEECcchhhHHHHHHHHHHH
Confidence            367899999999999999998643

>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP; 2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB: 3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A* 3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*

Probab=96.07  E-value=0.0026  Score=57.24  Aligned_cols=25  Identities=24%  Similarity=0.331  Sum_probs=21.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHH--HhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNS--ILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~--l~g~   42 (253)
                      +.-.++|+|+||+|||||++.  +.|.
T Consensus        38 ~Ge~~~l~G~nGsGKSTL~~~~ll~Gl   64 (525)
T 1tf7_A           38 IGRSTLVSGTSGTGKTLFSIQFLYNGI   64 (525)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHHHH
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHHHH
Confidence            346899999999999999999  4554

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.06  E-value=0.025  Score=47.44  Aligned_cols=25  Identities=8%  Similarity=0.124  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....+.|.|++|+|||++++.++..
T Consensus        44 ~~~~lli~GpPGTGKT~~v~~v~~~   68 (318)
T 3te6_A           44 QNKLFYITNADDSTKFQLVNDVMDE   68 (318)
T ss_dssp             CCCEEEEECCCSHHHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            4468999999999999999999765

>3cf2_A TER ATPase, transitional endoplasmic reticulum ATPase, valosi; AAA, CDC48, ERAD, transport protein; HET: ADP ANP; 3.50A {Mus musculus} PDB: 3cf1_A* 3cf3_A* 1r7r_A*

Probab=96.06  E-value=0.011  Score=55.84  Aligned_cols=27  Identities=22%  Similarity=0.372  Sum_probs=23.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      .+...|+|.|++|+|||.++++|++..
T Consensus       509 ~~~~gvLl~GPPGtGKT~lAkaiA~e~  535 (806)
T 3cf2_A          509 TPSKGVLFYGPPGCGKTLLAKAIANEC  535 (806)
T ss_dssp             CCCSCCEEESSTTSSHHHHHHHHHHTT
T ss_pred             CCCceEEEecCCCCCchHHHHHHHHHh
Confidence            344679999999999999999998763

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=96.04  E-value=0.0055  Score=50.80  Aligned_cols=25  Identities=20%  Similarity=0.391  Sum_probs=21.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...++|+|++|+|||++++.|.+.
T Consensus        46 ~~~~~ll~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           46 PIGSFLFLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             CSEEEEEESCSSSSHHHHHHHHHHH
T ss_pred             CceEEEEECCCCcCHHHHHHHHHHH
Confidence            3457999999999999999999865

>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=96.01  E-value=0.0044  Score=49.02  Aligned_cols=25  Identities=20%  Similarity=0.336  Sum_probs=21.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....++|.|++|+|||||++.|...
T Consensus        51 ~~~~~ll~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           51 GVQAIYLWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             SCSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999998754

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=96.01  E-value=0.0042  Score=48.17  Aligned_cols=23  Identities=26%  Similarity=0.301  Sum_probs=20.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|.|++|+|||+|+..|...
T Consensus        55 ~~~~l~G~~GtGKT~la~~i~~~   77 (202)
T 2w58_A           55 KGLYLHGSFGVGKTYLLAAIANE   77 (202)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999998764

>3pvs_A Replication-associated recombination protein A; maintenance of genome stability Pro recombination; 2.50A {Escherichia coli}

Probab=95.99  E-value=0.043  Score=48.25  Aligned_cols=23  Identities=26%  Similarity=0.466  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|.|++|+|||||++.|...
T Consensus        51 ~~vLL~GppGtGKTtlAr~ia~~   73 (447)
T 3pvs_A           51 HSMILWGPPGTGKTTLAEVIARY   73 (447)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            47999999999999999999865

>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=95.99  E-value=0.0041  Score=48.27  Aligned_cols=21  Identities=24%  Similarity=0.436  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .|+|.|++|+||||+.+.|..
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            799999999999999999865

>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=95.96  E-value=0.0055  Score=51.17  Aligned_cols=24  Identities=25%  Similarity=0.398  Sum_probs=20.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...|+|+|++|+|||||...|+..
T Consensus        10 ~~~i~i~GptgsGKt~la~~La~~   33 (316)
T 3foz_A           10 PKAIFLMGPTASGKTALAIELRKI   33 (316)
T ss_dssp             CEEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CcEEEEECCCccCHHHHHHHHHHh
Confidence            357899999999999999999754

---

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	253
d1h65a_	257	c.37.1.8 (A:) Chloroplast protein translocon GTPas	5e-25
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	3e-12
d1lnza2	185	c.37.1.8 (A:158-342) Obg GTP-binding protein middl	4e-06
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	5e-06
d2cxxa1	184	c.37.1.8 (A:2-185) GTP-binding protein engB {Pyroc	7e-05
d2c78a3	204	c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N	0.002
d1t9ha2	231	c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C	0.004

>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 = 97.6 bits (242), Expect = 5e-25
 Identities = 36/161 (22%), Positives = 65/161 (40%), Gaps = 5/161 (3%)

Query: 11  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQV 70
            L        T++++G+ G GKS+T NSI+G R        S       + R+    G  
Sbjct: 24  NLKQEDVNSLTILVMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSR--AGFT 81

Query: 71  VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSV-RSRFSQEEEAALHSLQ 129
           +N+IDTPGL +    ++     I     +    I  +L V  +   R    ++    ++ 
Sbjct: 82  LNIIDTPGLIEGGYINDMALNIIKSF--LLDKTIDVLLYVDRLDAYRVDNLDKLVAKAIT 139

Query: 130 TLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGRECPKPLK 170
             FGK I++  IV  T       +    +++  +     L+
Sbjct: 140 DSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSKRSEALLQ 180

>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 = 63.2 bits (153), Expect = 3e-12
 Identities = 30/213 (14%), Positives = 66/213 (30%), Gaps = 26/213 (12%)

Query: 11  ELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTC-EMQRTVLKDGQ 69
            L    +    V + G TG+GKS+  N++ G    +  A+ +GV     E       +  
Sbjct: 48  ALKEIDSSVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIP 107

Query: 70  VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQ 129
            V   D PG+   +   +   +++                +    +RF + +     ++ 
Sbjct: 108 NVVFWDLPGIGSTNFPPDTYLEKMKFY--------EYDFFIIISATRFKKNDIDIAKAIS 159

Query: 130 TLFGKKIFDYMIVVFTGGDELEDND----------ETLEDYLGRECPKPLKKGATKLRDQ 179
               K+       V T  D    N+          E +   +   C    ++    + + 
Sbjct: 160 M-MKKEF----YFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRE--NGIAEP 212

Query: 180 QFEVDSLKGYSKREISELKEQMHKSYEDQLKRI 212
              + S K     +   L +++        +  
Sbjct: 213 PIFLLSNKNVCHYDFPVLMDKLISDLPIYKRHN 245

>d1lnza2 c.37.1.8 (A:158-342) Obg GTP-binding protein middle domain {Bacillus subtilis [TaxId: 1423]} 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: Obg GTP-binding protein middle domain
species: Bacillus subtilis [TaxId: 1423]

 Score = 43.8 bits (102), Expect = 4e-06
 Identities = 27/187 (14%), Positives = 65/187 (34%), Gaps = 16/187 (8%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
            V LVG    GKS   + +   +     A     T    +      DG+   + D PGL 
Sbjct: 3   DVGLVGFPSVGKSTLLSVVSSAKP--KIADYHFTTLVPNLGMVETDDGRSFVMADLPGLI 60

Query: 81  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYM 140
           + +     +G + ++ I      I  V+ +  +  R   ++   ++   + +  ++ +  
Sbjct: 61  EGAHQGVGLGHQFLRHIERT-RVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERP 119

Query: 141 IVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQ 200
            ++     ++ +  E LE +  +                 F + ++       + EL  +
Sbjct: 120 QIIVANKMDMPEAAENLEAFKEKLTDD----------YPVFPISAVTR---EGLRELLFE 166

Query: 201 MHKSYED 207
           +    E+
Sbjct: 167 VANQLEN 173

>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 = 43.5 bits (101), Expect = 5e-06
 Identities = 29/182 (15%), Positives = 57/182 (31%), Gaps = 20/182 (10%)

Query: 22  VVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD 81
           V LVG    GKS+   ++         A     T +  +    + + +   + D PG+ +
Sbjct: 4   VGLVGYPNAGKSSLLAAMTRAHP--KIAPYPFTTLSPNLGVVEVSEEERFTLADIPGIIE 61

Query: 82  FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMI 141
            ++  + +G E ++ I   +  ++ +              +        L  +     + 
Sbjct: 62  GASEGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALN 121

Query: 142 VVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISELKEQM 201
            V               D L  E  K L     +       V +L G     +  LKE +
Sbjct: 122 KV---------------DLLEEEAVKALADALAREGLAVLPVSALTGAG---LPALKEAL 163

Query: 202 HK 203
           H 
Sbjct: 164 HA 165

>d2cxxa1 c.37.1.8 (A:2-185) GTP-binding protein engB {Pyrococcus horikoshii [TaxId: 53953]} 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: GTP-binding protein engB
species: Pyrococcus horikoshii [TaxId: 53953]

 Score = 40.5 bits (93), Expect = 7e-05
 Identities = 19/191 (9%), Positives = 58/191 (30%), Gaps = 11/191 (5%)

Query: 21  TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLF 80
           T++  GR+  GKS     + G++  + +             +                  
Sbjct: 2   TIIFAGRSNVGKSTLIYRLTGKKVRRGKRPGVTRKIIEIEWKNHKIIDMPGFGFMMGLPK 61

Query: 81  DFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDY- 139
           +     +      ++      D    V+   +      + E+     +   F + + +  
Sbjct: 62  EVQERIKDEIVHFIEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELD 121

Query: 140 --MIVVFTGGDELEDNDETLEDYLGRECPKPLKKGATKLRDQQFEVDSLKGYSKREISEL 197
              IV     D++++  E +     +      +   +++      + +  G +   I  L
Sbjct: 122 IPTIVAVNKLDKIKNVQEVINFLAEK-----FEVPLSEIDKVFIPISAKFGDN---IERL 173

Query: 198 KEQMHKSYEDQ 208
           K ++ +   ++
Sbjct: 174 KNRIFEVIRER 184

>d2c78a3 c.37.1.8 (A:9-212) Elongation factor Tu (EF-Tu), N-terminal (G) domain {Thermus thermophilus [TaxId: 274]} Length = 204

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]

 Score = 36.1 bits (83), Expect = 0.002
 Identities = 29/151 (19%), Positives = 48/151 (31%), Gaps = 30/151 (19%)

Query: 22  VVLVGRTGNGKSATGNSIL---GRRAFKSRASSSGVTSTCEMQR-----------TVLKD 67
           V  +G   +GK+    ++                G       +R                
Sbjct: 6   VGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETA 65

Query: 68  GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHS 127
            +  + +D PG  D+        K ++       DG  A+LVV +      Q  E  L +
Sbjct: 66  KRHYSHVDCPGHADYI-------KNMITGAAQM-DG--AILVVSAADGPMPQTREHILLA 115

Query: 128 LQTLFGKKIFDYMIVVFTGGDELEDNDETLE 158
            Q   G       IVVF    ++ D+ E L+
Sbjct: 116 RQ--VGVP----YIVVFMNKVDMVDDPELLD 140

>d1t9ha2 c.37.1.8 (A:68-298) Probable GTPase EngC (YjeQ), C-terminal domain {Bacillus subtilis [TaxId: 1423]} Length = 231

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]

 Score = 35.1 bits (80), Expect = 0.004
 Identities = 20/77 (25%), Positives = 30/77 (38%), Gaps = 7/77 (9%)

Query: 7   DDDWELTSPSNGERTVVLVGRTGNGKSATGNSILGRRAFK----SRASSSGVTSTCEMQR 62
            D      P   ++T V  G++G GKS+  N+I      +    S     G  +T  ++ 
Sbjct: 85  QDSLADIIPHFQDKTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVEL 144

Query: 63  TVLKDGQVVNVIDTPGL 79
                G    V DTPG 
Sbjct: 145 IHTSGGL---VADTPGF 158

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	253
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.89
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.81
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.72
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.69
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.69
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.67
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.67
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.66
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.66
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.66
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.64
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.64
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.64
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.64
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.63
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.63
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.63
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.62
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.62
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.62
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.61
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.61
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.61
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.6
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.6
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.6
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.6
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.59
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.59
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.58
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.57
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.57
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.57
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.56
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.56
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.56
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.56
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.55
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.55
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.54
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.54
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.54
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.54
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.53
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.53
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.53
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.5
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.5
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.5
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.48
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.48
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.46
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.45
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.44
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.43
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.41
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.4
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.39
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.38
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.38
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.36
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	99.35
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.31
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.31
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.26
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.22
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.19
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.15
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.11
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.1
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.04
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.0
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	98.96
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.95
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	98.9
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.89
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.83
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.82
d1okkd2	207	GTPase domain of the signal recognition particle r	98.79
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	98.76
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.72
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.7
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.7
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.7
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	98.66
d1g2912	240	Maltose transport protein MalK, N-terminal domain	98.63
d2awna2	232	Maltose transport protein MalK, N-terminal domain	98.62
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	98.6
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	98.59
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	98.59
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	98.57
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	98.57
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	98.54
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	98.53
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	98.52
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	98.49
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	98.47
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.43
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	98.43
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	98.42
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	98.42
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	98.4
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	98.4
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	98.38
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	98.33
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	98.31
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	97.89
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.66
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	97.64
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	97.62
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.6
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	97.59
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	97.51
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.5
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	97.47
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.41
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.41
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	97.38
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	97.38
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	97.36
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	97.33
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	97.32
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	97.31
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.31
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	97.3
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	97.29
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	97.24
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	97.22
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	97.21
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	97.21
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	97.21
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	97.2
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	97.19
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	97.18
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.15
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	97.11
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	97.11
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	97.1
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	97.1
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	97.09
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	97.09
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	97.08
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	97.05
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	97.03
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	97.01
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.99
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.99
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.99
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	96.96
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	96.95
d1ewqa2	224	DNA repair protein MutS, the C-terminal domain {Th	96.94
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.93
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.93
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.92
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.88
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	96.88
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.83
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	96.82
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.81
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.73
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	96.67
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	96.65
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	96.63
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	96.57
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	96.57
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	96.5
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.49
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	96.44
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	96.44
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	96.44
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	96.44
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	96.43
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	96.42
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	96.4
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	96.37
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.36
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	96.35
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	96.27
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	96.25
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	96.19
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	96.01
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	95.97
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.96
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	95.93
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	95.92
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	95.88
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	95.86
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	95.78
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	95.78
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.74
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	95.71
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	95.68
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.64
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	95.62
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.52
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	95.43
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.37
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	95.29
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	95.26
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	95.22
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	95.19
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	95.13
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	95.11
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	95.09
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	95.07
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	94.92
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.84
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	94.78
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.7
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.64
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	94.63
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	94.59
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	94.54
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	94.45
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	93.79
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.62
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	93.59
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.43
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	93.32
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	93.18
d2gnoa2	198	gamma subunit of DNA polymerase III, N-domain {The	93.13
d1xpua3	289	Transcription termination factor Rho, ATPase domai	93.11
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.9
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	92.85
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.83
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	92.72
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	92.7
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.45
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	92.37
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	92.35
d1tuea_	205	Replication protein E1 helicase domain {Human papi	92.34
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	92.31
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	92.27
d1ihua1	296	Arsenite-translocating ATPase ArsA {Escherichia co	91.86
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	91.84
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	91.83
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	91.65
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	91.03
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.71
d1ihua2	279	Arsenite-translocating ATPase ArsA {Escherichia co	89.42
d2jdid3	276	Central domain of beta subunit of F1 ATP synthase	89.19
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	89.18
d1byia_	224	Dethiobiotin synthetase {Escherichia coli [TaxId:	88.95
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	88.78
d1ny5a2	247	Transcriptional activator sigm54 (NtrC1), C-termin	88.53
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	85.97
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	84.65
d1yksa1	140	YFV helicase domain {Yellow fever virus [TaxId: 11	84.58
d2jdia3	285	Central domain of alpha subunit of F1 ATP synthase	84.1
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	84.01
d1wp9a1	200	putative ATP-dependent RNA helicase PF2015 {Pyroco	83.79
d1fx0a3	276	Central domain of alpha subunit of F1 ATP synthase	80.53
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	80.3

>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=99.89  E-value=7.2e-23  Score=167.38  Aligned_cols=143  Identities=23%  Similarity=0.341  Sum_probs=113.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ...++|+|+|.+|+|||||+|+|+|...+..+.. .+.|..+..+... ..+..+.||||||+.++....+.....+..+
T Consensus        30 ~~~l~I~LvG~tg~GKSSliN~ilg~~~~~vs~~-~~~T~~~~~~~~~-~~g~~i~viDTPGl~~~~~~~~~~~~~i~~~  107 (257)
T d1h65a_          30 VNSLTILVMGKGGVGKSSTVNSIIGERVVSISPF-QSEGPRPVMVSRS-RAGFTLNIIDTPGLIEGGYINDMALNIIKSF  107 (257)
T ss_dssp             CCEEEEEEEESTTSSHHHHHHHHHTSCCSCCCSS-SCCCSSCEEEEEE-ETTEEEEEEECCCSEETTEECHHHHHHHHHH
T ss_pred             CCCcEEEEECCCCCcHHHHHHHHhCCCceeecCC-CCcceeEEEEEEE-eccEEEEEEeeecccCCcchHHHHHHHHHHH
Confidence            3458999999999999999999999998766533 3556556555544 5889999999999988765555544444433


Q ss_pred             HHhhcCCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHHcc
Q 025391           97 IGMAKDGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYLGR  163 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~~~  163 (253)
                      .  ...++|+++||++++. +++..+...++.+.+.||..++++++||+||+|.+.+++..+++|+..
T Consensus       108 ~--~~~~~~~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~~e~~~~~  173 (257)
T d1h65a_         108 L--LDKTIDVLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLPYDEFFSK  173 (257)
T ss_dssp             T--TTCEECEEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCCHHHHHHH
T ss_pred             H--hcCCCCeEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCcHHHHHHh
Confidence            3  3357899999998754 799999999999999999999999999999999997666677777763

>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=99.81  E-value=3.1e-19  Score=137.56  Aligned_cols=124  Identities=22%  Similarity=0.216  Sum_probs=90.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|+|.+|+|||||+|+|+|........ ..+.|....... ....+..+.++||||+........   ..+......
T Consensus         6 ~~I~lvG~~~~GKSSLin~l~~~~~~~~~~-~~~tt~~~~~~~-~~~~~~~~~~~DtpG~~~~~~~~~---~~~~~~~~~   80 (178)
T d1wf3a1           6 GFVAIVGKPNVGKSTLLNNLLGVKVAPISP-RPQTTRKRLRGI-LTEGRRQIVFVDTPGLHKPMDALG---EFMDQEVYE   80 (178)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHTSCCSCCCS-SSCCCCSCEEEE-EEETTEEEEEEECCCCCCCCSHHH---HHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeecc-cCCcccccccce-eeeeeeeeeecccccccccccccc---hhccccccc
Confidence            579999999999999999999987533322 223343333333 335788999999999976543222   344444555


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +...+|++|+|+|++.+++..+..++++++...+   ..|+++|+||+|...
T Consensus        81 ~~~~ad~il~v~D~~~~~~~~~~~i~~~l~~~~~---~~piilv~NK~Dl~~  129 (178)
T d1wf3a1          81 ALADVNAVVWVVDLRHPPTPEDELVARALKPLVG---KVPILLVGNKLDAAK  129 (178)
T ss_dssp             HTSSCSEEEEEEETTSCCCHHHHHHHHHHGGGTT---TSCEEEEEECGGGCS
T ss_pred             ccccccceeeeechhhhhcccccchhhheecccc---chhhhhhhccccccc
Confidence            6678899999999998899888777777766533   258999999999976

>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=99.72  E-value=1.6e-17  Score=127.97  Aligned_cols=130  Identities=16%  Similarity=0.136  Sum_probs=81.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      .|+|+|.+|||||||+|+|+|.......  ..+.|............+..+.+|||||+.......+.....   .+ ..
T Consensus         3 ~VaivG~~nvGKSTLin~L~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~---~l-~~   76 (180)
T d1udxa2           3 DVGLVGYPNAGKSSLLAAMTRAHPKIAP--YPFTTLSPNLGVVEVSEEERFTLADIPGIIEGASEGKGLGLE---FL-RH   76 (180)
T ss_dssp             SEEEECCGGGCHHHHHHHHCSSCCEECC--CTTCSSCCEEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHH---HH-HH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCceec--cCCCceeeeeceeeecCCCeEEEcCCCeeecCchHHHHHHHH---HH-HH
Confidence            5999999999999999999998764332  233444444444444467789999999987533222211122   22 22


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHH
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLE  158 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~  158 (253)
                      ....++++++++..............++.........+|+++|+||+|...  ...+.
T Consensus        77 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~D~~~--~~~~~  132 (180)
T d1udxa2          77 IARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLE--EEAVK  132 (180)
T ss_dssp             HTSSSEEEEEEETTSCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSC--HHHHH
T ss_pred             HHhhhhhhhhcccccccccchhhhhhhhhccccccchhhhhhhhhhhhhhh--HHHHH
Confidence            356689999999864433333333344433222223468999999999987  54433

>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=99.69  E-value=6.5e-17  Score=123.26  Aligned_cols=152  Identities=10%  Similarity=0.027  Sum_probs=90.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      -+||++||.+|+|||||++++++...........+.+......... .....+.+|||||...           +.....
T Consensus         5 ~~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~l~~wDt~G~e~-----------~~~~~~   72 (169)
T d3raba_           5 MFKILIIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRN-DKRIKLQIWDTAGQER-----------YRTITT   72 (169)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEET-TEEEEEEEEEECCSGG-----------GHHHHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEee-cceEEEEEEECCCchh-----------hHHHHH
Confidence            3799999999999999999998765433322222323222222111 1234788999999643           234556


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      .++.++|++|+|+|+++.-+... ..+...+.....  ...|+++|.||+|.....   ......+.......+++.+..
T Consensus        73 ~~~~~ad~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak  150 (169)
T d3raba_          73 AYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSW--DNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAK  150 (169)
T ss_dssp             TTTTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCC--SCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTT
T ss_pred             HHHhcCCEEEEEEECccchhhhhhhhhhhhhhcccC--CcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCC
Confidence            67889999999999885433322 223333333322  235888999999975311   233444444333345555555


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ...++++++.
T Consensus       151 ~g~gv~e~f~  160 (169)
T d3raba_         151 DNINVKQTFE  160 (169)
T ss_dssp             TTBSHHHHHH
T ss_pred             CCcCHHHHHH
Confidence            5555555444

>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=99.69  E-value=1.6e-16  Score=119.80  Aligned_cols=126  Identities=21%  Similarity=0.177  Sum_probs=85.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +.+|+++|++|||||||+|+|+|.........+ +.+........ ...+..+.++||||+.+.....+   ........
T Consensus         1 ~~kI~lvG~~nvGKSsLin~l~~~~~~~~~~~~-~~~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~---~~~~~~~~   75 (161)
T d2gj8a1           1 GMKVVIAGRPNAGKSSLLNALAGREAAIVTDIA-GTTRDVLREHI-HIDGMPLHIIDTAGLREASDEVE---RIGIERAW   75 (161)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHTSCCSCCCSST-TCCCSCEEEEE-EETTEEEEEEECCCCSCCSSHHH---HHHHHHHH
T ss_pred             CCEEEEECCCCCCHHHHHHHHhCCCceEeeccc-ccccceEeeee-eccCceeeeccccccccccccch---hHHHHHHH
Confidence            379999999999999999999998764333222 22332222223 35788999999999987554332   22222333


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|+++++++...+........+..+......  ..|+++|+||+|...
T Consensus        76 ~~~~~~d~~i~~~d~~~~~~~~~~~~~~~~~~~~~~--~~~iilv~NK~Dl~~  126 (161)
T d2gj8a1          76 QEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPA--KLPITVVRNKADITG  126 (161)
T ss_dssp             HHHHTCSEEEEEEETTTCCCCSHHHHCHHHHHHSCT--TCCEEEEEECHHHHC
T ss_pred             HHHHhccccceeeccccccchhhhhhhhhhhhhccc--ccceeeccchhhhhh
Confidence            445678999999999877666565555544444332  358999999999764

>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=99.67  E-value=3.7e-16  Score=120.27  Aligned_cols=119  Identities=22%  Similarity=0.220  Sum_probs=80.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHH----HHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFV----GKEIVKC   96 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~----~~~~~~~   96 (253)
                      .|+|||++|||||||+|+|+|..... + ...+.|.....  .   ....+.++||||+..........    ...+..+
T Consensus         2 ~I~lvG~~nvGKSsLin~l~~~~~~~-~-~~~g~T~~~~~--~---~~~~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~   74 (184)
T d2cxxa1           2 TIIFAGRSNVGKSTLIYRLTGKKVRR-G-KRPGVTRKIIE--I---EWKNHKIIDMPGFGFMMGLPKEVQERIKDEIVHF   74 (184)
T ss_dssp             EEEEEEBTTSSHHHHHHHHHSCCCSS-S-SSTTCTTSCEE--E---EETTEEEEECCCBSCCTTSCHHHHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcee-e-CCCCEeecccc--c---ccccceecccCCceeccccccccccccchhhhhh
Confidence            69999999999999999999987532 2 22234443322  2   22346789999987655544433    3344445


Q ss_pred             HHhhcCCccEEEEEEeCCC-----------CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRS-----------RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~-----------~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +......+|++++|+|++.           .....+...++.+...     ..|+++|+||+|.+.
T Consensus        75 ~~~~~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~~-----~~p~iiv~NK~D~~~  135 (184)
T d2cxxa1          75 IEDNAKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLREL-----DIPTIVAVNKLDKIK  135 (184)
T ss_dssp             HHHHGGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHT-----TCCEEEEEECGGGCS
T ss_pred             hhhcccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHHc-----CCCEEEEEeeeehhh
Confidence            5566678899999999752           3444455566655542     257999999999986

>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=99.67  E-value=8.2e-16  Score=119.69  Aligned_cols=134  Identities=20%  Similarity=0.283  Sum_probs=84.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHH--HHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF--VGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~--~~~~~   93 (253)
                      ..+-++|+|+|++|||||||+|+|+|...........+.|......  .  ....+.++|+||..........  ....+
T Consensus        20 ~~~~~~I~lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~--~--~~~~~~~~d~~~~~~~~~~~~~~~~~~~~   95 (195)
T d1svia_          20 EGGLPEIALAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFY--I--INDELHFVDVPGYGFAKVSKSEREAWGRM   95 (195)
T ss_dssp             CSCCCEEEEEEBTTSSHHHHHHHHHTC-------------CCEEEE--E--ETTTEEEEECCCBCCCSSCHHHHHHHHHH
T ss_pred             CCCCCEEEEECCCCCCHHHHHHHhcCCCceEEeecccceeeecccc--c--ccccceEEEEEeeccccccccccchhhhH
Confidence            3344699999999999999999999975322222222223222222  1  2345667888887654443332  22233


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHH
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDY  160 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~  160 (253)
                      ...........+++++|+|++.+++..+..+++.+... +    .|+++|+||+|.+.  .....++
T Consensus        96 ~~~~~~~~~~~~~vi~viD~~~~~~~~~~~~~~~l~~~-~----~piivv~NK~D~~~--~~~~~~~  155 (195)
T d1svia_          96 IETYITTREELKAVVQIVDLRHAPSNDDVQMYEFLKYY-G----IPVIVIATKADKIP--KGKWDKH  155 (195)
T ss_dssp             HHHHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-T----CCEEEEEECGGGSC--GGGHHHH
T ss_pred             Hhhhhccccchhhhhhhhhccccccccccccccccccc-c----CcceechhhccccC--HHHHHHH
Confidence            33444555778999999999888999998888888763 3    47999999999986  4444443

>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=99.66  E-value=1.6e-16  Score=121.29  Aligned_cols=149  Identities=13%  Similarity=0.103  Sum_probs=91.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +||+|+|.+|+|||||++++++..........  .+.......+.. .+  ..+.+|||||..           ++....
T Consensus         6 ~Ki~lvG~~~vGKTsLi~~l~~~~f~~~~~~~--~~~~~~~~~~~~-~~~~~~l~i~Dt~G~e-----------~~~~~~   71 (171)
T d2ew1a1           6 FKIVLIGNAGVGKTCLVRRFTQGLFPPGQGAT--IGVDFMIKTVEI-NGEKVKLQIWDTAGQE-----------RFRSIT   71 (171)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCC--CSEEEEEEEEEE-TTEEEEEEEEEECCSG-----------GGHHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccccc--ccceEEEEEEEE-CCEEEEEEEEECCCch-----------hhHHHH
Confidence            79999999999999999999976543322222  222222222222 33  467889999963           234556


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.+++++++|+|.+++.+... ..++..+.+....  ..|+++|.||+|.....   ......+.......++..+.
T Consensus        72 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~--~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SA  149 (171)
T d2ew1a1          72 QSYYRSANALILTYDITCEESFRCLPEWLREIEQYASN--KVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSA  149 (171)
T ss_dssp             GGGSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCT
T ss_pred             HHHHhccceEEEeeecccchhhhhhhhhhhhhcccccc--cccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEcc
Confidence            677889999999999885544333 3344444443322  35899999999976421   23344454433334445555


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++++++.
T Consensus       150 ktg~gV~e~f~  160 (171)
T d2ew1a1         150 KESDNVEKLFL  160 (171)
T ss_dssp             TTCTTHHHHHH
T ss_pred             CCCCCHHHHHH
Confidence            55555555443

>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=99.66  E-value=3.5e-16  Score=118.77  Aligned_cols=149  Identities=15%  Similarity=0.148  Sum_probs=92.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +||+|+|.+|+|||||++++++...........+.....  .... ..+  ..+.+|||||...+.           ...
T Consensus         5 ~KivlvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~--~~~~-~~~~~~~l~i~D~~g~~~~~-----------~~~   70 (166)
T d1z0fa1           5 FKYIIIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGT--RIIE-VSGQKIKLQIWDTAGQERFR-----------AVT   70 (166)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEE--EEEE-ETTEEEEEEEEECTTGGGTC-----------HHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccccccccccee--EEEE-ECCEEEEEEEeccCCchhHH-----------HHH
Confidence            799999999999999999998765433322222222222  2222 233  378899999975432           333


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ...+..+|++++|+|+++.-+... ..++..+.+....  ..|++++.||+|.....   ......+.......+++.+.
T Consensus        71 ~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~--~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa  148 (166)
T d1z0fa1          71 RSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNP--NTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASA  148 (166)
T ss_dssp             HHHHHTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCT
T ss_pred             HHHhcCCcEEEEEeccCchHHHHHHHHHHHHHHhhccc--cceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeC
Confidence            344567799999999985443332 3444555444332  35899999999974311   23455555544455666666


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      .....+.+++.
T Consensus       149 ktg~~v~e~f~  159 (166)
T d1z0fa1         149 KTGENVEDAFL  159 (166)
T ss_dssp             TTCTTHHHHHH
T ss_pred             CCCCCHHHHHH
Confidence            66666666654

>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=99.66  E-value=4.6e-16  Score=118.36  Aligned_cols=148  Identities=18%  Similarity=0.011  Sum_probs=83.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .||+|+|.+|+|||||++.+.+......  .+......  ...+. .+  ...+.+|||||...+.           ...
T Consensus         2 fKi~lvG~~~vGKTsLi~~~~~~~~~~~--~~~~~~~~--~~~i~-~~~~~~~l~i~D~~g~e~~~-----------~~~   65 (168)
T d2gjsa1           2 YKVLLLGAPGVGKSALARIFGGVEDGPE--AEAAGHTY--DRSIV-VDGEEASLMVYDIWEQDGGR-----------WLP   65 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHTC-----------CEEE--EEEEE-ETTEEEEEEEEECC------------------CH
T ss_pred             eEEEEECCCCcCHHHHHHHHhCCccCCc--CCeeeeee--cceee-ccccccceeeeecccccccc-----------eec
Confidence            6899999999999999999998754221  11111111  11121 23  3578899999975432           334


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.++|++|+|+|++++-+... ..++..+....+ ....|+++|.||+|.....   ......+.......+++.+.
T Consensus        66 ~~~~~~~d~~ilv~d~t~~~s~~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa  144 (168)
T d2gjsa1          66 GHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQ-TDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSA  144 (168)
T ss_dssp             HHHHTSCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBT
T ss_pred             ccchhhhhhhceeccccccccccccccccchhhcccc-cccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeC
Confidence            456688899999999986555444 334444444432 2335899999999986421   22334444433344555555


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....+++.++.
T Consensus       145 k~~~~v~~~f~  155 (168)
T d2gjsa1         145 ALHHNVQALFE  155 (168)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            55555555554

>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=99.66  E-value=1.1e-15  Score=116.49  Aligned_cols=122  Identities=22%  Similarity=0.236  Sum_probs=79.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      +|+|+|++|||||||+|+|+|......+. ..+.|........ ......+.++||||+.+.......  ..........
T Consensus         2 ~V~liG~~n~GKSsLi~~L~~~~~~~~~~-~~~~t~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~--~~~~~~~~~~   77 (171)
T d1mkya1           2 TVLIVGRPNVGKSTLFNKLVKKKKAIVED-EEGVTRDPVQDTV-EWYGKTFKLVDTCGVFDNPQDIIS--QKMKEVTLNM   77 (171)
T ss_dssp             EEEEECCTTSSHHHHHHHHHC---------------CCSEEEE-EETTEEEEEEECTTTTSSGGGCCC--HHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCcceecc-cCceeeccccccc-cccccccccccccceeeeeccccc--cccccccccc
Confidence            69999999999999999999976532221 2233333333333 346778999999998765432211  2222233333


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...+|+++++++.+..+...+..++.++... +    .|+++|+||+|...
T Consensus        78 ~~~ad~i~~~~~~~~~~~~~~~~~~~~l~~~-~----~pviiv~NK~Dl~~  123 (171)
T d1mkya1          78 IREADLVLFVVDGKRGITKEDESLADFLRKS-T----VDTILVANKAENLR  123 (171)
T ss_dssp             HTTCSEEEEEEETTTCCCHHHHHHHHHHHHH-T----CCEEEEEESCCSHH
T ss_pred             cccCcEEEEeecccccccccccccccccccc-c----ccccccchhhhhhh
Confidence            4677999999999888998888888777653 3    47999999999874

>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=99.64  E-value=3.8e-16  Score=124.68  Aligned_cols=114  Identities=18%  Similarity=0.240  Sum_probs=80.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeee-----------------EeeCCeEEEEEeCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRT-----------------VLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~-----------------~~~~~~~~~liDtpG~~~~   82 (253)
                      +.|+|+|++++|||||+|+|++......  ..++.+........                 ....+..++++||||+.++
T Consensus         6 p~IaIiGh~d~GKSTL~~~L~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f   83 (227)
T d1g7sa4           6 PIVSVLGHVDHGKTTLLDHIRGSAVASR--EAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAF   83 (227)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHHHSCC------CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCC
T ss_pred             CEEEEEeCCCccHHHHHHHHHhhcchhe--ecCceeeeccccccccccccccccccccceeecccccccccccccceecc
Confidence            5699999999999999999997643111  11111111111000                 1135668999999998776


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....           ......+|++|+|+|+...+...+...+..+... +    .|++|++||+|...
T Consensus        84 ~~~~-----------~~~~~~~D~~ilVvda~~g~~~~~~~~~~~~~~~-~----~p~iivlNK~D~~~  136 (227)
T d1g7sa4          84 TTLR-----------KRGGALADLAILIVDINEGFKPQTQEALNILRMY-R----TPFVVAANKIDRIH  136 (227)
T ss_dssp             TTSB-----------CSSSBSCSEEEEEEETTTCCCHHHHHHHHHHHHT-T----CCEEEEEECGGGST
T ss_pred             cccc-----------hhcccccceEEEEEecccCcccchhHHHHHhhcC-C----CeEEEEEECccCCC
Confidence            5321           2345678999999999989999999998888764 3    47999999999985

>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=99.64  E-value=1.1e-15  Score=116.90  Aligned_cols=151  Identities=15%  Similarity=0.096  Sum_probs=88.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +||+|+|.+|||||||++++++...........+.+....... .......+.+|||||...           +......
T Consensus         6 ~KI~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~~i~D~~G~~~-----------~~~~~~~   73 (174)
T d2bmea1           6 FKFLVIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIIN-VGGKYVKLQIWDTAGQER-----------FRSVTRS   73 (174)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEE-ETTEEEEEEEEEECCSGG-----------GHHHHHT
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEE-ecCcceeEEEEECCCchh-----------hhhhHHH
Confidence            7999999999999999999987654222222222222211111 111234788999999743           3345567


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ++..++++++|+|++++-+... ..++..+....+.  ..|+++|.||+|.....   ......+.....-.+++.+...
T Consensus        74 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~  151 (174)
T d2bmea1          74 YYRGAAGALLVYDITSRETYNALTNWLTDARMLASQ--NIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALT  151 (174)
T ss_dssp             TSTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCT--TCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTT
T ss_pred             HhhhCCEEEEEEecccchhHHHHhhhhcccccccCC--ceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCC
Confidence            7789999999999984433332 2333334443332  36899999999975311   2233344443333444445455


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ...+++++.
T Consensus       152 ~~gi~e~f~  160 (174)
T d2bmea1         152 GENVEEAFV  160 (174)
T ss_dssp             CTTHHHHHH
T ss_pred             CcCHHHHHH
Confidence            555555443

>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=99.64  E-value=2e-15  Score=114.21  Aligned_cols=114  Identities=15%  Similarity=0.153  Sum_probs=79.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+++|++|+|||||+++|.+....     ...+|.......+. .++..+.+|||||.           ..+.....
T Consensus         2 ~~ki~ivG~~~~GKTsLi~~l~~~~~~-----~~~~t~~~~~~~~~-~~~~~~~~~D~~G~-----------~~~~~~~~   64 (165)
T d1ksha_           2 ELRLLMLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKTLE-HRGFKLNIWDVGGQ-----------KSLRSYWR   64 (165)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHTTCCCS-----SCCCCSSEEEEEEE-ETTEEEEEEEECCS-----------HHHHTTGG
T ss_pred             cEEEEEECCCCCCHHHHHHHHcCCCCC-----cccceEeeeeeecc-ccccceeeeecCcc-----------hhhhhHHH
Confidence            479999999999999999999987542     22334434444444 47889999999996           44445566


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhc--ccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFG--KKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g--~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..++++++|+|.++..+..+  ....+.....  .....|++||.||.|...
T Consensus        65 ~~~~~~~~~i~v~d~~d~~~~~~--~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~  117 (165)
T d1ksha_          65 NYFESTDGLIWVVDSADRQRMQD--CQRELQSLLVEERLAGATLLIFANKQDLPG  117 (165)
T ss_dssp             GGCTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             hhhhhhhcceeeeecccchhHHH--HHHhhhhhhhhcccCCCceEEEEecccccc
Confidence            77889999999999986555444  1222222221  113368999999999864

>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=99.64  E-value=5.2e-16  Score=118.63  Aligned_cols=151  Identities=15%  Similarity=0.122  Sum_probs=90.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+|||++|+|||||++++++.............+...... ........+.+||++|......           ....
T Consensus         4 ~KivvvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~i~d~~g~~~~~~-----------~~~~   71 (173)
T d2a5ja1           4 FKYIIIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMV-NIDGKQIKLQIWDTAGQESFRS-----------ITRS   71 (173)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEE-EETTEEEEEEEECCTTGGGTSC-----------CCHH
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeee-eeeeeEEEEEeecccCccchhh-----------HHHH
Confidence            699999999999999999998776433322222222222211 1111235789999999865442           2234


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      .+..+|++++|+|++++-+... ..++..+.+..+.+  .|++||.||+|....   .......+.......+++.+...
T Consensus        72 ~~~~~d~~ilv~d~~~~~sf~~~~~~~~~~~~~~~~~--~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~t  149 (173)
T d2a5ja1          72 YYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSN--MVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKT  149 (173)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTT
T ss_pred             HhhccCEEEEEEeecChHHHHhHHHHHHHHHHhCCCC--CeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCC
Confidence            4567899999999985544443 44445555544433  589999999996531   12334444443334455555555


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ..++++++.
T Consensus       150 g~~V~e~f~  158 (173)
T d2a5ja1         150 ACNVEEAFI  158 (173)
T ss_dssp             CTTHHHHHH
T ss_pred             CCCHHHHHH
Confidence            555555544

>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=99.64  E-value=4.8e-16  Score=119.96  Aligned_cols=128  Identities=22%  Similarity=0.213  Sum_probs=80.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcH-HHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSE-FVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~-~~~~~~~~~   96 (253)
                      ..++|+|+|++|+|||||+|+|+|......... .+.+..+..... ..++..+.++||||+........ .........
T Consensus         7 ~~~kV~iiG~~~~GKSTLin~l~~~~~~~~~~~-~~t~~~~~~~~~-~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~   84 (186)
T d1mkya2           7 DAIKVAIVGRPNVGKSTLFNAILNKERALVSPI-PGTTRDPVDDEV-FIDGRKYVFVDTAGLRRKSRVEPRTVEKYSNYR   84 (186)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHTSTTEEECCC-C------CCEEE-EETTEEEEESSCSCC-----------CCSCCHH
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHCCCcceeecc-cccccccceeee-ccCCceeeeeccCCccccccccccccccchhHH
Confidence            358999999999999999999999875433322 233333333333 35788999999999853221100 000000111


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      +......+|++++|+|+..........++..+... +    .|+++|+||+|....
T Consensus        85 ~~~~~~~~dvii~v~d~~~~~~~~~~~~~~~~~~~-~----~~~i~v~nK~D~~~~  135 (186)
T d1mkya2          85 VVDSIEKADVVVIVLDATQGITRQDQRMAGLMERR-G----RASVVVFNKWDLVVH  135 (186)
T ss_dssp             HHHHHHHCSEEEEEEETTTCCCHHHHHHHHHHHHT-T----CEEEEEEECGGGSTT
T ss_pred             HHHHHhcCCEEEEeecccccchhhHHHHHHHHHHc-C----Cceeeeccchhhhcc
Confidence            22222456899999999888888888777776653 2    479999999999863

>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=99.64  E-value=1e-15  Score=116.63  Aligned_cols=151  Identities=19%  Similarity=0.134  Sum_probs=91.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..||+|+|.+|+|||||++++++........    .|....+......++  ..+.+|||+|...+.           ..
T Consensus         2 ~~Ki~viG~~~vGKTsLi~r~~~~~f~~~~~----~T~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~-----------~~   66 (171)
T d2erxa1           2 DYRVAVFGAGGVGKSSLVLRFVKGTFRESYI----PTVEDTYRQVISCDKSICTLQITDTTGSHQFP-----------AM   66 (171)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHTCCCCSSCC----CCSCEEEEEEEEETTEEEEEEEEECCSCSSCH-----------HH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhCCCCCccC----cceeeccccceeeccccceecccccccccccc-----------cc
Confidence            4799999999999999999999865422211    122222222222344  367789999986532           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++..+|++|+|+|++++-+... ..++..+.+..+.....|+++|.||+|....   .....+.+.......+++.+
T Consensus        67 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~S  146 (171)
T d2erxa1          67 QRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETS  146 (171)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECB
T ss_pred             ccccccceeEEEEEeecccccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEc
Confidence            2334456799999999985444433 4445555554444445689999999997531   12345555554344455555


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      ......+++++.
T Consensus       147 ak~~~~v~e~f~  158 (171)
T d2erxa1         147 AKLNHNVKELFQ  158 (171)
T ss_dssp             TTTTBSHHHHHH
T ss_pred             CCCCcCHHHHHH
Confidence            555555655554

>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=99.63  E-value=1.2e-15  Score=115.93  Aligned_cols=151  Identities=14%  Similarity=0.082  Sum_probs=91.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+|+|.+|+|||||++++++.........+.+........... .....+.+|||+|....           ......
T Consensus         4 fKivlvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~-----------~~~~~~   71 (167)
T d1z08a1           4 FKVVLLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIG-GKRVNLAIWDTAGQERF-----------HALGPI   71 (167)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESS-SCEEEEEEEECCCC------------------CC
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccC-CccceeeeeccCCccee-----------cccchh
Confidence            799999999999999999998765433222222222222211111 12357889999998543           244556


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ++.++|++|+|+|++++-+... ..+++.+......  ..|+++|.||+|....   .......+.......+++.+...
T Consensus        72 ~~~~~~~~i~v~d~~~~~Sf~~~~~~~~~~~~~~~~--~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~  149 (167)
T d1z08a1          72 YYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGN--EICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQ  149 (167)
T ss_dssp             SSTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHHGG--GSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTT
T ss_pred             hccCCceeEEEEeCCchhHHHhhhhhhhhccccccc--ccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCC
Confidence            7789999999999985555444 3334444433322  3578899999997631   13445666655445566666666


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ...+++++.
T Consensus       150 ~~~v~e~F~  158 (167)
T d1z08a1         150 NKGIEELFL  158 (167)
T ss_dssp             TBSHHHHHH
T ss_pred             CcCHHHHHH
Confidence            666666655

>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=99.63  E-value=6.7e-16  Score=116.84  Aligned_cols=150  Identities=14%  Similarity=0.050  Sum_probs=93.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .||+|+|..|+|||||++++++.........+  .+.......... .....+.+|||||.....           ....
T Consensus         1 fKv~vvG~~~vGKTsLi~r~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~-----------~~~~   67 (164)
T d1yzqa1           1 FKLVFLGEQSVGKTSLITRFMYDSFDNTYQAT--IGIDFLSKTMYLEDRTIRLQLWDTAGQERFR-----------SLIP   67 (164)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHSCCCSSCCCC--CSEEEEEEEEECSSCEEEEEEEEECCSGGGG-----------GGHH
T ss_pred             CEEEEECCCCcCHHHHHHHHHhCCCCCccccc--eeeeccceeeccCCCceeeeecccCCcchhc-----------cchH
Confidence            48999999999999999999977643322222  222222222221 123578899999985432           3334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      ..+..+|++++|+|++++.+... ..++..+....+.  ..|+++|.||+|.....   ......+.......+++.+..
T Consensus        68 ~~~~~~~~~ilv~d~~~~~s~~~i~~~~~~~~~~~~~--~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk  145 (164)
T d1yzqa1          68 SYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGS--DVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAK  145 (164)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTT--SSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTT
T ss_pred             HHhhccceEEEeeccccccchhhhHhhHHHHHHhcCC--CceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCC
Confidence            55678899999999985555444 4444444444433  35899999999986321   223444554444456666666


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ....++++++
T Consensus       146 ~g~~v~e~f~  155 (164)
T d1yzqa1         146 AGYNVKQLFR  155 (164)
T ss_dssp             TCTTHHHHHH
T ss_pred             CCcCHHHHHH
Confidence            6666666654

>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=99.63  E-value=2.1e-15  Score=115.41  Aligned_cols=149  Identities=17%  Similarity=0.176  Sum_probs=88.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +||++||.+|||||||++++++...........+.+.  ....+.. ++  ..+.+|||||..++...           .
T Consensus         5 ~Ki~vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~--~~~~~~~-~~~~~~~~i~d~~g~e~~~~~-----------~   70 (175)
T d2f9la1           5 FKVVLIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEF--ATRSIQV-DGKTIKAQIWDTAGQERYRRI-----------T   70 (175)
T ss_dssp             EEEEEESSTTSSHHHHHHHHHHSCCCC---CCCSCEE--EEEEEEE-TTEEEEEEEEECSSGGGTTCC-----------C
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccccccccee--eeEEEEE-CCEEEEEEecccCCcHHHHHH-----------H
Confidence            7999999999999999999987654333222222222  2222222 33  47889999997654322           1


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ...+..+|++|+|+|.+++-+... ..++..+....+..  .|+++|.||+|.....   ......+.......+++.+.
T Consensus        71 ~~~~~~~~~~i~v~d~~~~~S~~~~~~~~~~i~~~~~~~--~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa  148 (175)
T d2f9la1          71 SAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSN--IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSA  148 (175)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHSCTT--CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCT
T ss_pred             HHHhhccCeEEEEEECCCcccchhHHHHHHHHHHhcCCC--CcEEEEEeeecccccccchHHHHHHhhcccCceEEEEec
Confidence            233467899999999985443333 44455555554433  5899999999986421   11223333334444454444


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++++++.
T Consensus       149 ~~g~~i~e~f~  159 (175)
T d2f9la1         149 LDSTNVEEAFK  159 (175)
T ss_dssp             TTCTTHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            44444544443

>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=99.63  E-value=2.7e-16  Score=119.16  Aligned_cols=150  Identities=20%  Similarity=0.104  Sum_probs=88.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+|+|.+|+|||||++++++.........+.+.......... ......+.+|||||........           ..
T Consensus         3 iKv~liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~-~~~~~~~~i~d~~g~~~~~~~~-----------~~   70 (164)
T d1z2aa1           3 IKMVVVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQV-NDEDVRLMLWDTAGQEEFDAIT-----------KA   70 (164)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEE-TTEEEEEEEECCTTGGGTTCCC-----------HH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeee-cCceeeeeeeccCCccchhhhh-----------hh
Confidence            79999999999999999999865432222222222222222211 1123478899999986544322           23


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ++..+|++++|+|++++-+... ..++..+.+..+   ..|+++|.||+|.....   ......+.+.....+++.+...
T Consensus        71 ~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~---~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~  147 (164)
T d1z2aa1          71 YYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG---DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKE  147 (164)
T ss_dssp             HHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHC---SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTT
T ss_pred             hhccCceEEEEEeccchhhhhhcccccccccccCC---CceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCC
Confidence            4567899999999985554443 334444544433   35899999999986411   2334445443333444445544


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ..+++++++
T Consensus       148 g~~v~e~f~  156 (164)
T d1z2aa1         148 DLNVSEVFK  156 (164)
T ss_dssp             TBSSHHHHH
T ss_pred             CcCHHHHHH
Confidence            444444443

>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=99.63  E-value=1.1e-15  Score=118.90  Aligned_cols=118  Identities=18%  Similarity=0.156  Sum_probs=76.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +||+|+|..|||||||++.|++.........+.+.+.......+. .....+.+|||||...+..           ....
T Consensus         7 ~KivvvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~-~~~~~l~i~Dt~G~e~~~~-----------~~~~   74 (194)
T d2bcgy1           7 FKLLLIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELD-GKTVKLQIWDTAGQERFRT-----------ITSS   74 (194)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEET-TEEEEEEEECCTTTTTTTC-----------CCGG
T ss_pred             EEEEEECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEe-eEEEEEEEEECCCchhhHH-----------HHHH
Confidence            799999999999999999998765432222222333322222111 1245788999999876442           2335


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ++..+|++|+|+|++++.+... ..+...+.+...  ...|+++|.||+|...
T Consensus        75 ~~~~a~~~i~v~d~t~~~s~~~~~~~~~~~~~~~~--~~~~iilv~nK~D~~~  125 (194)
T d2bcgy1          75 YYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYAT--STVLKLLVGNKCDLKD  125 (194)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECTTCTT
T ss_pred             HhccCCEEEEEEeCcchhhhhhHhhhhhhhhhccc--CCceEEEEEecccccc
Confidence            6688899999999985544444 223333444332  3358999999999875

>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=99.63  E-value=1.7e-16  Score=119.51  Aligned_cols=150  Identities=22%  Similarity=0.247  Sum_probs=90.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc-H-HHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-E-FVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~-~~~~~~~~~~   97 (253)
                      ++|+|+|.+|||||||+|+|+|......... .+.+......... ..+..+.++||||+....... + .........+
T Consensus         1 ikI~liG~~n~GKSSLin~l~g~~~~~~~~~-~~~~~~~~~~~~~-~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~   78 (160)
T d1xzpa2           1 LRMVIVGKPNVGKSTLLNRLLNEDRAIVTDI-PGTTRDVISEEIV-IRGILFRIVDTAGVRSETNDLVERLGIERTLQEI   78 (160)
T ss_dssp             EEEEEECCHHHHTCHHHHHHHHHTBCCCCCS-SCCSSCSCCEEEE-ETTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCceeeecc-ccccccceeEEEE-eCCeeEEeccccccccCCccHHHHHHHHHHHHHH
Confidence            5899999999999999999999865333222 2233333233333 478889999999986433211 1 1112222222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC-hhhHHHHHcccCCchhhhhHHHh
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN-DETLEDYLGRECPKPLKKGATKL  176 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~-~~~~~~~~~~~~~~~l~~~~~~~  176 (253)
                          ..+|++++|+|++++....+..+...+.       ..++++++||.|..... ...+...+. .....+..+....
T Consensus        79 ----~~ad~ii~v~d~~~~~~~~~~~~~~~~~-------~~~~i~~~~k~d~~~~~~~~~~~~~~~-~~~~~~~vSA~~g  146 (160)
T d1xzpa2          79 ----EKADIVLFVLDASSPLDEEDRKILERIK-------NKRYLVVINKVDVVEKINEEEIKNKLG-TDRHMVKISALKG  146 (160)
T ss_dssp             ----HHCSEEEEEEETTSCCCHHHHHHHHHHT-------TSSEEEEEEECSSCCCCCHHHHHHHHT-CSTTEEEEEGGGT
T ss_pred             ----HhCCEEEEEEeCCCCcchhhhhhhhhcc-------cccceeeeeeccccchhhhHHHHHHhC-CCCcEEEEECCCC
Confidence                3458999999999888877665544332       23699999999998632 223333333 2233344444444


Q ss_pred             hhHHHHH
Q 025391          177 RDQQFEV  183 (253)
Q Consensus       177 ~~~~~~~  183 (253)
                      .++++++
T Consensus       147 ~gi~~L~  153 (160)
T d1xzpa2         147 EGLEKLE  153 (160)
T ss_dssp             CCHHHHH
T ss_pred             CCHHHHH
Confidence            4444443

>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=99.63  E-value=1.3e-15  Score=116.35  Aligned_cols=154  Identities=12%  Similarity=0.066  Sum_probs=86.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +||+|+|++|||||||++++++.........+.+.+...............+.+|||||....           ......
T Consensus         3 ~Ki~~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~-----------~~~~~~   71 (175)
T d1ky3a_           3 LKVIILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERF-----------QSLGVA   71 (175)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC---------------------C
T ss_pred             EEEEEECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhh-----------hhHHHH
Confidence            799999999999999999998765433322222222222222222122356889999997432           234455


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc--ccCeEEEEEeCCCCCCCC----hhhHHHHHccc-CCchhhh
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELEDN----DETLEDYLGRE-CPKPLKK  171 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~~----~~~~~~~~~~~-~~~~l~~  171 (253)
                      +...++++++|+|++++.+... ..++..+....+..  ...|++||+||+|.....    ......+.... ...+++.
T Consensus        72 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~  151 (175)
T d1ky3a_          72 FYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLT  151 (175)
T ss_dssp             CSTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEE
T ss_pred             HhhccceEEEEeecccccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEE
Confidence            6788899999999986555433 44445555443322  245899999999976411    22334444321 2234555


Q ss_pred             hHHHhhhHHHHHH
Q 025391          172 GATKLRDQQFEVD  184 (253)
Q Consensus       172 ~~~~~~~~~~~~~  184 (253)
                      +.....++++++.
T Consensus       152 SA~~g~gv~e~f~  164 (175)
T d1ky3a_         152 SAKNAINVDTAFE  164 (175)
T ss_dssp             BTTTTBSHHHHHH
T ss_pred             eCCCCcCHHHHHH
Confidence            5555555555554

>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=99.62  E-value=1.5e-15  Score=116.08  Aligned_cols=153  Identities=18%  Similarity=0.138  Sum_probs=93.6

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEI   93 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~   93 (253)
                      +.+..||+|||.+|+|||||++++++.... ....+.....  ....+. .++  ..+.+|||||...+....       
T Consensus         3 ~~~~~Kv~lvG~~~vGKTsLi~r~~~~~f~-~~~~~t~~~~--~~~~~~-~~~~~~~l~~~d~~g~~~~~~~~-------   71 (173)
T d2fn4a1           3 PSETHKLVVVGGGGVGKSALTIQFIQSYFV-SDYDPTIEDS--YTKICS-VDGIPARLDILDTAGQEEFGAMR-------   71 (173)
T ss_dssp             SSCEEEEEEEECTTSSHHHHHHHHHHSSCC-SSCCTTCCEE--EEEEEE-ETTEEEEEEEEECCCTTTTSCCH-------
T ss_pred             CCCeEEEEEECCCCcCHHHHHHHHHhCCCC-cccccccccc--eeeEec-cCCeeeeeecccccccccccccc-------
Confidence            345589999999999999999999876532 2222222111  112222 233  467789999998755322       


Q ss_pred             HHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchh
Q 025391           94 VKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPL  169 (253)
Q Consensus        94 ~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l  169 (253)
                          ..++..+|++|+|+|+++..+... ..++..+.+..+. ...|++||.||+|....   .......+.......++
T Consensus        72 ----~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~-~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~  146 (173)
T d2fn4a1          72 ----EQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDR-DDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYF  146 (173)
T ss_dssp             ----HHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHTS-SCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEE
T ss_pred             ----chhhccceeeeeecccccccccchhhhhhHHHHHHhcc-CCCceEEEEEeechhhccccchhhhhHHHHhcCCEEE
Confidence                222345689999999985544443 3334444443322 23589999999997531   13345556555555566


Q ss_pred             hhhHHHhhhHHHHHH
Q 025391          170 KKGATKLRDQQFEVD  184 (253)
Q Consensus       170 ~~~~~~~~~~~~~~~  184 (253)
                      +.+.....++++++.
T Consensus       147 e~Sak~g~gv~e~f~  161 (173)
T d2fn4a1         147 EASAKLRLNVDEAFE  161 (173)
T ss_dssp             ECBTTTTBSHHHHHH
T ss_pred             EEeCCCCcCHHHHHH
Confidence            666666666666665

>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=99.62  E-value=1.1e-15  Score=119.88  Aligned_cols=118  Identities=15%  Similarity=0.207  Sum_probs=85.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCc---cccC------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAF---KSRA------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDF   82 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~---~~~~------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~   82 (253)
                      |..+|+++|+.++|||||+++|++....   ....            ...+.|.......+. +++..++++||||+.++
T Consensus         2 ~~ini~iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~-~~~~~i~iiDtPGh~df   80 (204)
T d2c78a3           2 PHVNVGTIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYE-TAKRHYSHVDCPGHADY   80 (204)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEE-CSSCEEEEEECCCSGGG
T ss_pred             CCeEEEEEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEE-eCCeEEEEEeCCCchhh
Confidence            3479999999999999999999743110   0000            011566666666555 58899999999999764


Q ss_pred             CCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           83 SAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .           .-+......+|++|+|+|+.+....++...+..+... |-   ++++|++||+|...
T Consensus        81 ~-----------~~~~~~~~~aD~avlVvda~~Gv~~qt~~~~~~~~~~-gi---~~iiv~iNK~D~~~  134 (204)
T d2c78a3          81 I-----------KNMITGAAQMDGAILVVSAADGPMPQTREHILLARQV-GV---PYIVVFMNKVDMVD  134 (204)
T ss_dssp             H-----------HHHHHHHTTCSSEEEEEETTTCCCHHHHHHHHHHHHT-TC---CCEEEEEECGGGCC
T ss_pred             H-----------HHHHHHHHHCCEEEEEEECCCCCcHHHHHHHHHHHHc-CC---CeEEEEEEecccCC
Confidence            3           2222334667999999999999999998888877764 42   35788899999975

>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=99.62  E-value=1e-15  Score=131.91  Aligned_cols=118  Identities=19%  Similarity=0.172  Sum_probs=81.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc---cceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG---VTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~---~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ..++|+|+|++|+|||||+|+|+|......+..+.+   .|....  .+...++..+++|||||+.......+....+  
T Consensus        55 ~~l~Iai~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~--~~~~~~~~~~~l~DtPG~~~~~~~~~~~~~~--  130 (400)
T d1tq4a_          55 SVLNVAVTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERH--PYKHPNIPNVVFWDLPGIGSTNFPPDTYLEK--  130 (400)
T ss_dssp             CCEEEEEEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCE--EEECSSCTTEEEEECCCGGGSSCCHHHHHHH--
T ss_pred             CCcEEEEECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeee--eeeccCCCeEEEEeCCCcccccccHHHHHHH--
Confidence            458999999999999999999999765433333322   233222  2333456679999999998665444422211  


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                          ..+...|.+|++.+  .+++..+..+++.+.+. +    +|+++|+||+|..
T Consensus       131 ----~~~~~~d~~l~~~~--~~~~~~d~~l~~~l~~~-~----k~~~~V~nK~D~~  175 (400)
T d1tq4a_         131 ----MKFYEYDFFIIISA--TRFKKNDIDIAKAISMM-K----KEFYFVRTKVDSD  175 (400)
T ss_dssp             ----TTGGGCSEEEEEES--SCCCHHHHHHHHHHHHT-T----CEEEEEECCHHHH
T ss_pred             ----hhhhcceEEEEecC--CCCCHHHHHHHHHHHHc-C----CCEEEEEeCcccc
Confidence                22344577777765  47899999898888774 3    4899999999975

>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=99.62  E-value=5.5e-16  Score=118.45  Aligned_cols=149  Identities=13%  Similarity=0.086  Sum_probs=67.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      +||+|+|.+|+|||||+++|++........  ...+.......+.. ++  ..+.+|||||...+.           ...
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~~~~~~~--~t~~~~~~~~~~~~-~~~~~~l~i~D~~G~e~~~-----------~~~   72 (173)
T d2fu5c1           7 FKLLLIGDSGVGKTCVLFRFSEDAFNSTFI--STIGIDFKIRTIEL-DGKRIKLQIWDTAGQERFR-----------TIT   72 (173)
T ss_dssp             EEEEEECCCCC----------------CHH--HHHCEEEEEEEEEE-TTEEEEEEEEEC--------------------C
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccC--ccccceEEEEEEEE-CCEEEEEEEEECCCchhhH-----------HHH
Confidence            799999999999999999998765322211  11222233333332 33  467789999975332           344


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCChh---hHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDE---TLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~---~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.++|++|+|+|++++.+... ..+...+.....  ...|+++|.||.|.......   ....+.......+++.+.
T Consensus        73 ~~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa  150 (173)
T d2fu5c1          73 TAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHAS--ADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSA  150 (173)
T ss_dssp             CTTTTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC
T ss_pred             HHhccCCCEEEEEEECCChhhHHHHHHHHHHhhhhcc--CCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeC
Confidence            566788999999999986554443 333344444332  23589999999998853221   222333322333444444


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++.+.+.
T Consensus       151 ~~g~gv~e~f~  161 (173)
T d2fu5c1         151 KANINVENAFF  161 (173)
T ss_dssp             ---CCHHHHHH
T ss_pred             CCCCCHHHHHH
Confidence            44444444443

>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=99.61  E-value=2.2e-15  Score=114.33  Aligned_cols=150  Identities=18%  Similarity=0.124  Sum_probs=88.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..||+|+|..|+|||||++++++........    .|....+......++  ..+.+|||||...+..-           
T Consensus         4 ~~Kv~liG~~~vGKTsLl~~~~~~~f~~~~~----~t~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~~~-----------   68 (167)
T d1xtqa1           4 SRKIAILGYRSVGKSSLTIQFVEGQFVDSYD----PTIENTFTKLITVNGQEYHLQLVDTAGQDEYSIF-----------   68 (167)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSCCC----SSCCEEEEEEEEETTEEEEEEEEECCCCCTTCCC-----------
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCcccC----cceecccceEEecCcEEEEeeecccccccccccc-----------
Confidence            4799999999999999999988654322111    122222111112243  46778999998765432           


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++..+|++|+|+|++++-+... ..++..+.+..+. ...|+++|.||+|.....   .+....+.......+++.+
T Consensus        69 ~~~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~S  147 (167)
T d1xtqa1          69 PQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGK-VQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESS  147 (167)
T ss_dssp             CGGGTSSCCEEEEEEETTCHHHHHHHHHHHHHHHHHHCS-SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECC
T ss_pred             cchhhhhhhhhhhhcccchhhhhhhhhhhhhhhhhcccc-cccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEe
Confidence            2245678899999999985544443 3344455554443 235899999999985411   2233444443333444444


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      ......++++++
T Consensus       148 ak~~~~v~~~f~  159 (167)
T d1xtqa1         148 AKENQTAVDVFR  159 (167)
T ss_dssp             TTCHHHHHHHHH
T ss_pred             cCCCCCHHHHHH
Confidence            444444444443

>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=99.61  E-value=1.2e-15  Score=115.80  Aligned_cols=152  Identities=16%  Similarity=0.078  Sum_probs=91.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+|||.+|||||||+++|.+.........+.......... ........+.+|||+|.....           ....
T Consensus         4 ~~Ki~lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~-~~~~~~~~~~i~d~~g~~~~~-----------~~~~   71 (167)
T d1z0ja1           4 ELKVCLLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTV-QYQNELHKFLIWDTAGLERFR-----------ALAP   71 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEE-EETTEEEEEEEEEECCSGGGG-----------GGTH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccccc-cccccccceeeeecCCchhhh-----------HHHH
Confidence            3799999999999999999998765433222222222211111 111123456799999985432           2334


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      .++.++|++|+|+|++++-+... ..++..+....+  ...|+++|.||+|....   ......++.......+++.++.
T Consensus        72 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk  149 (167)
T d1z0ja1          72 MYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGP--PSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAK  149 (167)
T ss_dssp             HHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTT
T ss_pred             HHHhhccceEEEeeechhhhhhhHHHhhhhhhhccC--CcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecC
Confidence            55678899999999984433333 233333344333  34689999999998531   1234555555444455666666


Q ss_pred             HhhhHHHHHH
Q 025391          175 KLRDQQFEVD  184 (253)
Q Consensus       175 ~~~~~~~~~~  184 (253)
                      ...++++++.
T Consensus       150 ~~~nV~e~f~  159 (167)
T d1z0ja1         150 NAININELFI  159 (167)
T ss_dssp             TTBSHHHHHH
T ss_pred             CCCCHHHHHH
Confidence            6666666554

>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=99.61  E-value=5.9e-15  Score=112.69  Aligned_cols=121  Identities=18%  Similarity=0.144  Sum_probs=80.8

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHH
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKE   92 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~   92 (253)
                      .+++....||+++|++|||||||+|+|.+.......+     +.......+. ..+..+.++|+||...           
T Consensus        10 ~~~~~~~~kI~vvG~~~vGKSsLi~~l~~~~~~~~~~-----~~~~~~~~i~-~~~~~~~i~d~~g~~~-----------   72 (176)
T d1fzqa_          10 KSAPDQEVRILLLGLDNAGKTTLLKQLASEDISHITP-----TQGFNIKSVQ-SQGFKLNVWDIGGQRK-----------   72 (176)
T ss_dssp             SSCCSSCEEEEEEESTTSSHHHHHHHHCCSCCEEEEE-----ETTEEEEEEE-ETTEEEEEEECSSCGG-----------
T ss_pred             hCCCCCEEEEEEECCCCCCHHHHHHHHhcCCCCccee-----eeeeeEEEec-cCCeeEeEeecccccc-----------
Confidence            4555667999999999999999999998876522221     1111222233 3678899999999743           


Q ss_pred             HHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           93 IVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        93 ~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      +......++..+|++|+|+|+++..+..+ ...+..+.... .....|++||.||+|...
T Consensus        73 ~~~~~~~~~~~~~~ii~v~d~~d~~s~~~~~~~~~~~~~~~-~~~~~pillv~nK~Dl~~  131 (176)
T d1fzqa_          73 IRPYWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEE-KLSCVPVLIFANKQDLLT  131 (176)
T ss_dssp             GHHHHHHHHTTCSEEEEEEETTCGGGHHHHHHHHHHHTTCG-GGTTCCEEEEEECTTSTT
T ss_pred             chhHHHHHhhccceeEEeeccccccchhhhhhhhhhhhhhh-ccCCCeEEEEEEeccccc
Confidence            33445566788899999999986655544 22222222211 112368999999999986

>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=99.60  E-value=1e-15  Score=117.32  Aligned_cols=152  Identities=14%  Similarity=0.097  Sum_probs=90.9

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-CCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-DGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +.+||++||..|+|||||+++|++..........  .+.......+... ....+.+|||||.....           ..
T Consensus         6 ~~iKi~vvG~~~vGKTsli~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~-----------~~   72 (177)
T d1x3sa1           6 TTLKILIIGESGVGKSSLLLRFTDDTFDPELAAT--IGVDFKVKTISVDGNKAKLAIWDTAGQERFR-----------TL   72 (177)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCC--CSEEEEEEEEEETTEEEEEEEEEECSSGGGC-----------CS
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCCccccc--eeecceeEEEEEeccccEEEEEECCCchhhH-----------HH
Confidence            4589999999999999999999876543222222  2222222222221 23468999999986533           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHh--cccccCeEEEEEeCCCCCCCC--hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLF--GKKIFDYMIVVFTGGDELEDN--DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~--g~~~~~~~ivv~~k~D~~~~~--~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++.++|++|+|+|++++.+...  ...++.+..  ......+++++.||.|.....  .....++.......+++.+
T Consensus        73 ~~~~~~~~~~ii~v~d~~~~~s~~~--~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~~~v~~~~~~~~~~~~~~~~~e~S  150 (177)
T d1x3sa1          73 TPSYYRGAQGVILVYDVTRRDTFVK--LDNWLNELETYCTRNDIVNMLVGNKIDKENREVDRNEGLKFARKHSMLFIEAS  150 (177)
T ss_dssp             HHHHHTTCCEEEEEEETTCHHHHHT--HHHHHHHHTTCCSCSCCEEEEEEECTTSSSCCSCHHHHHHHHHHTTCEEEECC
T ss_pred             HHHHHhcCCEEEEEEECCCcccccc--chhhhhhhcccccccceeeEEEeeccccccccccHHHHHHHHHHCCCEEEEEe
Confidence            2345578899999999884333222  223333332  223456889999999986421  2344555554444555555


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      .....++.++++
T Consensus       151 a~tg~gv~e~f~  162 (177)
T d1x3sa1         151 AKTCDGVQCAFE  162 (177)
T ss_dssp             TTTCTTHHHHHH
T ss_pred             CCCCCCHHHHHH
Confidence            555555555544

>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=99.60  E-value=3.4e-15  Score=116.24  Aligned_cols=117  Identities=16%  Similarity=0.225  Sum_probs=86.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCC------c--------cccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRA------F--------KSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~------~--------~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      -.+|+++|+.++|||||+++|++...      +        .......+.|.......+. +.+..++++||||..    
T Consensus         3 ~ini~iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~-~~~~~~~~iDtPGh~----   77 (196)
T d1d2ea3           3 HVNVGTIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYS-TAARHYAHTDCPGHA----   77 (196)
T ss_dssp             EEEEEEESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEE-CSSCEEEEEECSSHH----
T ss_pred             CcEEEEEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEE-eceeeEEeecCcchH----
Confidence            47899999999999999999985210      0        0011123566666555554 478899999999973    


Q ss_pred             CcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           85 GSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                             .+.+........+|++|+|+|+.....++++..+..+... |.   ++++|++||+|...
T Consensus        78 -------~f~~~~~~~~~~aD~allVVda~~G~~~QT~~~~~~a~~~-~~---~~iIv~iNK~D~~~  133 (196)
T d1d2ea3          78 -------DYVKNMITGTAPLDGCILVVAANDGPMPQTREHLLLARQI-GV---EHVVVYVNKADAVQ  133 (196)
T ss_dssp             -------HHHHHHHHTSSCCSEEEEEEETTTCSCHHHHHHHHHHHHT-TC---CCEEEEEECGGGCS
T ss_pred             -------HHHHHHHHHHhhcCeEEEEEEcCCCCchhHHHHHHHHHHh-cC---CcEEEEEecccccc
Confidence                   3444555566788999999999999999988888777664 43   36899999999985

>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=99.60  E-value=1.8e-15  Score=116.79  Aligned_cols=150  Identities=13%  Similarity=0.104  Sum_probs=89.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEee-----------CCeEEEEEeCCCCCCCCCCcHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLK-----------DGQVVNVIDTPGLFDFSAGSEF   88 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~-----------~~~~~~liDtpG~~~~~~~~~~   88 (253)
                      .||+|+|.+|+|||||+++|++.........+.+.+  .....+...           ....+.+|||||.         
T Consensus         6 ~Ki~ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~---------   74 (186)
T d2f7sa1           6 IKLLALGDSGVGKTTFLYRYTDNKFNPKFITTVGID--FREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQ---------   74 (186)
T ss_dssp             EEEEEESCTTSSHHHHHHHHHCSCCCCEEEEEEEEE--EEEEEEEEEC-------CCEEEEEEEEEEEESH---------
T ss_pred             EEEEEECCCCcCHHHHHHHHhcCCCCCccCCcccce--eeEEEEEEecccccccccccceEEeccccCCcc---------
Confidence            799999999999999999999765422211111111  111111110           1246889999996         


Q ss_pred             HHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC---ChhhHHHHHcc
Q 025391           89 VGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED---NDETLEDYLGR  163 (253)
Q Consensus        89 ~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~  163 (253)
                        .++......++.++|++|+|+|++++.+...  +..++......  ....|++||.||.|....   .......+...
T Consensus        75 --e~~~~~~~~~~~~~~~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~  150 (186)
T d2f7sa1          75 --ERFRSLTTAFFRDAMGFLLMFDLTSQQSFLN--VRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADK  150 (186)
T ss_dssp             --HHHHHHHHHHHTTCCEEEEEEETTCHHHHHH--HHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHH
T ss_pred             --hhhHHHHHHHHhcCCEEEEEEecccccccee--eeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHH
Confidence              4455566667788999999999884333222  22344333211  123588999999998531   12344555554


Q ss_pred             cCCchhhhhHHHhhhHHHHHH
Q 025391          164 ECPKPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       164 ~~~~~l~~~~~~~~~~~~~~~  184 (253)
                      ....+++.+.....+++++++
T Consensus       151 ~~~~~~e~Sak~~~~i~e~f~  171 (186)
T d2f7sa1         151 YGIPYFETSAATGQNVEKAVE  171 (186)
T ss_dssp             TTCCEEEEBTTTTBTHHHHHH
T ss_pred             cCCEEEEEeCCCCCCHHHHHH
Confidence            334455555555566665555

>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=99.60  E-value=1.9e-15  Score=115.09  Aligned_cols=151  Identities=15%  Similarity=0.096  Sum_probs=91.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||++||.+|+|||||++++++.........+.+.+......... .....+.+|||||...+.           .....
T Consensus         7 ~Ki~vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~-----------~~~~~   74 (170)
T d1r2qa_           7 FKLVLLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLD-DTTVKFEIWDTAGQERYH-----------SLAPM   74 (170)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEET-TEEEEEEEEEECCSGGGG-----------GGHHH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccccccccccceeecc-ceEEEEEeccCCCchhhh-----------hhHHH
Confidence            699999999999999999999765433322222222222111111 123578899999985432           33344


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHHH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ++.++|++++|+|.+++.+... ..+...+.+.....  .|+++|.||+|....   ..+....+.......+++.+...
T Consensus        75 ~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~~--~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~  152 (170)
T d1r2qa_          75 YYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPN--IVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKT  152 (170)
T ss_dssp             HHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSCTT--CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTT
T ss_pred             HhhCcceEEEEeccchhhHHHHHHHHhhhhhhccCCC--ceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCC
Confidence            5678899999999885544443 33334444444333  589999999997531   12334455543344455555555


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ...+++++.
T Consensus       153 g~~V~e~f~  161 (170)
T d1r2qa_         153 SMNVNEIFM  161 (170)
T ss_dssp             CTTHHHHHH
T ss_pred             CCCHHHHHH
Confidence            555555554

>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=99.60  E-value=5e-15  Score=112.53  Aligned_cols=148  Identities=19%  Similarity=0.073  Sum_probs=86.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .||+|||.+|+|||||++++++.......    ..|....+......++  ..+.+|||||...+.            ..
T Consensus         3 iKi~lvG~~~vGKTsli~r~~~~~f~~~~----~pTi~~~~~~~~~~~~~~~~l~i~D~~g~~~~~------------~~   66 (168)
T d2atva1           3 VKLAIFGRAGVGKSALVVRFLTKRFIWEY----DPTLESTYRHQATIDDEVVSMEILDTAGQEDTI------------QR   66 (168)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSCC----CTTCCEEEEEEEEETTEEEEEEEEECCCCCCCH------------HH
T ss_pred             EEEEEECCCCCCHHHHHHHHHhCCCCCcc----CCceeccccccccccccceEEEEeecccccccc------------cc
Confidence            79999999999999999999976532221    1222222222222233  478899999986431            11


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHH-HHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~-l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.++|++++|+|++++.+...... ...+... ......|+++|.||+|+...   ..+....+.......+++.+.
T Consensus        67 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~-~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Sa  145 (168)
T d2atva1          67 EGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEI-KKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSA  145 (168)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHH-HTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCT
T ss_pred             hhhhcccccceeecccCCccchhhhhhhccccccc-ccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEcc
Confidence            223345699999999986655544332 2223332 22234689999999997531   133444454433344454444


Q ss_pred             HHhh-hHHHHHH
Q 025391          174 TKLR-DQQFEVD  184 (253)
Q Consensus       174 ~~~~-~~~~~~~  184 (253)
                      .... .+++.+.
T Consensus       146 ktg~gnV~e~F~  157 (168)
T d2atva1         146 CTGEGNITEIFY  157 (168)
T ss_dssp             TTCTTCHHHHHH
T ss_pred             ccCCcCHHHHHH
Confidence            4443 2554444

>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=99.60  E-value=1.5e-15  Score=115.10  Aligned_cols=150  Identities=12%  Similarity=0.072  Sum_probs=85.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      +||+++|.+|+|||||++++++.........+.+.+...  ..+.. .....+.+|||||...+..           ...
T Consensus         3 ~Ki~vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~--~~i~~~~~~~~~~i~Dt~G~~~~~~-----------~~~   69 (166)
T d1g16a_           3 MKILLIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKI--KTVDINGKKVKLQIWDTAGQERFRT-----------ITT   69 (166)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHCCCCC-------CCEEE--EEEESSSCEEEEEEECCTTGGGTSC-----------CCH
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCccCCccceeEEE--EEEEECCEEEEEEEEECCCchhhHH-----------HHH
Confidence            799999999999999999998875433322222222222  22222 1234677899999754332           223


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCCCC--hhhHHHHHcccCCchhhhhHHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELEDN--DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~--~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      .++..++++++|+|++++-+.... .+...+....  ....+++++.+|.|.....  ......+.......++..+...
T Consensus        70 ~~~~~~~~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~~~i~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  147 (166)
T d1g16a_          70 AYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHA--NDEAQLLLVGNKSDMETRVVTADQGEALAKELGIPFIESSAKN  147 (166)
T ss_dssp             HHHTTEEEEEEEEETTCHHHHHTHHHHHHHHHHHS--CTTCEEEEEEECTTCTTCCSCHHHHHHHHHHHTCCEEECBTTT
T ss_pred             HHHhcCCEEEEEEECCCccCHHHHHhhhhhhhccc--cCcceeeeecchhhhhhhhhhHHHHHHHHHhcCCeEEEECCCC
Confidence            455788999999999854433332 2223333322  2335788999999987521  2233444443333444444444


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ..++.+.+.
T Consensus       148 ~~~v~e~f~  156 (166)
T d1g16a_         148 DDNVNEIFF  156 (166)
T ss_dssp             TBSHHHHHH
T ss_pred             CCCHHHHHH
Confidence            444444443

>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=99.60  E-value=4.4e-15  Score=112.95  Aligned_cols=151  Identities=17%  Similarity=0.116  Sum_probs=84.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      .+||++||.+|+|||||++.+++.........+ ..........+. ..+  ..+.+|||||....           ...
T Consensus         6 ~fKi~vvG~~~vGKTsli~~~~~~~~~~~~~~~-~~~~~~~~~~~~-~~~~~~~l~i~Dt~G~e~~-----------~~~   72 (170)
T d2g6ba1           6 AFKVMLVGDSGVGKTCLLVRFKDGAFLAGTFIS-TVGIDFRNKVLD-VDGVKVKLQMWDTAGQERF-----------RSV   72 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCCCCCC-CCSCEEEEEEEE-ETTEEEEEEEEECCCC-----------------
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCcccccc-eeeeeeEEEEEE-ecCcEEEEEEEECCCchhh-----------HHH
Confidence            379999999999999999998876532222222 122222222222 233  47789999997542           244


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++.++|++++|+|++++.+... ..+...+.+..+  ...|+++|.||+|.....   ......+.......+++.+
T Consensus        73 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~S  150 (170)
T d2g6ba1          73 THAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQ--HDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETS  150 (170)
T ss_dssp             --CCGGGCSEEEEEEETTCHHHHHTHHHHHHHHHHHSC--TTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECC
T ss_pred             HHHhhcCCceeEEEecCCcccchhhhhhhhhhhhhccC--CCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEe
Confidence            4566778899999999985444333 222333333333  235899999999987532   1233344443333444444


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      .....++++++.
T Consensus       151 ak~g~gi~e~f~  162 (170)
T d2g6ba1         151 AKTGLNVDLAFT  162 (170)
T ss_dssp             TTTCTTHHHHHH
T ss_pred             CCCCcCHHHHHH
Confidence            444444444443

>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=99.59  E-value=6.9e-16  Score=117.63  Aligned_cols=150  Identities=16%  Similarity=0.041  Sum_probs=85.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+++|.+|+|||||++++++........++.+.......... ......+.+|||||...           .......
T Consensus         4 ~Ki~vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~-~~~~~~l~i~D~~g~~~-----------~~~~~~~   71 (170)
T d1i2ma_           4 FKLVLVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHT-NRGPIKFNVWDTAGQEK-----------FGGLRDG   71 (170)
T ss_dssp             EEEEEEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECB-TTCCEEEEEEECTTHHH-----------HSSCGGG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCcccccceecccccccccc-ccccccccccccccccc-----------cceecch
Confidence            79999999999999999999876542221111111111111111 11245789999999632           2233456


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC-hhhHHHHHcccCCchhhhhHHHhh
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN-DETLEDYLGRECPKPLKKGATKLR  177 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~-~~~~~~~~~~~~~~~l~~~~~~~~  177 (253)
                      ++.++|++++|+|++++-+... ..++..+.+..   ...|+++|.||+|..... ......+.......+++.+.....
T Consensus        72 ~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~---~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~e~Sak~~~  148 (170)
T d1i2ma_          72 YYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVC---ENIPIVLCGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAKSNY  148 (170)
T ss_dssp             GTTTCCEEEEEEETTSGGGGTTHHHHHHHHHHHH---CSCCEEEEEECCCCSCSCCTTTSHHHHSSCSSEEEEEBTTTTB
T ss_pred             hcccccchhhccccccccccchhHHHHHHHhhcc---CCCceeeecchhhhhhhhhhhHHHHHHHHcCCEEEEEeCCCCC
Confidence            6788999999999986655443 33444444432   235899999999986421 112223333333445555555444


Q ss_pred             hHHHHHH
Q 025391          178 DQQFEVD  184 (253)
Q Consensus       178 ~~~~~~~  184 (253)
                      .+.+.+.
T Consensus       149 ~v~e~f~  155 (170)
T d1i2ma_         149 NFEKPFL  155 (170)
T ss_dssp             TTTHHHH
T ss_pred             CHHHHHH
Confidence            4444443

>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=99.59  E-value=1.1e-14  Score=111.92  Aligned_cols=115  Identities=17%  Similarity=0.260  Sum_probs=79.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC-----CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA-----SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~-----~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      .+|+|+|+++||||||+|+|++........     ...+.+......... ..+..+.++|+||.           ..+.
T Consensus         6 inIaiiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~-~~~~~~~~~d~~g~-----------~~~~   73 (179)
T d1wb1a4           6 INLGIFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFK-LENYRITLVDAPGH-----------ADLI   73 (179)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHTTC--------------------CCCEEE-ETTEEEEECCCSSH-----------HHHH
T ss_pred             EEEEEEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccc-cCCccccccccccc-----------cccc
Confidence            689999999999999999999864321111     111233333333333 46788999999996           3344


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .........+|++++|++++......++..+..+... +    .|+++|+||+|...
T Consensus        74 ~~~~~~l~~~d~~ilv~d~~~g~~~~~~~~~~~~~~~-~----~p~iiv~NKiD~~~  125 (179)
T d1wb1a4          74 RAVVSAADIIDLALIVVDAKEGPKTQTGEHMLILDHF-N----IPIIVVITKSDNAG  125 (179)
T ss_dssp             HHHHHHTTSCCEEEEEEETTTCSCHHHHHHHHHHHHT-T----CCBCEEEECTTSSC
T ss_pred             cchhhhhhhccccccccccccccchhhhhhhhhhhhc-C----CcceeccccccccC
Confidence            4555566788999999999988888887777666553 3    47999999999986

>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=99.59  E-value=2.6e-15  Score=114.16  Aligned_cols=151  Identities=17%  Similarity=0.113  Sum_probs=87.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      |..||+|+|.+|+|||||++++++.........    |....+......++  ..+.+||+||..+..           .
T Consensus         3 ~~~KivlvG~~~vGKTsli~~~~~~~f~~~~~~----T~~~~~~~~~~~~~~~~~l~i~d~~g~~~~~-----------~   67 (168)
T d1u8za_           3 ALHKVIMVGSGGVGKSALTLQFMYDEFVEDYEP----TKADSYRKKVVLDGEEVQIDILDTAGQEDYA-----------A   67 (168)
T ss_dssp             CEEEEEEECSTTSSHHHHHHHHHHSCCCSCCCT----TCCEEEEEEEEETTEEEEEEEEECCC---CH-----------H
T ss_pred             ceeEEEEECCCCcCHHHHHHHHHhCCCCcccCC----ccccccccccccccccccccccccccccchh-----------h
Confidence            447999999999999999999886543222111    21111111111233  477889999986531           2


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhh
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKK  171 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~  171 (253)
                      ....++..+|++++|+|++++.+... ..++..+.+..+ ....|+++|.||+|....   ..+....+.......+++.
T Consensus        68 ~~~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~i~~~~~-~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~  146 (168)
T d1u8za_          68 IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKE-DENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVET  146 (168)
T ss_dssp             HHHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHHC-CTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEC
T ss_pred             hhhhcccccceeEEEeeccchhhhhhHHHHHHHHHHhhC-CCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEE
Confidence            22333456699999999985555444 334444444432 234589999999997431   1334555555434445555


Q ss_pred             hHHHhhhHHHHHH
Q 025391          172 GATKLRDQQFEVD  184 (253)
Q Consensus       172 ~~~~~~~~~~~~~  184 (253)
                      +.....++++.+.
T Consensus       147 Sak~g~gv~e~f~  159 (168)
T d1u8za_         147 SAKTRANVDKVFF  159 (168)
T ss_dssp             CTTTCTTHHHHHH
T ss_pred             cCCCCcCHHHHHH
Confidence            5555555555544

>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=99.59  E-value=5.1e-15  Score=112.23  Aligned_cols=150  Identities=15%  Similarity=0.071  Sum_probs=86.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+|+|||.+|+|||||++++++...........+ .....   ....+  ...+.+||++|.....           ..
T Consensus         3 ~~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~---~~~~~~~~~~l~~~d~~g~~~~~-----------~~   67 (167)
T d1kaoa_           3 EYKVVVLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRK---EIEVDSSPSVLEILDTAGTEQFA-----------SM   67 (167)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEE---EEEETTEEEEEEEEECCCTTCCH-----------HH
T ss_pred             eeEEEEECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeee---eeecCcceEeeccccCCCccccc-----------cc
Confidence            47999999999999999999997654322222211 11111   11123  3477889999976432           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...++.++|++++|+|++++.+... ..+...+....+ ....|++||.||+|.....   ......+.......+++.+
T Consensus        68 ~~~~~~~a~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~S  146 (167)
T d1kaoa_          68 RDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKR-YEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETS  146 (167)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHTT-TSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEEC
T ss_pred             hHHHhhcccceeeeeeecchhhhhhhhchhhhhhhhcc-CCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEEC
Confidence            2334456689999999985555444 233333333222 2345899999999976411   2233333333233344445


Q ss_pred             HHHhhhHHHHHH
Q 025391          173 ATKLRDQQFEVD  184 (253)
Q Consensus       173 ~~~~~~~~~~~~  184 (253)
                      .+...++++++.
T Consensus       147 ak~g~~i~e~f~  158 (167)
T d1kaoa_         147 AKSKTMVDELFA  158 (167)
T ss_dssp             TTCHHHHHHHHH
T ss_pred             CCCCcCHHHHHH
Confidence            444545544443

>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=99.58  E-value=3.5e-15  Score=113.08  Aligned_cols=152  Identities=15%  Similarity=0.109  Sum_probs=92.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+|||++|||||||++++++...........+.......  ........+.+||+||.....           ....
T Consensus         3 e~Ki~viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~l~~~d~~~~~~~~-----------~~~~   69 (166)
T d1ctqa_           3 EYKLVVVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQV--VIDGETCLLDILDTAGQEEYS-----------AMRD   69 (166)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEEEE--EETTEEEEEEEEEECCCGGGH-----------HHHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHhCCCCCccCCccceeeccce--eeeceeeeeeeeeccCccccc-----------cchh
Confidence            379999999999999999999986543222222222221111  111123468899999985421           2233


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC--hhhHHHHHcccCCchhhhhHHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN--DETLEDYLGRECPKPLKKGATK  175 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~--~~~~~~~~~~~~~~~l~~~~~~  175 (253)
                      ..+..++++++|+|++++.+... ..++..+.+..+. ...|+++|.||+|.....  .....++.......+++.+...
T Consensus        70 ~~~~~~~~~iiv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~e~Sak~  148 (166)
T d1ctqa_          70 QYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDS-DDVPMVLVGNKCDLAARTVESRQAQDLARSYGIPYIETSAKT  148 (166)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTC-SSCCEEEEEECTTCSCCCSCHHHHHHHHHHHTCCEEECCTTT
T ss_pred             hhhhcccccceeecccccccHHHHHHHHHHHHHhcCC-CCCeEEEEecccccccccccHHHHHHHHHHhCCeEEEEcCCC
Confidence            44456689999999986555443 4444555554332 235899999999975421  2344555554444566666666


Q ss_pred             hhhHHHHHH
Q 025391          176 LRDQQFEVD  184 (253)
Q Consensus       176 ~~~~~~~~~  184 (253)
                      ..++++++.
T Consensus       149 g~gi~e~f~  157 (166)
T d1ctqa_         149 RQGVEDAFY  157 (166)
T ss_dssp             CTTHHHHHH
T ss_pred             CcCHHHHHH
Confidence            666666655

>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=99.57  E-value=1.1e-14  Score=110.78  Aligned_cols=149  Identities=19%  Similarity=0.106  Sum_probs=86.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .||+|||.+|||||||++++++.........+.+.   .....+. ..+  ..+.+|||||..+..           ...
T Consensus         6 ~Ki~lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~---~~~~~~~-~~~~~~~~~~~d~~g~~~~~-----------~~~   70 (171)
T d2erya1           6 YRLVVVGGGGVGKSALTIQFIQSYFVTDYDPTIED---SYTKQCV-IDDRAARLDILDTAGQEEFG-----------AMR   70 (171)
T ss_dssp             EEEEEEECTTSSHHHHHHHHHHSCCCSSCCTTCCE---EEEEEEE-ETTEEEEEEEEECC----CC-----------HHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhCCCCcccCccccc---ceeeeee-eccccccccccccccccccc-----------ccc
Confidence            79999999999999999999876532221111111   1111122 233  478899999987643           222


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ...+..+|++++|+|.+++-+... ..++..+.+..+. ...|++||.||+|....   .......+.......+++.+.
T Consensus        71 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~~-~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa  149 (171)
T d2erya1          71 EQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDR-DEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASA  149 (171)
T ss_dssp             HHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBT
T ss_pred             cccccccceEEEeeccccccchhhHHHHhHHHHhhccc-CCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcC
Confidence            333455699999999885444333 3333334443332 23588999999997542   134555666544445555566


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++++++.
T Consensus       150 k~~~~i~e~f~  160 (171)
T d2erya1         150 KIRMNVDQAFH  160 (171)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            55666665554

>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=99.57  E-value=2e-14  Score=108.60  Aligned_cols=116  Identities=18%  Similarity=0.098  Sum_probs=76.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+||+++|++|+|||||++.|.+.......    ..|.......+. ..+..+.+||+||..           .+.....
T Consensus         2 e~ki~i~G~~~~GKTsLl~~l~~~~~~~~~----~~T~~~~~~~~~-~~~~~~~i~D~~G~~-----------~~~~~~~   65 (164)
T d1zd9a1           2 EMELTLVGLQYSGKTTFVNVIASGQFNEDM----IPTVGFNMRKIT-KGNVTIKLWDIGGQP-----------RFRSMWE   65 (164)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCCSC----CCCCSEEEEEEE-ETTEEEEEEEECCSH-----------HHHTTHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHcCCCCCcc----cccceeeeeeee-eeeEEEEEeeccccc-----------ccccccc
Confidence            379999999999999999999876543221    223333334344 467899999999963           3334445


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..+|++++|+|++++.+... ..++..+.+.. .....|++||.||.|...
T Consensus        66 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~~~~-~~~~~pi~lv~nK~Dl~~  118 (164)
T d1zd9a1          66 RYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKP-QLQGIPVLVLGNKRDLPG  118 (164)
T ss_dssp             HHHTTCSEEEEEEETTCGGGHHHHHHHHHHHHTCG-GGTTCCEEEEEECTTSTT
T ss_pred             ccccccchhhcccccccccccchhhhhhhhhhhhh-cccCCcEEEEEeccccch
Confidence            56688999999999985544333 22222222211 123468999999999864

>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=99.57  E-value=3.5e-15  Score=113.53  Aligned_cols=152  Identities=18%  Similarity=0.125  Sum_probs=90.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      |..+|+++|..|+|||||++.+++...........+... .  ..... .....+.+||++|.......           
T Consensus         3 pt~Ki~lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~-~--~~~~~~~~~~~~~i~d~~g~~~~~~~-----------   68 (169)
T d1x1ra1           3 PTYKLVVVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSY-L--KHTEIDNQWAILDVLDTAGQEEFSAM-----------   68 (169)
T ss_dssp             CEEEEEEECCTTSSHHHHHHHHHHSSCCTTCCTTCCEEE-E--EEEEETTEEEEEEEEECCSCGGGCSS-----------
T ss_pred             CcEEEEEECCCCcCHHHHHHHHHhCCCCcccCcceeecc-c--cccccccccccccccccccccccccc-----------
Confidence            458999999999999999999987653222211111111 1  11111 12357789999998654421           


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKG  172 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~  172 (253)
                      ...+++++|++++|+|++++-+... ..++..+.+..+. ...|+++|.||+|.....   .+...++.......+++.+
T Consensus        69 ~~~~~~~~~~~llv~d~~d~~Sf~~~~~~~~~i~~~~~~-~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~S  147 (169)
T d1x1ra1          69 REQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDR-ESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETS  147 (169)
T ss_dssp             HHHHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTS-SCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEB
T ss_pred             hhhhhhhccEEEEecccccchhhhccchhhHHHHhhccc-cCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEc
Confidence            2234456799999999986555444 3455555554432 235899999999986521   2345555554444455444


Q ss_pred             HHHhh-hHHHHHH
Q 025391          173 ATKLR-DQQFEVD  184 (253)
Q Consensus       173 ~~~~~-~~~~~~~  184 (253)
                      .+... ++++.+.
T Consensus       148 ak~~~~nV~~~F~  160 (169)
T d1x1ra1         148 AKDPPLNVDKTFH  160 (169)
T ss_dssp             CSSSCBSHHHHHH
T ss_pred             CCCCCcCHHHHHH
Confidence            43333 4444443

>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=99.56  E-value=4.6e-15  Score=113.61  Aligned_cols=114  Identities=19%  Similarity=0.134  Sum_probs=74.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      .||+|+|.+|+|||||++++++........ +   |............  ...+.+|||||...+.           ...
T Consensus         3 ~KivvvG~~~vGKTsLi~~~~~~~f~~~~~-~---t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-----------~~~   67 (177)
T d1kmqa_           3 KKLVIVGDGACGKTCLLIVNSKDQFPEVYV-P---TVFENYVADIEVDGKQVELALWDTAGLEDYD-----------RLR   67 (177)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCC-C---CSEEEEEEEEEETTEEEEEEEEEECCSGGGT-----------TTG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcC-C---ceeeeccccccccccceeeeccccCccchhc-----------ccc
Confidence            689999999999999999998765432211 1   2111111111122  3468899999985433           344


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..++.++|++|+|+|++++-+...  ..+...+... +.  ..|++||.||+|...
T Consensus        68 ~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~-~~--~~piilvgnK~Dl~~  120 (177)
T d1kmqa_          68 PLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHF-CP--NVPIILVGNKKDLRN  120 (177)
T ss_dssp             GGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TSCEEEEEECGGGTT
T ss_pred             hhhcccchhhhhhcccchhHHHHHHHHHHHHHHHHh-CC--CCceEEeeecccccc
Confidence            567789999999999985544333  2334444443 32  358999999999975

>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=99.56  E-value=2e-15  Score=116.36  Aligned_cols=125  Identities=17%  Similarity=0.150  Sum_probs=75.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      .|+|+|++|||||||+|+|+|......  ...+.|............+..+.++||||+.............+...+.. 
T Consensus         3 ~VaiiG~~nvGKSSLin~L~~~~~~~~--~~~~~T~~~~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~-   79 (185)
T d1lnza2           3 DVGLVGFPSVGKSTLLSVVSSAKPKIA--DYHFTTLVPNLGMVETDDGRSFVMADLPGLIEGAHQGVGLGHQFLRHIER-   79 (185)
T ss_dssp             CEEEESSTTSSHHHHHHHSEEECCEES--STTSSCCCCCEEEEECSSSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHH-
T ss_pred             eEEEECCCCCCHHHHHHHHhCCCCcee--cCCCceEeeeeceeEecCCcEEEEecCCCcccCchHHHHHHHHHHHHHHH-
Confidence            699999999999999999999875322  23344554445555545677899999999743222222222333333333 


Q ss_pred             cCCccEEEEEEeCC--CCCCHHHH-HHHHHHHHHhccc-ccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVR--SRFSQEEE-AALHSLQTLFGKK-IFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~--~~~~~~~~-~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~  151 (253)
                         ++.++++++..  ......+. .........+... ..+|+++|+||+|...
T Consensus        80 ---~~~i~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~  131 (185)
T d1lnza2          80 ---TRVIVHVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE  131 (185)
T ss_dssp             ---CCEEEEEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT
T ss_pred             ---hhhhhheeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHh
Confidence               35777777554  23333332 2222333333222 3468999999999986

>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=99.56  E-value=5.6e-15  Score=112.34  Aligned_cols=151  Identities=18%  Similarity=0.112  Sum_probs=91.3

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      ..||++||..|+|||||++++++...........+.....  ..+.. .....+.+|||||.....           ...
T Consensus         3 ~iKi~vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~--~~i~~~~~~~~l~i~d~~g~~~~~-----------~~~   69 (170)
T d1ek0a_           3 SIKLVLLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLT--QRVTINEHTVKFEIWDTAGQERFA-----------SLA   69 (170)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEE--EEEEETTEEEEEEEEEECCSGGGG-----------GGH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCccccccccceeec--cccccccccccccccccCCchhHH-----------HHH
Confidence            4799999999999999999998776433322222222222  12221 123578999999985422           223


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC------hhhHHHHHcccCCchhh
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN------DETLEDYLGRECPKPLK  170 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~------~~~~~~~~~~~~~~~l~  170 (253)
                      ..++.++|++++|+|.+++.+... ..+...+.....  ...+.+++.||+|.....      .....++.......+++
T Consensus        70 ~~~~~~~~~~ilv~d~~~~~s~~~~~~~~~~~~~~~~--~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e  147 (170)
T d1ek0a_          70 PMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQAS--KDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFE  147 (170)
T ss_dssp             HHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHSC--TTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEE
T ss_pred             HHHHhccceEEEEEeCCcccchhhhhhhhhhhccccc--cccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEE
Confidence            455678899999999986555544 222223333322  246899999999975321      23344555443445555


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+......+++++.
T Consensus       148 ~Sak~g~gV~e~F~  161 (170)
T d1ek0a_         148 TSAKTGENVNDVFL  161 (170)
T ss_dssp             CCTTTCTTHHHHHH
T ss_pred             ecCCCCcCHHHHHH
Confidence            55555555555554

>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=99.56  E-value=7e-14  Score=106.48  Aligned_cols=154  Identities=17%  Similarity=0.030  Sum_probs=85.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccc-cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKS-RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCI   97 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~   97 (253)
                      -.||+|+|.+|+|||||++++++...... ...+.+.........+. .....+.+||+|+...    .    .++  ..
T Consensus         3 ~~Kv~lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~~~~g----~----e~~--~~   71 (172)
T d2g3ya1           3 YYRVVLIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVD-GESATIILLDMWENKG----E----NEW--LH   71 (172)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEET-TEEEEEEEECCTTTTH----H----HHH--HH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccC-Cceeeeeeeccccccc----c----ccc--cc
Confidence            37999999999999999999997653222 12222222222221111 1234577899886431    1    111  23


Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcccCCchhhhhH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGRECPKPLKKGA  173 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~~~~~~l~~~~  173 (253)
                      ..++.++|++|+|+|++++.+... ..+...+....+ ....|++||.||+|.....   ......+.......+++.+.
T Consensus        72 ~~~~~~~~~~ilvfd~t~~~s~~~~~~~~~~i~~~~~-~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa  150 (172)
T d2g3ya1          72 DHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQ-TEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSA  150 (172)
T ss_dssp             HCCCCCCSEEEEEEETTCHHHHHHHHHHHHHHHTSGG-GTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBT
T ss_pred             cccccccceeeeeecccccchhhhhhhhhhhhhhccc-cCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeC
Confidence            456789999999999985544443 222333333222 2346899999999975311   22233343332334444555


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++++++.
T Consensus       151 k~g~~i~~~f~  161 (172)
T d2g3ya1         151 AVQHNVKELFE  161 (172)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            55555555444

>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=99.56  E-value=9.3e-15  Score=112.76  Aligned_cols=117  Identities=16%  Similarity=0.086  Sum_probs=75.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..+||+|+|.+|+|||||+++++..... ....+.......  ..+.. .....+.+|||||...+.           ..
T Consensus         8 ~~~Ki~lvG~~~vGKTsLi~r~~~~~f~-~~~~~Ti~~~~~--~~~~~~~~~~~l~i~D~~g~e~~~-----------~~   73 (185)
T d2atxa1           8 LMLKCVVVGDGAVGKTCLLMSYANDAFP-EEYVPTVFDHYA--VSVTVGGKQYLLGLYDTAGQEDYD-----------RL   73 (185)
T ss_dssp             EEEEEEEEECTTSSHHHHHHHHHHSSCC-CSCCCSSCCCEE--EEEESSSCEEEEEEECCCCSSSST-----------TT
T ss_pred             cEEEEEEECCCCCCHHHHHHHHhhCCCC-CcCCCceeeeee--EEEeeCCceEEeecccccccchhh-----------hh
Confidence            4479999999999999999999875432 222121111111  11111 123468899999986543           23


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|++++-+...  ..+...+... ..  ..|+++|.||+|...
T Consensus        74 ~~~~~~~a~~~ilv~d~t~~~Sf~~~~~~~~~~~~~~-~~--~~~~ilvgnK~Dl~~  127 (185)
T d2atxa1          74 RPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEY-AP--NVPFLLIGTQIDLRD  127 (185)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TCCEEEEEECTTSTT
T ss_pred             hhhcccccceeeeccccchHHHHHHHHHHHHHHHHhc-CC--CCCeeEeeecccccc
Confidence            3456788999999999986554433  2333444433 32  358999999999875

>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=99.55  E-value=1.6e-14  Score=109.07  Aligned_cols=154  Identities=12%  Similarity=0.037  Sum_probs=92.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+||+|||..|||||||++++++...........+........... .....+.++|++|...          .......
T Consensus         2 ~~Kv~liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~----------~~~~~~~   70 (165)
T d1z06a1           2 IFKIIVIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDID-GERIKIQLWDTAGQER----------FRKSMVQ   70 (165)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEET-TEEEEEEEEECCCSHH----------HHTTTHH
T ss_pred             EEEEEEECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeee-ccceEEEEEeccCchh----------hccccce
Confidence            3799999999999999999998765433333333323222222221 2345788999998632          1112233


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCC---ChhhHHHHHcccCCchhhhhHH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELED---NDETLEDYLGRECPKPLKKGAT  174 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~---~~~~~~~~~~~~~~~~l~~~~~  174 (253)
                      .++.++|++|+|+|++++-+... ..++..+.+.... ...|++||.||.|....   .....+++.......+++.+++
T Consensus        71 ~~~~~~d~~ilv~d~~~~~s~~~~~~~~~~i~~~~~~-~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk  149 (165)
T d1z06a1          71 HYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLA-NDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAK  149 (165)
T ss_dssp             HHHTTCCEEEEEEETTCHHHHHTHHHHHHHHHHHCCC-SCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSS
T ss_pred             eeecCCCceEEEEEeehhhhhhhhhhhhHHHHhhccC-CCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecc
Confidence            45678899999999986555444 3344444444322 23589999999997531   1344566666544455554432


Q ss_pred             ---HhhhHHHHHH
Q 025391          175 ---KLRDQQFEVD  184 (253)
Q Consensus       175 ---~~~~~~~~~~  184 (253)
                         ...++++++.
T Consensus       150 t~~~~~~V~e~F~  162 (165)
T d1z06a1         150 NPNDNDHVEAIFM  162 (165)
T ss_dssp             SGGGGSCHHHHHH
T ss_pred             cCCcCcCHHHHHH
Confidence               2445555554

>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=99.55  E-value=6.2e-14  Score=107.61  Aligned_cols=151  Identities=15%  Similarity=0.090  Sum_probs=92.1

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV   94 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~   94 (253)
                      ......+|+++|.+|||||||++.|.+.......     .|......... ..+..+.+|||||.....           
T Consensus        13 ~~~k~~KI~lvG~~~vGKTsLi~~l~~~~~~~~~-----~t~~~~~~~~~-~~~~~~~i~D~~g~~~~~-----------   75 (182)
T d1moza_          13 GSNKELRILILGLDGAGKTTILYRLQIGEVVTTK-----PTIGFNVETLS-YKNLKLNVWDLGGQTSIR-----------   75 (182)
T ss_dssp             TCSSCEEEEEEEETTSSHHHHHHHTCCSEEEEEC-----SSTTCCEEEEE-ETTEEEEEEEEC----CC-----------
T ss_pred             CCCceEEEEEECCCCCCHHHHHHHHhcCCCCccc-----cccceEEEEEe-eCCEEEEEEecccccccc-----------
Confidence            3445699999999999999999999877543222     12222223333 467899999999986543           


Q ss_pred             HHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCCC-ChhhHHHHHccc-----CC
Q 025391           95 KCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELED-NDETLEDYLGRE-----CP  166 (253)
Q Consensus        95 ~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~~-~~~~~~~~~~~~-----~~  166 (253)
                      .....++.++|++++|+|.+++.+...  ..+++......  ....|++||.||+|.... ....+...+...     ..
T Consensus        76 ~~~~~~~~~~~~ii~v~d~~d~~s~~~--~~~~l~~~~~~~~~~~~piliv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~  153 (182)
T d1moza_          76 PYWRCYYADTAAVIFVVDSTDKDRMST--ASKELHLMLQEEELQDAALLVFANKQDQPGALSASEVSKELNLVELKDRSW  153 (182)
T ss_dssp             TTGGGTTTTEEEEEEEEETTCTTTHHH--HHHHHHHHTTSSTTSSCEEEEEEECTTSTTCCCHHHHHHHTTTTTCCSSCE
T ss_pred             hhHHhhhccceeEEEEeeecccccchh--HHHHHHHHHHhhccCCcceEEEEEeeccccccCHHHHHHHHHHHHHhhCCC
Confidence            233456678899999999987777654  22333333221  124699999999998642 133444433211     11


Q ss_pred             chhhhhHHHhhhHHHHHH
Q 025391          167 KPLKKGATKLRDQQFEVD  184 (253)
Q Consensus       167 ~~l~~~~~~~~~~~~~~~  184 (253)
                      .++..++...+++.+.++
T Consensus       154 ~~~e~SA~~g~gv~e~~~  171 (182)
T d1moza_         154 SIVASSAIKGEGITEGLD  171 (182)
T ss_dssp             EEEEEBGGGTBTHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHH
Confidence            234455556666666554

>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=99.54  E-value=3.4e-14  Score=108.37  Aligned_cols=152  Identities=16%  Similarity=0.057  Sum_probs=92.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      -+||+|||.+|||||||++.+++.........+.+.+..  ..... ..  ...+.+||+||...           ....
T Consensus         6 ~~KI~vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~--~~~~~-~~~~~~~~~i~d~~g~~~-----------~~~~   71 (174)
T d1wmsa_           6 LFKVILLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFL--NKDLE-VDGHFVTMQIWDTAGQER-----------FRSL   71 (174)
T ss_dssp             EEEEEEECCTTSSHHHHHHHHHHSCCCC----CCSEEEE--EEEEE-ETTEEEEEEEEECCCCGG-----------GHHH
T ss_pred             eEEEEEECCCCCCHHHHHHHHHhCCCCCccccceeeeee--eeeee-ecCceeeEeeecccCcce-----------ehhh
Confidence            369999999999999999999876532222222222211  11111 23  34678999999743           2245


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc--ccCeEEEEEeCCCCCCC--ChhhHHHHHccc-CCchhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELED--NDETLEDYLGRE-CPKPLK  170 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~--~~~~~~~~~~~~-~~~~l~  170 (253)
                      .......+|++++++|.+++.+... ..+++.+.+.....  ...|+++|.||+|....  .......+.... ...+++
T Consensus        72 ~~~~~~~~~~~i~~~d~~~~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~~~v~~~~~~~~~~~~~~~~~~e  151 (174)
T d1wmsa_          72 RTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISERQVSTEEAQAWCRDNGDYPYFE  151 (174)
T ss_dssp             HGGGGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSSCSSCHHHHHHHHHHTTCCCEEE
T ss_pred             hhhhhhccceEEEEEeeecccccchhhhHHHHHHHHhccccCCCceEEEeccccchhhccCcHHHHHHHHHHcCCCeEEE
Confidence            5566788899999999985544433 33444455443221  23589999999997542  134555666532 334555


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+......+++++.
T Consensus       152 ~Sak~~~gI~e~f~  165 (174)
T d1wmsa_         152 TSAKDATNVAAAFE  165 (174)
T ss_dssp             CCTTTCTTHHHHHH
T ss_pred             EcCCCCcCHHHHHH
Confidence            56555556665554

>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=99.54  E-value=2.1e-14  Score=108.76  Aligned_cols=152  Identities=16%  Similarity=0.084  Sum_probs=90.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+|||.+|+|||||++++++........++.+.....  ..........+.+||++|......           ...
T Consensus         3 ~~KivvvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~~~--~~~~~~~~~~~~~~d~~g~~~~~~-----------~~~   69 (167)
T d1c1ya_           3 EYKLVVLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYRK--QVEVDCQQCMLEILDTAGTEQFTA-----------MRD   69 (167)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEEE--EEESSSCEEEEEEEEECSSCSSTT-----------HHH
T ss_pred             eeEEEEECCCCCCHHHHHHHHHcCCCCCccCCccccccce--eEEeeeeEEEeccccccCcccccc-----------ccc
Confidence            4799999999999999999998765432222221111111  111112345788999999876432           223


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCCCC---hhhHHHHHcc-cCCchhhhhH
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELEDN---DETLEDYLGR-ECPKPLKKGA  173 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~---~~~~~~~~~~-~~~~~l~~~~  173 (253)
                      .++.++|++|+|+|++++-+... ..++..+.+..+ ....|+++|.||+|.....   ......+... ....+++.+.
T Consensus        70 ~~~~~~~~~ilv~d~~~~~sf~~~~~~~~~~~~~~~-~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa  148 (167)
T d1c1ya_          70 LYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKD-TEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSA  148 (167)
T ss_dssp             HHHHHCSEEEEEEETTCHHHHHTHHHHHHHHHHHHC-CSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBT
T ss_pred             ccccccceeEEeeeccchhhhHhHHHHHHHHHHhcC-CCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcC
Confidence            34456799999999986555444 334444444332 2235899999999986421   2223344432 2334556666


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++++.+.
T Consensus       149 k~g~gv~e~F~  159 (167)
T d1c1ya_         149 KSKINVNEIFY  159 (167)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            66666666554

>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=99.54  E-value=4.8e-14  Score=114.41  Aligned_cols=115  Identities=30%  Similarity=0.341  Sum_probs=84.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccC----------------CCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRA----------------SSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~----------------~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ++|+|+|+.|+|||||+.+|+.........                ...+.|......+.. +++.+++++||||+.++.
T Consensus         3 RNv~iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~-~~~~~~n~iDtPGh~dF~   81 (267)
T d2dy1a2           3 RTVALVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLL-FRGHRVFLLDAPGYGDFV   81 (267)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEE-ETTEEEEEEECCCSGGGH
T ss_pred             eEEEEEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeeccccc-ccccceeEEccCchhhhh
Confidence            579999999999999999995332111100                012345555555555 589999999999998765


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                             .+....+..+    |++|+|+|+.+.........++.+.+. +    .|.++++||+|...
T Consensus        82 -------~e~~~al~~~----D~avlvvda~~Gv~~~t~~~~~~~~~~-~----~p~~i~iNk~D~~~  133 (267)
T d2dy1a2          82 -------GEIRGALEAA----DAALVAVSAEAGVQVGTERAWTVAERL-G----LPRMVVVTKLDKGG  133 (267)
T ss_dssp             -------HHHHHHHHHC----SEEEEEEETTTCSCHHHHHHHHHHHHT-T----CCEEEEEECGGGCC
T ss_pred             -------hhhhhhhccc----CceEEEeeccCCccchhHHHHHhhhhc-c----cccccccccccccc
Confidence                   3444444444    899999999999999999999888764 3    47999999999854

>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=99.54  E-value=1.2e-14  Score=112.73  Aligned_cols=115  Identities=21%  Similarity=0.115  Sum_probs=74.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC--CeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD--GQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ..||+|+|.+|+|||||++.+++....... .+   |............  ...+.+|||||...+.           ..
T Consensus         3 ~iKvvllG~~~vGKTSli~r~~~~~f~~~~-~~---t~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~-----------~~   67 (191)
T d2ngra_           3 TIKCVVVGDGAVGKTCLLISYTTNKFPSEY-VP---TVFDNYAVTVMIGGEPYTLGLFDTAGQEDYD-----------RL   67 (191)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHSCCCSSC-CC---CSEEEEEEEEEETTEEEEEEEEEECCSGGGT-----------TT
T ss_pred             ceEEEEECCCCcCHHHHHHHHHhCCCCCCc-CC---ceeeecceeEeeCCceeeeeccccccchhhh-----------hh
Confidence            379999999999999999999876542221 11   2111111111123  3478899999986533           34


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHH--HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEE--AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~--~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|++++-+....  .+...+.. ...  ..|+++|.||.|+..
T Consensus        68 ~~~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~-~~~--~~~i~lvgnK~Dl~~  121 (191)
T d2ngra_          68 RPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITH-HCP--KTPFLLVGTQIDLRD  121 (191)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHH-HCT--TCCEEEEEECGGGGG
T ss_pred             hhhcccccceeecccccchHHHHHHHHHHHHHHHhh-cCC--CCceEEEeccccccc
Confidence            45667899999999999865544332  23333333 222  358999999999864

>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=99.53  E-value=4.7e-14  Score=114.76  Aligned_cols=117  Identities=19%  Similarity=0.293  Sum_probs=86.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccc----------------cCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKS----------------RASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~----------------~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      ++|+|+|+.|+|||||+.+|+-......                .....+.|.......+. +++..++++||||+.++.
T Consensus         7 Rni~i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~-~~~~~~n~iDtPG~~dF~   85 (276)
T d2bv3a2           7 RNIGIAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCF-WKDHRINIIDAPGHVDFT   85 (276)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEE-ETTEEEEEECCCSSSSCS
T ss_pred             eEEEEEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeec-cCCeEEEEecCCchhhhH
Confidence            6799999999999999999853211000                01122455555556565 589999999999999987


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN  153 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~  153 (253)
                      ..       ...++..    +|+.|+|+|+.+........+++...+. +    .|.++++||+|....+
T Consensus        86 ~e-------~~~~l~~----~D~avlVvda~~Gv~~~T~~~w~~a~~~-~----lP~i~fINKmDr~~ad  139 (276)
T d2bv3a2          86 IE-------VERSMRV----LDGAIVVFDSSQGVEPQSETVWRQAEKY-K----VPRIAFANKMDKTGAD  139 (276)
T ss_dssp             TT-------HHHHHHH----CCEEEEEEETTTSSCHHHHHHHHHHHTT-T----CCEEEEEECTTSTTCC
T ss_pred             HH-------HHHHHHh----hhheEEeccccCCcchhHHHHHHHHHHc-C----CCEEEEEecccccccc
Confidence            43       3344444    4899999999999999999998887764 3    4899999999997543

>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=99.53  E-value=7.7e-14  Score=107.28  Aligned_cols=153  Identities=12%  Similarity=0.064  Sum_probs=88.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      +||+|||.+|||||||++++++.........+.+.+......... .....+.++||||.......           ...
T Consensus         3 ~Kv~vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~-~~~~~~~~~d~~g~~~~~~~-----------~~~   70 (184)
T d1vg8a_           3 LKVIILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVD-DRLVTMQIWDTAGQERFQSL-----------GVA   70 (184)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESS-SCEEEEEEEEECSSGGGSCS-----------CCG
T ss_pred             EEEEEECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeC-CceEEEEeeecCCccccccc-----------ccc
Confidence            699999999999999999999765432222222222222222111 12357889999997653321           234


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc--ccCeEEEEEeCCCCCCCC--hhhHHHHHcc-cCCchhhhhH
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK--IFDYMIVVFTGGDELEDN--DETLEDYLGR-ECPKPLKKGA  173 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~~~--~~~~~~~~~~-~~~~~l~~~~  173 (253)
                      ....+|++++|+|.++.-+... ..++..+.......  ...|+++|.||+|.....  ......+... ....+++.+.
T Consensus        71 ~~~~~~~~i~~~d~~~~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa  150 (184)
T d1vg8a_          71 FYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENRQVATKRAQAWCYSKNNIPYFETSA  150 (184)
T ss_dssp             GGTTCSEEEEEEETTCHHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSCCCSCHHHHHHHHHHTTSCCEEECBT
T ss_pred             cccCccEEEEeecccchhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccccchhHHHHHHHHHHhcCCeEEEEcC
Confidence            5678899999999974333322 33444444443221  235899999999975311  2233334322 2334445555


Q ss_pred             HHhhhHHHHHH
Q 025391          174 TKLRDQQFEVD  184 (253)
Q Consensus       174 ~~~~~~~~~~~  184 (253)
                      ....++..++.
T Consensus       151 k~~~gI~e~f~  161 (184)
T d1vg8a_         151 KEAINVEQAFQ  161 (184)
T ss_dssp             TTTBSHHHHHH
T ss_pred             CCCcCHHHHHH
Confidence            55555555554

>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=99.53  E-value=6e-14  Score=106.83  Aligned_cols=116  Identities=16%  Similarity=0.140  Sum_probs=78.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....+|+++|++|||||||++++++.......     .|........ ......+.+||+||...           ....
T Consensus        10 ~k~~kIvlvG~~~vGKTSli~rl~~~~~~~~~-----~t~~~~~~~~-~~~~~~~~i~D~~g~~~-----------~~~~   72 (173)
T d1e0sa_          10 NKEMRILMLGLDAAGKTTILYKLKLGQSVTTI-----PTVGFNVETV-TYKNVKFNVWDVGGQDK-----------IRPL   72 (173)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHTTCCCCEEEE-----EETTEEEEEE-EETTEEEEEEEESCCGG-----------GHHH
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCCcc-----ceeeeeEEEe-eccceeeEEecCCCcch-----------hhhH
Confidence            44589999999999999999999876542221     2222222222 24678899999999753           2355


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcc--cccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGK--KIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~~  151 (253)
                      ...++..++++++|+|++++-+...  ..+++......  ....|++||+||+|...
T Consensus        73 ~~~~~~~~~~ii~v~D~s~~~~~~~--~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~  127 (173)
T d1e0sa_          73 WRHYYTGTQGLIFVVDCADRDRIDE--ARQELHRIINDREMRDAIILIFANKQDLPD  127 (173)
T ss_dssp             HGGGTTTCCEEEEEEETTCGGGHHH--HHHHHHHHHTSGGGTTCEEEEEEECTTSTT
T ss_pred             HHhhhcccceEEEEEecccchhHHH--HHHHHHHHhhhcccccceeeeeeecccccc
Confidence            5677889999999999985444333  22233332221  23468999999999864

>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=99.50  E-value=1e-13  Score=108.54  Aligned_cols=118  Identities=18%  Similarity=0.204  Sum_probs=72.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHH-HHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIV-KCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~-~~~~   98 (253)
                      ++|+|+|++|||||||+|+|++.......  + +.+............+..+.+||+||..           .+. ..+.
T Consensus         1 k~V~ivG~~~~GKTsLl~~l~~~~~~~~~--~-t~~~~~~~~~~~~~~~~~~~~~d~~g~~-----------~~~~~~~~   66 (207)
T d2fh5b1           1 RAVLFVGLCDSGKTLLFVRLLTGQYRDTQ--T-SITDSSAIYKVNNNRGNSLTLIDLPGHE-----------SLRFQLLD   66 (207)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSCCCCBC--C-CCSCEEEEEECSSTTCCEEEEEECCCCH-----------HHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHcCCCCccc--C-CeeEEEEEEEEeeeeeeeeeeeeccccc-----------cccchhhh
Confidence            37999999999999999999987653221  1 1222222222222346789999999973           222 3344


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH---HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE---EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~---~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .++..++++++|+|+++..+...   ..+...+..........|++||.||+|...
T Consensus        67 ~~~~~~~~~i~v~D~~d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1          67 RFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  122 (207)
T ss_dssp             HHGGGEEEEEEEEETTTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             hhhhhccccceEEEcccccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCC
Confidence            55677899999999874322111   222233332222222358999999999975

>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=99.50  E-value=1.3e-13  Score=105.41  Aligned_cols=146  Identities=18%  Similarity=0.078  Sum_probs=86.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC--eEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG--QVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      |..||+++|..|+|||||++++++..... ...+...+.   ...+. .++  ..+.+|||||...         .   .
T Consensus         4 p~~ki~vlG~~~vGKTsLi~~~~~~~f~~-~~~t~~~~~---~~~i~-v~~~~~~l~i~Dt~g~~~---------~---~   66 (175)
T d2bmja1           4 PELRLGVLGDARSGKSSLIHRFLTGSYQV-LEKTESEQY---KKEML-VDGQTHLVLIREEAGAPD---------A---K   66 (175)
T ss_dssp             CEEEEEEECCTTTTHHHHHHHHHHSCCCC-CCCSSCEEE---EEEEE-ETTEEEEEEEEECSSCCC---------H---H
T ss_pred             CcEEEEEECCCCCCHHHHHHHHHhCCCCC-cCCccceeE---EEEee-cCceEEEEEEeecccccc---------c---c
Confidence            45899999999999999999998876422 111111111   11122 244  4688999999753         1   1


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhccc-ccCeEEEEEeCCCCCCCC-----hhhHHHHHcc-cCCc
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKK-IFDYMIVVFTGGDELEDN-----DETLEDYLGR-ECPK  167 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~-~~~~~ivv~~k~D~~~~~-----~~~~~~~~~~-~~~~  167 (253)
                          ++.++|++|+|+|++++-+... ..+..++....... ...|+++|+||.|.....     ......+... ....
T Consensus        67 ----~~~~ad~~ilVfd~~~~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~  142 (175)
T d2bmja1          67 ----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCS  142 (175)
T ss_dssp             ----HHHHCSEEEEEEETTCHHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEE
T ss_pred             ----cccccceeEEEeecccchhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCe
Confidence                2345699999999986655444 34455555442221 235889999988864321     2344455432 2234


Q ss_pred             hhhhhHHHhhhHHHHHH
Q 025391          168 PLKKGATKLRDQQFEVD  184 (253)
Q Consensus       168 ~l~~~~~~~~~~~~~~~  184 (253)
                      +++.+.....++.+++.
T Consensus       143 ~~e~SAk~~~~v~~~F~  159 (175)
T d2bmja1         143 YYETCATYGLNVDRVFQ  159 (175)
T ss_dssp             EEEEBTTTTBTHHHHHH
T ss_pred             EEEeCCCCCcCHHHHHH
Confidence            45555555555555544

>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=99.50  E-value=2.3e-13  Score=107.67  Aligned_cols=119  Identities=13%  Similarity=0.140  Sum_probs=81.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccc-------------------------------cCCCCccceeeeeeeeEee
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKS-------------------------------RASSSGVTSTCEMQRTVLK   66 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~-------------------------------~~~~~~~t~~~~~~~~~~~   66 (253)
                      +.+||+++|+.++|||||++.|+.......                               .....+.+......... .
T Consensus         8 ~~~~i~viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~-~   86 (222)
T d1zunb3           8 EMLRFLTCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFS-T   86 (222)
T ss_dssp             EEEEEEEECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEE-C
T ss_pred             CcceEEEEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEe-c
Confidence            448999999999999999999964321100                               00011233333333333 3


Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      .++.+.++||||+.++.           .-+......+|++++|+|+...+.++....+..+.. +|-   +++++++||
T Consensus        87 ~~~~~~iiD~PGH~dfv-----------~~~~~g~~~aD~ailVvda~~G~~~Qt~e~~~~~~~-~gv---~~iiv~vNK  151 (222)
T d1zunb3          87 AKRKFIIADTPGHEQYT-----------RNMATGASTCDLAIILVDARYGVQTQTRRHSYIASL-LGI---KHIVVAINK  151 (222)
T ss_dssp             SSEEEEEEECCCSGGGH-----------HHHHHHHTTCSEEEEEEETTTCSCHHHHHHHHHHHH-TTC---CEEEEEEEC
T ss_pred             cceEEEEEeccchhhhh-----------hhhccccccCceEEEEeccccCcccchHHHHHHHHH-cCC---CEEEEEEEc
Confidence            67899999999997642           222233466799999999999999998888776555 453   369999999


Q ss_pred             CCCCCC
Q 025391          147 GDELED  152 (253)
Q Consensus       147 ~D~~~~  152 (253)
                      +|....
T Consensus       152 ~D~~~~  157 (222)
T d1zunb3         152 MDLNGF  157 (222)
T ss_dssp             TTTTTS
T ss_pred             cccccc
Confidence            999863

>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=99.48  E-value=6.9e-14  Score=109.38  Aligned_cols=116  Identities=10%  Similarity=0.132  Sum_probs=71.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ++|+|+|++|||||||+|+|++....+      +.|.......+. .++..+.++||||.....       ..+...+..
T Consensus         4 p~V~lvG~~n~GKTSLln~l~~~~~~~------~tt~~~~~~~~~-~~~~~~~l~D~~g~~~~~-------~~~~~~~~~   69 (209)
T d1nrjb_           4 PSIIIAGPQNSGKTSLLTLLTTDSVRP------TVVSQEPLSAAD-YDGSGVTLVDFPGHVKLR-------YKLSDYLKT   69 (209)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHSSCCC------BCCCSSCEEETT-GGGSSCEEEECCCCGGGT-------HHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhCCCCCC------eEEecceEEEEE-eCCeEEEEEecccccchh-------hHHHHHHHH
Confidence            699999999999999999999876421      122222222222 467788999999986432       223334444


Q ss_pred             hcCCccEEEEEEeCCCC-CC-HHHHHHH----HHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSR-FS-QEEEAAL----HSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~-~~-~~~~~~l----~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....+.+++++++... .+ .....++    ..+.....  ...|+++|+||+|...
T Consensus        70 ~~~~~~~~i~~vd~~~~~~~~~~~~~~l~~~~~~~~~~~~--~~~piiiv~NK~D~~~  125 (209)
T d1nrjb_          70 RAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCE--NGIDILIACNKSELFT  125 (209)
T ss_dssp             HGGGEEEEEEEEETTSCTTCCHHHHHHHHHHHHHHHHHST--TCCCEEEEEECTTSTT
T ss_pred             HhhhccccceEEEEecccccHHHHHHHHHHHHHHHHHHHh--ccCCeEEEEEeecccc
Confidence            44555788888886532 22 1222222    22223222  2368999999999976

>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=99.48  E-value=2.6e-14  Score=109.92  Aligned_cols=119  Identities=18%  Similarity=0.033  Sum_probs=75.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +...||+|||.+|+|||||++++++.........+.+... .... ........+.+||++|...+.           ..
T Consensus         3 p~~iKivviG~~~vGKTsli~~~~~~~f~~~~~~ti~~~~-~~~~-~~~~~~~~~~~~d~~g~~~~~-----------~~   69 (183)
T d1mh1a_           3 PQAIKCVVVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANV-MVDGKPVNLGLWDTAGQEDYD-----------RL   69 (183)
T ss_dssp             CEEEEEEEECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEE-EETTEEEEEEEECCCCSGGGT-----------TT
T ss_pred             ceeEEEEEECCCCCCHHHHHHHHHhCCCCcccccceeece-eeee-eccCcceEEEeecccccccch-----------hh
Confidence            3458999999999999999999987654322222211111 1111 111223467899999975433           33


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHH--HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEE--EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~--~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...++.++|++++|+|++++-+...  ..+...+... ..  ..|++||.||+|...
T Consensus        70 ~~~~~~~~~~~ilv~d~~~~~sf~~i~~~~~~~~~~~-~~--~~piilvgnK~Dl~~  123 (183)
T d1mh1a_          70 RPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHH-CP--NTPIILVGTKLDLRD  123 (183)
T ss_dssp             GGGGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHH-ST--TSCEEEEEECHHHHT
T ss_pred             hhhcccccceeeeeeccchHHHHHHHHHHHHHHHHHh-CC--CCcEEEEeecccchh
Confidence            3466788999999999985544433  2234444433 22  358999999999765

>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=99.46  E-value=5.7e-13  Score=99.30  Aligned_cols=113  Identities=13%  Similarity=0.076  Sum_probs=73.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      .||+|+|++|||||||+|+|++..........     ....... ......+.++|+||...           .......
T Consensus         1 ikivlvG~~~vGKSsLi~~l~~~~~~~~~~~~-----~~~~~~~-~~~~~~~~~~d~~g~~~-----------~~~~~~~   63 (160)
T d1r8sa_           1 MRILMVGLDAAGKTTILYKLKLGEIVTTIPTI-----GFNVETV-EYKNISFTVWDVGGQDK-----------IRPLWRH   63 (160)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHHCSSCCCCCS-----SCCEEEE-ECSSCEEEEEECCCCGG-----------GHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHhcCCCCccccce-----eeEEEEE-eeeeEEEEEecCCCccc-----------chhhhhh
Confidence            48999999999999999999987643222111     1111212 23567899999999753           2234445


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHh--cccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLF--GKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~--g~~~~~~~ivv~~k~D~~~  151 (253)
                      .....+++++++|.+++.+...  ...++.+..  ......|++++.||.|...
T Consensus        64 ~~~~~~~~i~~~d~~~~~~~~~--~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~  115 (160)
T d1r8sa_          64 YFQNTQGLIFVVDSNDRERVNE--AREELMRMLAEDELRDAVLLVFANKQDLPN  115 (160)
T ss_dssp             HTTTCSEEEEEEETTCGGGHHH--HHHHHHHHHTCGGGTTCEEEEEEECTTSTT
T ss_pred             hhccceeEEEEEEecChHHHHH--HHHHHHHHHHhhcccCceEEEEeecccccc
Confidence            5678899999999986555443  222222222  1123468999999998875

>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=99.45  E-value=1.2e-13  Score=105.80  Aligned_cols=116  Identities=15%  Similarity=0.065  Sum_probs=72.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEe-eCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVL-KDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~-~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .||+|+|.+|+|||||+++++....+....++...   ........ .....+.+|||+|.....           ....
T Consensus         3 ~KivliG~~~vGKTsli~r~~~~~f~~~~~~t~~~---~~~~~~~~~~~~~~~~i~D~~g~~~~~-----------~~~~   68 (179)
T d1m7ba_           3 CKIVVVGDSQCGKTALLHVFAKDCFPENYVPTVFE---NYTASFEIDTQRIELSLWDTSGSPYYD-----------NVRP   68 (179)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHSCCCSSCCCCSEE---EEEEEEECSSCEEEEEEEEECCSGGGT-----------TTGG
T ss_pred             eEEEEECCCCcCHHHHHHHHHhCCCCCccCCceee---cccccccccceEEeecccccccccccc-----------cccc
Confidence            68999999999999999999876543221111111   11111111 123477899999975432           2234


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+.++|++|+|+|++++-+... ..++.......+.  ..|+++|.||.|...
T Consensus        69 ~~~~~~~~~ilv~d~~~~~Sf~~~~~~~~~~~~~~~~--~~~iilVgnK~Dl~~  120 (179)
T d1m7ba_          69 LSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCP--NTKMLLVGCKSDLRT  120 (179)
T ss_dssp             GGCTTCSEEEEEEETTCHHHHHHHHHTHHHHHHHHCT--TCEEEEEEECGGGGG
T ss_pred             chhhhhhhhheeeecccCCCHHHHHHHHHHHHhccCC--cceEEEEEecccccc
Confidence            56788999999999985544333 2222222222333  358999999999864

>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=99.44  E-value=1.7e-12  Score=101.44  Aligned_cols=119  Identities=18%  Similarity=0.238  Sum_probs=75.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCC-Cccc-----eeeeeee----------------------eEeeCCe
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASS-SGVT-----STCEMQR----------------------TVLKDGQ   69 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~-~~~t-----~~~~~~~----------------------~~~~~~~   69 (253)
                      |..+|+++|+.++|||||+++|+|.......... ...+     .......                      ......+
T Consensus         7 p~ini~iiGhVd~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~r   86 (205)
T d2qn6a3           7 PEVNIGVVGHVDHGKTTLVQAITGIWTSKHSEELKRGMTIKLGYAETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLR   86 (205)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHSCCC--------------CEEEEEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEE
T ss_pred             CCeEEEEEEccCCcHHHHHHHHHhhhchhhHHHHHhhcccccchhhhhhhhhhhhhhhheeeecccceeeeeeccccceE
Confidence            3379999999999999999999984321110000 0000     0000000                      0001234


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      .++++||||..           .+..........+|.+|+|+++...+ ....+..+..+.. +|.   ++++|++||+|
T Consensus        87 ~~~iiD~PGH~-----------df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~-~~i---~~iIV~vNK~D  151 (205)
T d2qn6a3          87 RISFIDAPGHE-----------VLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGI-IGV---KNLIIVQNKVD  151 (205)
T ss_dssp             EEEEEECSCHH-----------HHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHH-TTC---CCEEEEEECGG
T ss_pred             EEEEeccchHH-----------HHHhhhhcceeccccccccccccccccchhHHHHHHHHHH-cCC---ceeeeccccCC
Confidence            78999999984           34455555567889999999998776 5566666665554 353   37899999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      ...
T Consensus       152 l~~  154 (205)
T d2qn6a3         152 VVS  154 (205)
T ss_dssp             GSC
T ss_pred             Ccc
Confidence            986

>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=99.43  E-value=5.9e-13  Score=103.31  Aligned_cols=119  Identities=16%  Similarity=0.253  Sum_probs=75.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc-CCCCccceeeeeee----------------------eEeeCCeEEEEE
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR-ASSSGVTSTCEMQR----------------------TVLKDGQVVNVI   74 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~-~~~~~~t~~~~~~~----------------------~~~~~~~~~~li   74 (253)
                      +..+|+++|+.++|||||+|+|+|....... ....+.|....+..                      ........++++
T Consensus         4 ~~inIaiiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i   83 (195)
T d1kk1a3           4 AEVNIGMVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFI   83 (195)
T ss_dssp             EEEEEEEECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEE
T ss_pred             CcEEEEEEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeee
Confidence            4478999999999999999999985321110 01112221111110                      011123468999


Q ss_pred             eCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-CHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           75 DTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-SQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        75 DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ||||.           ..+..........+|++++|+++.... .......+..+... +.   ++++|++||+|...
T Consensus        84 DtPGh-----------~~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~-~~---~~iiv~inK~D~~d  146 (195)
T d1kk1a3          84 DAPGH-----------EALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQII-GQ---KNIIIAQNKIELVD  146 (195)
T ss_dssp             ECSSH-----------HHHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHH-TC---CCEEEEEECGGGSC
T ss_pred             ccchh-----------hhhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHh-cC---ccceeeeecccchh
Confidence            99996           344455555556789999999998765 45556666555543 43   36889999999986

>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=99.41  E-value=3.4e-12  Score=96.87  Aligned_cols=151  Identities=11%  Similarity=0.009  Sum_probs=87.9

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      +...||+|+|.+|||||||+++|.+........ ..+.+    .... ...+..+.++|+++.....           ..
T Consensus        13 ~k~~kI~vvG~~~~GKSsLi~rl~~~~~~~~~~-~~~~~----~~~~-~~~~~~~~~~d~~~~~~~~-----------~~   75 (177)
T d1zj6a1          13 HQEHKVIIVGLDNAGKTTILYQFSMNEVVHTSP-TIGSN----VEEI-VINNTRFLMWDIGGQESLR-----------SS   75 (177)
T ss_dssp             TSCEEEEEEESTTSSHHHHHHHHHTTSCEEEEC-CSCSS----CEEE-EETTEEEEEEECCC----C-----------GG
T ss_pred             CCeEEEEEECCCCCCHHHHHHHHhcCCCCcccc-cccee----EEEE-eecceEEEEeccccccccc-----------cc
Confidence            445899999999999999999999987533221 11111    1112 2367789999999875433           22


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCC-hhhHHHHHccc-----CCchhh
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDN-DETLEDYLGRE-----CPKPLK  170 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~-~~~~~~~~~~~-----~~~~l~  170 (253)
                      .......+++++++++.++..+....................|+++|+||+|..... ...+.+.....     ...++.
T Consensus        76 ~~~~~~~~~~~i~v~d~~d~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~  155 (177)
T d1zj6a1          76 WNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTVAEISQFLKLTSIKDHQWHIQA  155 (177)
T ss_dssp             GHHHHTTCCEEEEEEETTCTTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCCCHHHHHHHHTGGGCCSSCEEEEE
T ss_pred             hhhhhccceeeeeecccccccchhhhhhhhhhhhhcccccceEEEEEEEcccccccCcHHHHHHHHHHHhhHhcCCEEEE
Confidence            334456789999999998666554422222222212222356899999999986422 23344443321     112334


Q ss_pred             hhHHHhhhHHHHHH
Q 025391          171 KGATKLRDQQFEVD  184 (253)
Q Consensus       171 ~~~~~~~~~~~~~~  184 (253)
                      .+....+++++.++
T Consensus       156 ~Sa~tg~Gi~e~~~  169 (177)
T d1zj6a1         156 CCALTGEGLCQGLE  169 (177)
T ss_dssp             CBTTTTBTHHHHHH
T ss_pred             EeCCCCCCHHHHHH
Confidence            45555555655544

>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=99.40  E-value=1.5e-11  Score=101.42  Aligned_cols=130  Identities=17%  Similarity=0.172  Sum_probs=77.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc-cceeeeee------------------------------------
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG-VTSTCEMQ------------------------------------   61 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~-~t~~~~~~------------------------------------   61 (253)
                      .++|++||..++|||||+|+|+|..+.+.+..+.. ..+...+.                                    
T Consensus        26 ~P~ivvvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (299)
T d2akab1          26 LPQIAVVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTG  105 (299)
T ss_dssp             CCEEEEEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCS
T ss_pred             CCeEEEEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhC
Confidence            46899999999999999999999987556543321 10000000                                    


Q ss_pred             ------------eeEeeCCeEEEEEeCCCCCCCCCCc--HHHHHHHHHHHHhhcCCcc-EEEEEEeCCCCCCHHHHHHHH
Q 025391           62 ------------RTVLKDGQVVNVIDTPGLFDFSAGS--EFVGKEIVKCIGMAKDGIH-AVLVVFSVRSRFSQEEEAALH  126 (253)
Q Consensus        62 ------------~~~~~~~~~~~liDtpG~~~~~~~~--~~~~~~~~~~~~~~~~~~~-~~l~v~d~~~~~~~~~~~~l~  126 (253)
                                  .+....-..++++||||+.......  ......+...+..+...++ ++++|.+++..++...  ...
T Consensus       106 ~~~~~~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~--~~~  183 (299)
T d2akab1         106 TNKGISPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSD--ALK  183 (299)
T ss_dssp             STTCCCSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCH--HHH
T ss_pred             CCcCcCCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhH--HHH
Confidence                        0111123358999999998654332  2222334444444445555 5566667765555444  333


Q ss_pred             HHHHHhcccccCeEEEEEeCCCCCCC
Q 025391          127 SLQTLFGKKIFDYMIVVFTGGDELED  152 (253)
Q Consensus       127 ~l~~~~g~~~~~~~ivv~~k~D~~~~  152 (253)
                      +++..-  +...++++|+||+|.+..
T Consensus       184 ~~~~~~--~~~~r~i~Vltk~D~~~~  207 (299)
T d2akab1         184 IAKEVD--PQGQRTIGVITKLDLMDE  207 (299)
T ss_dssp             HHHHHC--TTCSSEEEEEECGGGSCT
T ss_pred             HHHHhC--cCCCceeeEEeccccccc
Confidence            444432  223579999999999863

>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=99.39  E-value=1.3e-12  Score=104.49  Aligned_cols=122  Identities=19%  Similarity=0.222  Sum_probs=81.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCc----------------ccc-------------CCCCccceeeeeeeeEeeCCeE
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAF----------------KSR-------------ASSSGVTSTCEMQRTVLKDGQV   70 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~----------------~~~-------------~~~~~~t~~~~~~~~~~~~~~~   70 (253)
                      .+|+++|+.++|||||+..|+.....                ..+             ....++|.......+. +.+++
T Consensus         7 iNi~iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~-~~~~~   85 (239)
T d1f60a3           7 INVVVIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFE-TPKYQ   85 (239)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEE-CSSEE
T ss_pred             cEEEEEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEec-cCCEE
Confidence            79999999999999999998521100                000             0123566666666665 47899


Q ss_pred             EEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCC-------CCHHHHHHHHHHHHHhcccccCeEEEE
Q 025391           71 VNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSR-------FSQEEEAALHSLQTLFGKKIFDYMIVV  143 (253)
Q Consensus        71 ~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~-------~~~~~~~~l~~l~~~~g~~~~~~~ivv  143 (253)
                      ++++||||+.++.           .-+......+|++|+|+++...       ..++.+..+..... +|-   ++++|+
T Consensus        86 i~iiDtPGH~df~-----------~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~-~gv---~~iiv~  150 (239)
T d1f60a3          86 VTVIDAPGHRDFI-----------KNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT-LGV---RQLIVA  150 (239)
T ss_dssp             EEEEECCCCTTHH-----------HHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH-TTC---CEEEEE
T ss_pred             EEEEECCCcHHHH-----------HHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHH-cCC---CeEEEE
Confidence            9999999997642           3344455788999999998743       23344555444333 453   368999


Q ss_pred             EeCCCCCCCChhhH
Q 025391          144 FTGGDELEDNDETL  157 (253)
Q Consensus       144 ~~k~D~~~~~~~~~  157 (253)
                      +||+|....+...+
T Consensus       151 iNKmD~~~~d~~~~  164 (239)
T d1f60a3         151 VNKMDSVKWDESRF  164 (239)
T ss_dssp             EECGGGGTTCHHHH
T ss_pred             EECCCCCCCCHHHH
Confidence            99999886433333

>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=99.38  E-value=5.6e-12  Score=96.19  Aligned_cols=129  Identities=14%  Similarity=0.206  Sum_probs=73.1

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHH
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVK   95 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~   95 (253)
                      ....++|+|+|.+|||||||+|+|++..........+. +. ..........+......++++.................
T Consensus        13 ~~~~~~I~lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~-~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   90 (188)
T d1puia_          13 SDTGIEVAFAGRSNAGKSSALNTLTNQKSLARTSKTPG-RT-QLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALG   90 (188)
T ss_dssp             CSCSEEEEEEECTTSSHHHHHTTTCCC---------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHH
T ss_pred             CccCCEEEEECCCCCCHHHHHHHHhCCCceEeeccccc-ce-eeccceecccccceeeeecccccchhhhhhhhhhhhhh
Confidence            44569999999999999999999999865333222212 22 22222222345555555555554444443433333333


Q ss_pred             HHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           96 CIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        96 ~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...........++.+.+............+..+...     ..+.++++||+|.+.
T Consensus        91 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~v~~k~D~~~  141 (188)
T d1puia_          91 EYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDS-----NIAVLVLLTKADKLA  141 (188)
T ss_dssp             HHHHHCTTEEEEEEEEETTSCCCHHHHHHHHHHHHT-----TCCEEEEEECGGGSC
T ss_pred             hhhhhhhheeEEEEeecccccchhHHHHHHHHhhhc-----cccccchhhhhhccC
Confidence            333344455667777777777777777776666553     236899999999987

>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=99.38  E-value=1.7e-12  Score=108.61  Aligned_cols=117  Identities=22%  Similarity=0.308  Sum_probs=81.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc--------------CCCCccceeeeeeeeEe---------------eCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR--------------ASSSGVTSTCEMQRTVL---------------KDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~--------------~~~~~~t~~~~~~~~~~---------------~~~   68 (253)
                      ..++|+|+|+.++|||||+.+|+........              ....+.|.........+               .+.
T Consensus        16 ~IRNI~iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~   95 (341)
T d1n0ua2          16 NVRNMSVIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNS   95 (341)
T ss_dssp             GEEEEEEECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSE
T ss_pred             cCcEEEEEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccc
Confidence            3467999999999999999999622110000              01123444433333221               133


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..++++||||+.++.       .+...++..    +|++|+|+|+.+.........++...+. +    .|.++++||+|
T Consensus        96 ~~inliDtPGh~dF~-------~ev~~al~~----~D~allVVda~eGv~~qT~~~~~~a~~~-~----~p~i~viNKiD  159 (341)
T d1n0ua2          96 FLINLIDSPGHVDFS-------SEVTAALRV----TDGALVVVDTIEGVCVQTETVLRQALGE-R----IKPVVVINKVD  159 (341)
T ss_dssp             EEEEEECCCCCCSSC-------HHHHHHHHT----CSEEEEEEETTTBSCHHHHHHHHHHHHT-T----CEEEEEEECHH
T ss_pred             eEEEEEcCCCcHHHH-------HHHHHHHhh----cCceEEEEecccCcchhHHHHHHHHHHc-C----CCeEEEEECcc
Confidence            468999999999987       445555544    4899999999999999999888877654 2    48999999999


Q ss_pred             CC
Q 025391          149 EL  150 (253)
Q Consensus       149 ~~  150 (253)
                      .+
T Consensus       160 r~  161 (341)
T d1n0ua2         160 RA  161 (341)
T ss_dssp             HH
T ss_pred             cc
Confidence            86

>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=99.36  E-value=1.9e-12  Score=98.58  Aligned_cols=122  Identities=20%  Similarity=0.265  Sum_probs=73.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      ..|+|+|.+|||||||+|+|+|.......  ....|...............+.++|+||.....  ..............
T Consensus         6 ~~I~iiG~~nvGKSSLin~L~~~~~~~~~--~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~   81 (179)
T d1egaa1           6 GFIAIVGRPNVGKSTLLNKLLGQKISITS--RKAQTTRHRIVGIHTEGAYQAIYVDTPGLHMEE--KRAINRLMNKAASS   81 (179)
T ss_dssp             EEEEEECSSSSSHHHHHHHHHTCSEEECC--CCSSCCSSCEEEEEEETTEEEEEESSSSCCHHH--HHHHHHHHTCCTTS
T ss_pred             cEEEEECCCCCCHHHHHHHHhCCCceeec--cCCCceEEEEEeeeecCCceeEeecCCCceecc--hhhhhhhhhhcccc
Confidence            46899999999999999999998753332  233333333334444567788889999975321  11111111111122


Q ss_pred             hcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++.++++.+.. ............+.+.     ..+.++|+|+.|.+.
T Consensus        82 ~~~~~~~~l~~~d~~-~~~~~~~~~~~~l~~~-----~~~~i~v~~k~d~~~  127 (179)
T d1egaa1          82 SIGDVELVIFVVEGT-RWTPDDEMVLNKLREG-----KAPVILAVNKVDNVQ  127 (179)
T ss_dssp             CCCCEEEEEEEEETT-CCCHHHHHHHHHHHSS-----SSCEEEEEESTTTCC
T ss_pred             chhhcceeEEEEecC-ccchhHHHHHHHhhhc-----cCceeeeeeeeeccc
Confidence            334567888888877 4444443343333321     246889999999886

>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=99.35  E-value=2.2e-12  Score=106.88  Aligned_cols=128  Identities=17%  Similarity=0.184  Sum_probs=71.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCc--ccee----------------------------------------
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSG--VTST----------------------------------------   57 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~--~t~~----------------------------------------   57 (253)
                      ++|++||..++|||||+|+|+|..+.+.+..+..  .+.-                                        
T Consensus        25 P~ivVvG~~ssGKSSliNaLlG~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~  104 (306)
T d1jwyb_          25 PQIVVVGSQSSGKSSVLENIVGRDFLPRGSGIVTRRPLILQLTHLPIADDGSQTQEWGEFLHKPNDMFYDFSEIREEIIR  104 (306)
T ss_dssp             CEEEEEECSSSSHHHHHHHHHTSCCCCC--------CEEEEEEECCCCTTSCCCCCEEEESSSTTCCBCCTHHHHHHHHH
T ss_pred             CeEEEEeCCCCCHHHHHHHHhCCCCCCCCCCccccCCEEEEEecCCcccCccchhhhhHHhhcCCceecCHHHHHHHHHH
Confidence            6899999999999999999999987555432211  0000                                        


Q ss_pred             ---------------eeeeeeEeeCCeEEEEEeCCCCCCCCCCcH--HHHHHHHHHHHhhcCCccEEEEE-EeCCCCCCH
Q 025391           58 ---------------CEMQRTVLKDGQVVNVIDTPGLFDFSAGSE--FVGKEIVKCIGMAKDGIHAVLVV-FSVRSRFSQ  119 (253)
Q Consensus        58 ---------------~~~~~~~~~~~~~~~liDtpG~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~l~v-~d~~~~~~~  119 (253)
                                     .....+....-..+++|||||+......+.  .....+...+..+...+++++++ ++....+..
T Consensus       105 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~  184 (306)
T d1jwyb_         105 DTDRMTGKNKGISAQPINLKIYSPHVVNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLAN  184 (306)
T ss_dssp             HCC--------CCCCCEEEEEEETTSCSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTT
T ss_pred             HHHHhcCCCCcccccceEEEecCCCCCCceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccc
Confidence                           000011111234688999999986543321  12233444555555667765555 455544433


Q ss_pred             HHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          120 EEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       120 ~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..  .+..+...-+  ...++++|+||+|.+.
T Consensus       185 ~~--~~~~~~~~~~--~~~r~i~Vitk~D~~~  212 (306)
T d1jwyb_         185 SD--ALQLAKEVDP--EGKRTIGVITKLDLMD  212 (306)
T ss_dssp             CS--HHHHHHHHCS--SCSSEEEEEECTTSSC
T ss_pred             cH--HHHHHHHhCc--CCCeEEEEEecccccc
Confidence            32  3333444322  2357999999999985

>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=99.31  E-value=8.6e-12  Score=92.82  Aligned_cols=113  Identities=10%  Similarity=0.030  Sum_probs=74.2

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA  100 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~  100 (253)
                      ||+|+|++|||||||+|+|++......     .+|......... ..+....++|++|.....           ......
T Consensus         2 KI~liG~~nvGKSSLln~l~~~~~~~~-----~~t~~~~~~~~~-~~~~~~~~~~~~~~~~~~-----------~~~~~~   64 (166)
T d2qtvb1           2 KLLFLGLDNAGKTTLLHMLKNDRLATL-----QPTWHPTSEELA-IGNIKFTTFDLGGHIQAR-----------RLWKDY   64 (166)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHSCCCCC-----CCCCSCEEEEEC-CTTCCEEEEECCCSGGGG-----------GGGGGG
T ss_pred             EEEEECCCCCCHHHHHHHHhCCCCCee-----eceeeEeEEEec-cCCeeEEEEeeccchhhh-----------hhHhhh
Confidence            899999999999999999998765322     222222222222 356788999999875322           334456


Q ss_pred             cCCccEEEEEEeCCCCCCHHHHH-HHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          101 KDGIHAVLVVFSVRSRFSQEEEA-ALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       101 ~~~~~~~l~v~d~~~~~~~~~~~-~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ....++++++++.++........ ++..... .......|++++.+|.|...
T Consensus        65 ~~~~~~~~~~~d~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~i~~~k~d~~~  115 (166)
T d2qtvb1          65 FPEVNGIVFLVDAADPERFDEARVELDALFN-IAELKDVPFVILGNKIDAPN  115 (166)
T ss_dssp             CTTCSEEEEEEETTCGGGHHHHHHHHHHHHT-CTTTTTCCEEEEEECTTSSS
T ss_pred             hhheeeeeeeccccchhhhhhhhHHHHhhhh-hhccCCceEEEEeccccccc
Confidence            67789999999998655544422 2222211 22234568999999999875

>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=99.31  E-value=2.5e-11  Score=90.77  Aligned_cols=115  Identities=15%  Similarity=0.090  Sum_probs=75.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .+||+|||.+|||||||+|+|++.......     .+......... .++..+.++|+||.....           ....
T Consensus         5 e~kI~ivG~~~vGKSSLi~~~~~~~~~~~~-----~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~-----------~~~~   67 (169)
T d1upta_           5 EMRILILGLDGAGKTTILYRLQVGEVVTTI-----PTIGFNVETVT-YKNLKFQVWDLGGLTSIR-----------PYWR   67 (169)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHSSCCCCC-----CCSSEEEEEEE-ETTEEEEEEEECCCGGGG-----------GGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhCCCCccee-----cccceeeeeec-cCceEEEEeecccccccc-----------ccch
Confidence            479999999999999999999987653221     12222222222 467889999999875422           2233


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHHHH-HHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEEAA-LHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~~~-l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ......++++++++.++..+...... +...... ......+++++.||.|...
T Consensus        68 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~iv~nk~Dl~~  120 (169)
T d1upta_          68 CYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE-EELRKAILVVFANKQDMEQ  120 (169)
T ss_dssp             GGCTTCSEEEEEEETTCCTTHHHHHHHHHHHHTC-GGGTTCEEEEEEECTTSTT
T ss_pred             hhhhhhhhhhhhhhhhhcchhhhccchhhhhhhh-hccccceEEEEEeeccccc
Confidence            45567799999999885555554222 2222221 2223468899999999986

>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=99.26  E-value=6.2e-12  Score=99.61  Aligned_cols=118  Identities=23%  Similarity=0.295  Sum_probs=72.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcc-----------------------------ccCCCCccceeeeeeeeEeeCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFK-----------------------------SRASSSGVTSTCEMQRTVLKDG   68 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~-----------------------------~~~~~~~~t~~~~~~~~~~~~~   68 (253)
                      |..+|+++|+.++|||||+.+|+......                             ......+.+......... +++
T Consensus         2 p~iNi~viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~-~~~   80 (224)
T d1jnya3           2 PHLNLIVIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFE-TKK   80 (224)
T ss_dssp             CEEEEEEEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEE-CSS
T ss_pred             CccEEEEEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEe-cCC
Confidence            34799999999999999999986321100                             001123445444444444 478


Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCH-------HHHHHHHHHHHHhcccccCeEE
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQ-------EEEAALHSLQTLFGKKIFDYMI  141 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~-------~~~~~l~~l~~~~g~~~~~~~i  141 (253)
                      ..++++||||+.++.           .-+......+|++|+|+|+......       ..++.+... +.+|.   ++++
T Consensus        81 ~~i~iiDtPGH~df~-----------~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~-~~~~~---~~iI  145 (224)
T d1jnya3          81 YFFTIIDAPGHRDFV-----------KNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILA-KTMGL---DQLI  145 (224)
T ss_dssp             CEEEECCCSSSTTHH-----------HHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHH-HHTTC---TTCE
T ss_pred             ceeEEeeCCCcHHHH-----------HHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHH-HHhCC---CceE
Confidence            899999999997643           4444455677999999999865322       223333222 23343   3689


Q ss_pred             EEEeCCCCCC
Q 025391          142 VVFTGGDELE  151 (253)
Q Consensus       142 vv~~k~D~~~  151 (253)
                      +++||.|...
T Consensus       146 v~iNK~D~~~  155 (224)
T d1jnya3         146 VAVNKMDLTE  155 (224)
T ss_dssp             EEEECGGGSS
T ss_pred             EEEEcccCCC
Confidence            9999999874

>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=99.22  E-value=7e-11  Score=89.65  Aligned_cols=118  Identities=11%  Similarity=0.006  Sum_probs=70.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKC   96 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~   96 (253)
                      ....||+|||++|||||||+++|++.......+     +.......+. ..+....++|+++......           .
T Consensus        11 ~k~~kI~lvG~~~vGKTsLl~~l~~~~~~~~~~-----~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~-----------~   73 (186)
T d1f6ba_          11 KKTGKLVFLGLDNAGKTTLLHMLKDDRLGQHVP-----TLHPTSEELT-IAGMTFTTFDLGGHIQARR-----------V   73 (186)
T ss_dssp             TCCEEEEEEEETTSSHHHHHHHHSCC------C-----CCCCSCEEEE-ETTEEEEEEEECC----CC-----------G
T ss_pred             CCCCEEEEECCCCCCHHHHHHHHhCCCCcceec-----ccccceeEEE-ecccccccccccchhhhhh-----------H
Confidence            455899999999999999999999886532221     1122222233 3567788999988765432           2


Q ss_pred             HHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           97 IGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        97 ~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .......+++++++++.++.......................|++++.||.|...
T Consensus        74 ~~~~~~~~~~~~~~~d~~d~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~  128 (186)
T d1f6ba_          74 WKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE  128 (186)
T ss_dssp             GGGGGGGCSEEEEEEETTCGGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT
T ss_pred             HhhhhcccceeeeeeeccCccchHHHHHHHHHhhcccccCCCceEEEEeccCccc
Confidence            2345567789999999875544444222111111111223469999999999864

>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=99.19  E-value=4.8e-11  Score=92.09  Aligned_cols=114  Identities=16%  Similarity=0.104  Sum_probs=71.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+|+|.+|||||||++.+..   .....+    |.......+. .++..+.+||++|...           ......
T Consensus         2 ~iKivllG~~~vGKTsll~r~~f---~~~~~p----TiG~~~~~~~-~~~~~~~~~D~~gq~~-----------~~~~~~   62 (200)
T d1zcba2           2 LVKILLLGAGESGKSTFLKQMRI---IHGQDP----TKGIHEYDFE-IKNVPFKMVDVGGQRS-----------ERKRWF   62 (200)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHH---HHSCCC----CSSEEEEEEE-ETTEEEEEEEECC------------------CT
T ss_pred             eEEEEEECCCCCCHHHHHHHHhc---CCCCCC----eeeeEEEEEe-eeeeeeeeecccceee-----------eccccc
Confidence            47999999999999999999931   111112    3223333344 4788999999999843           334456


Q ss_pred             hhcCCccEEEEEEeCCCCCCH--------HHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQ--------EEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~--------~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      .++...++++++++.++....        .......++.......  ...|+++++||.|.+.
T Consensus        63 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~  125 (200)
T d1zcba2          63 ECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLE  125 (200)
T ss_dssp             TSCTTCCEEEEEEETTCTTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHH
T ss_pred             ccccccceeEEEEEcCCcceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhh
Confidence            777888999999998754321        1123333333333221  2469999999999863

>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=99.15  E-value=5.4e-11  Score=95.24  Aligned_cols=117  Identities=20%  Similarity=0.223  Sum_probs=65.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcc-----------------------------ccCCCCccceeeeeeeeEeeCCe
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFK-----------------------------SRASSSGVTSTCEMQRTVLKDGQ   69 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~-----------------------------~~~~~~~~t~~~~~~~~~~~~~~   69 (253)
                      ..+|+++|+.++|||||+..|+......                             ......+.+......... +.+.
T Consensus        24 ~iNi~iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~-~~~~  102 (245)
T d1r5ba3          24 HVNIVFIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFE-TEHR  102 (245)
T ss_dssp             EEEEEEEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEE-CSSE
T ss_pred             ceEEEEEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccccc-cccc
Confidence            3579999999999999999994221100                             000112333333333333 4678


Q ss_pred             EEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCC-------CHHHHHHHHHHHHHhcccccCeEEE
Q 025391           70 VVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRF-------SQEEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        70 ~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~-------~~~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                      .+.++||||+.++.           .........+|++++|+++....       ....+..+..+.. +|-   +++++
T Consensus       103 ~i~~iDtPGH~df~-----------~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~-~~i---~~iiv  167 (245)
T d1r5ba3         103 RFSLLDAPGHKGYV-----------TNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART-QGI---NHLVV  167 (245)
T ss_dssp             EEEECCCCC----------------------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH-TTC---SSEEE
T ss_pred             eeeeecccccccch-----------hhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH-cCC---CeEEE
Confidence            99999999997654           33333446779999999997543       2234445543333 343   36889


Q ss_pred             EEeCCCCCC
Q 025391          143 VFTGGDELE  151 (253)
Q Consensus       143 v~~k~D~~~  151 (253)
                      ++||+|...
T Consensus       168 ~iNKmD~~~  176 (245)
T d1r5ba3         168 VINKMDEPS  176 (245)
T ss_dssp             EEECTTSTT
T ss_pred             EEEcCCCCc
Confidence            999999874

>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=99.11  E-value=1.7e-10  Score=90.96  Aligned_cols=113  Identities=17%  Similarity=0.181  Sum_probs=75.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+|+|.+|||||||++.+.....    .++.|+    ....+. .++..+.+||++|.....           ....
T Consensus         6 ~~KilllG~~~vGKTsll~~~~~~~~----~pTiG~----~~~~~~-~~~~~~~~~D~~Gq~~~r-----------~~w~   65 (221)
T d1azta2           6 THRLLLLGAGESGKSTIVKQMRILHV----VLTSGI----FETKFQ-VDKVNFHMFDVGGQRDER-----------RKWI   65 (221)
T ss_dssp             SEEEEEECSTTSSHHHHHHHHHHHHC----CCCCSC----EEEEEE-ETTEEEEEEECCCSTTTT-----------TGGG
T ss_pred             cCEEEEECCCCCCHHHHHHHHhcCCc----CCCCCe----EEEEEE-ECcEEEEEEecCccceec-----------cchh
Confidence            37999999999999999999853221    112222    222233 478899999999986432           4445


Q ss_pred             hhcCCccEEEEEEeCCCCC--------CHHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRF--------SQEEEAALHSLQTLFGKK--IFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~--------~~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~~  151 (253)
                      .++.+++++++|++.++..        .....+.+..+...+..+  ...|++|++||+|.+.
T Consensus        66 ~~~~~~~~ii~v~d~s~~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~  128 (221)
T d1azta2          66 QCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLA  128 (221)
T ss_dssp             GGCTTCSEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHH
T ss_pred             hhcccccceEEEEEccccccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhh
Confidence            7788999999999976321        111223344444444443  3469999999999985

>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=99.10  E-value=8.7e-11  Score=90.04  Aligned_cols=111  Identities=13%  Similarity=0.108  Sum_probs=72.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..||+|||..|||||||++.+.....+..     +.    ....+. .....+.+|||+|...           +.....
T Consensus         2 e~KivllG~~~vGKTsl~~r~~~~~~~t~-----~~----~~~~~~-~~~~~~~i~D~~Gq~~-----------~~~~~~   60 (195)
T d1svsa1           2 EVKLLLLGAGESGKSTIVKQMKIIHEAGT-----GI----VETHFT-FKDLHFKMFDVGGQRS-----------ERKKWI   60 (195)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHHHHSCCC-----SE----EEEEEE-ETTEEEEEEEECCSGG-----------GGGGGG
T ss_pred             ceEEEEECCCCCCHHHHHHHHhhCCCCCc-----cE----EEEEEE-eeeeeeeeeccccccc-----------cccchh
Confidence            47999999999999999999875433211     11    112222 4678899999999853           345566


Q ss_pred             hhcCCccEEEEEEeCCCCCCH--------HHHHHHHHHHHHhcc--cccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQ--------EEEAALHSLQTLFGK--KIFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~--------~~~~~l~~l~~~~g~--~~~~~~ivv~~k~D~~  150 (253)
                      .++.+++++++|++.++..+.        ........+......  ....|+++++||.|.+
T Consensus        61 ~~~~~~~~~i~v~d~~~~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~  122 (195)
T d1svsa1          61 HCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLF  122 (195)
T ss_dssp             GGCTTCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHH
T ss_pred             hcccCCceeeeEEeecccchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhh
Confidence            888999999999998643322        111222222222221  1235899999999875

>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=99.04  E-value=3e-10  Score=87.31  Aligned_cols=114  Identities=12%  Similarity=0.075  Sum_probs=74.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+|+++|..|||||||++.+..... . ..    +|.......+. .....+.+||++|.....           ....
T Consensus         2 e~Kiv~lG~~~vGKTsll~r~~~~~~-~-~~----pTiG~~~~~~~-~~~~~~~~~d~~g~~~~~-----------~~~~   63 (200)
T d2bcjq2           2 ELKLLLLGTGESGKSTFIKQMRIIHG-S-GV----PTTGIIEYPFD-LQSVIFRMVDVGGQRSER-----------RKWI   63 (200)
T ss_dssp             EEEEEEEESTTSSHHHHHHHHHHHTS-S-CC----CCCSCEEEEEE-CSSCEEEEEECCCSTTGG-----------GGGG
T ss_pred             eeEEEEECCCCCCHHHHHHHHhCCCC-C-CC----ceeeEEEEEEe-ccceeeeecccccccccc-----------cccc
Confidence            47999999999999999999975543 1 12    22222233333 367789999999985432           4455


Q ss_pred             hhcCCccEEEEEEeCCCCCC--------HHHHHHHHHHHHHhccc--ccCeEEEEEeCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFS--------QEEEAALHSLQTLFGKK--IFDYMIVVFTGGDEL  150 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~--------~~~~~~l~~l~~~~g~~--~~~~~ivv~~k~D~~  150 (253)
                      .++.++++++++++.++...        ......+..+......+  ...|+++++||.|..
T Consensus        64 ~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~  125 (200)
T d2bcjq2          64 HCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLL  125 (200)
T ss_dssp             GGCSSCSEEEEEEEGGGGGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHH
T ss_pred             ccccccceeeEeeeccchhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhh
Confidence            77789999999998864321        11122233333332222  346899999999986

>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=99.00  E-value=3.1e-10  Score=93.31  Aligned_cols=92  Identities=17%  Similarity=0.137  Sum_probs=60.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeC----------------CeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKD----------------GQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~----------------~~~~~liDtpG~~~   81 (253)
                      ...+|||||.++||||||+|+|++...+... ....+|..++...+...+                ...+.++|.||+..
T Consensus         9 ~~~kiGivG~Pn~GKSTlfnalT~~~~~~~a-nypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~   87 (296)
T d1ni3a1           9 NNLKTGIVGMPNVGKSTFFRAITKSVLGNPA-NYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTK   87 (296)
T ss_dssp             SCCEEEEEECSSSSHHHHHHHHHHSTTTSTT-CCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCC
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHCCCCCCcC-CCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeecccccc
Confidence            3489999999999999999999987543222 222344444443333211                23688999999986


Q ss_pred             CCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           82 FSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      ..+.+.....++...++    .+|+++.|+++.
T Consensus        88 gA~~g~GLGn~fL~~ir----~~d~lihVV~~f  116 (296)
T d1ni3a1          88 GASTGVGLGNAFLSHVR----AVDAIYQVVRAF  116 (296)
T ss_dssp             CCCSSSSSCHHHHHHHT----TCSEEEEEEECC
T ss_pred             ccccccccHHHHHHHhh----ccceeEEEEecc
Confidence            55544444445554444    458999999875

>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=98.96  E-value=1.9e-10  Score=93.73  Aligned_cols=88  Identities=18%  Similarity=0.121  Sum_probs=55.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCC----------------eEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDG----------------QVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~----------------~~~~liDtpG~~~~~   83 (253)
                      .+|||||.++||||||+|+|++......  ....+|...+.+.+...+.                ..+.++|.||+....
T Consensus         3 ~~~GivG~Pn~GKSTlf~~lt~~~~~~~--~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga   80 (278)
T d1jala1           3 FKCGIVGLPNVGKSTLFNALTKAGIEAA--NYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGA   80 (278)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHTC--------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTH
T ss_pred             ceEEEECCCCCCHHHHHHHHHCCCCccc--cCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCc
Confidence            7999999999999999999998764211  1223343444443332111                257899999997544


Q ss_pred             CCcHHHHHHHHHHHHhhcCCccEEEEEEeC
Q 025391           84 AGSEFVGKEIVKCIGMAKDGIHAVLVVFSV  113 (253)
Q Consensus        84 ~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~  113 (253)
                      +.+.....++.+.++.+    |+++.|+++
T Consensus        81 ~~g~Glg~~FL~~ir~~----d~LihVVr~  106 (278)
T d1jala1          81 SKGEGLGNKFLANIRET----DAIGHVVRC  106 (278)
T ss_dssp             HHHGGGTCCHHHHHHTC----SEEEEEEEC
T ss_pred             ccCCCccHHHHHHHHhc----cceEEEeec
Confidence            33333344555555555    899999976

>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=98.95  E-value=2.3e-10  Score=95.04  Aligned_cols=89  Identities=15%  Similarity=-0.030  Sum_probs=43.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeE-----------------------eeCCeEEEEEeC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTV-----------------------LKDGQVVNVIDT   76 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~-----------------------~~~~~~~~liDt   76 (253)
                      .+|+|||.++||||||+|+|+|........  ..+|...+.+...                       ......+.++|+
T Consensus         1 ~~v~lvG~pn~GKStlfn~lt~~~~~v~ny--pftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~   78 (319)
T d1wxqa1           1 MEIGVVGKPNVGKSTFFSAATLVDVEIANY--PFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDV   78 (319)
T ss_dssp             CEEEEEECTTSSHHHHHHHHHC----------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEEC
T ss_pred             CcEeEECCCCCCHHHHHHHHHCCCCchhcC--CCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEEC
Confidence            379999999999999999999986422111  1122221111100                       011246899999


Q ss_pred             CCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCC
Q 025391           77 PGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVR  114 (253)
Q Consensus        77 pG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~  114 (253)
                      ||+....+.+..    +...+-.....+|++++|+|+.
T Consensus        79 pGli~ga~~g~~----~~~~~l~~i~~~d~ii~VVd~~  112 (319)
T d1wxqa1          79 AGLVPGAHEGRG----LGNKFLDDLRMASALIHVVDAT  112 (319)
T ss_dssp             C-------------------CCCSSTTCSEEEEEEETT
T ss_pred             CCcccchhcccc----hHHHHHHhhccceEEEEEeccc
Confidence            999754332221    2222223346789999999975

>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=98.90  E-value=3.7e-09  Score=87.71  Aligned_cols=24  Identities=21%  Similarity=0.224  Sum_probs=22.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ++.++|+|.|++|||||||++.|.
T Consensus        52 ~~~~~IgitG~pGaGKSTLi~~l~   75 (327)
T d2p67a1          52 GNTLRLGVTGTPGAGKSTFLEAFG   75 (327)
T ss_dssp             SCSEEEEEEECTTSCHHHHHHHHH
T ss_pred             CCceEEEeeCCCCCCHHHHHHHHH
Confidence            456999999999999999999997

>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=98.89  E-value=2e-09  Score=87.30  Aligned_cols=69  Identities=22%  Similarity=0.321  Sum_probs=44.4

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEF   88 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~   88 (253)
                      ......+|++||.++||||||+|+|.|.....++..+ |.|.....  +  ..+..+.++||||+.-.....+.
T Consensus       108 ~~~~~~~v~vvG~PNvGKSsliN~L~~~~~~~~~~~p-G~Tr~~~~--i--~~~~~~~l~DTPGi~~p~~~~~~  176 (273)
T d1puja_         108 VKPRAIRALIIGIPNVGKSTLINRLAKKNIAKTGDRP-GITTSQQW--V--KVGKELELLDTPGILWPKFEDEL  176 (273)
T ss_dssp             CCCCCEEEEEEESTTSSHHHHHHHHHTSCCC-------------CC--E--EETTTEEEEECCCCCCSCCCCHH
T ss_pred             CCCCceEEEEEecCccchhhhhhhhhccceEEECCcc-cccccceE--E--ECCCCeEEecCCCccccCCccHH
Confidence            3445689999999999999999999999876555433 44443322  2  23567999999999866555444

>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=98.83  E-value=1.3e-09  Score=85.30  Aligned_cols=62  Identities=23%  Similarity=0.265  Sum_probs=39.5

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCC----C--CccceeeeeeeeEeeCCeEEEEEeCCCCCCCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRAS----S--SGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSA   84 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~----~--~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~   84 (253)
                      ....+++|++|||||||+|+|++.....++..    .  ..+|+....+...  .  ...++||||+-++..
T Consensus        95 ~kt~~~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~--~--gg~iiDTPG~r~~~l  162 (225)
T d1u0la2          95 GKISTMAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFD--F--GGYVVDTPGFANLEI  162 (225)
T ss_dssp             SSEEEEECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECT--T--SCEEESSCSSTTCCC
T ss_pred             CCeEEEECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEEC--C--CcEEEeCCccccccc
Confidence            36889999999999999999998765434321    1  1233333333321  2  347999999976553

>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=98.82  E-value=4.6e-09  Score=81.65  Aligned_cols=127  Identities=19%  Similarity=0.202  Sum_probs=70.0

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccc------------------eeeeeeee------------
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVT------------------STCEMQRT------------   63 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t------------------~~~~~~~~------------   63 (253)
                      -++.++..|++||++|+||||++-.|+..... .+....-++                  ..+.++..            
T Consensus         6 ~~~~~p~vi~lvGptGvGKTTTiAKLAa~~~~-~~~kV~lit~Dt~R~gA~eQL~~~a~~l~i~~~~~~~~~d~~~~~~~   84 (213)
T d1vmaa2           6 VPPEPPFVIMVVGVNGTGKTTSCGKLAKMFVD-EGKSVVLAAADTFRAAAIEQLKIWGERVGATVISHSEGADPAAVAFD   84 (213)
T ss_dssp             CCSSSCEEEEEECCTTSSHHHHHHHHHHHHHH-TTCCEEEEEECTTCHHHHHHHHHHHHHHTCEEECCSTTCCHHHHHHH
T ss_pred             CCCCCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCceEEEeecccccchhHHHHHHhhhcCccccccCCCCcHHHHHHH
Confidence            34556678999999999999998877643210 010000000                  00001000            


Q ss_pred             ----EeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc----CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhccc
Q 025391           64 ----VLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK----DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKK  135 (253)
Q Consensus        64 ----~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~  135 (253)
                          ....+.++++|||||....   +.....++........    ..|+-.++|++++..  ..+   +..+...|.. 
T Consensus        85 ~~~~~~~~~~d~ilIDTaGr~~~---d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~--~~~---~~~~~~~~~~-  155 (213)
T d1vmaa2          85 AVAHALARNKDVVIIDTAGRLHT---KKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTG--QNG---LVQAKIFKEA-  155 (213)
T ss_dssp             HHHHHHHTTCSEEEEEECCCCSC---HHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGH--HHH---HHHHHHHHHH-
T ss_pred             HHHHHHHcCCCEEEEeccccccc---hHHHHHHHHHHHhhhhhccccccceeEEeeccccC--cch---hhhhhhhccc-
Confidence                0013457899999997532   3444455555544332    247889999998622  222   2222222211 


Q ss_pred             ccCeEEEEEeCCCCCC
Q 025391          136 IFDYMIVVFTGGDELE  151 (253)
Q Consensus       136 ~~~~~ivv~~k~D~~~  151 (253)
                       ....-+++||.|...
T Consensus       156 -~~~~~lI~TKlDe~~  170 (213)
T d1vmaa2         156 -VNVTGIILTKLDGTA  170 (213)
T ss_dssp             -SCCCEEEEECGGGCS
T ss_pred             -cCCceEEEecccCCC
Confidence             135778999999975

>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=98.79  E-value=6.7e-09  Score=80.40  Aligned_cols=78  Identities=19%  Similarity=0.111  Sum_probs=44.5

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhh-cCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMA-KDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      +.++++|||||........-.....+...+... ...|+-+++|++++..... -....... +.++     +.-+++||
T Consensus        88 ~~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~-~~~~~~~~-~~~~-----~~~lI~TK  160 (207)
T d1okkd2          88 GYDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNG-LEQAKKFH-EAVG-----LTGVIVTK  160 (207)
T ss_dssp             TCSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHH-HHHHHHHH-HHHC-----CSEEEEEC
T ss_pred             CCCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchH-HHHHHHhh-hccC-----CceEEEec
Confidence            457899999998643322122222333333322 2467889999998744332 22222222 2233     46789999


Q ss_pred             CCCCCC
Q 025391          147 GDELED  152 (253)
Q Consensus       147 ~D~~~~  152 (253)
                      .|....
T Consensus       161 lDet~~  166 (207)
T d1okkd2         161 LDGTAK  166 (207)
T ss_dssp             TTSSCC
T ss_pred             cCCCCC
Confidence            999753

>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=98.76  E-value=3e-08  Score=78.16  Aligned_cols=77  Identities=14%  Similarity=0.028  Sum_probs=42.8

Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGD  148 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D  148 (253)
                      ..+.++|+||+.+..     ........+.. ....+.+++++|+....++...................|.++|+||.|
T Consensus        95 ~~~~~id~~g~~~~~-----~~~~~~~~~~~-~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~~~~~~~ivvinK~D  168 (244)
T d1yrba1          95 NDYVLIDTPGQMETF-----LFHEFGVRLME-NLPYPLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVD  168 (244)
T ss_dssp             CSEEEEECCSSHHHH-----HHSHHHHHHHH-TSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGG
T ss_pred             cceeeeccccchhHH-----HHHHHHHHHHh-hccCceEEEEeccccccCchhHhhHHHHHHHHHHHhCCCceeeeeccc
Confidence            458999999985311     00111111111 134568888998875666655333222211111112247999999999


Q ss_pred             CCC
Q 025391          149 ELE  151 (253)
Q Consensus       149 ~~~  151 (253)
                      .+.
T Consensus       169 ~~~  171 (244)
T d1yrba1         169 LLS  171 (244)
T ss_dssp             GCC
T ss_pred             ccc
Confidence            997

>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=98.72  E-value=6.7e-09  Score=80.50  Aligned_cols=75  Identities=17%  Similarity=0.230  Sum_probs=44.2

Q ss_pred             CeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhc----CCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEE
Q 025391           68 GQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAK----DGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVV  143 (253)
Q Consensus        68 ~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv  143 (253)
                      +.++++|||||...   .+.....++........    ..|+-.++|++++..  ..+........+.++     ..-++
T Consensus        91 ~~d~ilIDTaGr~~---~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~--~~~~~~~~~~~~~~~-----~~~lI  160 (211)
T d2qy9a2          91 NIDVLIADTAGRLQ---NKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTG--QNAVSQAKLFHEAVG-----LTGIT  160 (211)
T ss_dssp             TCSEEEECCCCCGG---GHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGT--HHHHHHHHHHHHHSC-----CCEEE
T ss_pred             CCCEEEeccCCCcc---ccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccC--cchHHHHhhhhhccC-----CceEE
Confidence            45789999999753   23344455555443321    246889999998633  223222222222222     57789


Q ss_pred             EeCCCCCCC
Q 025391          144 FTGGDELED  152 (253)
Q Consensus       144 ~~k~D~~~~  152 (253)
                      +||.|....
T Consensus       161 lTKlDe~~~  169 (211)
T d2qy9a2         161 LTKLDGTAK  169 (211)
T ss_dssp             EECCTTCTT
T ss_pred             EeecCCCCC
Confidence            999999753

>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=98.70  E-value=1.9e-09  Score=84.52  Aligned_cols=59  Identities=29%  Similarity=0.401  Sum_probs=34.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCC----CC--ccceeeeeeeeEeeCCeEEEEEeCCCCCCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRAS----SS--GVTSTCEMQRTVLKDGQVVNVIDTPGLFDFS   83 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~----~~--~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~   83 (253)
                      .+.+|+|++|||||||+|+|++.....++..    ..  .+|+.....  . ..+  -.++||||+-++.
T Consensus        98 ~~~vl~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~--~-~~g--g~iiDTPG~r~~~  162 (231)
T d1t9ha2          98 KTTVFAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELI--H-TSG--GLVADTPGFSSLE  162 (231)
T ss_dssp             SEEEEEESHHHHHHHHHHHHCC-------------------CCCCCEE--E-ETT--EEEESSCSCSSCC
T ss_pred             ceEEEECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEE--e-cCC--CEEEECCcccccc
Confidence            5778999999999999999999765443321    11  233333332  2 233  3689999997655

>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=98.70  E-value=1.1e-07  Score=73.45  Aligned_cols=73  Identities=21%  Similarity=0.244  Sum_probs=46.5

Q ss_pred             CCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeC
Q 025391           67 DGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTG  146 (253)
Q Consensus        67 ~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k  146 (253)
                      .+.++++|||||....   +.....++.......  .|+-+++|++++..  .........+.+.++     ..-+++||
T Consensus        91 ~~~d~vlIDTaGr~~~---d~~~~~el~~~~~~~--~~~~~llv~~a~~~--~~~~~~~~~f~~~~~-----~~~~I~TK  158 (207)
T d1ls1a2          91 EARDLILVDTAGRLQI---DEPLMGELARLKEVL--GPDEVLLVLDAMTG--QEALSVARAFDEKVG-----VTGLVLTK  158 (207)
T ss_dssp             HTCCEEEEECCCCSSC---CHHHHHHHHHHHHHH--CCSEEEEEEEGGGT--HHHHHHHHHHHHHTC-----CCEEEEEC
T ss_pred             ccCcceeecccccchh---hhhhHHHHHHHHhhc--CCceEEEEeccccc--hhHHHHHHHHHhhCC-----CCeeEEee
Confidence            3457899999998643   344456666555443  56788999887633  233334444444333     46689999


Q ss_pred             CCCCC
Q 025391          147 GDELE  151 (253)
Q Consensus       147 ~D~~~  151 (253)
                      .|...
T Consensus       159 lDe~~  163 (207)
T d1ls1a2         159 LDGDA  163 (207)
T ss_dssp             GGGCS
T ss_pred             cCccc
Confidence            99875

>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=98.70  E-value=2.7e-08  Score=77.14  Aligned_cols=125  Identities=14%  Similarity=0.097  Sum_probs=63.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCcccee------------------eeeeeeE--------------
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTST------------------CEMQRTV--------------   64 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~------------------~~~~~~~--------------   64 (253)
                      ..+..|++||++|+||||++-.|+..... .+....-++.+                  +.+....              
T Consensus        10 k~p~vi~lvGptGvGKTTTiAKLA~~~~~-~g~kV~lit~Dt~R~ga~eQL~~~a~~l~v~~~~~~~~~~~~~~~~~a~~   88 (211)
T d1j8yf2          10 KIPYVIMLVGVQGTGKATTAGKLAYFYKK-KGFKVGLVGADVYRPAALEQLQQLGQQIGVPVYGEPGEKDVVGIAKRGVE   88 (211)
T ss_dssp             SSSEEEEEECSCCC----HHHHHHHHHHH-TTCCEEEEECCCSSHHHHHHHHHHHHHHTCCEECCTTCCCHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHH-CCCceEEEEeeccccchhHHHHHhccccCcceeecccchhhhHHHHHHHH
Confidence            44578999999999999998887643210 11000000100                  0000000              


Q ss_pred             --eeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEE
Q 025391           65 --LKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIV  142 (253)
Q Consensus        65 --~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~iv  142 (253)
                        ...+.++++|||||..... .......++.......  .++-+++|++++......+  ......+.++     ..-+
T Consensus        89 ~~~~~~~d~IlIDTaGr~~~~-~~~~~~~el~~~~~~~--~~~~~~LVl~a~~~~~~~~--~~~~~~~~~~-----~~~l  158 (211)
T d1j8yf2          89 KFLSEKMEIIIVDTAGRHGYG-EEAALLEEMKNIYEAI--KPDEVTLVIDASIGQKAYD--LASKFNQASK-----IGTI  158 (211)
T ss_dssp             HHHHTTCSEEEEECCCSCCTT-CHHHHHHHHHHHHHHH--CCSEEEEEEEGGGGGGHHH--HHHHHHHHCT-----TEEE
T ss_pred             HhhccCCceEEEecCCcCccc-hhhHHHHHHHHHHhhc--CCceEEEEEecccCcchHH--HHhhhhcccC-----cceE
Confidence              0244589999999985322 1122234555554443  4578899998875544322  2222223222     3557


Q ss_pred             EEeCCCCCCC
Q 025391          143 VFTGGDELED  152 (253)
Q Consensus       143 v~~k~D~~~~  152 (253)
                      ++||.|....
T Consensus       159 I~TKlDet~~  168 (211)
T d1j8yf2         159 IITKMDGTAK  168 (211)
T ss_dssp             EEECTTSCSC
T ss_pred             EEecccCCCc
Confidence            8999999753

>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=98.66  E-value=1.1e-07  Score=74.82  Aligned_cols=30  Identities=30%  Similarity=0.361  Sum_probs=26.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+.+|
T Consensus        32 Ge~~~liGpsGaGKSTLl~~i~Gl~~p~sG   61 (239)
T d1v43a3          32 GEFLVLLGPSGCGKTTTLRMIAGLEEPTEG   61 (239)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCChHHHHHHHHHcCCCCCCC
Confidence            358999999999999999999998776554

>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=98.63  E-value=3.1e-07  Score=72.32  Aligned_cols=30  Identities=27%  Similarity=0.351  Sum_probs=26.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..|
T Consensus        29 Ge~~~liG~sGaGKSTll~~i~gl~~p~sG   58 (240)
T d1g2912          29 GEFMILLGPSGCGKTTTLRMIAGLEEPSRG   58 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCCCCCCC
Confidence            358999999999999999999998765544

>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=98.62  E-value=7.9e-08  Score=75.41  Aligned_cols=30  Identities=37%  Similarity=0.422  Sum_probs=26.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+.++
T Consensus        26 Gei~~liGpsGsGKSTLl~~i~Gl~~p~sG   55 (232)
T d2awna2          26 GEFVVFVGPSGCGKSTLLRMIAGLETITSG   55 (232)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCChHHHHHHHHhcCCCCCCC
Confidence            358999999999999999999998766554

>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=98.60  E-value=5.2e-08  Score=77.12  Aligned_cols=31  Identities=26%  Similarity=0.289  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|+|++|+|||||++.|+|...+..|
T Consensus        28 ~Ge~vaIvG~sGsGKSTLl~ll~gl~~p~~G   58 (241)
T d2pmka1          28 QGEVIGIVGRSGSGKSTLTKLIQRFYIPENG   58 (241)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCCHHHHHHHHHhcCCCCCC
Confidence            3468999999999999999999998765444

>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=98.59  E-value=3.6e-08  Score=78.17  Aligned_cols=32  Identities=16%  Similarity=0.153  Sum_probs=27.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .+.-.++|+|+||+|||||++.|+|...+..+
T Consensus        26 ~~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G   57 (242)
T d1mv5a_          26 QPNSIIAFAGPSGGGKSTIFSLLERFYQPTAG   57 (242)
T ss_dssp             CTTEEEEEECCTTSSHHHHHHHHTTSSCCSBS
T ss_pred             cCCCEEEEECCCCCCHHHHHHHHHHhhCCCCC
Confidence            34579999999999999999999998765544

>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=98.59  E-value=6.1e-08  Score=80.11  Aligned_cols=25  Identities=28%  Similarity=0.288  Sum_probs=22.4

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+.++|+|.|++|||||||++.|..
T Consensus        49 ~~~~~igitG~pGaGKSTli~~l~~   73 (323)
T d2qm8a1          49 GRAIRVGITGVPGVGKSTTIDALGS   73 (323)
T ss_dssp             CCSEEEEEECCTTSCHHHHHHHHHH
T ss_pred             CCceEEeeeCCCCCCHHHHHHHHHH
Confidence            4569999999999999999999874

>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=98.57  E-value=9.6e-08  Score=75.56  Aligned_cols=30  Identities=30%  Similarity=0.427  Sum_probs=26.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        32 Gei~~liGpnGaGKSTl~~~i~Gl~~p~~G   61 (240)
T d1ji0a_          32 GQIVTLIGANGAGKTTTLSAIAGLVRAQKG   61 (240)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCCCCCcc
Confidence            358999999999999999999998765554

>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=98.57  E-value=7.6e-08  Score=76.75  Aligned_cols=31  Identities=35%  Similarity=0.479  Sum_probs=26.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|||++|+|||||++.|+|...+..+
T Consensus        40 ~Ge~iaivG~sGsGKSTLl~ll~gl~~p~~G   70 (253)
T d3b60a1          40 AGKTVALVGRSGSGKSTIASLITRFYDIDEG   70 (253)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHTTTTCCSEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhcccCCCcc
Confidence            3468999999999999999999998765443

>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=98.54  E-value=2.2e-07  Score=71.48  Aligned_cols=30  Identities=20%  Similarity=0.100  Sum_probs=25.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||+|||||++.|+|...+..|
T Consensus        27 Gei~~l~G~NGsGKSTLl~~i~gl~~p~~G   56 (200)
T d1sgwa_          27 GNVVNFHGPNGIGKTTLLKTISTYLKPLKG   56 (200)
T ss_dssp             TCCEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCChHHHHHHHHhcccccCCC
Confidence            358999999999999999999998765554

>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=98.53  E-value=1.7e-07  Score=74.02  Aligned_cols=30  Identities=27%  Similarity=0.193  Sum_probs=26.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        28 Gei~glvG~nGaGKSTLl~~l~G~~~p~~G   57 (238)
T d1vpla_          28 GEIFGLIGPNGAGKTTTLRIISTLIKPSSG   57 (238)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHhcCCCCCCC
Confidence            368999999999999999999999776554

>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=98.52  E-value=6.1e-08  Score=76.31  Aligned_cols=28  Identities=36%  Similarity=0.313  Sum_probs=24.5

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .++|+|+||||||||++.|+|...+..|
T Consensus        26 ~~~liGpnGaGKSTll~~i~Gl~~p~~G   53 (240)
T d2onka1          26 YCVLLGPTGAGKSVFLELIAGIVKPDRG   53 (240)
T ss_dssp             EEEEECCTTSSHHHHHHHHHTSSCCSEE
T ss_pred             EEEEECCCCChHHHHHHHHHcCCCCCce
Confidence            6789999999999999999998765544

>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=98.49  E-value=5.7e-07  Score=71.71  Aligned_cols=30  Identities=20%  Similarity=0.200  Sum_probs=25.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||+++|+|...+..+
T Consensus        28 GEi~~iiG~sGsGKSTLl~~i~Gl~~p~~G   57 (258)
T d1b0ua_          28 GDVISIIGSSGSGKSTFLRCINFLEKPSEG   57 (258)
T ss_dssp             TCEEEEECCTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCccCCCC
Confidence            368999999999999999999998765443

>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=98.47  E-value=7.1e-08  Score=76.91  Aligned_cols=31  Identities=35%  Similarity=0.309  Sum_probs=26.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-+|+|+|++|+|||||++.|+|...+..+
T Consensus        43 ~Ge~vaivG~sGsGKSTLl~ll~gl~~p~~G   73 (255)
T d2hyda1          43 KGETVAFVGMSGGGKSTLINLIPRFYDVTSG   73 (255)
T ss_dssp             TTCEEEEECSTTSSHHHHHTTTTTSSCCSEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHHhcCCcccc
Confidence            4469999999999999999999998765544

>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=98.43  E-value=3.9e-07  Score=68.10  Aligned_cols=25  Identities=24%  Similarity=0.448  Sum_probs=22.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCc
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAF   45 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~   45 (253)
                      ||+|+|+||+|||||++.|+|...+
T Consensus         2 ki~I~G~~G~GKSTLl~~i~~~l~~   26 (178)
T d1ye8a1           2 KIIITGEPGVGKTTLVKKIVERLGK   26 (178)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHHHGG
T ss_pred             EEEEECCCCcHHHHHHHHHHhcCCC
Confidence            7999999999999999999986543

>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=98.43  E-value=5.1e-07  Score=71.02  Aligned_cols=30  Identities=20%  Similarity=0.255  Sum_probs=26.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|.|...+..+
T Consensus        31 Ge~~~iiG~sGsGKSTll~~i~gl~~p~~G   60 (242)
T d1oxxk2          31 GERFGILGPSGAGKTTFMRIIAGLDVPSTG   60 (242)
T ss_dssp             TCEEEEECSCHHHHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHcCcCCCCc
Confidence            358999999999999999999998765554

>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=98.42  E-value=9.9e-07  Score=71.07  Aligned_cols=109  Identities=20%  Similarity=0.177  Sum_probs=64.0

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCCCC-ccccCCCCccceeeeeeeeEe--eCCeEEEEEeCCCCCCCCCCcHHHHH
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGRRA-FKSRASSSGVTSTCEMQRTVL--KDGQVVNVIDTPGLFDFSAGSEFVGK   91 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~~~-~~~~~~~~~~t~~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~   91 (253)
                      ..+|...|+++|+.++|||+|+|.|+|... |..+....+.|.-...+..+.  ..+..+.++||.|+.+...+......
T Consensus        28 ~~~~v~vvsi~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~~~~~~~~~~~lDteG~~~~~~~~~~~~~  107 (277)
T d1f5na2          28 ITQPMVVVAIVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLGDVEKGDNQNDS  107 (277)
T ss_dssp             CCSBEEEEEEEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBCCGGGCCCTTHH
T ss_pred             CCCCEEEEEEECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeeccCCCCceEEEEecccccccccccchhHH
Confidence            344567899999999999999999998653 334433444555555544433  23568999999999875433222222


Q ss_pred             HHHHHHHhhcCCccEEEEEEeCCCCCCHHHHHHHHHH
Q 025391           92 EIVKCIGMAKDGIHAVLVVFSVRSRFSQEEEAALHSL  128 (253)
Q Consensus        92 ~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l  128 (253)
                      .+........   +++||-..  ...+..+...+..+
T Consensus       108 ~i~~l~~llS---s~~i~N~~--~~~~~~~l~~L~~~  139 (277)
T d1f5na2         108 WIFALAVLLS---STFVYNSI--GTINQQAMDQLYYV  139 (277)
T ss_dssp             HHHHHHHHHC---SEEEEEEE--SCSSHHHHHTTHHH
T ss_pred             HHHHHHHHHh---CEEEEecc--ccCcHHHHHHHHHH
Confidence            3332222211   35555443  24555554444433

>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=98.42  E-value=1.7e-07  Score=74.52  Aligned_cols=31  Identities=23%  Similarity=0.249  Sum_probs=26.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.++|||+||+|||||++.|+|...+..|
T Consensus        39 ~Ge~vaivG~sGsGKSTLl~li~gl~~p~~G   69 (251)
T d1jj7a_          39 PGEVTALVGPNGSGKSTVAALLQNLYQPTGG   69 (251)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCCEEEEECCCCCcHHHHHHHHhcccCCCcC
Confidence            4469999999999999999999998765544

>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=98.40  E-value=3e-07  Score=73.32  Aligned_cols=30  Identities=27%  Similarity=0.344  Sum_probs=25.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        30 Gei~~liG~nGaGKSTLl~~i~Gl~~p~~G   59 (254)
T d1g6ha_          30 GDVTLIIGPNGSGKSTLINVITGFLKADEG   59 (254)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHHCCCcCCCc
Confidence            358999999999999999999998765544

>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=98.40  E-value=1.7e-07  Score=75.87  Aligned_cols=31  Identities=26%  Similarity=0.337  Sum_probs=26.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      +.-.|+|+|+||+|||||++.|+|...+..+
T Consensus        61 ~Ge~vaivG~nGsGKSTLl~~i~Gl~~p~~G   91 (281)
T d1r0wa_          61 KGEMLAITGSTGSGKTSLLMLILGELEASEG   91 (281)
T ss_dssp             TTCEEEEEESTTSSHHHHHHHHHTSSCCSEE
T ss_pred             CCCEEEEECCCCChHHHHHHHHhCCCcCCCc
Confidence            4468999999999999999999998765544

>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=98.38  E-value=4.5e-07  Score=70.81  Aligned_cols=30  Identities=30%  Similarity=0.306  Sum_probs=26.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..+
T Consensus        26 Ge~~~liGpsGaGKSTll~~l~Gl~~p~sG   55 (229)
T d3d31a2          26 GEYFVILGPTGAGKTLFLELIAGFHVPDSG   55 (229)
T ss_dssp             TCEEEEECCCTHHHHHHHHHHHTSSCCSEE
T ss_pred             CCEEEEECCCCCcHHHHHHHHhcCcCCCCC
Confidence            358999999999999999999998765544

>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=98.33  E-value=3.5e-07  Score=71.99  Aligned_cols=30  Identities=17%  Similarity=0.118  Sum_probs=26.0

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|.|...+..|
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~Gl~~p~sG   60 (240)
T d3dhwc1          31 GQIYGVIGASGAGKSTLIRCVNLLERPTEG   60 (240)
T ss_dssp             SCEEEEEESTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCHHHHHHHHcCCccccCC
Confidence            358999999999999999999998765544

>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=98.31  E-value=5.2e-07  Score=70.85  Aligned_cols=25  Identities=32%  Similarity=0.416  Sum_probs=22.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      .-.++|+|+||||||||++.|+|..
T Consensus        25 Gei~~iiG~nGaGKSTLl~~l~Gl~   49 (231)
T d1l7vc_          25 GEILHLVGPNGAGKSTLLARMAGMT   49 (231)
T ss_dssp             TCEEECBCCTTSSHHHHHHHHHTSC
T ss_pred             CCEEEEECCCCCcHHHHHHHHhCCC
Confidence            3589999999999999999999964

>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=97.89  E-value=3.8e-06  Score=65.53  Aligned_cols=30  Identities=27%  Similarity=0.210  Sum_probs=25.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCcccc
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSR   48 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~   48 (253)
                      .-.++|+|+||||||||++.|+|...+..|
T Consensus        31 Ge~~~iiG~sGsGKSTLl~~i~gl~~p~sG   60 (230)
T d1l2ta_          31 GEFVSIMGPSGSGKSTMLNIIGCLDKPTEG   60 (230)
T ss_dssp             TCEEEEECSTTSSHHHHHHHHTTSSCCSEE
T ss_pred             CCEEEEECCCCCCcchhhHhccCCCCCCcc
Confidence            358999999999999999999998765554

>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=97.66  E-value=9.8e-06  Score=60.16  Aligned_cols=24  Identities=29%  Similarity=0.440  Sum_probs=21.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+|+|+|++|+|||||++.|+..
T Consensus         7 ~K~I~i~G~~GsGKTTla~~La~~   30 (192)
T d1lw7a2           7 AKTVAILGGESSGKSVLVNKLAAV   30 (192)
T ss_dssp             CEEEEEECCTTSHHHHHHHHHHHH
T ss_pred             ceEEEEECCCCCCHHHHHHHHHHH
Confidence            479999999999999999999764

>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=97.64  E-value=3.5e-05  Score=60.71  Aligned_cols=25  Identities=28%  Similarity=0.306  Sum_probs=21.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+++++|++.
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            3467999999999999999999854

>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=97.62  E-value=0.0002  Score=56.54  Aligned_cols=24  Identities=33%  Similarity=0.645  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...|+|.|++|+|||+++++|+..
T Consensus        45 ~~~iLL~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          45 PKGVLMVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEeeCCCCCCccHHHHHHHHH
Confidence            356999999999999999999854

>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=97.60  E-value=1.6e-05  Score=58.27  Aligned_cols=22  Identities=14%  Similarity=0.311  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.|+|+|.+|||||||++.|+.
T Consensus         3 Pvi~itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           3 PLLAFAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEEcCCCCCHHHHHHHHHH
Confidence            5799999999999999999974

>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=97.59  E-value=5.5e-06  Score=63.25  Aligned_cols=23  Identities=22%  Similarity=0.364  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+++|.+|+||||+++.|+..
T Consensus         3 ~li~l~GlpgsGKSTla~~L~~~   25 (213)
T d1bifa1           3 TLIVMVGLPARGKTYISKKLTRY   25 (213)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH
Confidence            56999999999999999999743

>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=97.51  E-value=2.8e-05  Score=57.15  Aligned_cols=26  Identities=19%  Similarity=0.413  Sum_probs=22.5

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +++.+|+|+|++||||||+++.|...
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            34579999999999999999999754

>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=97.50  E-value=2.1e-05  Score=57.64  Aligned_cols=22  Identities=27%  Similarity=0.601  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ++|+|+|++||||||+++.|+.
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            6899999999999999999964

>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=97.47  E-value=6e-05  Score=59.90  Aligned_cols=101  Identities=15%  Similarity=0.181  Sum_probs=54.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..+++|||++|+|||+++..|+....  .+..+            ....+..+.-+|...+.............+...+.
T Consensus        39 k~n~lLVG~~GvGKTalv~~la~ri~--~~~vp------------~~l~~~~i~~l~~~~liag~~~~g~~e~r~~~i~~  104 (268)
T d1r6bx2          39 KNNPLLVGESGVGKTAIAEGLAWRIV--QGDVP------------EVMADCTIYSLDIGSLLAGTKYRGDFEKRFKALLK  104 (268)
T ss_dssp             SCEEEEECCTTSSHHHHHHHHHHHHH--HTCSC------------GGGTTCEEEECCCC---CCCCCSSCHHHHHHHHHH
T ss_pred             cCCcEEECCCCCcHHHHHHHHHHHHH--hCCcc------------cccccceeEEeeechHhccCccchhHHHHHHHHHH
Confidence            35899999999999999999875432  11111            01234555666766555433333334455656665


Q ss_pred             hhcCCccEEEEEEeCCCCC-----CHHHHHHHHHHHHHhc
Q 025391           99 MAKDGIHAVLVVFSVRSRF-----SQEEEAALHSLQTLFG  133 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~-----~~~~~~~l~~l~~~~g  133 (253)
                      ......+.++|+.++..-+     +.........++-++.
T Consensus       105 ~~~~~~~iIlfiDeih~l~~~g~~~g~~~d~a~~Lkp~L~  144 (268)
T d1r6bx2         105 QLEQDTNSILFIDEIHTIIGAGAASGGQVDAANLIKPLLS  144 (268)
T ss_dssp             HHSSSSCEEEEETTTTTTTTSCCSSSCHHHHHHHHSSCSS
T ss_pred             HhhccCCceEEecchHHHhcCCCCCCccccHHHHhhHHHh
Confidence            5544555677666654221     2223445555554444

>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=97.41  E-value=0.00024  Score=56.05  Aligned_cols=24  Identities=25%  Similarity=0.527  Sum_probs=21.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..-|+|.|++|+|||+++++++..
T Consensus        38 ~~giLL~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          38 PRGILLYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             CCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CceeEEecCCCCCchHHHHHHHHH
Confidence            356999999999999999999865

>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=97.41  E-value=4.5e-05  Score=57.24  Aligned_cols=24  Identities=25%  Similarity=0.394  Sum_probs=21.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ++.||+|+|++||||||+++.|+.
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            457999999999999999999974

>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=97.38  E-value=0.00024  Score=55.70  Aligned_cols=23  Identities=35%  Similarity=0.644  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|.|++|+|||+++++|++.
T Consensus        43 ~giLl~GppGtGKT~la~aia~~   65 (247)
T d1ixza_          43 KGVLLVGPPGVGKTHLARAVAGE   65 (247)
T ss_dssp             SEEEEECCTTSSHHHHHHHHHHH
T ss_pred             ceEEEecCCCCChhHHHHHHHHH
Confidence            46999999999999999999864

>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=97.38  E-value=3.8e-05  Score=56.43  Aligned_cols=23  Identities=39%  Similarity=0.590  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++|+|+|.+||||||+.+.|+..
T Consensus         2 p~IvliG~~G~GKSTig~~La~~   24 (165)
T d2iyva1           2 PKAVLVGLPGSGKSTIGRRLAKA   24 (165)
T ss_dssp             CSEEEECSTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHH
Confidence            67999999999999999998643

>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=97.36  E-value=3.8e-05  Score=58.00  Aligned_cols=82  Identities=16%  Similarity=0.142  Sum_probs=49.4

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~   98 (253)
                      .-+++|||++|+|||+++..|+....  .+..+            ....+..+.-+|...+............++...+.
T Consensus        43 k~n~lLvG~pGVGKTalv~~LA~ri~--~~~vp------------~~L~~~~i~~ld~~~LiAg~~~rG~~E~rl~~il~  108 (195)
T d1jbka_          43 KNNPVLIGEPGVGKTAIVEGLAQRII--NGEVP------------EGLKGRRVLALDMGALVAGAKYRGEFEERLKGVLN  108 (195)
T ss_dssp             SCEEEEECCTTSCHHHHHHHHHHHHH--HTCSC------------GGGTTCEEEEECHHHHHTTTCSHHHHHHHHHHHHH
T ss_pred             CCCeEEEecCCcccHHHHHHHHHHHH--hCCCC------------HHHcCceEEEeeHHHHhccCCccHHHHHHHHHHHH
Confidence            35899999999999999988875422  11111            01245566677775554333333344456666665


Q ss_pred             hhc-CCccEEEEEEeCC
Q 025391           99 MAK-DGIHAVLVVFSVR  114 (253)
Q Consensus        99 ~~~-~~~~~~l~v~d~~  114 (253)
                      ... ...+++||+.++.
T Consensus       109 e~~~~~~~iILfIDeih  125 (195)
T d1jbka_         109 DLAKQEGNVILFIDELH  125 (195)
T ss_dssp             HHHHSTTTEEEEEETGG
T ss_pred             HHhcCCCcEEEEcchHH
Confidence            432 3346888888764

>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=97.33  E-value=6.9e-05  Score=56.40  Aligned_cols=28  Identities=21%  Similarity=0.338  Sum_probs=24.0

Q ss_pred             CCCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           15 PSNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        15 ~~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++....+|+|+|++||||||+...|+..
T Consensus         2 ~~~r~mrIiliG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1           2 ASARLLRAAIMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             CSSCCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCcceeEEEECCCCCCHHHHHHHHHHH
Confidence            3456689999999999999999999854

>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=97.32  E-value=0.00012  Score=58.04  Aligned_cols=25  Identities=24%  Similarity=0.424  Sum_probs=22.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|.|++|+|||+|+++|++.
T Consensus        40 ~~~giLL~Gp~GtGKT~l~~ala~~   64 (265)
T d1r7ra3          40 PSKGVLFYGPPGCGKTLLAKAIANE   64 (265)
T ss_dssp             CCCEEEEBCCTTSSHHHHHHHHHHH
T ss_pred             CCCeEEEECCCCCcchhHHHHHHHH
Confidence            3457999999999999999999876

>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=97.31  E-value=7.7e-05  Score=55.78  Aligned_cols=25  Identities=20%  Similarity=0.315  Sum_probs=21.6

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..++.|+|.|++|||||||++.|..
T Consensus        20 ~~~~iIgI~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          20 AGRLVLGIDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             SSSEEEEEEECTTSSHHHHHHHHHH
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999864

>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=97.31  E-value=6.9e-05  Score=53.80  Aligned_cols=22  Identities=23%  Similarity=0.534  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-|+|+|++||||||+++.|+.
T Consensus         3 klIii~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           3 KIILTIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999999864

>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=97.30  E-value=5.7e-05  Score=54.55  Aligned_cols=23  Identities=39%  Similarity=0.702  Sum_probs=20.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|++|+||||+.+.|+..
T Consensus         3 k~I~l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           3 RNIFLVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             CCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHH
Confidence            46999999999999999999754

>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=97.29  E-value=6e-05  Score=56.52  Aligned_cols=24  Identities=21%  Similarity=0.318  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.+|+|+|++||||||+++.|...
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            468999999999999999998644

>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=97.24  E-value=9.1e-05  Score=55.65  Aligned_cols=24  Identities=25%  Similarity=0.473  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +..|+|+|++||||||+++.|+..
T Consensus         6 p~iI~i~G~pGSGKsT~a~~La~~   29 (194)
T d1qf9a_           6 PNVVFVLGGPGSGKGTQCANIVRD   29 (194)
T ss_dssp             CEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368899999999999999999754

>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=97.22  E-value=0.00013  Score=54.99  Aligned_cols=28  Identities=14%  Similarity=0.353  Sum_probs=23.6

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ++....|+|+|++||||||++..|+...
T Consensus         5 ~~~~~iI~i~GppGSGKsT~a~~La~~~   32 (196)
T d1ukza_           5 PDQVSVIFVLGGPGAGKGTQCEKLVKDY   32 (196)
T ss_dssp             TTTCEEEEEECSTTSSHHHHHHHHHHHS
T ss_pred             CCCCcEEEEECCCCCCHHHHHHHHHHHh
Confidence            3455789999999999999999997653

>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=97.21  E-value=8e-05  Score=54.31  Aligned_cols=23  Identities=26%  Similarity=0.497  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|+|++||||||+++.|...
T Consensus         3 klI~i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           3 KLYIITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            45899999999999999999854

>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=97.21  E-value=0.00011  Score=53.93  Aligned_cols=25  Identities=24%  Similarity=0.294  Sum_probs=21.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++..|.|+|.+||||||+.+.|...
T Consensus         5 ~g~~I~l~G~~GsGKTTia~~La~~   29 (183)
T d1m8pa3           5 QGFTIFLTGYMNSGKDAIARALQVT   29 (183)
T ss_dssp             CCEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            4578999999999999999998743

>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=97.21  E-value=5.1e-05  Score=56.66  Aligned_cols=23  Identities=30%  Similarity=0.658  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|+||+|+|||||++.|+..
T Consensus         4 k~ivl~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           4 KTLVLLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEECCCCCCHHHHHHHHHHh
Confidence            45899999999999999999854

>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=97.20  E-value=0.00014  Score=53.12  Aligned_cols=25  Identities=32%  Similarity=0.534  Sum_probs=21.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....|+|+|++||||||+.+.|...
T Consensus         5 ~~~iivl~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_           5 DHHIYVLMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             TSEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3467888999999999999999754

>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=97.19  E-value=9.4e-05  Score=54.79  Aligned_cols=22  Identities=32%  Similarity=0.608  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +|+|+|++||||||+++.|+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           2 NLVLMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999643

>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=97.18  E-value=8.6e-05  Score=54.29  Aligned_cols=22  Identities=27%  Similarity=0.543  Sum_probs=19.6

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +|+|+|++||||||+.+.|+..
T Consensus         2 ~I~liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           2 NIVFIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             CEEEECCTTSCHHHHHHHHHHH
T ss_pred             cEEEECCCCCCHHHHHHHHHHH
Confidence            5899999999999999998644

>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=97.15  E-value=0.00011  Score=53.69  Aligned_cols=22  Identities=18%  Similarity=0.206  Sum_probs=19.3

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|+|.+|||||||++.|+..
T Consensus         3 ii~I~G~~gSGKTTli~~l~~~   24 (165)
T d1xjca_           3 VWQVVGYKHSGKTTLMEKWVAA   24 (165)
T ss_dssp             EEEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEEEeCCCCCHHHHHHHHHHH
Confidence            5789999999999999988653

>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=97.11  E-value=0.00013  Score=54.25  Aligned_cols=23  Identities=39%  Similarity=0.497  Sum_probs=20.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|+||+||||||+++.|...
T Consensus         3 ~iivl~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           3 RVVVLSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             CEEEEECSTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHhh
Confidence            56889999999999999999765

>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=97.11  E-value=0.00012  Score=53.93  Aligned_cols=23  Identities=30%  Similarity=0.346  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|.|.|++|+|||||+..|+..
T Consensus         2 k~v~ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           2 RHVFLTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             CCEEEESCCSSCHHHHHHHHHHH
T ss_pred             cEEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999998754

>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=97.10  E-value=0.00015  Score=54.38  Aligned_cols=24  Identities=25%  Similarity=0.451  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +++|+|+|++||||||.++.|+..
T Consensus         1 p~iI~i~GppGSGKsT~a~~La~~   24 (194)
T d1teva_           1 PLVVFVLGGPGAGKGTQCARIVEK   24 (194)
T ss_dssp             CEEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            368999999999999999998753

>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=97.10  E-value=0.00017  Score=52.76  Aligned_cols=23  Identities=26%  Similarity=0.514  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|+|++||||||+.+.|...
T Consensus         5 ~iI~l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           5 NILLLSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEEEEEECTTSCHHHHHHHHHTC
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            56889999999999999999865

>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=97.09  E-value=0.00013  Score=54.69  Aligned_cols=22  Identities=27%  Similarity=0.549  Sum_probs=19.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -|+|+||+|||||||++.|+..
T Consensus         3 pIvl~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           3 PIVISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             CEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHHHh
Confidence            3899999999999999999765

>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=97.09  E-value=0.00019  Score=53.01  Aligned_cols=24  Identities=38%  Similarity=0.340  Sum_probs=20.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+.-|+++|.+||||||+++.++.
T Consensus        13 ~p~liil~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          13 NPEVVVAVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             SCCEEEEECCTTSSHHHHHHHHTG
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999999863

>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=97.08  E-value=0.00014  Score=54.05  Aligned_cols=22  Identities=32%  Similarity=0.673  Sum_probs=20.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +|+|+|++||||||+++.|+..
T Consensus         2 ~I~i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           2 NIVLMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EEEEECSTTSSHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            7999999999999999999754

>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=97.05  E-value=0.00017  Score=54.92  Aligned_cols=24  Identities=21%  Similarity=0.314  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.-|+|+||+|||||||++.|+..
T Consensus         2 G~livi~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           2 GTLYIVSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             CCEEEEECCTTSCHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCCHHHHHHHHHhh
Confidence            357899999999999999999765

>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=97.03  E-value=0.00017  Score=53.50  Aligned_cols=23  Identities=26%  Similarity=0.492  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|+|+|++||||||+.+.|+..
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            37999999999999999999644

>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=97.01  E-value=0.0002  Score=54.53  Aligned_cols=24  Identities=25%  Similarity=0.260  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ++.|+|.|++|||||||.+.|...
T Consensus         2 P~iIgI~G~~gSGKSTla~~L~~~   25 (213)
T d1uj2a_           2 PFLIGVSGGTASGKSSVCAKIVQL   25 (213)
T ss_dssp             CEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHH
Confidence            478999999999999999988643

>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=96.99  E-value=0.00022  Score=52.08  Aligned_cols=23  Identities=26%  Similarity=0.406  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|.|++||||||+.+.|...
T Consensus         4 kiI~l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           4 RMIILNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            46778899999999999999765

>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=96.99  E-value=0.00019  Score=53.16  Aligned_cols=23  Identities=22%  Similarity=0.443  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|+|+|++||||||.++.|+..
T Consensus         1 m~I~i~G~pGSGKsT~~~~La~~   23 (179)
T d1e4va1           1 MRIILLGAPVAGKGTQAQFIMEK   23 (179)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            37999999999999999998643

>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=96.99  E-value=0.00022  Score=52.89  Aligned_cols=23  Identities=30%  Similarity=0.551  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|+|+|++||||||+++.|+..
T Consensus         3 mrIvl~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           3 IRMVLIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999754

>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=96.96  E-value=0.00022  Score=55.52  Aligned_cols=22  Identities=18%  Similarity=0.373  Sum_probs=18.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-++|.|++|+||||+++.++.
T Consensus        35 ~~~Ll~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          35 HAYLFSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             SEEEEECSTTSSHHHHHHHHHH
T ss_pred             eeEEEECCCCCcHHHHHHHHHH
Confidence            3578999999999999988754

>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=96.95  E-value=0.0002  Score=53.75  Aligned_cols=21  Identities=38%  Similarity=0.561  Sum_probs=19.0

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 025391           22 VVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      |+|+||+|||||||++.|+..
T Consensus         3 Ivl~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           3 VVLSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EEEECCTTSSHHHHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHHHHh
Confidence            889999999999999998654

>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=96.94  E-value=0.0022  Score=49.23  Aligned_cols=121  Identities=14%  Similarity=0.036  Sum_probs=55.1

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCc-HHHHHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGS-EFVGKEIVKCIGM   99 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~-~~~~~~~~~~~~~   99 (253)
                      .++|.|+|.+||||+++++.=.... ..   .+.-..+....+.. -+.-++-+..+.-.....+. ..-..++...+..
T Consensus        37 ~~iiTGpN~~GKSt~lk~i~l~~il-Aq---~G~~vpA~~~~i~~-~d~I~~~~~~~d~~~~~~StF~~el~~~~~il~~  111 (224)
T d1ewqa2          37 LVLITGPNMAGKSTFLRQTALIALL-AQ---VGSFVPAEEAHLPL-FDGIYTRIGASDDLAGGKSTFMVEMEEVALILKE  111 (224)
T ss_dssp             EEEEESCSSSSHHHHHHHHHHHHHH-HT---TTCCBSSSEEEECC-CSEEEEECCC------CCSHHHHHHHHHHHHHHH
T ss_pred             EEEEECCCccccchhhhhhHHHHHH-Hh---ccceeecCceEEee-cceEEEEECCCccccCCccHHHHhHHHHHHHhcc
Confidence            5789999999999999986311100 00   00000011111111 11111222221111111111 1112344444443


Q ss_pred             hcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCCCCC
Q 025391          100 AKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGGDEL  150 (253)
Q Consensus       100 ~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~D~~  150 (253)
                      +  ..+.+++++++...-++.+ ..+...+.+.+...  .+..++.||...+
T Consensus       112 ~--~~~sLvliDE~~~gT~~~eg~ala~aile~L~~~--~~~~i~tTH~~eL  159 (224)
T d1ewqa2         112 A--TENSLVLLDEVGRGTSSLDGVAIATAVAEALHER--RAYTLFATHYFEL  159 (224)
T ss_dssp             C--CTTEEEEEESTTTTSCHHHHHHHHHHHHHHHHHH--TCEEEEECCCHHH
T ss_pred             C--CCCcEEeecccccCcchhhhcchHHHHHHHHhhc--CcceEEeeechhh
Confidence            3  4468999999976777766 22222333333221  3578888886554

>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=96.93  E-value=0.00021  Score=52.50  Aligned_cols=22  Identities=23%  Similarity=0.539  Sum_probs=19.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|++||||||+.+.|+.
T Consensus         3 ~~Iil~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           3 EPIFMVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             CCEEEESCTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCCCHHHHHHHHHH
Confidence            3578999999999999999863

>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=52.38  Aligned_cols=22  Identities=23%  Similarity=0.483  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|.|.+||||||+++.|..
T Consensus         2 kiI~i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           2 KVVVVTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             CEEEEECCTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4789999999999999999853

>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=96.92  E-value=0.00013  Score=54.48  Aligned_cols=25  Identities=28%  Similarity=0.323  Sum_probs=21.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+..|.|+|.+||||||+.+.|...
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            4568889999999999999999643

>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=96.88  E-value=0.0004  Score=58.02  Aligned_cols=101  Identities=14%  Similarity=0.131  Sum_probs=42.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCCCCCCcHHHHHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFDFSAGSEFVGKEIVKCIGM   99 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~   99 (253)
                      -+++|||++|+|||+++..|+....  .+..+.            ...+.++.-+|...+............++...+..
T Consensus        44 ~n~llvG~~GvGKtaiv~~la~~i~--~~~vp~------------~l~~~~i~~ld~~~l~ag~~~~g~~e~r~~~i~~~  109 (387)
T d1qvra2          44 NNPVLIGEPGVGKTAIVEGLAQRIV--KGDVPE------------GLKGKRIVSLQMGSLLAGAKYRGEFEERLKAVIQE  109 (387)
T ss_dssp             CCCEEEECTTSCHHHHHHHHHHHHH--HTCSCT------------TSTTCEEEEECC-----------CHHHHHHHHHHH
T ss_pred             CCCeEECCCCCCHHHHHHHHHHHHH--hCCCCH------------HHcCceEEEeeHhhhhcccCcchhHHHHHHHHHHH
Confidence            4679999999999999987764321  111110            12345556666655443222122233455555544


Q ss_pred             hcC-CccEEEEEEeCCCCCC----HHHHHHHHHHHHHhcc
Q 025391          100 AKD-GIHAVLVVFSVRSRFS----QEEEAALHSLQTLFGK  134 (253)
Q Consensus       100 ~~~-~~~~~l~v~d~~~~~~----~~~~~~l~~l~~~~g~  134 (253)
                      ... ....+||+.++..-+.    .........++-++..
T Consensus       110 ~~~~~~~~ilfide~h~l~~~g~~~g~~d~a~~Lkp~L~r  149 (387)
T d1qvra2         110 VVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALAR  149 (387)
T ss_dssp             HHTTCSSEEEEECCC-------------------HHHHHT
T ss_pred             hccCCCceEEEeccHHHHhcCCCCCCcccHHHHHHHHHhC
Confidence            323 2356777766642222    1223344555555443

>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=96.83  E-value=0.00034  Score=52.44  Aligned_cols=24  Identities=25%  Similarity=0.573  Sum_probs=21.1

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...|.|+|++||||||+++.|+..
T Consensus         8 ~~iI~l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_           8 SKIIFVVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             SCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CcEEEEECCCCCCHHHHHHHHHHH
Confidence            357999999999999999999754

>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=96.82  E-value=0.0029  Score=48.86  Aligned_cols=124  Identities=10%  Similarity=-0.021  Sum_probs=54.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC-CCCCCCcHHHHHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL-FDFSAGSEFVGKEIVKCIG   98 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~-~~~~~~~~~~~~~~~~~~~   98 (253)
                      ..++|.|+|.+||||+++++.=.-. -..   .+....+....+.. -+.-++-+.++.- ....+.=..-..++...+.
T Consensus        42 ~~~iiTGpN~~GKSt~lk~i~l~~~-laq---~G~~VpA~~a~~~~-~d~I~~~~~~~d~~~~~~S~F~~E~~~~~~il~  116 (234)
T d1wb9a2          42 RMLIITGPNMGGKSTYMRQTALIAL-MAY---IGSYVPAQKVEIGP-IDRIFTRVGAADDLASGRSTFMVEMTETANILH  116 (234)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHHHH-HHT---TTCCBSSSEEEECC-CCEEEEEEC-----------CHHHHHHHHHHHH
T ss_pred             eEEEEeccCchhhHHHHHHHHHHHH-HHH---cCCeEecCceeccc-chhheeEEccCcccccchhHHHHHHHHHHHHHH
Confidence            5688999999999999998621100 000   00000011111111 1112222322221 1111111112244555555


Q ss_pred             hhcCCccEEEEEEeCCCCCCHHHH-HHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391           99 MAKDGIHAVLVVFSVRSRFSQEEE-AALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus        99 ~~~~~~~~~l~v~d~~~~~~~~~~-~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      .+  ..+.+++++++...-++.+. .+...+.+.+... ..+.+++.||...+.
T Consensus       117 ~~--~~~sLvliDE~~~gT~~~eg~~l~~a~l~~l~~~-~~~~~i~tTH~~~l~  167 (234)
T d1wb9a2         117 NA--TEYSLVLMDEIGRGTSTYDGLSLAWACAENLANK-IKALTLFATHYFELT  167 (234)
T ss_dssp             HC--CTTEEEEEESCCCCSSSSHHHHHHHHHHHHHHHT-TCCEEEEECSCGGGG
T ss_pred             hc--ccccEEeecccccCCChhhhhHHHHHhhhhhhcc-ccceEEEecchHHHh
Confidence            44  34678999988655555552 2223333322111 124678888876653

>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=96.81  E-value=0.00031  Score=55.17  Aligned_cols=25  Identities=24%  Similarity=0.477  Sum_probs=21.6

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      +.-|+|.|++|+|||||+..|++..
T Consensus        32 P~~ilL~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          32 PTAFLLGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             CEEEEEECCTTSCTHHHHHHHHHHT
T ss_pred             CEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3469999999999999999998753

>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=96.73  E-value=0.00031  Score=57.31  Aligned_cols=24  Identities=33%  Similarity=0.501  Sum_probs=21.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      .+|+++|++|+|||||+|+|++..
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            469999999999999999999764

>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=96.67  E-value=0.00053  Score=51.11  Aligned_cols=24  Identities=21%  Similarity=0.324  Sum_probs=21.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+..|||.|.+||||||+++.|..
T Consensus         2 ~p~IIgitG~~gSGKstva~~l~~   25 (191)
T d1uf9a_           2 HPIIIGITGNIGSGKSTVAALLRS   25 (191)
T ss_dssp             CCEEEEEEECTTSCHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            357899999999999999998853

>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=96.65  E-value=0.00052  Score=50.61  Aligned_cols=22  Identities=23%  Similarity=0.237  Sum_probs=18.8

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .|+|.|.+||||||+++.|...
T Consensus         3 iivi~G~~GsGKTT~~~~La~~   24 (194)
T d1nksa_           3 IGIVTGIPGVGKSTVLAKVKEI   24 (194)
T ss_dssp             EEEEEECTTSCHHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHHH
Confidence            4677899999999999999643

>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=96.63  E-value=0.014  Score=44.73  Aligned_cols=23  Identities=26%  Similarity=0.459  Sum_probs=20.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|.|++|+||||++..++..
T Consensus        34 ~~lll~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          34 PHLLLYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             CCEEEECSTTSSHHHHHHTHHHH
T ss_pred             CeEEEECCCCCCHHHHHHHHHHh
Confidence            46899999999999999888653

>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=96.57  E-value=0.00011  Score=55.02  Aligned_cols=20  Identities=35%  Similarity=0.511  Sum_probs=17.4

Q ss_pred             EEEEEcCCCCCHHHHHHHHh
Q 025391           21 TVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ..+|+|+||+||||++.+|.
T Consensus        26 ~tvi~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          26 VTTLSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHHHHSCCSHHHHHHHHHHH
T ss_pred             eEEEECCCCCCHHHHHHHHH
Confidence            45678999999999999984

>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=96.57  E-value=0.00081  Score=54.27  Aligned_cols=28  Identities=18%  Similarity=0.224  Sum_probs=22.7

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .....++.|||.|.+|||||||.+.|..
T Consensus        75 ~~~k~P~iIGIaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          75 NGQRIPYIISIAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             C-CCCCEEEEEEECTTSSHHHHHHHHHH
T ss_pred             cCCCCCEEEEEeCCCCCCCcHHHHHHHH
Confidence            3445668999999999999999888753

>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=96.50  E-value=0.00096  Score=50.63  Aligned_cols=22  Identities=14%  Similarity=0.191  Sum_probs=19.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-++|.|++|+||||++..++.
T Consensus        25 h~lLl~Gp~G~GKtt~a~~~a~   46 (207)
T d1a5ta2          25 HALLIQALPGMGDDALIYALSR   46 (207)
T ss_dssp             SEEEEECCTTSCHHHHHHHHHH
T ss_pred             eEEEEECCCCCcHHHHHHHHHH
Confidence            4599999999999999997654

>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=96.49  E-value=0.00057  Score=52.85  Aligned_cols=24  Identities=25%  Similarity=0.383  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ...++|.||+|+||||+++.|++.
T Consensus        35 ~~~~Ll~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          35 LEHLLLFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             CCCEEEECCTTSCHHHHHHHHHHH
T ss_pred             CCeEEEECCCCCCHHHHHHHHHHH
Confidence            357899999999999999999864

>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=96.44  E-value=0.0048  Score=48.27  Aligned_cols=20  Identities=40%  Similarity=0.672  Sum_probs=17.0

Q ss_pred             eEEEEEcCCCCCHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l   39 (253)
                      .+|+|.|+-|+||||+.-.|
T Consensus         2 r~Iai~gKGGvGKTT~a~nL   21 (269)
T d1cp2a_           2 RQVAIYGKGGIGKSTTTQNL   21 (269)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             CEEEEECCCcCCHHHHHHHH
Confidence            57999999999999987443

>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=96.44  E-value=0.00074  Score=54.62  Aligned_cols=25  Identities=20%  Similarity=0.462  Sum_probs=21.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...|+|+||||+|||.|+++|+..
T Consensus        48 ~~~~iLl~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          48 TPKNILMIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHhhc
Confidence            3467999999999999999999864

>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=96.44  E-value=0.001  Score=51.77  Aligned_cols=26  Identities=27%  Similarity=0.378  Sum_probs=22.2

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+...++|.|++|+||||+++.|+..
T Consensus        41 ~~~~~lll~GppGtGKT~l~~~l~~~   66 (276)
T d1fnna2          41 HHYPRATLLGRPGTGKTVTLRKLWEL   66 (276)
T ss_dssp             SSCCEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCCCceEEECCCCCCHHHHHHHHHHH
Confidence            34468999999999999999998754

>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=96.43  E-value=0.0011  Score=51.49  Aligned_cols=27  Identities=22%  Similarity=0.297  Sum_probs=23.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      .....++|.||+|+||||++.+|+...
T Consensus        50 ~~~~~lll~GPpG~GKTt~a~~la~~~   76 (253)
T d1sxja2          50 GVFRAAMLYGPPGIGKTTAAHLVAQEL   76 (253)
T ss_dssp             TSCSEEEEECSTTSSHHHHHHHHHHHT
T ss_pred             CCCceEEEECCCCCCHHHHHHHHHHHH
Confidence            344679999999999999999998754

>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=96.42  E-value=0.00091  Score=49.93  Aligned_cols=25  Identities=28%  Similarity=0.298  Sum_probs=21.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+..|+|-|..||||||+++.|...
T Consensus         8 kp~~I~ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1           8 QPFTVLIEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             CCEEEEEECSTTSCHHHHHHTTGGG
T ss_pred             CceEEEEECCCCCCHHHHHHHHHHH
Confidence            3468999999999999999999754

>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=96.37  E-value=0.00052  Score=55.01  Aligned_cols=19  Identities=37%  Similarity=0.595  Sum_probs=17.0

Q ss_pred             EEEEEcCCCCCHHHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l   39 (253)
                      --+|+|+||+||||++.+|
T Consensus        26 lnvlvG~NgsGKS~iL~Ai   44 (308)
T d1e69a_          26 VTAIVGPNGSGKSNIIDAI   44 (308)
T ss_dssp             EEEEECCTTTCSTHHHHHH
T ss_pred             eEEEECCCCCcHHHHHHHH
Confidence            4578899999999999988

>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=96.36  E-value=0.00099  Score=51.34  Aligned_cols=23  Identities=30%  Similarity=0.468  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.++|.||+|+||||+++.|+..
T Consensus        36 ~~~L~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          36 DHVLLAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             CCEEEESSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHhc
Confidence            46899999999999999999754

>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=96.35  E-value=0.0012  Score=50.01  Aligned_cols=23  Identities=17%  Similarity=0.362  Sum_probs=20.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.|+|.||+||||||+...|...
T Consensus         4 piI~I~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           4 PVITIDGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             CEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            58899999999999999999765

>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=96.27  E-value=0.0014  Score=50.31  Aligned_cols=23  Identities=17%  Similarity=0.390  Sum_probs=20.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|.|++|+||||+++.|+..
T Consensus        46 ~~lll~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          46 PHLLFAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             CEEEEESCTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCcHHHHHHHHHHH
Confidence            46899999999999999999764

>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=96.25  E-value=0.0015  Score=49.53  Aligned_cols=25  Identities=24%  Similarity=0.260  Sum_probs=21.7

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..+..|.|.|.+||||||+.+.|..
T Consensus        22 ~kg~vIwltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          22 QRGLTIWLTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             SSCEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCeEEEEECCCCCCHHHHHHHHHH
Confidence            3457899999999999999999863

>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=96.19  E-value=0.0015  Score=49.61  Aligned_cols=23  Identities=22%  Similarity=0.317  Sum_probs=20.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|+|-||+||||||....|+..
T Consensus         4 i~IaIdGp~GsGKgT~ak~La~~   26 (223)
T d1q3ta_           4 IQIAIDGPASSGKSTVAKIIAKD   26 (223)
T ss_dssp             CEEEEECSSCSSHHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            57888899999999999999765

>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=96.01  E-value=0.0014  Score=54.56  Aligned_cols=18  Identities=33%  Similarity=0.621  Sum_probs=16.4

Q ss_pred             EEEEcCCCCCHHHHHHHH
Q 025391           22 VVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l   39 (253)
                      -+|+|+||+||||++.+|
T Consensus        28 ~~i~G~NGsGKS~ileAi   45 (427)
T d1w1wa_          28 TSIIGPNGSGKSNMMDAI   45 (427)
T ss_dssp             EEEECSTTSSHHHHHHHH
T ss_pred             EEEECCCCCCHHHHHHHH
Confidence            468899999999999998

>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=95.97  E-value=0.0029  Score=50.30  Aligned_cols=25  Identities=28%  Similarity=0.351  Sum_probs=21.1

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHh
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ...++-|||.|.+|+|||||...|.
T Consensus        24 ~~~P~iIGi~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          24 NKCPLFIFFSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             CCSCEEEEEECCTTSSHHHHHHHHH
T ss_pred             CCCCEEEEeECCCCCCHHHHHHHHH
Confidence            3456899999999999999998774

>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=95.96  E-value=0.0031  Score=50.91  Aligned_cols=29  Identities=17%  Similarity=0.234  Sum_probs=23.6

Q ss_pred             CCCCCCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           13 TSPSNGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        13 ~~~~~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .++..|...++++||+|+|||.|++.|+.
T Consensus        46 ~~~~~p~~~~lf~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          46 GHEHKPVGSFLFAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             SCTTSCSEEEEEECSTTSSHHHHHHHHHH
T ss_pred             CCCCCCceEEEEECCCcchhHHHHHHHHh
Confidence            34444556899999999999999999874

>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=95.93  E-value=0.0023  Score=48.27  Aligned_cols=22  Identities=32%  Similarity=0.418  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|||.|..||||||+++.|..
T Consensus         3 ~iIgITG~igSGKStv~~~l~~   24 (205)
T d1jjva_           3 YIVGLTGGIGSGKTTIANLFTD   24 (205)
T ss_dssp             EEEEEECSTTSCHHHHHHHHHT
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            6799999999999999998853

>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=95.92  E-value=0.0022  Score=48.44  Aligned_cols=22  Identities=36%  Similarity=0.539  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.|||.|..||||||+++.|..
T Consensus         4 ~iIgitG~igSGKStv~~~l~~   25 (208)
T d1vhta_           4 YIVALTGGIGSGKSTVANAFAD   25 (208)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHH
T ss_pred             EEEEEECCCcCCHHHHHHHHHH
Confidence            5799999999999999998863

>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=95.88  E-value=0.0068  Score=48.90  Aligned_cols=21  Identities=19%  Similarity=0.384  Sum_probs=18.2

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 025391           22 VVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +++.|++|+|||.+.+.|++.
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            445799999999999999875

>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=95.86  E-value=0.013  Score=42.17  Aligned_cols=60  Identities=22%  Similarity=0.191  Sum_probs=35.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      +...|.|.|+-|||||||++.|+..-......  .++|...... +. ..+..+.=+|.--+.+
T Consensus        32 ~g~ii~L~G~LGaGKTtfvr~~~~~lg~~~~V--~SPTF~l~~~-Y~-~~~~~i~H~DlYRl~~   91 (158)
T d1htwa_          32 KAIMVYLNGDLGAGKTTLTRGMLQGIGHQGNV--KSPTYTLVEE-YN-IAGKMIYHFDLYRLAD   91 (158)
T ss_dssp             SCEEEEEECSTTSSHHHHHHHHHHHTTCCSCC--CCCTTTCEEE-EE-ETTEEEEEEECTTCSC
T ss_pred             CCeEEEEecCCCccHHHHHHHHHhhccccccc--CCCceEEEEe-ec-cCCceEEEEEEeccCC
Confidence            45689999999999999999997654332222  2223221111 11 2455666677765543

>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=95.78  E-value=0.0021  Score=49.30  Aligned_cols=25  Identities=28%  Similarity=0.327  Sum_probs=22.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      |.+.++|.|.-|||||||+|.|+..
T Consensus         2 ~iPv~iitGFLGaGKTTll~~lL~~   26 (222)
T d1nija1           2 PIAVTLLTGFLGAGKTTLLRHILNE   26 (222)
T ss_dssp             CEEEEEEEESSSSSCHHHHHHHHHS
T ss_pred             CCCEEEEeeCCCCCHHHHHHHHHhc
Confidence            5578999999999999999999864

>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=95.78  E-value=0.0014  Score=52.22  Aligned_cols=22  Identities=18%  Similarity=0.360  Sum_probs=16.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +.|+|.|.+||||||+.+.|..
T Consensus         5 pIIgIaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           5 PIISVTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             CEEEEESCC---CCTHHHHHHH
T ss_pred             CEEEEECCCCCcHHHHHHHHHH
Confidence            5799999999999999998753

>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=95.74  E-value=0.0029  Score=48.35  Aligned_cols=23  Identities=22%  Similarity=0.368  Sum_probs=20.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+.|.|++|+||||+++.|+..
T Consensus        34 ~~lll~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          34 PHMLFYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCChHHHHHHHHHH
Confidence            34899999999999999999754

>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=95.71  E-value=0.0018  Score=50.65  Aligned_cols=21  Identities=29%  Similarity=0.408  Sum_probs=17.7

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 025391           22 VVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.|.|++|+||||+++.++..
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            445699999999999998754

>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=95.68  E-value=0.0026  Score=53.93  Aligned_cols=23  Identities=22%  Similarity=0.525  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|++|||||+|||-|+++|++.
T Consensus        50 sNILliGPTGvGKTlLAr~LAk~   72 (443)
T d1g41a_          50 KNILMIGPTGVGKTEIARRLAKL   72 (443)
T ss_dssp             CCEEEECCTTSSHHHHHHHHHHH
T ss_pred             ccEEEECCCCCCHHHHHHHHHHH
Confidence            48999999999999999999763

>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=95.64  E-value=0.0033  Score=48.78  Aligned_cols=22  Identities=18%  Similarity=0.203  Sum_probs=19.4

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|.|+.|+|||||++.++.
T Consensus        30 ~~i~i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          30 PITLVLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             SEEEEEESTTSSHHHHHHHHHH
T ss_pred             CEEEEEcCCCCcHHHHHHHHHH
Confidence            5788999999999999998764

>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=95.62  E-value=0.0035  Score=49.52  Aligned_cols=55  Identities=13%  Similarity=0.105  Sum_probs=40.0

Q ss_pred             HhhcCCccEEEEEEeCCCCCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCCCChhhHHHHH
Q 025391           98 GMAKDGIHAVLVVFSVRSRFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELEDNDETLEDYL  161 (253)
Q Consensus        98 ~~~~~~~~~~l~v~d~~~~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~~~~~~~~~~~  161 (253)
                      ......+|++|+|+|+..+++..+..+.+.+.       .+|.++|+||+|...  ....+.+.
T Consensus        10 ~~~i~~~DvIl~V~DaR~P~ss~~~~l~~~~~-------~Kp~IlVlNK~DLv~--~~~~~~w~   64 (273)
T d1puja_          10 TEKLKLIDIVYELVDARIPMSSRNPMIEDILK-------NKPRIMLLNKADKAD--AAVTQQWK   64 (273)
T ss_dssp             HHHGGGCSEEEEEEETTSTTTTSCHHHHHHCS-------SSCEEEEEECGGGSC--HHHHHHHH
T ss_pred             HHHHHhCCEEEEEEECCCCCCCCCHHHHHHHc-------CCCeEEEEECccCCc--hHHHHHHH
Confidence            34455669999999998888887765544432       258999999999987  55444443

>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=95.52  E-value=0.0038  Score=47.51  Aligned_cols=23  Identities=17%  Similarity=0.380  Sum_probs=19.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..++|.|++|+||||+++.|+..
T Consensus        37 ~~~ll~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          37 PHMIISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             CCEEEECSTTSSHHHHHHHHHHH
T ss_pred             CeEEEECCCCCCchhhHHHHHHH
Confidence            35899999999999999988754

>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=95.43  E-value=0.0036  Score=52.34  Aligned_cols=24  Identities=33%  Similarity=0.425  Sum_probs=21.2

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .--|+|.|++|+||||++.+++..
T Consensus       158 ~GliLvtGpTGSGKSTTl~~~l~~  181 (401)
T d1p9ra_         158 HGIILVTGPTGSGKSTTLYAGLQE  181 (401)
T ss_dssp             SEEEEEECSTTSCHHHHHHHHHHH
T ss_pred             hceEEEEcCCCCCccHHHHHHhhh
Confidence            357999999999999999998865

>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=95.37  E-value=0.0044  Score=47.10  Aligned_cols=22  Identities=23%  Similarity=0.416  Sum_probs=19.7

Q ss_pred             EEEEEcCCCCCHHHHHHHHhCC
Q 025391           21 TVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+.|.|++|+||||++..|+..
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            4889999999999999999754

>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=95.29  E-value=0.0053  Score=50.58  Aligned_cols=24  Identities=25%  Similarity=0.588  Sum_probs=21.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...++++||||+|||-|.++|+.
T Consensus        67 p~~niLfiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          67 SKSNILLIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             CCCCEEEECCTTSSHHHHHHHHHH
T ss_pred             CCcceeeeCCCCccHHHHHHHHHh
Confidence            446799999999999999999974

>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=95.26  E-value=0.0036  Score=47.86  Aligned_cols=23  Identities=22%  Similarity=0.276  Sum_probs=20.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..|+|-|..||||||+++.|...
T Consensus         3 k~I~ieG~dGsGKST~~~~L~~~   25 (241)
T d1p5zb_           3 KKISIEGNIAAGKSTFVNILKQL   25 (241)
T ss_dssp             EEEEEECSTTSSHHHHHTTTGGG
T ss_pred             CEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999998754

>d1hyqa_ c.37.1.10 (A:) Cell division regulator MinD {Archaeon 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: Nitrogenase iron protein-like
domain: Cell division regulator MinD
species: Archaeon Archaeoglobus fulgidus [TaxId: 2234]

Probab=95.22  E-value=0.015  Score=43.92  Aligned_cols=20  Identities=30%  Similarity=0.685  Sum_probs=15.7

Q ss_pred             eEEEEE-cCCCCCHHHHHHHH
Q 025391           20 RTVVLV-GRTGNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lv-G~~g~GKSTl~n~l   39 (253)
                      +.|+++ |+.|+||||+.-.|
T Consensus         2 kvIav~s~KGGvGKTtia~nl   22 (232)
T d1hyqa_           2 RTITVASGKGGTGKTTITANL   22 (232)
T ss_dssp             EEEEEEESSSCSCHHHHHHHH
T ss_pred             EEEEEECCCCCChHHHHHHHH
Confidence            356777 78999999987654

>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=95.19  E-value=0.0053  Score=45.88  Aligned_cols=21  Identities=24%  Similarity=0.439  Sum_probs=18.9

Q ss_pred             EEEEEcCCCCCHHHHHHHHhC
Q 025391           21 TVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      -|+|-|.-||||||+++.|..
T Consensus         2 lI~ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           2 LIAIEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EEEEECSTTSSHHHHHHHHHH
T ss_pred             EEEEECCCCCCHHHHHHHHHH
Confidence            589999999999999998864

>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=95.13  E-value=0.0062  Score=46.71  Aligned_cols=22  Identities=27%  Similarity=0.496  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|||.|..||||||+.+.|..
T Consensus         2 ~iIgiTG~igSGKsTva~~l~e   23 (241)
T d1deka_           2 KLIFLSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EEEEEECCTTSSHHHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHHHH
Confidence            4799999999999999999954

>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=95.11  E-value=0.032  Score=42.08  Aligned_cols=65  Identities=14%  Similarity=-0.040  Sum_probs=35.6

Q ss_pred             eEEEEEeCCCCCCCCCCcHHHHHHHHHHHHhhcCCccEEEEEEeCCCCCCHHH-HHHHHHHHHHhcccccCeEEEEEeCC
Q 025391           69 QVVNVIDTPGLFDFSAGSEFVGKEIVKCIGMAKDGIHAVLVVFSVRSRFSQEE-EAALHSLQTLFGKKIFDYMIVVFTGG  147 (253)
Q Consensus        69 ~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~v~d~~~~~~~~~-~~~l~~l~~~~g~~~~~~~ivv~~k~  147 (253)
                      .+++++|+|+...         .    .....+..+|.++++..++ ..+... ...++.+.+. +-   +..-+|+|+.
T Consensus       112 ~d~IiiD~~~~~~---------~----~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~~-~~---~~~giv~N~~  173 (237)
T d1g3qa_         112 FDFILIDCPAGLQ---------L----DAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKA-GL---AILGFVLNRY  173 (237)
T ss_dssp             CSEEEEECCSSSS---------H----HHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHT-TC---EEEEEEEEEE
T ss_pred             CCEEEEccccccc---------c----cchhhhhhhhccccccccc-ceecchhhHHHHHHhhh-hh---hhhhhhhccc
Confidence            3689999987543         1    1222234578999998765 222222 3334444332 21   2234788988


Q ss_pred             CCCC
Q 025391          148 DELE  151 (253)
Q Consensus       148 D~~~  151 (253)
                      +...
T Consensus       174 ~~~~  177 (237)
T d1g3qa_         174 GRSD  177 (237)
T ss_dssp             TSCT
T ss_pred             cccc
Confidence            7653

>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=95.09  E-value=0.0062  Score=44.70  Aligned_cols=23  Identities=35%  Similarity=0.543  Sum_probs=19.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|+|++|+||||+.-.|...
T Consensus        15 ~gvl~~G~sG~GKStlal~l~~~   37 (176)
T d1kkma_          15 LGVLITGDSGVGKSETALELVQR   37 (176)
T ss_dssp             EEEEEECCTTSCHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            56999999999999999887644

>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=95.07  E-value=0.0065  Score=44.61  Aligned_cols=23  Identities=35%  Similarity=0.593  Sum_probs=20.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|.|++|+||||+.-.|...
T Consensus        16 ~gvli~G~sG~GKS~lal~l~~~   38 (177)
T d1knxa2          16 VGVLLTGRSGIGKSECALDLINK   38 (177)
T ss_dssp             EEEEEEESSSSSHHHHHHHHHTT
T ss_pred             EEEEEEcCCCCCHHHHHHHHHHc
Confidence            56899999999999999888754

>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=94.92  E-value=0.0072  Score=49.67  Aligned_cols=26  Identities=19%  Similarity=0.284  Sum_probs=22.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRR   43 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~   43 (253)
                      ....+++.||+|+|||+|+++|++..
T Consensus       153 ~~~~~~~~g~~~~gk~~~~~~~~~~~  178 (362)
T d1svma_         153 KKRYWLFKGPIDSGKTTLAAALLELC  178 (362)
T ss_dssp             TCCEEEEECSTTSSHHHHHHHHHHHH
T ss_pred             CcCeEEEECCCCCCHHHHHHHHHHHc
Confidence            34579999999999999999987653

>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=94.84  E-value=0.01  Score=46.76  Aligned_cols=26  Identities=31%  Similarity=0.445  Sum_probs=21.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .....|+|+|..|.|||||+..++..
T Consensus        42 ~~~~~v~I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          42 LDSFFLFLHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             SSSEEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CCceEEEEECCCCCCHHHHHHHHHHh
Confidence            34568999999999999999988643

>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=94.78  E-value=0.0098  Score=45.46  Aligned_cols=24  Identities=21%  Similarity=0.228  Sum_probs=20.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +..|+|=|.-||||||+++.|...
T Consensus         2 pk~IviEG~~GsGKST~~~~L~~~   25 (241)
T d2ocpa1           2 PRRLSIEGNIAVGKSTFVKLLTKT   25 (241)
T ss_dssp             CEEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CeEEEEECCCCCcHHHHHHHHHHH
Confidence            367999999999999999999743

>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=94.70  E-value=0.01  Score=43.96  Aligned_cols=25  Identities=12%  Similarity=0.161  Sum_probs=21.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...+.|.|++|+|||+|+..++..
T Consensus        22 ~G~v~~i~G~~GsGKT~l~l~la~~   46 (242)
T d1n0wa_          22 TGSITEMFGEFRTGKTQICHTLAVT   46 (242)
T ss_dssp             TTSEEEEECCTTSSHHHHHHHHHHH
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHH
Confidence            4468899999999999999888754

>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=94.64  E-value=0.012  Score=47.29  Aligned_cols=28  Identities=21%  Similarity=0.462  Sum_probs=21.6

Q ss_pred             CCCCCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           14 SPSNGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        14 ~~~~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ++..|...+.++|++|+|||.+++.|+.
T Consensus        48 ~~~kp~~~~lf~Gp~G~GKt~lak~la~   75 (315)
T d1qvra3          48 DPNRPIGSFLFLGPTGVGKTELAKTLAA   75 (315)
T ss_dssp             CSSSCSEEEEEBSCSSSSHHHHHHHHHH
T ss_pred             CCCCCceEEEEECCCcchHHHHHHHHHH
Confidence            3344445788999999999999998764

>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=94.63  E-value=0.011  Score=44.60  Aligned_cols=22  Identities=27%  Similarity=0.413  Sum_probs=18.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-|+|-|..||||||+++.|..
T Consensus         4 ~lI~ieG~dGsGKsT~~~~L~~   25 (209)
T d1nn5a_           4 ALIVLEGVDRAGKSTQSRKLVE   25 (209)
T ss_dssp             CEEEEEESTTSSHHHHHHHHHH
T ss_pred             eEEEEECCCCCCHHHHHHHHHH
Confidence            5688889999999998888754

>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=94.59  E-value=0.0096  Score=43.35  Aligned_cols=23  Identities=35%  Similarity=0.550  Sum_probs=19.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .-|+|.|++|+||||+.-.|+..
T Consensus        16 ~gvli~G~sg~GKS~la~~l~~~   38 (169)
T d1ko7a2          16 VGVLITGDSGIGKSETALELIKR   38 (169)
T ss_dssp             EEEEEEESTTSSHHHHHHHHHHT
T ss_pred             EEEEEEeCCCCCHHHHHHHHHHc
Confidence            67999999999999998776644

>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=94.54  E-value=0.012  Score=44.17  Aligned_cols=22  Identities=27%  Similarity=0.564  Sum_probs=19.2

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .-|+|-|..||||||+++.|..
T Consensus         3 kfIviEG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           3 KYIVIEGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             CEEEEEECTTSCHHHHHHHHHH
T ss_pred             CEEEEECCCCCCHHHHHHHHHH
Confidence            4588999999999999998864

>d1xp8a1 c.37.1.11 (A:15-282) RecA protein, ATPase-domain {Deinococcus radiodurans [TaxId: 1299]}

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: Deinococcus radiodurans [TaxId: 1299]

Probab=94.45  E-value=0.05  Score=42.46  Aligned_cols=25  Identities=20%  Similarity=0.341  Sum_probs=20.4

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....+.+.|++|+|||+|+-.++..
T Consensus        56 ~g~itei~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          56 RGRITEIYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CceEEEEecCCccchHHHHHHHHHH
Confidence            3357889999999999999777653

>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=93.79  E-value=0.019  Score=43.49  Aligned_cols=25  Identities=20%  Similarity=0.177  Sum_probs=21.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...+.|.|++|+|||+|+-.++-.
T Consensus        33 ~G~~~li~G~pGsGKT~l~lq~~~~   57 (251)
T d1szpa2          33 TGSITELFGEFRTGKSQLCHTLAVT   57 (251)
T ss_dssp             SSSEEEEEESTTSSHHHHHHHHTTT
T ss_pred             CCeEEEEEcCCCCCHHHHHHHHHHH
Confidence            3457899999999999999888654

>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=93.62  E-value=0.0095  Score=48.15  Aligned_cols=22  Identities=27%  Similarity=0.480  Sum_probs=19.7

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|+|+|++|+|||+|+++|.+
T Consensus        29 h~vLl~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          29 GGVLVFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             CCEEEECCGGGCTTHHHHHHHH
T ss_pred             CeEEEECCCCccHHHHHHHHHH
Confidence            3699999999999999999864

>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=93.59  E-value=0.024  Score=42.65  Aligned_cols=24  Identities=17%  Similarity=0.320  Sum_probs=20.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+.-|+|-|.-||||||+++.|..
T Consensus         2 kGk~I~iEG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           2 RGKLILIEGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             CCCEEEEEESTTSSHHHHHHHHHH
T ss_pred             CeEEEEEECCCCCcHHHHHHHHHH
Confidence            346799999999999999998864

>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=93.43  E-value=0.022  Score=43.40  Aligned_cols=24  Identities=17%  Similarity=0.321  Sum_probs=20.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...+.|.|++|+|||+|+-.++.
T Consensus        35 ~G~~~li~G~pGsGKT~~~lq~~~   58 (254)
T d1pzna2          35 TQAITEVFGEFGSGKTQLAHTLAV   58 (254)
T ss_dssp             SSEEEEEEESTTSSHHHHHHHHHH
T ss_pred             CCEEEEEEcCCCCCHHHHHHHHHH
Confidence            346789999999999999977753

>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=93.32  E-value=0.02  Score=47.60  Aligned_cols=22  Identities=32%  Similarity=0.421  Sum_probs=18.9

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..++|+|.+|+|||++++.|+-
T Consensus        51 ~H~~I~G~tGsGKT~~l~~li~   72 (433)
T d1e9ra_          51 RHLLVNGATGTGKSVLLRELAY   72 (433)
T ss_dssp             GCEEEEECTTSSHHHHHHHHHH
T ss_pred             ceEEEEeCCCCcHHHHHHHHHH
Confidence            4599999999999999987753

>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=93.18  E-value=0.024  Score=42.70  Aligned_cols=21  Identities=19%  Similarity=0.328  Sum_probs=19.1

Q ss_pred             EEEEcCCCCCHHHHHHHHhCC
Q 025391           22 VVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        22 i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.|.|++|+|||-|++++...
T Consensus        39 l~l~G~~G~GKTHLl~A~~~~   59 (213)
T d1l8qa2          39 IFIYGSVGTGKTHLLQAAGNE   59 (213)
T ss_dssp             EEEECSSSSSHHHHHHHHHHH
T ss_pred             EEEECCCCCcHHHHHHHHHHH
Confidence            789999999999999998754

>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=93.13  E-value=0.065  Score=39.74  Aligned_cols=24  Identities=4%  Similarity=-0.011  Sum_probs=21.1

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ....+.+.|++|+|||+++..+..
T Consensus        14 ~~~~~l~~G~~g~gk~~~a~~l~~   37 (198)
T d2gnoa2          14 EGISILINGEDLSYPREVSLELPE   37 (198)
T ss_dssp             SSEEEEEECSSSSHHHHHHHHHHH
T ss_pred             CCceEEEECCCCCCHHHHHHHHHH
Confidence            347899999999999999998875

>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=93.11  E-value=0.031  Score=44.09  Aligned_cols=27  Identities=15%  Similarity=0.116  Sum_probs=22.8

Q ss_pred             CCCCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           16 SNGERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        16 ~~~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      -..+.|++|+|++|+|||+|+..|+..
T Consensus        40 igrGQr~~I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          40 IGRGQRGLIVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             CBTTCEEEEEECSSSSHHHHHHHHHHH
T ss_pred             ccCCCeeeEeCCCCCCHHHHHHHHHHH
Confidence            345689999999999999999888653

>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=92.90  E-value=0.034  Score=41.93  Aligned_cols=25  Identities=16%  Similarity=0.190  Sum_probs=20.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +...+.|.|++|+|||+|+-.++-.
T Consensus        33 ~G~l~~i~G~~G~GKT~~~l~~a~~   57 (258)
T d2i1qa2          33 SQSVTEFAGVFGSGKTQIMHQSCVN   57 (258)
T ss_dssp             TTEEEEEEESTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4468899999999999999877643

>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=92.85  E-value=0.03  Score=42.52  Aligned_cols=25  Identities=20%  Similarity=0.383  Sum_probs=20.5

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      +.--+.|.|++|+|||+|+-.|+-.
T Consensus        25 ~gsl~li~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          25 KDSIILATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             SSCEEEEEECTTSSHHHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHHHH
Confidence            4457899999999999999777543

>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=92.83  E-value=0.04  Score=41.80  Aligned_cols=24  Identities=13%  Similarity=0.133  Sum_probs=20.6

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      +...+.|.|++|+|||+|+-.++.
T Consensus        36 ~G~~~~i~G~~GsGKT~lalq~~~   59 (258)
T d1v5wa_          36 SMAITEAFGEFRTGKTQLSHTLCV   59 (258)
T ss_dssp             SSEEEEEECCTTCTHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCHHHHHHHHHH
Confidence            446899999999999999988764

>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=92.72  E-value=0.031  Score=45.04  Aligned_cols=24  Identities=25%  Similarity=0.302  Sum_probs=20.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .++|.|=|.-|+||||+++.|...
T Consensus         4 ~lrI~IEG~iGsGKTTl~~~La~~   27 (329)
T d1e2ka_           4 LLRVYIDGPHGMGKTTTTQLLVAL   27 (329)
T ss_dssp             EEEEEECSCTTSSHHHHHHHHTC-
T ss_pred             ceEEEEECCcCCCHHHHHHHHHHH
Confidence            368999999999999999999643

>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=92.70  E-value=0.037  Score=43.04  Aligned_cols=23  Identities=22%  Similarity=0.328  Sum_probs=18.7

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      +.--++|.|++|+|||||+..|+
T Consensus        34 ~G~l~vi~G~~G~GKT~~~~~la   56 (277)
T d1cr2a_          34 GGEVIMVTSGSGMGKSTFVRQQA   56 (277)
T ss_dssp             TTCEEEEECSTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHH
Confidence            34568899999999999986664

>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=92.45  E-value=0.035  Score=41.61  Aligned_cols=23  Identities=26%  Similarity=0.424  Sum_probs=18.8

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      +...+.|.|++|+|||+|+-.++
T Consensus        25 ~G~~~~I~G~~G~GKT~la~~~~   47 (242)
T d1tf7a1          25 IGRSTLVSGTSGTGKTLFSIQFL   47 (242)
T ss_dssp             TTSEEEEEESTTSSHHHHHHHHH
T ss_pred             CCeEEEEEeCCCCCHHHHHHHHH
Confidence            44688999999999999986544

>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=92.37  E-value=0.028  Score=45.39  Aligned_cols=23  Identities=26%  Similarity=0.391  Sum_probs=21.1

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhCC
Q 025391           20 RTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      .+|.|=|.-|+||||+++.|...
T Consensus         6 lrI~IEG~iGsGKSTl~~~L~~~   28 (331)
T d1osna_           6 LRIYLDGAYGIGKTTAAEEFLHH   28 (331)
T ss_dssp             EEEEEEESSSSCTTHHHHHHHHT
T ss_pred             eEEEEECCCCCCHHHHHHHHHHH
Confidence            68999999999999999999754

>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=92.35  E-value=0.043  Score=44.30  Aligned_cols=24  Identities=33%  Similarity=0.374  Sum_probs=21.9

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           19 ERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..+|.|=|.-|+||||+++.|...
T Consensus         6 ~~rI~iEG~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_           6 IVRIYLDGVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             EEEEEEECSTTSSHHHHHHHHHSG
T ss_pred             eEEEEEECCccCCHHHHHHHHHHH
Confidence            479999999999999999999865

>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=92.34  E-value=0.035  Score=41.34  Aligned_cols=25  Identities=28%  Similarity=0.371  Sum_probs=21.3

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ..-.+++.|++++|||+|+++|++.
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            3457999999999999999988754

>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=92.31  E-value=0.051  Score=36.90  Aligned_cols=25  Identities=12%  Similarity=0.106  Sum_probs=22.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      .+.+.|.+-|-+|+||||+.++|.-
T Consensus         4 kqgf~i~~tg~~~~gk~~ia~al~~   28 (122)
T d1g8fa3           4 KQGFSIVLGNSLTVSREQLSIALLS   28 (122)
T ss_dssp             GCCEEEEECTTCCSCHHHHHHHHHH
T ss_pred             ccceEEEEeCCCCCCHHHHHHHHHH
Confidence            3568999999999999999999853

>d1mo6a1 c.37.1.11 (A:1-269) RecA protein, ATPase-domain {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: RecA protein-like (ATPase-domain)
domain: RecA protein, ATPase-domain
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=92.27  E-value=0.21  Score=38.75  Aligned_cols=43  Identities=21%  Similarity=0.343  Sum_probs=31.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCCCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGLFD   81 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~~~   81 (253)
                      ....+.|.|++|+|||||+-.++....                     ..+..+.+|||.+-++
T Consensus        59 ~g~i~e~~G~~~~GKT~l~l~~~~~~q---------------------~~g~~~vyIDtE~~~~  101 (269)
T d1mo6a1          59 RGRVIEIYGPESSGKTTVALHAVANAQ---------------------AAGGVAAFIDAEHALD  101 (269)
T ss_dssp             SSSEEEEECSSSSSHHHHHHHHHHHHH---------------------HTTCEEEEEESSCCCC
T ss_pred             cceeEEEecCCCcHHHHHHHHHHHHHh---------------------cCCCEEEEEECCccCC
Confidence            446788999999999999866653210                     1344567899999765

>d1ihua1 c.37.1.10 (A:1-296) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=91.86  E-value=0.048  Score=42.57  Aligned_cols=23  Identities=22%  Similarity=0.341  Sum_probs=18.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l   39 (253)
                      +.+..|.+.|+-|+||||+.-.|
T Consensus         6 ~~p~~i~~sGKGGVGKTTvaa~l   28 (296)
T d1ihua1           6 NIPPYLFFTGKGGVGKTSISCAT   28 (296)
T ss_dssp             SCCSEEEEECSTTSSHHHHHHHH
T ss_pred             CCCeEEEEECCCcChHHHHHHHH
Confidence            34467889999999999966554

>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=91.84  E-value=0.059  Score=42.04  Aligned_cols=58  Identities=14%  Similarity=0.072  Sum_probs=34.0

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHhCCCCccccCCCCccceeeeeeeeEeeCCeEEEEEeCCCC
Q 025391           17 NGERTVVLVGRTGNGKSATGNSILGRRAFKSRASSSGVTSTCEMQRTVLKDGQVVNVIDTPGL   79 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~g~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~liDtpG~   79 (253)
                      +..-.+.+.|++++|||+|+++|...-...... .....   .. ......+.++.++|-|..
T Consensus       102 ~k~n~~~l~G~~~tGKS~f~~~i~~~lg~~~~~-~~~~~---~f-~l~~l~~k~~~~~~e~~~  159 (267)
T d1u0ja_         102 GKRNTIWLFGPATTGKTNIAEAIAHTVPFYGCV-NWTNE---NF-PFNDCVDKMVIWWEEGKM  159 (267)
T ss_dssp             TTCCEEEEECSTTSSHHHHHHHHHHHSSCEEEC-CTTCS---SC-TTGGGSSCSEEEECSCCE
T ss_pred             CccEEEEEEcCCCCCHHHHHHHHHHHhcchhhc-cccCC---Cc-cccccCCCEEEEEeCCCc
Confidence            344678999999999999999987643211111 10000   01 111235677888887654

>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=91.83  E-value=0.051  Score=37.36  Aligned_cols=21  Identities=29%  Similarity=0.319  Sum_probs=16.8

Q ss_pred             eEEEEEcCCCCCHHHHHHHHh
Q 025391           20 RTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      .+.+|.+++|+|||+++-.++
T Consensus         9 ~~~ll~apTGsGKT~~~~~~~   29 (136)
T d1a1va1           9 QVAHLHAPTGSGKSTKVPAAY   29 (136)
T ss_dssp             EEEEEECCTTSCTTTHHHHHH
T ss_pred             CEEEEEeCCCCCHHHHHHHHH
Confidence            567889999999999875443

>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=91.65  E-value=0.055  Score=41.80  Aligned_cols=22  Identities=27%  Similarity=0.262  Sum_probs=17.8

Q ss_pred             CeEEEEEcCCCCCHHHHHHHHh
Q 025391           19 ERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ....+|+|++|+|||||+-.|+
T Consensus        29 g~~~~i~G~~G~GKS~l~l~la   50 (274)
T d1nlfa_          29 GTVGALVSPGGAGKSMLALQLA   50 (274)
T ss_dssp             TSEEEEEESTTSSHHHHHHHHH
T ss_pred             CcEEEEEeCCCCCHHHHHHHHH
Confidence            3467799999999999986654

>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=91.03  E-value=0.042  Score=43.08  Aligned_cols=16  Identities=19%  Similarity=0.403  Sum_probs=13.6

Q ss_pred             EEEEEcCCCCCHHHHH
Q 025391           21 TVVLVGRTGNGKSATG   36 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~   36 (253)
                      .++|+|.+|+||||++
T Consensus        16 ~~lI~g~aGTGKTt~l   31 (306)
T d1uaaa1          16 PCLVLAGAGSGKTRVI   31 (306)
T ss_dssp             EEEECCCTTSCHHHHH
T ss_pred             CEEEEeeCCccHHHHH
Confidence            3778899999999865

>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=90.71  E-value=0.053  Score=42.89  Aligned_cols=16  Identities=19%  Similarity=0.459  Sum_probs=13.7

Q ss_pred             EEEEEcCCCCCHHHHH
Q 025391           21 TVVLVGRTGNGKSATG   36 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~   36 (253)
                      .++|.|.+|+||||++
T Consensus        26 ~~lV~g~aGSGKTt~l   41 (318)
T d1pjra1          26 PLLIMAGAGSGKTRVL   41 (318)
T ss_dssp             CEEEEECTTSCHHHHH
T ss_pred             CEEEEecCCccHHHHH
Confidence            3788899999999865

>d1ihua2 c.37.1.10 (A:308-586) Arsenite-translocating ATPase ArsA {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: Arsenite-translocating ATPase ArsA
species: Escherichia coli [TaxId: 562]

Probab=89.42  E-value=0.13  Score=39.66  Aligned_cols=20  Identities=30%  Similarity=0.620  Sum_probs=15.6

Q ss_pred             eEEEEEcCCCCCHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l   39 (253)
                      ..|++.|+-|+||||+.-.|
T Consensus        21 ~iii~sGKGGVGKTT~a~nL   40 (279)
T d1ihua2          21 GLIMLMGKGGVGKTTMAAAI   40 (279)
T ss_dssp             EEEEEECSTTSSHHHHHHHH
T ss_pred             EEEEEECCCCCCHHHHHHHH
Confidence            45666799999999976554

>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=89.19  E-value=0.13  Score=40.13  Aligned_cols=23  Identities=22%  Similarity=0.305  Sum_probs=20.2

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHh
Q 025391           18 GERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ...|++|+|.+|+|||+|+-.|+
T Consensus        67 kGQr~~If~~~g~GKt~l~~~i~   89 (276)
T d2jdid3          67 KGGKIGLFGGAGVGKTVLIMELI   89 (276)
T ss_dssp             TTCEEEEEECTTSSHHHHHHHHH
T ss_pred             CCCEEEeeCCCCCCHHHHHHHHH
Confidence            56799999999999999987765

>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=89.18  E-value=0.12  Score=41.95  Aligned_cols=20  Identities=35%  Similarity=0.541  Sum_probs=16.7

Q ss_pred             CeEEEEEcCCCCCHHHHHHH
Q 025391           19 ERTVVLVGRTGNGKSATGNS   38 (253)
Q Consensus        19 ~~~i~lvG~~g~GKSTl~n~   38 (253)
                      ....+|.|++|+||||++..
T Consensus       163 ~~~~vI~G~pGTGKTt~i~~  182 (359)
T d1w36d1         163 RRISVISGGPGTGKTTTVAK  182 (359)
T ss_dssp             BSEEEEECCTTSTHHHHHHH
T ss_pred             CCeEEEEcCCCCCceehHHH
Confidence            35788999999999998744

>d1byia_ c.37.1.10 (A:) Dethiobiotin synthetase {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: Dethiobiotin synthetase
species: Escherichia coli [TaxId: 562]

Probab=88.95  E-value=0.14  Score=37.75  Aligned_cols=20  Identities=15%  Similarity=0.355  Sum_probs=17.1

Q ss_pred             eEEEEEcCC-CCCHHHHHHHH
Q 025391           20 RTVVLVGRT-GNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lvG~~-g~GKSTl~n~l   39 (253)
                      .|+.|.|.. |+||||+.-.|
T Consensus         2 ~~~~i~gt~~GVGKTtvs~~L   22 (224)
T d1byia_           2 KRYFVTGTDTEVGKTVASCAL   22 (224)
T ss_dssp             EEEEEEESSTTSCHHHHHHHH
T ss_pred             ceEEEEECCCCccHHHHHHHH
Confidence            689999995 99999987665

>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=88.78  E-value=0.13  Score=40.01  Aligned_cols=20  Identities=35%  Similarity=0.615  Sum_probs=16.5

Q ss_pred             eEEEEEcCCCCCHHHHHHHH
Q 025391           20 RTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l   39 (253)
                      .+|++-|+-|+||||+.-.|
T Consensus         3 r~IaisgKGGVGKTT~a~NL   22 (289)
T d2afhe1           3 RQCAIYGKGGIGKSTTTQNL   22 (289)
T ss_dssp             EEEEEEECTTSSHHHHHHHH
T ss_pred             cEEEEECCCCCCHHHHHHHH
Confidence            57888999999999976543

>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=88.53  E-value=0.13  Score=39.51  Aligned_cols=22  Identities=27%  Similarity=0.434  Sum_probs=19.3

Q ss_pred             eEEEEEcCCCCCHHHHHHHHhC
Q 025391           20 RTVVLVGRTGNGKSATGNSILG   41 (253)
Q Consensus        20 ~~i~lvG~~g~GKSTl~n~l~g   41 (253)
                      ..|.|.|++|+||+++.+.|-.
T Consensus        24 ~pvlI~Ge~GtGK~~~A~~ih~   45 (247)
T d1ny5a2          24 CPVLITGESGVGKEVVARLIHK   45 (247)
T ss_dssp             SCEEEECSTTSSHHHHHHHHHH
T ss_pred             CCEEEECCCCcCHHHHHHHHHH
Confidence            4589999999999999999964

>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=85.97  E-value=0.77  Score=34.52  Aligned_cols=46  Identities=22%  Similarity=0.135  Sum_probs=27.6

Q ss_pred             CCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ..+|.+++|+++.+ .++..-..  +.+.-....  ..+.+||+||+|+..
T Consensus         9 ANiD~~~iV~s~~~P~~~~~~id--R~Lv~a~~~--~i~pvIvlnK~DL~~   55 (231)
T d1t9ha2           9 CNVDQAVLVFSAVQPSFSTALLD--RFLVLVEAN--DIQPIICITKMDLIE   55 (231)
T ss_dssp             ECCCEEEEEEESTTTTCCHHHHH--HHHHHHHTT--TCEEEEEEECGGGCC
T ss_pred             cccCEEEEEEECCCCCCCHHHHH--HHHHHHHHc--CCCEEEEEecccccc
Confidence            45688888887753 34443322  222222222  247899999999986

>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=84.65  E-value=0.72  Score=34.55  Aligned_cols=46  Identities=15%  Similarity=0.088  Sum_probs=27.5

Q ss_pred             CCccEEEEEEeCCC-CCCHHHHHHHHHHHHHhcccccCeEEEEEeCCCCCC
Q 025391          102 DGIHAVLVVFSVRS-RFSQEEEAALHSLQTLFGKKIFDYMIVVFTGGDELE  151 (253)
Q Consensus       102 ~~~~~~l~v~d~~~-~~~~~~~~~l~~l~~~~g~~~~~~~ivv~~k~D~~~  151 (253)
                      ...|.+++|+.+.. .++..-....-.+....|    .+.+||+||+|+..
T Consensus         9 ANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~~~----i~pvIvlnK~DL~~   55 (225)
T d1u0la2           9 ANVDQVILVVTVKMPETSTYIIDKFLVLAEKNE----LETVMVINKMDLYD   55 (225)
T ss_dssp             ESCCEEEEEECSSTTCCCHHHHHHHHHHHHHTT----CEEEEEECCGGGCC
T ss_pred             ccCCEEEEEEeCCCCCCCHHHHHHHHHHHHHcC----CCEEEEEeCcccCC
Confidence            35688888888753 355443221111122222    47899999999986

>d1yksa1 c.37.1.14 (A:185-324) YFV helicase domain {Yellow fever virus [TaxId: 11089]}

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: YFV helicase domain
species: Yellow fever virus [TaxId: 11089]

Probab=84.58  E-value=0.12  Score=34.93  Aligned_cols=16  Identities=38%  Similarity=0.356  Sum_probs=13.7

Q ss_pred             CeEEEEEcCCCCCHHH
Q 025391           19 ERTVVLVGRTGNGKSA   34 (253)
Q Consensus        19 ~~~i~lvG~~g~GKST   34 (253)
                      ..+++|.+++|+|||.
T Consensus         7 ~~~~il~~~tGsGKT~   22 (140)
T d1yksa1           7 GMTTVLDFHPGAGKTR   22 (140)
T ss_dssp             TCEEEECCCTTSSTTT
T ss_pred             CCcEEEEcCCCCChhH
Confidence            3678899999999994

>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=84.10  E-value=0.25  Score=38.68  Aligned_cols=24  Identities=13%  Similarity=0.328  Sum_probs=19.8

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHHh
Q 025391           17 NGERTVVLVGRTGNGKSATGNSIL   40 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l~   40 (253)
                      ....|++|+|.+|+|||+|+-.++
T Consensus        66 g~GQr~~If~~~g~GKt~ll~~~~   89 (285)
T d2jdia3          66 GRGQRELIIGDRQTGKTSIAIDTI   89 (285)
T ss_dssp             BTTCBCEEEESTTSSHHHHHHHHH
T ss_pred             cCCCEEEeecCCCCChHHHHHHHH
Confidence            356799999999999999876554

>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=84.01  E-value=0.36  Score=37.19  Aligned_cols=25  Identities=20%  Similarity=0.300  Sum_probs=20.0

Q ss_pred             CCeEEEEEcCCCCCHHHHHHHHhCC
Q 025391           18 GERTVVLVGRTGNGKSATGNSILGR   42 (253)
Q Consensus        18 ~~~~i~lvG~~g~GKSTl~n~l~g~   42 (253)
                      ....+.|.|++|+|||||+=.++..
T Consensus        53 ~g~itei~G~~gsGKTtl~l~~~~~   77 (263)
T d1u94a1          53 MGRIVEIYGPESSGKTTLTLQVIAA   77 (263)
T ss_dssp             TTSEEEEECSTTSSHHHHHHHHHHH
T ss_pred             CceEEEEecCCCcHHHHHHHHHHHH
Confidence            3467899999999999998666543

>d1wp9a1 c.37.1.19 (A:1-200) putative ATP-dependent RNA helicase PF2015 {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: Tandem AAA-ATPase domain
domain: putative ATP-dependent RNA helicase PF2015
species: Pyrococcus furiosus [TaxId: 2261]

Probab=83.79  E-value=0.31  Score=35.33  Aligned_cols=17  Identities=29%  Similarity=0.337  Sum_probs=13.6

Q ss_pred             EEEEEcCCCCCHHHHHH
Q 025391           21 TVVLVGRTGNGKSATGN   37 (253)
Q Consensus        21 ~i~lvG~~g~GKSTl~n   37 (253)
                      ++++++++|+|||..+-
T Consensus        25 n~lv~~pTGsGKT~i~~   41 (200)
T d1wp9a1          25 NCLIVLPTGLGKTLIAM   41 (200)
T ss_dssp             CEEEECCTTSCHHHHHH
T ss_pred             CeEEEeCCCCcHHHHHH
Confidence            47788999999997443

>d1fx0a3 c.37.1.11 (A:97-372) Central domain of alpha subunit of F1 ATP synthase {Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]}

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: Spinach (Spinacia oleracea), chloroplast [TaxId: 3562]

Probab=80.53  E-value=0.33  Score=37.74  Aligned_cols=23  Identities=17%  Similarity=0.377  Sum_probs=19.1

Q ss_pred             CCCeEEEEEcCCCCCHHHHHHHH
Q 025391           17 NGERTVVLVGRTGNGKSATGNSI   39 (253)
Q Consensus        17 ~~~~~i~lvG~~g~GKSTl~n~l   39 (253)
                      ....|++|+|.+|+|||+|+-.+
T Consensus        65 g~GQr~~Ifg~~g~GKt~l~~~~   87 (276)
T d1fx0a3          65 GRGQRELIIGDRQTGKTAVATDT   87 (276)
T ss_dssp             BTTCBCBEEESSSSSHHHHHHHH
T ss_pred             cCCceEeeccCCCCChHHHHHHH
Confidence            35579999999999999988543

>d2b8ta1 c.37.1.24 (A:11-149) Thymidine kinase, TK1, N-terminal domain {Ureaplasma urealyticum [TaxId: 2130]}

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: Ureaplasma urealyticum [TaxId: 2130]

Probab=80.30  E-value=0.5  Score=32.59  Aligned_cols=17  Identities=24%  Similarity=0.262  Sum_probs=14.0

Q ss_pred             EEEcCCCCCHHH-HHHHH
Q 025391           23 VLVGRTGNGKSA-TGNSI   39 (253)
Q Consensus        23 ~lvG~~g~GKST-l~n~l   39 (253)
                      +++||-.||||| |++.+
T Consensus         6 ~i~GpMfsGKTteLi~~~   23 (139)
T d2b8ta1           6 FITGPMFAGKTAELIRRL   23 (139)
T ss_dssp             EEECSTTSCHHHHHHHHH
T ss_pred             EEEccccCHHHHHHHHHH
Confidence            578999999999 66654