Citrus Sinensis ID: 040835

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-------110-------120-------130-------140-------150-------160-------170-------180-------190-------200------
Protein Sequence
LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIVVPGQEPESGRRSYNCCTSS
Secondary Structure (PSIPRED)
ccccccccHHHHHHHHHHccccccccccccEEEcEEEEEEccEEEEEEEEcccccHHHHHHHHHHHHccccEEEEEEcccccHHHHHHHHHHHHHHHcccccEEEEEEEcccccccccccHHHHHHHHHHccccEEEccccccccHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccccccccccccccccccc
Secondary Structure Prediction (SSPRO)
EEccccccHHHHHHHHHHccccccccccccEEEEEEEEEEccEEEEEEEEEEcccHHHHHHHHHHHccccEEEEEEEcccHHHHHHHHHHHHHHHHHcccccEEEEEEEcHHHHHHccccHHHHHHHHHHcccEEEEccccccccHHHHHHHHHHccHHHHHHccccccccccccccccccccccEEccccccccccccccccccc
Coil and Loop (DISEMBL)
ligdsavgKSQLLARFardefsldskatigveFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGnksdletlravptedAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKaltandesesggsssllkatnivvpgqepesgrrsyncctss
Flexible Loop (DISEMBL)
ligdsavgksQLLARfardefsldskATIGVEFQTKTLVIHHKNVkaqiwdtagqERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELrghadkniIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAltandesesggsssllkatnivvpgqepesgrrsyncctss
Low Complexity Region (SEG)
LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDesesggsssllKATNIVVPGQEPESGRRSYNCCTSS
Disordered region (IsUnstruct)
************LARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK******************************************
Disordered Region (DISOPRED)
LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR****************************************YNCCT**
Disordered Region (DISEMBL)
LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL************SLLKATNIVVPG****************
Disordered Region (DISPRO)
LI*DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKA*****************************************
Transmembrane Helix (TMHMM)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (HMMTOP)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhhhhhhhhhhooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
oooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIVVPGQEPESGRRSYNCCTSS
Positional Conservation
no confident homologs detected

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Close Homologs for Annotation Transfer

Close Homologs in SWISS-PROT Database Detected by BLAST

Original result of BLAST against SWISS-PROT Database

ID	Length	Definition	RBH(Q2H)	RBH(H2Q)	Q cover	H cover	Identity	E-value
Query	206	2.2.26 [Sep-21-2011]
P25766	226	Ras-related protein RGP1	yes	no	0.990	0.902	0.824	4e-94
Q9FE79	223	Ras-related protein RABA4	yes	no	0.990	0.914	0.796	1e-91
Q9LH50	222	Ras-related protein RABA4	no	no	0.985	0.914	0.781	4e-90
Q40191	226	Ras-related protein Rab11	N/A	no	0.995	0.907	0.742	3e-85
Q40522	222	Ras-related protein Rab11	N/A	no	0.970	0.900	0.730	7e-84
Q9FJN8	226	Ras-related protein RABA4	no	no	0.995	0.907	0.726	2e-83
Q40520	222	Ras-related protein Rab11	N/A	no	0.980	0.909	0.728	4e-83
Q9SMQ6	224	Ras-related protein RABA4	no	no	0.985	0.906	0.703	3e-81
Q40194	218	Ras-related protein Rab11	N/A	no	0.975	0.922	0.643	1e-71
Q40193	216	Ras-related protein Rab11	N/A	no	0.941	0.898	0.635	2e-70

>sp|P25766|RLGP1_ORYSJ Ras-related protein RGP1 OS=Oryza sativa subsp. japonica GN=RGP1 PE=2 SV=2

 Score =  343 bits (881), Expect = 4e-94,   Method: Compositional matrix adjust.
 Identities = 169/205 (82%), Positives = 184/205 (89%), Gaps = 1/205 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EF+LDSKATIGVEFQT+TL I  + VKAQIWDTAGQERYRA
Sbjct: 23  LIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTRTLHIDARTVKAQIWDTAGQERYRA 82

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNKSDL TLR VP
Sbjct: 83  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKSDLGTLRVVP 142

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAE+E L FMETSALESTNVE AF+TVLTEIYRIVSKK L AN+E +S G+SSL
Sbjct: 143 TEDAKEFAERENLFFMETSALESTNVENAFMTVLTEIYRIVSKKNLVANEEVDSSGNSSL 202

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
           LK T IVVPGQEP    ++ +CC S
Sbjct: 203 LKGTKIVVPGQEPAPPTKA-SCCMS 226

May play an important role in plant growth and development.
Oryza sativa subsp. japonica (taxid: 39947)

>sp|Q9FE79|RAA4C_ARATH Ras-related protein RABA4c OS=Arabidopsis thaliana GN=RABA4C PE=2 SV=1

 Score =  335 bits (860), Expect = 1e-91,   Method: Compositional matrix adjust.
 Identities = 164/206 (79%), Positives = 183/206 (88%), Gaps = 2/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARF+R+EFS++SKATIGVEFQT+TL I  K +KAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQLLARFSRNEFSIESKATIGVEFQTRTLEIDRKTIKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNK+DL TLRAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKTDLGTLRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA++E L FMETSAL+S NVE +FLTVLTEIYRIVSKK L AN+E ESGG SSL
Sbjct: 140 TEDAKEFAQRENLFFMETSALDSNNVEPSFLTVLTEIYRIVSKKNLVANEEGESGGDSSL 199

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           L+ T IVV G+E ES  +   CC +S
Sbjct: 200 LQGTKIVVAGEETES--KGKGCCGTS 223

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q9LH50|RAA4D_ARATH Ras-related protein RABA4d OS=Arabidopsis thaliana GN=RABA4D PE=1 SV=1

 Score =  330 bits (847), Expect = 4e-90,   Method: Compositional matrix adjust.
 Identities = 161/206 (78%), Positives = 187/206 (90%), Gaps = 3/206 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGK+QLLARFAR+EFS+DSKATIGVEFQTKTLVI +K VKAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKTQLLARFARNEFSVDSKATIGVEFQTKTLVIDNKTVKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYD+TKRQSFD++A+WLEELRGHADKNI+IML+GNK DL +LRAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDMTKRQSFDHMAKWLEELRGHADKNIVIMLIGNKCDLGSLRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDA+EFA++E L FMETSALE+TNVE AFLT+LTEIYRI+SKK+LTA+D+ ++ G+SSL
Sbjct: 140 TEDAQEFAQRENLFFMETSALEATNVETAFLTILTEIYRIISKKSLTADDD-DADGNSSL 198

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK T I++P  E ESG+R   CC  S
Sbjct: 199 LKGTRIIIP-SEQESGKRG-GCCGKS 222

Intracellular vesicle trafficking and protein transport. Plays an important role in the regulation of pollen tube tip growth.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40191|RB11A_LOTJA Ras-related protein Rab11A OS=Lotus japonicus GN=RAB11A PE=2 SV=1

 Score =  314 bits (804), Expect = 3e-85,   Method: Compositional matrix adjust.
 Identities = 153/206 (74%), Positives = 174/206 (84%), Gaps = 1/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQ+LARFAR+EFSLDSK+TIGVEFQT+TLVI HK VKAQIWDTAGQERYRA
Sbjct: 22  LIGDSAVGKSQILARFARNEFSLDSKSTIGVEFQTRTLVIDHKTVKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQ+FD++ RWLEELR HADKNI+I+L+GNK DL   R VP
Sbjct: 82  VTSAYYRGAVGAMLVYDITKRQTFDHIPRWLEELRNHADKNIVIILIGNKCDLVNQRDVP 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAEKEGL F+ETSALE+TNVE AF TVLTEIY IV+KK+L A DES+  G+S+ 
Sbjct: 142 TEDAKEFAEKEGLFFLETSALEATNVESAFTTVLTEIYNIVNKKSLAA-DESQGNGNSAS 200

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           L    I++PG   E   +   CC +S
Sbjct: 201 LSGQKIIIPGPAQEIPAKRNMCCQAS 226

Lotus japonicus (taxid: 34305)

>sp|Q40522|RB11D_TOBAC Ras-related protein Rab11D OS=Nicotiana tabacum GN=RAB11D PE=2 SV=1

 Score =  309 bits (792), Expect = 7e-84,   Method: Compositional matrix adjust.
 Identities = 152/208 (73%), Positives = 177/208 (85%), Gaps = 8/208 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQ+LARFAR+EFSLDSKATIGVEFQT+TL I HK+VKAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQILARFARNEFSLDSKATIGVEFQTRTLAIQHKSVKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQ+FD++ RWLEELR HAD+NI+IML+GNK+DLE  RAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDITKRQTFDHIPRWLEELRAHADRNIVIMLIGNKTDLEDQRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA+KEGL F+ETSA+E+TN+E AFLTVLTEI+ IV+KK L A D+++S G+ + 
Sbjct: 140 TEDAKEFAQKEGLFFLETSAMEATNLEDAFLTVLTEIFNIVNKKNLAA-DDNQSNGNPAS 198

Query: 181 LKATNIVVPGQE---PESGRRSYNCCTS 205
           L    I+VPG     PE       CC+S
Sbjct: 199 LTGKKILVPGPGQVIPEKKA----CCSS 222

Nicotiana tabacum (taxid: 4097)

>sp|Q9FJN8|RAA4A_ARATH Ras-related protein RABA4a OS=Arabidopsis thaliana GN=RABA4A PE=2 SV=1

 Score =  308 bits (789), Expect = 2e-83,   Method: Compositional matrix adjust.
 Identities = 149/205 (72%), Positives = 172/205 (83%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQ+LAR+ARDEFSLDSKATIGVEFQT+TLVI HK+VKAQIWDTAGQERYRA
Sbjct: 22  LIGDSAVGKSQILARYARDEFSLDSKATIGVEFQTRTLVIDHKSVKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDIT+RQ+FD++ RWLEELR HADKNI+I+L+GNKSDL   RA+P
Sbjct: 82  VTSAYYRGAVGAMLVYDITRRQTFDHIPRWLEELRAHADKNIVIILIGNKSDLVDQRAIP 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAEKEGL F+ETSA  +TNVE AF TVLTEI+ IV+KK+L A+++ E+G   SL
Sbjct: 142 TEDAKEFAEKEGLFFLETSAFNATNVESAFSTVLTEIFNIVNKKSLAASEDQENGNPGSL 201

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
                 +VPG       +S  CC S
Sbjct: 202 AGKKIDIVPGPGQVIPNKSNMCCNS 226

Intracellular vesicle trafficking and protein transport.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40520|RB11C_TOBAC Ras-related protein Rab11C OS=Nicotiana tabacum GN=RAB11C PE=2 SV=1

 Score =  306 bits (785), Expect = 4e-83,   Method: Compositional matrix adjust.
 Identities = 150/206 (72%), Positives = 178/206 (86%), Gaps = 4/206 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGK+Q+LARFAR+EFSLDSKATIGVEFQT+TLVI HK+VKAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKTQILARFARNEFSLDSKATIGVEFQTRTLVIQHKSVKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQ+FD++ RWLEELR HAD+NI+IML GNK+DLE  RAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDITKRQTFDHIPRWLEELRAHADRNIVIMLTGNKTDLEDQRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA+KEGL F+ETSA+E+T +E AFLTVLTEI+ IV+KK L A DE++S  + + 
Sbjct: 140 TEDAKEFAQKEGLFFLETSAMEATKLEDAFLTVLTEIFNIVNKKNLAA-DENQSNSNPAS 198

Query: 181 LKATNIVVPGQ-EPESGRRSYNCCTS 205
           L    I+VPG  +   G+++  CC+S
Sbjct: 199 LTGKKILVPGPGQVIPGKKA--CCSS 222

Nicotiana tabacum (taxid: 4097)

>sp|Q9SMQ6|RAA4B_ARATH Ras-related protein RABA4b OS=Arabidopsis thaliana GN=RABA4B PE=2 SV=1

 Score =  301 bits (770), Expect = 3e-81,   Method: Compositional matrix adjust.
 Identities = 145/206 (70%), Positives = 172/206 (83%), Gaps = 3/206 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFARDEFS+DSKATIGVEFQT+TL I  K++KAQIWDTAGQERYRA
Sbjct: 22  LIGDSAVGKSQLLARFARDEFSMDSKATIGVEFQTRTLSIEQKSIKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYD+TKR++F+++ RWLEELR HADKNI+I+L+GNKSDLE  RAVP
Sbjct: 82  VTSAYYRGAVGAMLVYDMTKRETFEHIPRWLEELRAHADKNIVIILIGNKSDLEDQRAVP 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAEKEGL F+ETSAL +TNVE +F T++T+IY  V+KK L +  +S + GS   
Sbjct: 142 TEDAKEFAEKEGLFFLETSALNATNVENSFNTLMTQIYNTVNKKNLASEGDSNNPGS--- 198

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           L    I++PG   E   ++  CCTSS
Sbjct: 199 LAGKKILIPGSGQEIPAKTSTCCTSS 224

Regulator of membrane trafficking. May be required for secretion of cell wall components in cells.

Arabidopsis thaliana (taxid: 3702)

>sp|Q40194|RB11D_LOTJA Ras-related protein Rab11D OS=Lotus japonicus GN=RAB11D PE=2 SV=1

 Score =  268 bits (686), Expect = 1e-71,   Method: Compositional matrix adjust.
 Identities = 132/205 (64%), Positives = 161/205 (78%), Gaps = 4/205 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF ++EF+L+SK+TIGVEF TKTL +  K VKAQIWDTAGQERYRA
Sbjct: 18  LIGDSGVGKSNLLSRFTKNEFNLESKSTIGVEFATKTLNVDAKVVKAQIWDTAGQERYRA 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYD+T+R +F+N ARWL+ELR H D NI++ML+GNKSDL  L AVP
Sbjct: 78  ITSAYYRGAVGALLVYDVTRRATFENAARWLKELRDHTDPNIVVMLIGNKSDLRHLVAVP 137

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TED K FAE+E L FMETSALE+TNVE AF  VLT+IYRIVSK+A+ A D     GSSS 
Sbjct: 138 TEDGKSFAERESLYFMETSALEATNVENAFTEVLTQIYRIVSKRAVEAGDS----GSSSG 193

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
           L +    +  +E  S  + + CC++
Sbjct: 194 LPSKGQTINVKEDSSVLKRFGCCST 218

Lotus japonicus (taxid: 34305)

>sp|Q40193|RB11C_LOTJA Ras-related protein Rab11C OS=Lotus japonicus GN=RAB11C PE=2 SV=1

 Score =  265 bits (676), Expect = 2e-70,   Method: Compositional matrix adjust.
 Identities = 134/211 (63%), Positives = 156/211 (73%), Gaps = 17/211 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS +L+RF R+EF L+SK+TIGVEF T+TL +  K VKAQIWDTAGQERYRA
Sbjct: 17  LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDITKRQ+FDNV RWL ELR HAD NI+IM+ GNKSDL  LRAV 
Sbjct: 77  ITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRAVS 136

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            +D    +EKEGL F+ETSALE+TN+E AF T+LTEIY IVSKKAL A  E+ +G S   
Sbjct: 137 EDDGGALSEKEGLSFLETSALEATNIEKAFQTILTEIYHIVSKKALAAQ-EATAGAS--- 192

Query: 181 LKATNIVVPGQ------EPESGRRSYNCCTS 205
                  VPGQ         SG     CC++
Sbjct: 193 -------VPGQGTTINVADTSGNTKKGCCST 216

Lotus japonicus (taxid: 34305)

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	206
225450193	226	PREDICTED: ras-related protein RGP1 [Vit	1.0	0.911	0.849	1e-98
224055257	225	predicted protein [Populus trichocarpa]	0.995	0.911	0.859	4e-98
449463769	222	PREDICTED: ras-related protein RABA4c-li	0.985	0.914	0.809	1e-93
449530588	222	PREDICTED: LOW QUALITY PROTEIN: ras-rela	0.985	0.914	0.804	7e-93
255544246	223	protein with unknown function [Ricinus c	0.990	0.914	0.800	2e-92
109940137	226	RecName: Full=Ras-related protein RGP1;	0.990	0.902	0.824	2e-92
414589235	226	TPA: ras protein RGP1 [Zea mays]	0.995	0.907	0.815	6e-92
242044174	226	hypothetical protein SORBIDRAFT_02g01889	0.995	0.907	0.810	2e-91
297791923	223	small molecular weight G-protein 1 [Arab	0.990	0.914	0.800	4e-91
226531496	226	LOC100280470 [Zea mays] gi|195604390|gb|	0.995	0.907	0.810	5e-91

>gi|225450193|ref|XP_002264293.1| PREDICTED: ras-related protein RGP1 [Vitis vinifera] gi|297736218|emb|CBI24856.3| unnamed protein product [Vitis vinifera]

 Score =  364 bits (934), Expect = 1e-98,   Method: Compositional matrix adjust.
 Identities = 175/206 (84%), Positives = 190/206 (92%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EF+LDSKATIGVEFQTKTLVI HK VKAQIWDTAGQERYRA
Sbjct: 21  LIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTKTLVIDHKTVKAQIWDTAGQERYRA 80

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWL+ELRGHADKNI+IMLVGNKSDL TL+AVP
Sbjct: 81  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLQELRGHADKNIVIMLVGNKSDLGTLQAVP 140

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAE+E L FMETSALE+TNVE AFL+VLTEIYRI+SKK L AN+E ESGG+SSL
Sbjct: 141 TEDAKEFAERENLFFMETSALEATNVETAFLSVLTEIYRIISKKTLVANEEVESGGNSSL 200

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK T I+VPG+EP+S    YNCC SS
Sbjct: 201 LKGTKIIVPGKEPKSEGSKYNCCLSS 226

Source: Vitis vinifera

Species: Vitis vinifera

Genus: Vitis

Family: Vitaceae

Order: Vitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|224055257|ref|XP_002298447.1| predicted protein [Populus trichocarpa] gi|222845705|gb|EEE83252.1| predicted protein [Populus trichocarpa]

 Score =  362 bits (929), Expect = 4e-98,   Method: Compositional matrix adjust.
 Identities = 177/206 (85%), Positives = 190/206 (92%), Gaps = 1/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EFSLDSKATIGVEFQTKTLVI HK VKAQIWDTAGQERYRA
Sbjct: 21  LIGDSAVGKSQLLARFARNEFSLDSKATIGVEFQTKTLVIDHKTVKAQIWDTAGQERYRA 80

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VA+WLEELR HAD NI+IML+GNKSDL TLRAVP
Sbjct: 81  VTSAYYRGAVGAMLVYDITKRQSFDHVAKWLEELRDHADNNIVIMLIGNKSDLGTLRAVP 140

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA+KE L FMETSALE+TNVE AFL+VLTEIYR++SKKAL AN E ESGGSSSL
Sbjct: 141 TEDAKEFAQKENLFFMETSALEATNVESAFLSVLTEIYRVISKKALIAN-EQESGGSSSL 199

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK TNIVVP QEP SG RS++CC +S
Sbjct: 200 LKGTNIVVPEQEPVSGGRSFSCCGTS 225

Source: Populus trichocarpa

Species: Populus trichocarpa

Genus: Populus

Family: Salicaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449463769|ref|XP_004149604.1| PREDICTED: ras-related protein RABA4c-like [Cucumis sativus]

 Score =  347 bits (891), Expect = 1e-93,   Method: Compositional matrix adjust.
 Identities = 166/205 (80%), Positives = 185/205 (90%), Gaps = 2/205 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLL+RFAR+EFSLDSKATIGVEFQTKTL I  K +KAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQLLSRFARNEFSLDSKATIGVEFQTKTLNIDQKAIKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYD+TKRQ+FD++ARWLEELRGHADKNI+IML+GNKSDL +LR VP
Sbjct: 80  VTSAYYRGAVGAMLVYDMTKRQTFDHIARWLEELRGHADKNIVIMLIGNKSDLGSLRVVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA+ E L FMETSALE+TNVE AF T+LTEIYR++SKKAL ANDE++SGGSSSL
Sbjct: 140 TEDAKEFAQMENLSFMETSALEATNVEAAFNTILTEIYRVISKKALIANDETDSGGSSSL 199

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
           LK T IVVPGQEP++   S  CC S
Sbjct: 200 LKGTKIVVPGQEPQAA--SSGCCRS 222

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|449530588|ref|XP_004172276.1| PREDICTED: LOW QUALITY PROTEIN: ras-related protein RABA4c-like [Cucumis sativus]

 Score =  345 bits (885), Expect = 7e-93,   Method: Compositional matrix adjust.
 Identities = 165/205 (80%), Positives = 184/205 (89%), Gaps = 2/205 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLL+RFAR+EFSLDSKATIGVEFQTKTL I  K +KAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQLLSRFARNEFSLDSKATIGVEFQTKTLNIDQKAIKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYD+TKRQ+FD++ARWLEELRGHADKNI+IML+GNKSDL +LR VP
Sbjct: 80  VTSAYYRGAVGAMLVYDMTKRQTFDHIARWLEELRGHADKNIVIMLIGNKSDLGSLRVVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA+ E L FMETSALE+TNVE AF T+LTEIYR++SKKAL ANDE++SGGSSSL
Sbjct: 140 TEDAKEFAQMENLSFMETSALEATNVEAAFNTILTEIYRVISKKALIANDETDSGGSSSL 199

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
           LK T  VVPGQEP++   S  CC S
Sbjct: 200 LKGTKXVVPGQEPQAA--SSGCCRS 222

Source: Cucumis sativus

Species: Cucumis sativus

Genus: Cucumis

Family: Cucurbitaceae

Order: Cucurbitales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|255544246|ref|XP_002513185.1| protein with unknown function [Ricinus communis] gi|223547683|gb|EEF49176.1| protein with unknown function [Ricinus communis]

 Score =  344 bits (882), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 165/206 (80%), Positives = 185/206 (89%), Gaps = 2/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EF+LDSKATIGVEFQTKT+V+ HK VKAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTKTIVVDHKTVKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VA+WLEELR HAD NI+IMLVGNKSDLE+LRAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDITKRQSFDHVAKWLEELREHADNNIVIMLVGNKSDLESLRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            EDAKEFA+KE L FMETSALE+TNVE AF++VLTEIYR+VSKK+L AND  E GG++SL
Sbjct: 140 IEDAKEFAQKENLFFMETSALEATNVESAFISVLTEIYRVVSKKSLVAND--EYGGNNSL 197

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK   IV+PGQEPE    + +CC+ S
Sbjct: 198 LKGNKIVIPGQEPEMQATNSSCCSRS 223

Source: Ricinus communis

Species: Ricinus communis

Genus: Ricinus

Family: Euphorbiaceae

Order: Malpighiales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|109940137|sp|P25766.2|RGP1_ORYSJ RecName: Full=Ras-related protein RGP1; AltName: Full=GTP-binding regulatory protein RGP1 gi|50251643|dbj|BAD29646.1| putative ras-related GTP-binding protein [Oryza sativa Japonica Group] gi|222641214|gb|EEE69346.1| hypothetical protein OsJ_28668 [Oryza sativa Japonica Group]

 Score =  343 bits (881), Expect = 2e-92,   Method: Compositional matrix adjust.
 Identities = 169/205 (82%), Positives = 184/205 (89%), Gaps = 1/205 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EF+LDSKATIGVEFQT+TL I  + VKAQIWDTAGQERYRA
Sbjct: 23  LIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTRTLHIDARTVKAQIWDTAGQERYRA 82

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNKSDL TLR VP
Sbjct: 83  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKSDLGTLRVVP 142

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAE+E L FMETSALESTNVE AF+TVLTEIYRIVSKK L AN+E +S G+SSL
Sbjct: 143 TEDAKEFAERENLFFMETSALESTNVENAFMTVLTEIYRIVSKKNLVANEEVDSSGNSSL 202

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
           LK T IVVPGQEP    ++ +CC S
Sbjct: 203 LKGTKIVVPGQEPAPPTKA-SCCMS 226

Source: Oryza sativa Japonica Group

Species: Oryza sativa

Genus: Oryza

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|414589235|tpg|DAA39806.1| TPA: ras protein RGP1 [Zea mays]

 Score =  342 bits (876), Expect = 6e-92,   Method: Compositional matrix adjust.
 Identities = 168/206 (81%), Positives = 184/206 (89%), Gaps = 1/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR++F+LDSKATIGVEFQT+TL I  +NVKAQIWDTAGQERYRA
Sbjct: 22  LIGDSAVGKSQLLARFARNQFNLDSKATIGVEFQTRTLNIDARNVKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNKSDL TLRAVP
Sbjct: 82  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLMGNKSDLGTLRAVP 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            EDAKEFAE+E L FMETSALE+ NVE AF+TVLTEIYR VSKK L AN+E +S G+SSL
Sbjct: 142 IEDAKEFAERENLFFMETSALEAINVENAFMTVLTEIYRTVSKKNLVANEEPDSSGNSSL 201

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK T IVVPGQEP S  ++  CC SS
Sbjct: 202 LKGTKIVVPGQEPPSTLKA-TCCMSS 226

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|242044174|ref|XP_002459958.1| hypothetical protein SORBIDRAFT_02g018890 [Sorghum bicolor] gi|241923335|gb|EER96479.1| hypothetical protein SORBIDRAFT_02g018890 [Sorghum bicolor]

 Score =  340 bits (873), Expect = 2e-91,   Method: Compositional matrix adjust.
 Identities = 167/206 (81%), Positives = 184/206 (89%), Gaps = 1/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARFAR+EF+LDSKATIGVEFQT+TL I  + VKAQIWDTAGQERYRA
Sbjct: 22  LIGDSAVGKSQLLARFARNEFNLDSKATIGVEFQTRTLNIDARTVKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNKSDL TLR+V 
Sbjct: 82  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKSDLGTLRSVA 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFAE+E L FMETSALE+ NVE AF+TVLTEIYR+VSKK L AN+ES+S G+SSL
Sbjct: 142 TEDAKEFAERENLFFMETSALEAVNVENAFMTVLTEIYRVVSKKNLVANEESDSSGNSSL 201

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK T IVVPGQEP    ++  CC SS
Sbjct: 202 LKGTKIVVPGQEPPPTSKA-TCCMSS 226

Source: Sorghum bicolor

Species: Sorghum bicolor

Genus: Sorghum

Family: Poaceae

Order: Poales

Class: Liliopsida

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|297791923|ref|XP_002863846.1| small molecular weight G-protein 1 [Arabidopsis lyrata subsp. lyrata] gi|297309681|gb|EFH40105.1| small molecular weight G-protein 1 [Arabidopsis lyrata subsp. lyrata]

 Score =  339 bits (869), Expect = 4e-91,   Method: Compositional matrix adjust.
 Identities = 165/206 (80%), Positives = 184/206 (89%), Gaps = 2/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSAVGKSQLLARF+R+EFS++SKATIGVEFQT+TL I HK +KAQIWDTAGQERYRA
Sbjct: 20  LIGDSAVGKSQLLARFSRNEFSIESKATIGVEFQTRTLEIDHKTIKAQIWDTAGQERYRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNK+DL TLRAVP
Sbjct: 80  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKTDLGTLRAVP 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           TEDAKEFA++E L FMETSAL+S NVE +FLTVLTEIYRIVSKK L AN+E ESGG SSL
Sbjct: 140 TEDAKEFAQRENLFFMETSALDSNNVEPSFLTVLTEIYRIVSKKNLVANEEGESGGDSSL 199

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           L+ T IVV G+E ES  +   CC +S
Sbjct: 200 LQGTKIVVAGEETES--KGKGCCGTS 223

Source: Arabidopsis lyrata subsp. lyrata

Species: Arabidopsis lyrata

Genus: Arabidopsis

Family: Brassicaceae

Order: Brassicales

Phylum: Streptophyta

Superkingdom: Eukaryota

>gi|226531496|ref|NP_001146862.1| LOC100280470 [Zea mays] gi|195604390|gb|ACG24025.1| ras-related protein RGP1 [Zea mays]

 Score =  338 bits (868), Expect = 5e-91,   Method: Compositional matrix adjust.
 Identities = 167/206 (81%), Positives = 183/206 (88%), Gaps = 1/206 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDSA GKSQLLARFAR++F+LDSKATIGVEFQT+TL I  +NVKAQIWDTAGQERYRA
Sbjct: 22  LIGDSAGGKSQLLARFARNQFNLDSKATIGVEFQTRTLNIDARNVKAQIWDTAGQERYRA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNKSDL TLRAVP
Sbjct: 82  VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLMGNKSDLGTLRAVP 141

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            EDAKEFAE+E L FMETSALE+ NVE AF+TVLTEIYR VSKK L AN+E +S G+SSL
Sbjct: 142 IEDAKEFAERENLFFMETSALEAINVENAFMTVLTEIYRTVSKKNLVANEEPDSSGNSSL 201

Query: 181 LKATNIVVPGQEPESGRRSYNCCTSS 206
           LK T IVVPGQEP S  ++  CC SS
Sbjct: 202 LKGTKIVVPGQEPPSTLKA-TCCMSS 226

Source: Zea mays

Species: Zea mays

Genus: Zea

Family: Poaceae

Order: Poales

Class: Liliopsida

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	206
TAIR|locus:2082269	222	RABA4D "RAB GTPase homolog A4D	0.985	0.914	0.752	2.1e-77
TAIR|locus:2152753	223	RABA4C "RAB GTPase homolog A4C	0.990	0.914	0.752	1.9e-76
TAIR|locus:2171790	226	RABA4a "RAB GTPase homolog A4A	0.990	0.902	0.718	6.7e-72
TAIR|locus:2140079	224	RABA4B "RAB GTPase homolog A4B	0.985	0.906	0.689	1.3e-70
TAIR|locus:2102777	217	RABA2c "RAB GTPase homolog A2C	0.975	0.926	0.629	1.8e-62
TAIR|locus:2168469	217	RABA2D "RAB GTPase homolog A2D	0.975	0.926	0.629	3e-62
TAIR|locus:2024992	214	RABA2b "RAB GTPase homolog A2B	0.825	0.794	0.711	6.2e-62
ZFIN|ZDB-GENE-041114-53	215	rab11a "RAB11a, member RAS onc	0.966	0.925	0.614	6.2e-62
TAIR|locus:2024276	217	RAB11c "RAB GTPase 11C" [Arabi	0.975	0.926	0.597	1e-61
ASPGD|ASPL0000062894	210	srgE [Emericella nidulans (tax	0.805	0.790	0.722	1.6e-61

TAIR|locus:2082269 RABA4D "RAB GTPase homolog A4D" [Arabidopsis thaliana (taxid:3702)]

 Score = 779 (279.3 bits), Expect = 2.1e-77, P = 2.1e-77
 Identities = 155/206 (75%), Positives = 179/206 (86%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDSAVGK+QLLARFAR+EFS+DSKATIGVEFQTKTLVI +K VKAQIWDTAGQERYRA
Sbjct:    20 LIGDSAVGKTQLLARFARNEFSVDSKATIGVEFQTKTLVIDNKTVKAQIWDTAGQERYRA 79

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             VTSAYYRGAVGAMLVYD+TKRQSFD++A+WLEELRGHADKNI+IML+GNK DL +LRAVP
Sbjct:    80 VTSAYYRGAVGAMLVYDMTKRQSFDHMAKWLEELRGHADKNIVIMLIGNKCDLGSLRAVP 139

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
             TEDA+EFA++E L FMETSALE+TNVE AFLT+LTEIYRI+SKK+LTA+D          
Sbjct:   140 TEDAQEFAQRENLFFMETSALEATNVETAFLTILTEIYRIISKKSLTADDDDADGNSSLL 199

Query:   181 XKATNIVVPGQEPESGRRSYNCCTSS 206
              K T I++P ++ ESG+R   CC  S
Sbjct:   200 -KGTRIIIPSEQ-ESGKRG-GCCGKS 222

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0009860 "pollen tube growth" evidence=RCA;IDA

GO:0045177 "apical part of cell" evidence=IDA

GO:0070382 "exocytic vesicle" evidence=IDA

GO:0048868 "pollen tube development" evidence=IGI;RCA

GO:0019900 "kinase binding" evidence=IPI

GO:0080092 "regulation of pollen tube growth" evidence=IMP

GO:0090404 "pollen tube tip" evidence=IDA

GO:0009827 "plant-type cell wall modification" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0048610 "cellular process involved in reproduction" evidence=RCA

TAIR|locus:2152753 RABA4C "RAB GTPase homolog A4C" [Arabidopsis thaliana (taxid:3702)]

 Score = 770 (276.1 bits), Expect = 1.9e-76, P = 1.9e-76
 Identities = 155/206 (75%), Positives = 174/206 (84%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDSAVGKSQLLARF+R+EFS++SKATIGVEFQT+TL I  K +KAQIWDTAGQERYRA
Sbjct:    20 LIGDSAVGKSQLLARFSRNEFSIESKATIGVEFQTRTLEIDRKTIKAQIWDTAGQERYRA 79

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             VTSAYYRGAVGAMLVYDITKRQSFD+VARWLEELRGHADKNI+IML+GNK+DL TLRAVP
Sbjct:    80 VTSAYYRGAVGAMLVYDITKRQSFDHVARWLEELRGHADKNIVIMLIGNKTDLGTLRAVP 139

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
             TEDAKEFA++E L FMETSAL+S NVE +FLTVLTEIYRIVSKK L AN+          
Sbjct:   140 TEDAKEFAQRENLFFMETSALDSNNVEPSFLTVLTEIYRIVSKKNLVANEEGESGGDSSL 199

Query:   181 XKATNIVVPGQEPESGRRSYNCCTSS 206
              + T IVV G+E ES  +   CC +S
Sbjct:   200 LQGTKIVVAGEETES--KGKGCCGTS 223

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2171790 RABA4a "RAB GTPase homolog A4A" [Arabidopsis thaliana (taxid:3702)]

 Score = 727 (261.0 bits), Expect = 6.7e-72, P = 6.7e-72
 Identities = 148/206 (71%), Positives = 168/206 (81%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDSAVGKSQ+LAR+ARDEFSLDSKATIGVEFQT+TLVI HK+VKAQIWDTAGQERYRA
Sbjct:    22 LIGDSAVGKSQILARYARDEFSLDSKATIGVEFQTRTLVIDHKSVKAQIWDTAGQERYRA 81

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             VTSAYYRGAVGAMLVYDIT+RQ+FD++ RWLEELR HADKNI+I+L+GNKSDL   RA+P
Sbjct:    82 VTSAYYRGAVGAMLVYDITRRQTFDHIPRWLEELRAHADKNIVIILIGNKSDLVDQRAIP 141

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAN-DXXXXXXXXX 179
             TEDAKEFAEKEGL F+ETSA  +TNVE AF TVLTEI+ IV+KK+L A+ D         
Sbjct:   142 TEDAKEFAEKEGLFFLETSAFNATNVESAFSTVLTEIFNIVNKKSLAASEDQENGNPGSL 201

Query:   180 XXKATNIVVPGQEPESGRRSYNCCTS 205
               K  +IV PG       +S  CC S
Sbjct:   202 AGKKIDIV-PGPGQVIPNKSNMCCNS 226

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0016020 "membrane" evidence=IDA

TAIR|locus:2140079 RABA4B "RAB GTPase homolog A4B" [Arabidopsis thaliana (taxid:3702)]

 Score = 715 (256.8 bits), Expect = 1.3e-70, P = 1.3e-70
 Identities = 142/206 (68%), Positives = 167/206 (81%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDSAVGKSQLLARFARDEFS+DSKATIGVEFQT+TL I  K++KAQIWDTAGQERYRA
Sbjct:    22 LIGDSAVGKSQLLARFARDEFSMDSKATIGVEFQTRTLSIEQKSIKAQIWDTAGQERYRA 81

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             VTSAYYRGAVGAMLVYD+TKR++F+++ RWLEELR HADKNI+I+L+GNKSDLE  RAVP
Sbjct:    82 VTSAYYRGAVGAMLVYDMTKRETFEHIPRWLEELRAHADKNIVIILIGNKSDLEDQRAVP 141

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
             TEDAKEFAEKEGL F+ETSAL +TNVE +F T++T+IY  V+KK L +            
Sbjct:   142 TEDAKEFAEKEGLFFLETSALNATNVENSFNTLMTQIYNTVNKKNLASEGDSNNPGSLAG 201

Query:   181 XKATNIVVPGQEPESGRRSYNCCTSS 206
              K   I++PG   E   ++  CCTSS
Sbjct:   202 KK---ILIPGSGQEIPAKTSTCCTSS 224

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

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

GO:0015031 "protein transport" evidence=IEA

GO:0019900 "kinase binding" evidence=IPI

GO:0005886 "plasma membrane" evidence=IDA

GO:0032456 "endocytic recycling" evidence=IDA

GO:0031901 "early endosome membrane" evidence=IDA

GO:0032588 "trans-Golgi network membrane" evidence=IDA

TAIR|locus:2102777 RABA2c "RAB GTPase homolog A2C" [Arabidopsis thaliana (taxid:3702)]

 Score = 638 (229.6 bits), Expect = 1.8e-62, P = 1.8e-62
 Identities = 129/205 (62%), Positives = 152/205 (74%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS VGKS +L+RF R+EF L+SK+TIGVEF T+T  +  K +KAQIWDTAGQERYRA
Sbjct:    17 LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTTQVEGKTIKAQIWDTAGQERYRA 76

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGAVGA+LVYDITKRQ+FDNV RWL ELR HAD NI+IM+ GNKSDL  LR+V 
Sbjct:    77 ITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVIMMAGNKSDLNHLRSVA 136

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
              ED +  AEKEGL F+ETSALE+TNVE AF T+L EIY I+SKKAL A +          
Sbjct:   137 EEDGQSLAEKEGLSFLETSALEATNVEKAFQTILGEIYHIISKKALAAQEAAAANSAIPG 196

Query:   181 XKATNIVVPGQEPESGRRSYNCCTS 205
              + T I V   +  SG     CC+S
Sbjct:   197 -QGTTINV---DDTSGGAKRACCSS 217

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0009506 "plasmodesma" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2168469 RABA2D "RAB GTPase homolog A2D" [Arabidopsis thaliana (taxid:3702)]

 Score = 636 (228.9 bits), Expect = 3.0e-62, P = 3.0e-62
 Identities = 129/205 (62%), Positives = 152/205 (74%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS VGK+ +L+RF R+EF L+SK+TIGVEF T+TL +  K VKAQIWDTAGQERYRA
Sbjct:    17 LIGDSGVGKTNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA 76

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGAVGA+LVYDITKRQ+FDNV RWL ELR HAD NI+IM+ GNK+DL  LR+V 
Sbjct:    77 ITSAYYRGAVGALLVYDITKRQTFDNVLRWLRELRDHADSNIVIMMAGNKADLNHLRSVA 136

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
              ED +  AE EGL F+ETSALE+TNVE AF TVL EIY I+SKKAL A +          
Sbjct:   137 EEDGQTLAETEGLSFLETSALEATNVEKAFQTVLAEIYHIISKKALAAQEAAAANSAIPG 196

Query:   181 XKATNIVVPGQEPESGRRSYNCCTS 205
              + T I V   E  SG     CC++
Sbjct:   197 -QGTTINV---EDTSGAGKRGCCST 217

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

GO:0005794 "Golgi apparatus" evidence=ISM

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

GO:0015031 "protein transport" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

TAIR|locus:2024992 RABA2b "RAB GTPase homolog A2B" [Arabidopsis thaliana (taxid:3702)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 121/170 (71%), Positives = 143/170 (84%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS VGKS +L+RF R+EF L+SK+TIGVEF T+TL +  K VKAQIWDTAGQERYRA
Sbjct:    17 LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA 76

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGAVGA+LVYDITKRQ+F+NV RWL ELR HAD NI+IM+ GNKSDL  LR+V 
Sbjct:    77 ITSAYYRGAVGALLVYDITKRQTFENVLRWLRELRDHADSNIVIMMAGNKSDLNHLRSVA 136

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAND 170
              ED +  AEKEGL F+ETSALE+TN+E AF T+L+EIY I+SKKAL A +
Sbjct:   137 DEDGRSLAEKEGLSFLETSALEATNIEKAFQTILSEIYHIISKKALAAQE 186

GO:0003924 "GTPase activity" evidence=IEA

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

GO:0005622 "intracellular" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISM

GO:0006184 "GTP catabolic process" evidence=IEA

GO:0006886 "intracellular protein transport" evidence=IEA

GO:0006913 "nucleocytoplasmic transport" evidence=IEA

GO:0007165 "signal transduction" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0006457 "protein folding" evidence=RCA

GO:0009408 "response to heat" evidence=RCA

GO:0009644 "response to high light intensity" evidence=RCA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0042542 "response to hydrogen peroxide" evidence=RCA

ZFIN|ZDB-GENE-041114-53 rab11a "RAB11a, member RAS oncogene family" [Danio rerio (taxid:7955)]

 Score = 633 (227.9 bits), Expect = 6.2e-62, P = 6.2e-62
 Identities = 126/205 (61%), Positives = 155/205 (75%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K VKAQIWDTAGQERYRA
Sbjct:    16 LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTVKAQIWDTAGQERYRA 75

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct:    76 ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 135

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
             T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIYRIVS+K ++             
Sbjct:   136 TDEARAFAEKNGLSFLETSALDSTNVETAFQTILTEIYRIVSQKQMSDR------RDNDM 189

Query:   181 XKATNIVVPGQEPESGRRSYNCCTS 205
               + N+V    +P   +    CC S
Sbjct:   190 SPSNNVVSIQVQPTENKPKMQCCQS 214

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

GO:0001525 "angiogenesis" evidence=IMP

GO:0000166 "nucleotide binding" evidence=IEA

GO:0070121 "Kupffer's vesicle development" evidence=IMP

GO:0032402 "melanosome transport" evidence=IMP

TAIR|locus:2024276 RAB11c "RAB GTPase 11C" [Arabidopsis thaliana (taxid:3702)]

 Score = 631 (227.2 bits), Expect = 1.0e-61, P = 1.0e-61
 Identities = 123/206 (59%), Positives = 160/206 (77%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS VGKS LL+RF R+EF L+SK+TIGVEF T+TL +  + VKAQIWDTAGQERYRA
Sbjct:    17 LIGDSGVGKSNLLSRFTRNEFCLESKSTIGVEFATRTLQVEGRTVKAQIWDTAGQERYRA 76

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGA+GA+LVYD+TK  +F+NV+RWL+ELR HAD NI+IML+GNK+DL+ LRAV 
Sbjct:    77 ITSAYYRGALGALLVYDVTKPTTFENVSRWLKELRDHADSNIVIMLIGNKTDLKHLRAVA 136

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
             TEDA+ +AEKEGL F+ETSALE+ NVE AF T+L+E+YRI+SKK+++++           
Sbjct:   137 TEDAQSYAEKEGLSFIETSALEALNVEKAFQTILSEVYRIISKKSISSDQTTANANIK-- 194

Query:   181 XKATNIVVPGQEPESGRRSYNCCTSS 206
              +   I V      + ++   CC+SS
Sbjct:   195 -EGQTIDVAATSESNAKKP--CCSSS 217

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

GO:0005886 "plasma membrane" evidence=ISM;IDA

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

GO:0015031 "protein transport" evidence=IEA

GO:0000910 "cytokinesis" evidence=IMP

GO:0005768 "endosome" evidence=IDA

GO:0009504 "cell plate" evidence=IDA

GO:0005829 "cytosol" evidence=IDA

GO:0016192 "vesicle-mediated transport" evidence=RCA

GO:0019932 "second-messenger-mediated signaling" evidence=RCA

ASPGD|ASPL0000062894 srgE [Emericella nidulans (taxid:162425)]

 Score = 629 (226.5 bits), Expect = 1.6e-61, P = 1.6e-61
 Identities = 120/166 (72%), Positives = 144/166 (86%)

Query:     1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
             LIGDS  GKS LL+RF R+EF+LDSK+TIGVEF T+++ +  K +KAQIWDTAGQERYRA
Sbjct:    14 LIGDSGTGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQVDSKTIKAQIWDTAGQERYRA 73

Query:    61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
             +TSAYYRGAVGA+LVYDI+K Q++DNV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct:    74 ITSAYYRGAVGALLVYDISKHQTYDNVNRWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 133

Query:   121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
             TE+AK+FA +  L F+ETSAL+++NVELAF  +LTEIYRIVS KAL
Sbjct:   134 TEEAKQFASENNLSFIETSALDASNVELAFQNILTEIYRIVSSKAL 179

GO:0034498 "early endosome to Golgi transport" evidence=IEA

GO:0033205 "cell cycle cytokinesis" evidence=IEA

GO:0042144 "vacuole fusion, non-autophagic" evidence=IEA

GO:0071852 "fungal-type cell wall organization or biogenesis" evidence=IEA

GO:0006887 "exocytosis" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

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

GO:0005768 "endosome" evidence=IEA

GO:0005634 "nucleus" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005829 "cytosol" evidence=IEA

GO:0005741 "mitochondrial outer membrane" evidence=IEA

GO:0003924 "GTPase activity" evidence=IEA

---

Prediction of Enzyme Commission (EC) Number

EC Number Prediction by Annotation Transfer from SWISS-PROT Entries

Original result of BLAST against SWISS-PROT

ID	Name	Annotated EC number	Identity	Query coverage	Hit coverage	RBH(Q2H)	RBH(H2Q)
Q40522	RB11D_TOBAC	No assigned EC number	0.7307	0.9708	0.9009	N/A	no
Q40520	RB11C_TOBAC	No assigned EC number	0.7281	0.9805	0.9099	N/A	no
Q5R9M7	RB11A_PONAB	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P25766	RLGP1_ORYSJ	No assigned EC number	0.8243	0.9902	0.9026	yes	no
Q9FE79	RAA4C_ARATH	No assigned EC number	0.7961	0.9902	0.9147	yes	no
Q40521	RB11B_TOBAC	No assigned EC number	0.6243	0.9660	0.9170	N/A	no
Q40195	RB11E_LOTJA	No assigned EC number	0.6146	0.9757	0.9220	N/A	no
Q40194	RB11D_LOTJA	No assigned EC number	0.6439	0.9757	0.9220	N/A	no
Q40193	RB11C_LOTJA	No assigned EC number	0.6350	0.9417	0.8981	N/A	no
Q40191	RB11A_LOTJA	No assigned EC number	0.7427	0.9951	0.9070	N/A	no
P17610	YPT3_SCHPO	No assigned EC number	0.6059	0.9708	0.9345	yes	no
Q9FJN8	RAA4A_ARATH	No assigned EC number	0.7268	0.9951	0.9070	no	no
Q9SN35	RAA1D_ARATH	No assigned EC number	0.7093	0.8349	0.8037	no	no
Q9SMQ6	RAA4B_ARATH	No assigned EC number	0.7038	0.9854	0.9062	no	no
Q2TA29	RB11A_BOVIN	No assigned EC number	0.6146	0.9514	0.9074	yes	no
P36412	RB11A_DICDI	No assigned EC number	0.5728	0.9417	0.9065	yes	no
Q39434	RB2BV_BETVU	No assigned EC number	0.6390	0.9611	0.9252	N/A	no
Q01111	YPT3_NICPL	No assigned EC number	0.6097	0.9757	0.9220	N/A	no
Q9LH50	RAA4D_ARATH	No assigned EC number	0.7815	0.9854	0.9144	no	no
Q5ZJN2	RB11A_CHICK	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P22129	RB11B_DIPOM	No assigned EC number	0.6116	0.9563	0.9036	N/A	no
P62494	RB11A_RAT	No assigned EC number	0.6195	0.9514	0.9074	yes	no
Q39572	YPTC6_CHLRE	No assigned EC number	0.6274	0.9708	0.9259	N/A	no
Q52NJ1	RB11A_PIG	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P62491	RB11A_HUMAN	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P62490	RB11A_CANFA	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P62493	RB11A_RABIT	No assigned EC number	0.6195	0.9514	0.9074	yes	no
P62492	RB11A_MOUSE	No assigned EC number	0.6195	0.9514	0.9074	yes	no

EC Number Prediction by Ezypred Server

Original result from Ezypred Server

Fail to connect to Ezypred Server

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Prediction of Functionally Associated Proteins

Functionally Associated Proteins Detected by STRING

Original result from the STRING server

Fail to connect to STRING server

---

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	206
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	1e-115
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-98
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	7e-97
pfam00071	162	pfam00071, Ras, Ras family	3e-89
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	3e-84
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	2e-69
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	7e-69
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	2e-68
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	3e-67
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	2e-61
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	3e-61
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	5e-61
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	1e-59
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	2e-59
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	8e-59
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	2e-53
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-51
cd04110	199	cd04110, Rab35, Rab GTPase family 35 (Rab35)	1e-51
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	1e-50
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	5e-50
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	1e-49
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	9e-47
cd04115	170	cd04115, Rab33B_Rab33A, Rab GTPase family 33 inclu	4e-44
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	6e-44
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	8e-44
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	4e-43
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	5e-43
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	1e-42
COG1100	219	COG1100, COG1100, GTPase SAR1 and related small G	2e-41
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	6e-39
cd04121	189	cd04121, Rab40, Rab GTPase family 40 (Rab40) conta	3e-36
cd04116	170	cd04116, Rab9, Rab GTPase family 9 (Rab9)	5e-36
TIGR00231	162	TIGR00231, small_GTP, small GTP-binding protein do	1e-35
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	2e-35
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	5e-35
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	3e-34
PTZ00099	176	PTZ00099, PTZ00099, rab6; Provisional	5e-34
cd04119	168	cd04119, RJL, Rab GTPase family J-like (RabJ-like)	2e-33
cd04118	193	cd04118, Rab24, Rab GTPase family 24 (Rab24)	3e-33
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	3e-33
cd04106	162	cd04106, Rab23_like, Rab GTPase family 23 (Rab23)-	8e-33
cd04109	213	cd04109, Rab28, Rab GTPase family 28 (Rab28)	9e-30
cd04124	161	cd04124, RabL2, Rab GTPase-like family 2 (Rab-like	2e-29
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-28
cd04108	170	cd04108, Rab36_Rab34, Rab GTPase families 34 (Rab3	3e-28
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	5e-28
cd00877	166	cd00877, Ran, Ras-related nuclear proteins (Ran)/T	6e-28
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	2e-26
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	4e-26
cd04101	167	cd04101, RabL4, Rab GTPase-like family 4 (Rab-like	2e-25
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	3e-25
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	4e-25
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	1e-24
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	2e-24
PLN03071	219	PLN03071, PLN03071, GTP-binding nuclear protein Ra	6e-24
PTZ00132	215	PTZ00132, PTZ00132, GTP-binding nuclear protein Ra	4e-23
cd00882	161	cd00882, Ras_like_GTPase, Rat sarcoma (Ras)-like s	1e-22
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	2e-22
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	3e-22
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	5e-22
cd04128	182	cd04128, Spg1, Septum-promoting GTPase (Spg1)	2e-21
cd04126	220	cd04126, Rab20, Rab GTPase family 20 (Rab20)	8e-21
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	8e-21
smart00176	200	smart00176, RAN, Ran (Ras-related nuclear proteins	2e-20
cd04130	173	cd04130, Wrch_1, Wnt-1 responsive Cdc42 homolog (W	9e-19
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	2e-18
cd04132	197	cd04132, Rho4_like, Ras homology family 4 (Rho4) o	8e-18
pfam08477	116	pfam08477, Miro, Miro-like protein	7e-17
cd04134	185	cd04134, Rho3, Ras homology family 3 (Rho3) of sma	8e-16
cd01870	175	cd01870, RhoA_like, Ras homology family A (RhoA)-l	1e-15
cd04147	197	cd04147, Ras_dva, Ras - dorsal-ventral anterior lo	1e-15
cd04133	173	cd04133, Rop_like, Rho-related protein from plants	2e-15
cd04148	219	cd04148, RGK, Rem, Rem2, Rad, Gem/Kir (RGK) subfam	9e-15
cd04129	190	cd04129, Rho2, Ras homology family 2 (Rho2) of sma	1e-14
cd09914	161	cd09914, RocCOR, Ras of complex proteins (Roc) C-t	3e-14
cd00878	158	cd00878, Arf_Arl, ADP-ribosylation factor(Arf)/Arf	6e-13
cd04131	176	cd04131, Rnd, Rho family GTPase subfamily Rnd incl	2e-12
cd04143	247	cd04143, Rhes_like, Ras homolog enriched in striat	2e-12
cd01875	191	cd01875, RhoG, Ras homolog family, member G (RhoG)	2e-12
cd04172	182	cd04172, Rnd3_RhoE_Rho8, Rnd3/RhoE/Rho8 GTPases	5e-12
cd04159	159	cd04159, Arl10_like, Arf-like 9 (Arl9) and 10 (Arl	6e-12
cd01871	174	cd01871, Rac1_like, Ras-related C3 botulinum toxin	3e-11
cd01893	168	cd01893, Miro1, Mitochondrial Rho family 1 (Miro1)	1e-10
cd04135	174	cd04135, Tc10, Rho GTPase TC10 (Tc10)	3e-10
cd04156	160	cd04156, ARLTS1, Arf-like tumor suppressor gene 1	6e-10
smart00177	175	smart00177, ARF, ARF-like small GTPases; ARF, ADP-	7e-10
pfam00025	174	pfam00025, Arf, ADP-ribosylation factor family	9e-10
cd04158	169	cd04158, ARD1, (ADP-ribosylation factor domain pro	3e-09
cd04174	232	cd04174, Rnd1_Rho6, Rnd1/Rho6 GTPases	1e-08
cd04160	168	cd04160, Arfrp1, Arf-related protein 1 (Arfrp1)	2e-08
cd04149	168	cd04149, Arf6, ADP ribosylation factor 6 (Arf6)	2e-08
cd04173	221	cd04173, Rnd2_Rho7, Rnd2/Rho7 GTPases	6e-08
cd04102	204	cd04102, RabL3, Rab GTPase-like family 3 (Rab-like	9e-08
cd04142	198	cd04142, RRP22, Ras-related protein on chromosome	1e-07
cd01874	175	cd01874, Cdc42, cell division cycle 42 (Cdc42) is	1e-07
cd04153	174	cd04153, Arl5_Arl8, Arf-like 5 (Arl5) and 8 (Arl8)	2e-07
PTZ00133	182	PTZ00133, PTZ00133, ADP-ribosylation factor; Provi	3e-07
PLN00023	334	PLN00023, PLN00023, GTP-binding protein; Provision	6e-07
cd04150	159	cd04150, Arf1_5_like, ADP-ribosylation factor-1 (A	7e-07
PLN00223	181	PLN00223, PLN00223, ADP-ribosylation factor; Provi	2e-06
cd01873	195	cd01873, RhoBTB, RhoBTB protein is an atypical mem	5e-06
cd01897	167	cd01897, NOG, Nucleolar GTP-binding protein (NOG)	1e-05
cd04155	174	cd04155, Arl3, Arf-like 3 (Arl3) GTPase	3e-05
COG2229	187	COG2229, COG2229, Predicted GTPase [General functi	5e-05
cd04152	183	cd04152, Arl4_Arl7, Arf-like 4 (Arl4) and 7 (Arl7)	6e-05
cd04151	158	cd04151, Arl1, ADP ribosylation factor 1 (Arf1)	2e-04
cd04157	162	cd04157, Arl6, Arf-like 6 (Arl6) GTPase	4e-04
cd00879	191	cd00879, Sar1, Sar1 is an essential component of C	0.003

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

 Score =  324 bits (833), Expect = e-115
 Identities = 119/158 (75%), Positives = 137/158 (86%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+LDSK+TIGVEF T+T+ I  K +KAQIWDTAGQERYRA
Sbjct: 8   LIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRTIQIDGKTIKAQIWDTAGQERYRA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDITK+ +F+NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 68  ITSAYYRGAVGALLVYDITKKSTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 127

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           TE+AK FAEK GL F+ETSAL+ TNVE AF  +LTEIY
Sbjct: 128 TEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEIY 165

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

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

 Score =  282 bits (725), Expect = 1e-98
 Identities = 98/160 (61%), Positives = 123/160 (76%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF   +FS   K+TIGV+F+TKT+ +  K VK QIWDTAGQER+R+
Sbjct: 5   LIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGAVGA+LVYDIT R+SF+N+  WL+ELR +A  N++IMLVGNKSDLE  R V 
Sbjct: 65  ITSSYYRGAVGALLVYDITNRESFENLENWLKELREYASPNVVIMLVGNKSDLEEQRQVS 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
            E+A+ FAE+ GL F ETSA  +TNVE AF  +  EI + 
Sbjct: 125 REEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score =  280 bits (717), Expect = 7e-97
 Identities = 129/205 (62%), Positives = 153/205 (74%), Gaps = 5/205 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS +L+RF R+EF L+SK+TIGVEF T+TL +  K VKAQIWDTAGQERYRA
Sbjct: 17  LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRA 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDITKRQ+FDNV RWL ELR HAD NI+IM+ GNKSDL  LR+V 
Sbjct: 77  ITSAYYRGAVGALLVYDITKRQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVA 136

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            ED +  AEKEGL F+ETSALE+TNVE AF T+L EIY I+SKKAL A + + + G    
Sbjct: 137 EEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAANSGLPGQ 196

Query: 181 LKATNIVVPGQEPESGRRSYNCCTS 205
               N+        SG     CC++
Sbjct: 197 GTTINV-----ADTSGNNKRGCCST 216

Length = 216

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

 Score =  258 bits (662), Expect = 3e-89
 Identities = 89/159 (55%), Positives = 113/159 (71%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS LL RF +++F  +   TIGV+F TKT+ +  K VK QIWDTAGQER+RA
Sbjct: 4   LVGDGGVGKSSLLIRFTQNKFPEEYIPTIGVDFYTKTIEVDGKTVKLQIWDTAGQERFRA 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA G +LVYDIT R SF+NV +WLEE+  HAD+N+ I+LVGNK DLE  R V 
Sbjct: 64  LRPLYYRGAQGFLLVYDITSRDSFENVKKWLEEILRHADENVPIVLVGNKCDLEDQRVVS 123

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           TE+ +  A++ GL FMETSA  + NVE AF  +  EI +
Sbjct: 124 TEEGEALAKELGLPFMETSAKTNENVEEAFEELAREILK 162

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

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

 Score =  245 bits (629), Expect = 3e-84
 Identities = 89/153 (58%), Positives = 120/153 (78%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ LL RF  ++FS + K+TIGV+F++KT+ +  K VK QIWDTAGQER+R+
Sbjct: 5   LIGDSGVGKTSLLLRFVDNKFSENYKSTIGVDFKSKTIEVDGKKVKLQIWDTAGQERFRS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA GA+LVYD+T R+SF+N+ +WL EL+ +A  NI I+LVGNKSDLE  R V 
Sbjct: 65  ITSSYYRGAHGAILVYDVTNRESFENLDKWLNELKEYAPPNIPIILVGNKSDLEDERQVS 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
           TE+A++FA++ GL F ETSA    NV+ AF ++
Sbjct: 125 TEEAQQFAKENGLLFFETSAKTGENVDEAFESL 157

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

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

 Score =  208 bits (532), Expect = 2e-69
 Identities = 77/158 (48%), Positives = 110/158 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GDS+VGKS ++ RF ++EFS + ++TIG  F T+T+ +    VK +IWDTAGQERYR+
Sbjct: 6   LLGDSSVGKSSIVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRS 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF+    W++EL+ H   NI+I L GNK+DLE+ R V 
Sbjct: 66  LAPMYYRGAAAAIVVYDITSEESFEKAKSWVKELQEHGPPNIVIALAGNKADLESKRQVS 125

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           TE+A+E+A++ GL FMETSA    NV   F  +  ++ 
Sbjct: 126 TEEAQEYADENGLLFMETSAKTGENVNELFTEIARKLP 163

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

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

 Score =  207 bits (529), Expect = 7e-69
 Identities = 84/157 (53%), Positives = 117/157 (74%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K VK QIWDTAGQER+R 
Sbjct: 7   LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTVKLQIWDTAGQERFRT 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL   + V 
Sbjct: 67  ITSSYYRGAHGIIIVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKKVVD 126

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +AKEFA++ G+ F+ETSA  +TNVE AF+T+  EI
Sbjct: 127 YTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREI 163

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

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

 Score =  205 bits (525), Expect = 2e-68
 Identities = 78/157 (49%), Positives = 111/157 (70%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF+ D F+    +TIG++F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 8   LIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRT 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T++YYRGA+G +LVYDIT  +SF+N+  W+  +  HA +++  MLVGNK D+E  R V 
Sbjct: 68  ITTSYYRGAMGIILVYDITDEKSFENIKNWMRNIDEHASEDVERMLVGNKCDMEEKRVVS 127

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            E+ +  A + G+ F+ETSA  + NVE AFLT+  +I
Sbjct: 128 KEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDI 164

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

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

 Score =  203 bits (518), Expect = 3e-67
 Identities = 82/159 (51%), Positives = 111/159 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I  K +K QIWDTAGQE +R+
Sbjct: 9   IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRS 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R++F+++  WLE+ R H++ N+ IML+GNK DLE+ R V 
Sbjct: 69  ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVS 128

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+ + FA + GL FMETSA  ++NVE AF+    EIY 
Sbjct: 129 YEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIYD 167

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

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

 Score =  188 bits (479), Expect = 2e-61
 Identities = 80/159 (50%), Positives = 112/159 (70%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD  VGKS LL +F   +F  D   TIGVEF T+ + ++ + +K QIWDTAGQER+RA
Sbjct: 7   IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA++VYDIT+R ++++++ WL + R   + N +I L+GNK+DLE  R V 
Sbjct: 67  VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVT 126

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+AK+FA++ GL F+E SA    NVE AFL    +IY+
Sbjct: 127 YEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ 165

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

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

 Score =  187 bits (478), Expect = 3e-61
 Identities = 80/158 (50%), Positives = 106/158 (67%), Gaps = 2/158 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D F  D  +TIGV+F+ KT+ +  K VK  IWDTAGQER+R 
Sbjct: 5   LIGDSGVGKSSLLLRFTDDTFDEDLSSTIGVDFKVKTVTVDGKKVKLAIWDTAGQERFRT 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +TS+YYRGA G +LVYD+T+R +FDN+  WL EL  ++   + + MLVGNK D E  R V
Sbjct: 65  LTSSYYRGAQGVILVYDVTRRDTFDNLDTWLNELDTYSTNPDAVKMLVGNKIDKEN-REV 123

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+ ++FA K  + F+ETSA     V+ AF  ++ +I
Sbjct: 124 TREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 161

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

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

 Score =  187 bits (476), Expect = 5e-61
 Identities = 83/158 (52%), Positives = 108/158 (68%), Gaps = 1/158 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ ++ RF    FS     TIGV+F  KTL I  K VK QIWDTAGQER+R 
Sbjct: 8   LIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRT 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A GA++ YDIT+R SF++V  W+EE+  +   N++++L+GNK DLE  R V 
Sbjct: 68  ITQSYYRSANGAIIAYDITRRSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVL 127

Query: 121 TEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEI 157
            E+A   AE  G L  +ETSA ES+NVE AFL + TE+
Sbjct: 128 FEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 165

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

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

 Score =  185 bits (471), Expect = 1e-59
 Identities = 85/172 (49%), Positives = 119/172 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I +K +K QIWDTAGQE +R+
Sbjct: 11  IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRS 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R++F+++A WLE+ R HA+ N+ IML+GNK DL   RAV 
Sbjct: 71  ITRSYYRGAAGALLVYDITRRETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVS 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDES 172
           TE+ ++FA++ GL FME SA  + NVE AF+    +IY+ +       ++ES
Sbjct: 131 TEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNES 182

Length = 210

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

 Score =  183 bits (466), Expect = 2e-59
 Identities = 82/151 (54%), Positives = 107/151 (70%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG +  GKS LL +F  ++F  DS  TIGVEF ++ + +  K+VK QIWDTAGQER+R+
Sbjct: 5   IIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKSVKLQIWDTAGQERFRS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R+SF+ +  WL + R  A  +I+I+LVGNK DLE  R V 
Sbjct: 65  VTRSYYRGAAGALLVYDITSRESFNALTNWLTDARTLASPDIVIILVGNKKDLEDDREVT 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
             +A  FA++ GL F+ETSAL   NVE AFL
Sbjct: 125 FLEASRFAQENGLLFLETSALTGENVEEAFL 155

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

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

 Score =  181 bits (462), Expect = 8e-59
 Identities = 66/150 (44%), Positives = 102/150 (68%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +GD +VGK+ ++ RF  D F    +ATIG++F +KT+ +  K V+ Q+WDTAGQER+R+
Sbjct: 5   FLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYVDDKTVRLQLWDTAGQERFRS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT RQSFDN  +W++++R     ++II+LVGNK+DL   R V 
Sbjct: 65  LIPSYIRDSSVAVVVYDITNRQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVS 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
           TE+ ++ A++    F+ETSA    NV+  F
Sbjct: 125 TEEGEKKAKENNAMFIETSAKAGHNVKQLF 154

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

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

 Score =  169 bits (430), Expect = 2e-53
 Identities = 84/205 (40%), Positives = 121/205 (59%), Gaps = 3/205 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYR 59
           +IGDS VGKS LL RF    F+  S  T+GV+F ++ + I     +K Q+WDTAGQER+R
Sbjct: 7   VIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFR 66

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRA 118
           ++T +YYR +VG +LV+DIT R+SF++V  WLEE R H      + +LVG+K DLE+ R 
Sbjct: 67  SITRSYYRNSVGVLLVFDITNRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQ 126

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSS 178
           V  E+A++ A+  G+ ++ETSA    NVE AF  +  EIY  + +  L A D  + G  S
Sbjct: 127 VTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKRGELCALDGWD-GVKS 185

Query: 179 SLLKATNIVVPGQEPESGRRSYNCC 203
                    +  + P       +CC
Sbjct: 186 GFPAGRAFSLEERSPTFASPEKSCC 210

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

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

 Score =  163 bits (415), Expect = 1e-51
 Identities = 65/157 (41%), Positives = 94/157 (59%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+   ++T    F  KT+ I  K +   IWDTAGQERY A
Sbjct: 5   LLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR A GA+LVYDIT   SF  V +W++EL+     NI +++VGNK DLE  R V 
Sbjct: 65  LGPIYYRDADGAILVYDITDADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVS 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +A+E+A+  G    ETSA     +E  FL++   +
Sbjct: 125 KSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 161

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

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

 Score =  165 bits (418), Expect = 1e-51
 Identities = 82/173 (47%), Positives = 113/173 (65%), Gaps = 3/173 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGDS VGKS LL RFA + FS     TIGV+F+ +T+ I+ + VK QIWDTAGQER+R 
Sbjct: 11  IIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRT 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS YYRG  G ++VYD+T  +SF NV RWL+E+  + D ++  +LVGNK+D    + V 
Sbjct: 71  ITSTYYRGTHGVIVVYDVTNGESFVNVKRWLQEIEQNCD-DVCKVLVGNKNDDPERKVVE 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESE 173
           TEDA +FA + G+   ETSA E+ NVE  F  +   + R  +KK   A  + +
Sbjct: 130 TEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLR--AKKDNLAKQQQQ 180

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

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

 Score =  162 bits (411), Expect = 1e-50
 Identities = 77/158 (48%), Positives = 104/158 (65%), Gaps = 1/158 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           L+GDS VGK+ LL RF    F   S  AT+G++F  K + +    VK QIWDTAGQER+R
Sbjct: 5   LVGDSGVGKTCLLVRFKDGAFLAGSFIATVGIQFTNKVVTVDGVKVKLQIWDTAGQERFR 64

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +VT AYYR A   +L+YD+T + SFDN+  WL E+  +A  +++IML+GNK+D+   R V
Sbjct: 65  SVTHAYYRDAHALLLLYDVTNKSSFDNIRAWLTEILEYAQSDVVIMLLGNKADMSGERVV 124

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             ED +  A++ G+ FMETSA    NVELAF  V  E+
Sbjct: 125 KREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKEL 162

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

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

 Score =  159 bits (404), Expect = 5e-50
 Identities = 68/150 (45%), Positives = 103/150 (68%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  + K +K QIWDTAGQERYR 
Sbjct: 6   IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRNDKRIKLQIWDTAGQERYRT 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R V 
Sbjct: 66  ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVS 125

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E  ++ A++ G  F E SA E+ NV+  F
Sbjct: 126 AERGRQLADQLGFEFFEASAKENINVKQVF 155

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

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

 Score =  158 bits (401), Expect = 1e-49
 Identities = 71/157 (45%), Positives = 102/157 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG++ VGK+ L+ RF +  F     ATIGV+F  KT+ I  + +K QIWDTAGQER+R+
Sbjct: 12  LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRS 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A   +L YDIT  +SF  +  WL E+  +A+  +I +LVGNK DL   R V 
Sbjct: 72  ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVS 131

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            + A+EF++ + + ++ETSA ES NVE  FL +   +
Sbjct: 132 QQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL 168

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

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

 Score =  151 bits (384), Expect = 9e-47
 Identities = 68/176 (38%), Positives = 108/176 (61%), Gaps = 13/176 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK + +  + V  QIWDTAGQER+++
Sbjct: 5   ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDRLVTLQIWDTAGQERFQS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LVYD+T  +SF+++  W +E    A     +N   +++GNK DLE  
Sbjct: 65  LGVAFYRGADCCVLVYDVTNPKSFESLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEEK 124

Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDE 171
           R V T+ A+++ + +G + + ETSA E+ NV+ AF T        +++ AL    E
Sbjct: 125 RQVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFET--------IARLALEQEKE 172

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

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

 Score =  144 bits (365), Expect = 4e-44
 Identities = 66/159 (41%), Positives = 96/159 (60%), Gaps = 5/159 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR- 59
           +IGDS VGK+ L  RF    F   ++ATIGV+F+ +T+ I  + +K Q+WDTAGQER+R 
Sbjct: 7   VIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRK 66

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIII-MLVGNKSDLETLRA 118
           ++   YYR     + VYD+T   SF ++  W+EE   H+  N +  +LVGNK DL     
Sbjct: 67  SMVQHYYRNVHAVVFVYDVTNMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQ 126

Query: 119 VPTEDAKEFAEKEGLCFMETSA---LESTNVELAFLTVL 154
           VPT+ A+ FA+   +   ETSA    E+ +VE  F+T+ 
Sbjct: 127 VPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLA 165

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

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

 Score =  145 bits (367), Expect = 6e-44
 Identities = 61/158 (38%), Positives = 92/158 (58%), Gaps = 9/158 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYR 59
           +IGD  VGK+ ++ R+    FS   KATIGV+F  K +    +  V+ Q+WD AGQER+ 
Sbjct: 5   VIGDLGVGKTSIIKRYVHGVFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFG 64

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL----RGHADKNIIIMLVGNKSDLET 115
            +T  YY+GAVGA++V+D+T+  +F+ V +W  +L         + I  +L+ NK DL+ 
Sbjct: 65  GMTRVYYKGAVGAIIVFDVTRPSTFEAVLKWKADLDSKVTLPNGEPIPALLLANKCDLKK 124

Query: 116 LR-AVPTEDAKEFAEKEGL--CFMETSALESTNVELAF 150
            R A   E   +F ++ G    F ETSA E+ N+E A 
Sbjct: 125 ERLAKDPEQMDQFCKENGFIGWF-ETSAKENINIEEAM 161

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

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

 Score =  143 bits (363), Expect = 8e-44
 Identities = 62/158 (39%), Positives = 89/158 (56%), Gaps = 2/158 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  RF   EF  +   TI  +   K +V+  +     I DTAGQE + A
Sbjct: 4   VLGAGGVGKSALTIRFVSGEFVEEYDPTIE-DSYRKQIVVDGETYTLDILDTAGQEEFSA 62

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LVY IT R+SF+ +    E+ LR    +++ I+LVGNK DLE  R V
Sbjct: 63  MRDQYIRNGDGFILVYSITSRESFEEIKNIREQILRVKDKEDVPIVLVGNKCDLENERQV 122

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            TE+ +  AE+ G  F+ETSA  + N++  F T++ EI
Sbjct: 123 STEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 160

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

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

 Score =  142 bits (358), Expect = 4e-43
 Identities = 69/157 (43%), Positives = 103/157 (65%), Gaps = 1/157 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ LL RF  +EF     +TIGV+F+ KT+ +    V+ QIWDTAGQERY+ 
Sbjct: 5   LIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQT 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T  YYR A G  LVYDI+  +S+ ++ +W+ ++  +A + +  +L+GNK+D E  R V 
Sbjct: 65  ITKQYYRRAQGIFLVYDISSERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVG 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            E   + A++ G+ F ETSA  + N++ +F T LTE+
Sbjct: 125 DEQGNKLAKEYGMDFFETSACTNKNIKESF-TRLTEL 160

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

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

 Score =  142 bits (360), Expect = 5e-43
 Identities = 68/160 (42%), Positives = 111/160 (69%), Gaps = 1/160 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG   VGK+ L+ RF  D F    K+T+GV+F+ KT+ +  K ++ QIWDTAGQER+ +
Sbjct: 5   IIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYR A G +LVYDITK+++FD++ +W++ +  +A ++  ++LVGNK D ET R + 
Sbjct: 65  ITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREIT 124

Query: 121 TEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  ++FA++  G+ F E SA ++ NV+  FL ++ +I +
Sbjct: 125 RQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK 164

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

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

 Score =  141 bits (357), Expect = 1e-42
 Identities = 67/164 (40%), Positives = 104/164 (63%), Gaps = 11/164 (6%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V + +           V  Q+WD
Sbjct: 10  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNSQGPDGTSGKAFRVHLQLWD 69

Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNK 110
           TAGQER+R++T+A++R A+G +L++D+T  QSF NV  W+ +L+ HA  +N  I+L+GNK
Sbjct: 70  TAGQERFRSLTTAFFRDAMGFLLMFDLTSEQSFLNVRNWMSQLQAHAYCENPDIVLIGNK 129

Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL 154
           +DL   R V    A+E A+K G+ + ETSA    NVE A  T+L
Sbjct: 130 ADLPDQREVSERQARELADKYGIPYFETSAATGQNVEKAVETLL 173

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

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

 Score =  139 bits (351), Expect = 2e-41
 Identities = 71/189 (37%), Positives = 93/189 (49%), Gaps = 18/189 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD  VGK+ LL R   DEF      TIG     KT+  + +N+K Q+WDTAGQE YR+
Sbjct: 10  VLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRS 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLET---- 115
           +   YYRGA G ++VYD T R+S D +   WLEELR  A  ++ I+LVGNK DL      
Sbjct: 70  LRPEYYRGANGILIVYDSTLRESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSS 129

Query: 116 --------LRAVPTEDAKEFA---EKEGLCFMETSALEST--NVELAFLTVLTEIYRIVS 162
                    R V        A   E      +ETSA   T  NV   F  +L ++   + 
Sbjct: 130 SEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEIE 189

Query: 163 KKALTANDE 171
           K  L     
Sbjct: 190 KLVLKNELR 198

Length = 219

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

 Score =  132 bits (334), Expect = 6e-39
 Identities = 79/206 (38%), Positives = 115/206 (55%), Gaps = 15/206 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL  F       D   TIGV+F+ K L +  K +K  IWDTAGQER+R 
Sbjct: 19  LIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRT 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHA-DKNIIIMLVGNKSDLETLRA 118
           +TS+YYR A G +LVYD+T+R++F N++  W +E+  ++ +++ + MLVGNK D E+ R 
Sbjct: 78  LTSSYYRNAQGIILVYDVTRRETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERD 137

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSS 178
           V  E+    A++ G  F+E SA    NVE  F  +  +I  + S       +E  +    
Sbjct: 138 VSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPS-----LLEEGSTAVKR 192

Query: 179 SLLKATNIVVPGQEPESGRRSYNCCT 204
           ++LK      P  +P        CC+
Sbjct: 193 NILKQK----PEHQPPPNG---GCCS 211

Length = 211

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

 Score =  125 bits (315), Expect = 3e-36
 Identities = 65/161 (40%), Positives = 98/161 (60%), Gaps = 5/161 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GDS VGK ++LA              +G++++T T+++  + VK Q+WDT+GQ R+  
Sbjct: 11  LVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCT 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y RGA G +LVYDIT R SFD + RW++E+  HA   +  +LVGN+  L   R V 
Sbjct: 71  IFRSYSRGAQGIILVYDITNRWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVA 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIV 161
           TE A+ +AE+ G+ F E S L + N+  +F    TE+ RIV
Sbjct: 130 TEQAQAYAERNGMTFFEVSPLCNFNITESF----TELARIV 166

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

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

 Score =  123 bits (311), Expect = 5e-36
 Identities = 61/162 (37%), Positives = 94/162 (58%), Gaps = 6/162 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 10  LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRS 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD    ++   +++GNK D+   
Sbjct: 70  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIPE- 128

Query: 117 RAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLTEI 157
           R V TE+A+ +    G   + ETSA ++TNV  AF   +  +
Sbjct: 129 RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 170

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

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

 Score =  122 bits (309), Expect = 1e-35
 Identities = 50/158 (31%), Positives = 76/158 (48%), Gaps = 4/158 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           ++GD  VGKS LL R   ++ S+   K      + T  +    K  K  + DTAGQE Y 
Sbjct: 6   IVGDPNVGKSTLLNRLLGNKISITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYD 65

Query: 60  AVTSAYYRGAVGAMLVYDITKRQS--FDNVARWLEELRGHADKNIIIMLVGNKSDLETLR 117
           A+   YYR    ++ V+DI        + + +  +E+  HA+  + I+LVGNK DL   +
Sbjct: 66  AIRRLYYRAVESSLRVFDIVILVLDVEEILEKQTKEIIHHAESGVPIILVGNKIDLRDAK 125

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT 155
            + T  A  FA+  G   +  SA    N++ AF  V  
Sbjct: 126 -LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIVEA 162

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

 Score =  121 bits (307), Expect = 2e-35
 Identities = 65/159 (40%), Positives = 90/159 (56%), Gaps = 2/159 (1%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +G   VGKS L  +F +  F  +   TI  +   K + I  +     I DTAGQE + A+
Sbjct: 8   LGGGGVGKSALTIQFVQGHFVDEYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAM 66

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVP 120
              Y R   G +LVY IT RQSF+ +A++ E+ LR     ++ I+LVGNK DLE  R V 
Sbjct: 67  RDQYMRTGEGFLLVYSITDRQSFEEIAKFREQILRVKDRDDVPIVLVGNKCDLENERVVS 126

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           TE+ KE A + G  F+ETSA E  NV+ AF  ++ EI +
Sbjct: 127 TEEGKELARQWGCPFLETSAKERINVDEAFYDLVREIRK 165

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

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

 Score =  121 bits (305), Expect = 5e-35
 Identities = 65/160 (40%), Positives = 91/160 (56%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  D   TI  +   K + I  +     I DTAGQE + A
Sbjct: 5   VLGSGGVGKSALTIQFIQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSA 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LVY IT RQSF+ + ++ E+ LR     ++ I+LVGNK DLE+ R V
Sbjct: 64  MRDQYMRTGEGFLLVYSITDRQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVV 123

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            TE+ KE A + G  F+ETSA E  NV+ AF  ++ EI +
Sbjct: 124 STEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIRK 163

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

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

 Score =  119 bits (301), Expect = 3e-34
 Identities = 59/162 (36%), Positives = 89/162 (54%), Gaps = 4/162 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F    F      TI   F +K +    +    +I DTAGQ+ Y  
Sbjct: 6   VLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIITYKGQEYHLEIVDTAGQDEYSI 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE--LRGHADKNIIIMLVGNKSDLETLRA 118
           +   Y  G  G +LVY +T R+SF+ V + + +  L     +++ I+LVGNKSDL   R 
Sbjct: 65  LPQKYSIGIHGYILVYSVTSRKSFE-VVKVIYDKILDMLGKESVPIVLVGNKSDLHMERQ 123

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
           V  E+ K+ AE  G  F+E+SA E+ NVE AF  ++ EI ++
Sbjct: 124 VSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEIEKV 165

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

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

 Score =  119 bits (298), Expect = 5e-34
 Identities = 58/151 (38%), Positives = 96/151 (63%)

Query: 19  DEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDI 78
           D F  + ++TIG++F +KTL +    V+ Q+WDTAGQER+R++  +Y R +  A++VYDI
Sbjct: 3   DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDI 62

Query: 79  TKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMET 138
           T RQSF+N  +W++++     K++II LVGNK+DL  LR V  E+  + A++    F ET
Sbjct: 63  TNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHET 122

Query: 139 SALESTNVELAFLTVLTEIYRIVSKKALTAN 169
           SA    N+++ F  +  ++  + +  +  AN
Sbjct: 123 SAKAGHNIKVLFKKIAAKLPNLDNSNSNDAN 153

Length = 176

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

 Score =  117 bits (295), Expect = 2e-33
 Identities = 53/163 (32%), Positives = 91/163 (55%), Gaps = 5/163 (3%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +G+S VGKS ++ R+    F      TIG+++  K + + +K V+   +D +G   Y  V
Sbjct: 6   MGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEV 65

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR----GHAD-KNIIIMLVGNKSDLETL 116
            + +Y+   G +LVYD+T RQSF+ +  WL+E++     H + +NI++++  NK DL   
Sbjct: 66  RNEFYKDTQGVLLVYDVTDRQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKH 125

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           RAV  ++ + +AE +G  + ETSA     V   F T+ + I  
Sbjct: 126 RAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIVD 168

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

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

 Score =  117 bits (295), Expect = 3e-33
 Identities = 58/158 (36%), Positives = 89/158 (56%), Gaps = 6/158 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           ++G  +VGK+ L+ R+    F +   + TIG  F  K +V+  + V   IWDTAG ERY 
Sbjct: 5   MLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYE 64

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           A++  YYRGA  A++ YD+T   SF+    W++EL+ + +++  I L G KSDL     +
Sbjct: 65  AMSRIYYRGAKAAIVCYDLTDSSSFERAKFWVKELQ-NLEEHCKIYLCGTKSDLIEQDRS 123

Query: 116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
           LR V   D ++FA++      ETS+    NV+  F  V
Sbjct: 124 LRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKV 161

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

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

 Score =  116 bits (292), Expect = 3e-33
 Identities = 63/160 (39%), Positives = 93/160 (58%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 5   MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQLNILDTAGQEDYAA 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G +LV+ IT  +SF  +A + E+ LR   D N+ ++LVGNK DLE  R V
Sbjct: 64  IRDNYFRSGEGFLLVFSITDMESFTALAEFREQILRVKEDDNVPLLLVGNKCDLEDKRQV 123

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E+A   AE+ G+ ++ETSA    NV+  F  ++ EI +
Sbjct: 124 SVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 163

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

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

 Score =  115 bits (289), Expect = 8e-33
 Identities = 55/152 (36%), Positives = 86/152 (56%), Gaps = 3/152 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN--VKAQIWDTAGQERY 58
           ++G+  VGKS ++ RF +  F+ D K TIGV+F  K + +   +  V+  +WDTAGQE +
Sbjct: 5   VVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEF 64

Query: 59  RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA 118
            A+T AYYRGA   +LV+  T R+SF+ +  W E++      +I ++LV  K DL     
Sbjct: 65  DAITKAYYRGAQACILVFSTTDRESFEAIESWKEKVEAECG-DIPMVLVQTKIDLLDQAV 123

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAF 150
           +  E+A+  A++  L    TS  +  NV   F
Sbjct: 124 ITNEEAEALAKRLQLPLFRTSVKDDFNVTELF 155

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

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

 Score =  109 bits (273), Expect = 9e-30
 Identities = 57/169 (33%), Positives = 89/169 (52%), Gaps = 4/169 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYR 59
           ++GD A GK+ L+ RFA++ F    K TIG++F ++ + +    NV  Q+WD  GQ+   
Sbjct: 5   VLGDGASGKTSLIRRFAQEGFGKSYKQTIGLDFFSRRITLPGSLNVTLQVWDIGGQQIGG 64

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR---GHADKNIIIMLVGNKSDLETL 116
            +   Y  GA    LVYDIT  QSF+N+  WL  ++     ++    ++LVGNK+DLE  
Sbjct: 65  KMLDKYIYGAQAVCLVYDITNSQSFENLEDWLSVVKKVNEESETKPKMVLVGNKTDLEHN 124

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKA 165
           R V  E    FA++  +  +  SA     V L F  +  E+  +   +A
Sbjct: 125 RQVTAEKHARFAQENDMESIFVSAKTGDRVFLCFQRIAAELLGVKLSQA 173

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

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

 Score =  106 bits (267), Expect = 2e-29
 Identities = 53/146 (36%), Positives = 82/146 (56%), Gaps = 4/146 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GDSAVGKS+L+ RF  D +     +T  +           K +    WDTAGQER++ 
Sbjct: 5   LLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQT 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           + ++YY  A   +LV+D+T++ ++ N+++W EELR +  + I  ++V NK DL+      
Sbjct: 65  MHASYYHKAHACILVFDVTRKITYKNLSKWYEELREYRPE-IPCIVVANKIDLDP---SV 120

Query: 121 TEDAKEFAEKEGLCFMETSALESTNV 146
           T+    FAEK  L     SA + TNV
Sbjct: 121 TQKKFNFAEKHNLPLYYVSAADGTNV 146

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

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

 Score =  104 bits (262), Expect = 1e-28
 Identities = 56/163 (34%), Positives = 87/163 (53%), Gaps = 6/163 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  D   TI   + TK   I  +  +  I DTAGQE + A
Sbjct: 7   VVGGGGVGKSALTIQFIQSYFVTDYDPTIEDSY-TKQCEIDGQWARLDILDTAGQEEFSA 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LV+ +T R SF+ V ++  + LR        ++LVGNK+DLE  R V
Sbjct: 66  MREQYMRTGEGFLLVFSVTDRGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRQV 125

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVS 162
             E+ +E A +  + ++ETSA +  NV+ AF     ++ R++ 
Sbjct: 126 SREEGQELARQLKIPYIETSAKDRVNVDKAFH----DLVRVIR 164

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

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

 Score =  103 bits (259), Expect = 3e-28
 Identities = 57/155 (36%), Positives = 91/155 (58%), Gaps = 3/155 (1%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD +VGK+ L+ RF +D F  + KATIGV+F+ +   +       Q+WDTAGQER++ +
Sbjct: 6   VGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEVLGVPFSLQLWDTAGQERFKCI 65

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLET--LRA 118
            S YYRGA   ++V+D+T   S ++  +WLE+ L+ +   ++++ LVG K DL +    A
Sbjct: 66  ASTYYRGAQAIIIVFDLTDVASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYA 125

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
           +  +DA + A +    +   SAL   NV   F  V
Sbjct: 126 LMEQDAIKLAREMKAEYWAVSALTGENVRDFFFRV 160

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

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

 Score =  103 bits (259), Expect = 5e-28
 Identities = 63/176 (35%), Positives = 97/176 (55%), Gaps = 7/176 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F ++ F  +   TI   ++ K  VI  +     I DTAGQE Y A
Sbjct: 10  VVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSYR-KQCVIDEETCLLDILDTAGQEEYSA 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV 119
           +   Y R   G + VY IT R SF+ +A + E++    DK+ + ++LVGNK DL++ R V
Sbjct: 69  MRDQYMRTGQGFLCVYSITSRSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQV 128

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESG 175
            T + +E A+  G+ F+ETSA +  NV+ AF  ++ EI     +K L  +  S+  
Sbjct: 129 STGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREI-----RKYLKEDMPSQKQ 179

Length = 189

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

 Score =  102 bits (257), Expect = 6e-28
 Identities = 49/151 (32%), Positives = 76/151 (50%), Gaps = 3/151 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   ++  +WDTAGQE++  
Sbjct: 5   LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGG 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY     A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +  P
Sbjct: 65  LRDGYYIQGQCAIIMFDVTSRVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDIKDRKVKP 123

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
                 F  K+ L + E SA  + N E  FL
Sbjct: 124 K--QITFHRKKNLQYYEISAKSNYNFEKPFL 152

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

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

 Score = 99.0 bits (247), Expect = 2e-26
 Identities = 55/158 (34%), Positives = 86/158 (54%), Gaps = 3/158 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 6   VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV 119
           +   Y R   G + V+ I  R+SF+++  + E+++   D + + M LVGNK DL   R V
Sbjct: 65  MRDQYMRTGEGFLCVFAINSRKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTV 123

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            T   ++ A+  G+ ++ETSA     VE AF T++ EI
Sbjct: 124 STRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI 161

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

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

 Score = 98.4 bits (246), Expect = 4e-26
 Identities = 45/163 (27%), Positives = 79/163 (48%), Gaps = 15/163 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+  +  +  + +  K V   +WDTAGQE Y  
Sbjct: 5   VVGDGAVGKTCLLISYTTNKFPTEYVPTV-FDNYSANVTVDGKQVNLGLWDTAGQEEYDR 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDL------ 113
           +    Y      +L + +    SF+NV   W  E++ +   N+ I+LVG K DL      
Sbjct: 64  LRPLSYPQTDVFLLCFSVDSPSSFENVKTKWYPEIKHYC-PNVPIILVGTKIDLRDDGNT 122

Query: 114 -----ETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF 150
                +  + +  E+ ++ A++ G   +ME SAL    ++  F
Sbjct: 123 LKKLEKKQKPITPEEGEKLAKEIGAVKYMECSALTQEGLKEVF 165

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

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

 Score = 96.4 bits (240), Expect = 2e-25
 Identities = 54/158 (34%), Positives = 81/158 (51%), Gaps = 5/158 (3%)

Query: 1   LIGDSAVGKSQLLARFARD--EFSLDSKATIGVEFQTKTLVIHH--KNVKAQIWDTAGQE 56
           ++GD AVGKS L+  F  D   F  +   T G +   KT+ +     +V+  I+D+AGQE
Sbjct: 5   VVGDPAVGKSALVQMFHSDGATFQKNYTMTTGCDLVVKTVPVPDTSDSVELFIFDSAGQE 64

Query: 57  RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLET 115
            +  +    +       +VYD+T   SF+N +RW+  +R H+   +   +LVGNK DL  
Sbjct: 65  LFSDMVENVWEQPAVVCVVYDVTNEVSFNNCSRWINRVRTHSHGLHTPGVLVGNKCDLTD 124

Query: 116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            R V    A+  A+   L F ETSA E    E  FL++
Sbjct: 125 RREVDAAQAQALAQANTLKFYETSAKEGVGYEAPFLSL 162

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

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

 Score = 96.0 bits (239), Expect = 3e-25
 Identities = 53/159 (33%), Positives = 85/159 (53%), Gaps = 3/159 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F ++ F      TI   ++ K + I  +    +I DTAG E++ A
Sbjct: 6   VLGAGGVGKSALTVQFVQNVFIESYDPTIEDSYR-KQVEIDGRQCDLEILDTAGTEQFTA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G +LVY +T   S + +    E+ LR     N+ ++LVGNK+DLE  R V
Sbjct: 65  MRELYIKSGQGFLLVYSVTSEASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQV 124

Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEI 157
             ED    +++ G   F ETSA + TNV+  F+ ++ +I
Sbjct: 125 SREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 163

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

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

 Score = 96.5 bits (240), Expect = 4e-25
 Identities = 54/160 (33%), Positives = 86/160 (53%), Gaps = 4/160 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD  VGK+ L  +   + F      TI   ++ K +V+  +    ++ DTAGQE Y A
Sbjct: 4   VLGDGGVGKTALTIQLCLNHFVETYDPTIEDSYR-KQVVVDGQPCMLEVLDTAGQEEYTA 62

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR---GHADKNIIIMLVGNKSDLETLR 117
           +   + R   G +LVY IT R +F+ V R+ E+++     +  ++ IM+VGNK D    R
Sbjct: 63  LRDQWIREGEGFILVYSITSRSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYER 122

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            V TE+    A + G  F+E SA  + NVE AF T++  +
Sbjct: 123 EVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL 162

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

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

 Score = 95.0 bits (237), Expect = 1e-24
 Identities = 50/174 (28%), Positives = 80/174 (45%), Gaps = 20/174 (11%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  D   T+   + +  + +  K V+  +WDTAGQE Y  
Sbjct: 3   VVGDGAVGKTCLLIVYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDR 61

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV  +W  E++     N+ I+LVG K DL     T
Sbjct: 62  LRPLSYPDTDVFLICFSVDSPASFENVKEKWYPEVKHFC-PNVPIILVGTKLDLRNDKST 120

Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNV----ELAFLTVLTE 156
           L          V  E  +  A++ G + ++E SAL    V    E A    L +
Sbjct: 121 LEELSKKKQEPVTYEQGQALAKRIGAVKYLECSALTQEGVREVFEEAIRAALNK 174

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

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

 Score = 93.5 bits (233), Expect = 2e-24
 Identities = 56/164 (34%), Positives = 85/164 (51%), Gaps = 6/164 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G S VGKS L  RF    F  + +  +   + ++ + I  + V  +I DT GQ++   
Sbjct: 4   VLGASGVGKSALTVRFLTKRFIGEYEPNLESLY-SRQVTIDGEQVSLEIQDTPGQQQNED 62

Query: 61  V--TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETL 116
                   R A G +LVY IT R SFD V++ L+ +R     D  I ++LVGNK+DL   
Sbjct: 63  PESLERSLRWADGFVLVYSITDRSSFDVVSQLLQLIREIKKRDGEIPVILVGNKADLLHS 122

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTN-VELAFLTVLTEIYR 159
           R V TE+ ++ A + G  F E SA E+   V+  F  +  E+ R
Sbjct: 123 RQVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREVRR 166

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

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

 Score = 94.0 bits (234), Expect = 6e-24
 Identities = 51/153 (33%), Positives = 78/153 (50%), Gaps = 7/153 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD   GK+  + R    EF    + TIGVE        +   ++   WDTAGQE++  
Sbjct: 18  IVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGG 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY     A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  R V 
Sbjct: 78  LRDGYYIHGQCAIIMFDVTARLTYKNVPTWHRDLC-RVCENIPIVLCGNKVDVKN-RQV- 134

Query: 121 TEDAKE--FAEKEGLCFMETSALESTNVELAFL 151
              AK+  F  K+ L + E SA  + N E  FL
Sbjct: 135 --KAKQVTFHRKKNLQYYEISAKSNYNFEKPFL 165

Length = 219

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

 Score = 91.7 bits (228), Expect = 4e-23
 Identities = 53/172 (30%), Positives = 81/172 (47%), Gaps = 16/172 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGK+  + R    EF      T+GVE        +   +   +WDTAGQE++  
Sbjct: 14  LVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGG 73

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-----KNIIIMLVGNKSDLET 115
           +   YY     A++++D+T R ++ NV  W      H D     +NI I+LVGNK D++ 
Sbjct: 74  LRDGYYIKGQCAIIMFDVTSRITYKNVPNW------HRDIVRVCENIPIVLVGNKVDVKD 127

Query: 116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALT 167
            R V       F  K+ L + + SA  + N E  FL +     R+ +   L 
Sbjct: 128 -RQVKARQIT-FHRKKNLQYYDISAKSNYNFEKPFLWLAR---RLTNDPNLV 174

Length = 215

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

 Score = 89.4 bits (222), Expect = 1e-22
 Identities = 42/162 (25%), Positives = 61/162 (37%), Gaps = 9/162 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIG-VEFQTKTLVIHHKNVKAQIWDTAGQERY- 58
           ++G   VGKS LL      E    S       +       +    VK  + DT G + + 
Sbjct: 2   VVGRGGVGKSSLLNALLGGEVGEVSDVPGTTRDPDVYVKELDKGKVKLVLVDTPGLDEFG 61

Query: 59  ----RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE 114
                 +     RGA   +LV D T R+S ++    +          II  LVGNK DL 
Sbjct: 62  GLGREELARLLLRGADLILLVVDSTDRESEEDAKLLILRRLRKEGIPII--LVGNKIDLL 119

Query: 115 TLRAV-PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT 155
             R V      +E A+  G+   E SA     V+  F  ++ 
Sbjct: 120 EEREVEELLRLEELAKILGVPVFEVSAKTGEGVDELFEKLIE 161

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

 Score = 88.8 bits (220), Expect = 2e-22
 Identities = 55/167 (32%), Positives = 83/167 (49%), Gaps = 2/167 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS +  +F    F      TI   ++T+   I ++     I DTAGQ  + A
Sbjct: 7   MLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAYKTQ-ARIDNEPALLDILDTAGQAEFTA 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G ++ Y +T R SF   + + E + R    ++I ++LVGNK DLE  R V
Sbjct: 66  MRDQYMRCGEGFIICYSVTDRHSFQEASEFKELITRVRLTEDIPLVLVGNKVDLEQQRQV 125

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            TE+ +  A +    F ETSA     ++ AF  ++ EI R  S  AL
Sbjct: 126 TTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIRRKESMPAL 172

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

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

 Score = 88.0 bits (218), Expect = 3e-22
 Identities = 54/159 (33%), Positives = 85/159 (53%), Gaps = 3/159 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI  +   K + +  +    +I DTAG E++ A
Sbjct: 6   VLGSGGVGKSALTVQFVQGIFVDKYDPTIE-DSYRKQIEVDCQQCMLEILDTAGTEQFTA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT +QSF+++    E+ LR    +++ ++LVGNK DLE  R V
Sbjct: 65  MRDLYIKNGQGFALVYSITAQQSFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 124

Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEI 157
             E+ +  A + G C F+ETSA    NV+  F  ++ +I
Sbjct: 125 SKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 163

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

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

 Score = 87.6 bits (217), Expect = 5e-22
 Identities = 52/160 (32%), Positives = 84/160 (52%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 6   VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDGQQCMLEILDTAGTEQFTA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G +LVY IT + +F+++    E+ LR    +++ ++LVGNK DLE  R V
Sbjct: 65  MRDLYMKNGQGFVLVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 124

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E  +  A + G  F+ETSA    NV   F  ++ +I R
Sbjct: 125 GKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 164

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

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

 Score = 86.7 bits (215), Expect = 2e-21
 Identities = 48/165 (29%), Positives = 85/165 (51%), Gaps = 10/165 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ +GK+ L+ ++   EF  +   T+GV F  KT+ I    +   IWD  GQ  +  
Sbjct: 5   LLGDAQIGKTSLMVKYVEGEFDEEYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFIN 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL-----ET 115
           +     + AV  + ++D+T++ + +++  W  + RG  +K  I +LVG K DL       
Sbjct: 65  MLPLVCKDAVAILFMFDLTRKSTLNSIKEWYRQARGF-NKTAIPILVGTKYDLFADLPPE 123

Query: 116 LRAVPTEDAKEFAE--KEGLCFMETSALESTNVELAFLTVLTEIY 158
            +   T+ A+++A+  K  L F   S   S NV+  F  VL +++
Sbjct: 124 EQEEITKQARKYAKAMKAPLIF--CSTSHSINVQKIFKFVLAKVF 166

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

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

 Score = 85.7 bits (212), Expect = 8e-21
 Identities = 62/208 (29%), Positives = 92/208 (44%), Gaps = 42/208 (20%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGK+ LL R+    F  D+ +T+G  F  K            IWDTAG+E++  
Sbjct: 5   LLGDMNVGKTSLLHRYMERRFK-DTVSTVGGAFYLK----QWGPYNISIWDTAGREQFHG 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL------ 113
           + S Y RGA   +L YD++  QS + +  R+L  L   A+++ +  +VGNK DL      
Sbjct: 60  LGSMYCRGAAAVILTYDVSNVQSLEELEDRFL-GLTDTANEDCLFAVVGNKLDLTEEGAL 118

Query: 114 -------------ETLRAVPTEDAKEFAEK---------------EGLCFMETSALESTN 145
                        E  R V  EDAK F ++               E +CF ETSA    N
Sbjct: 119 AGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCF-ETSAKTGYN 177

Query: 146 VELAFLTVLTEIYRIVSKKALTANDESE 173
           V+  F  +   +  ++  +   AN    
Sbjct: 178 VDELFEYLFNLVLPLILAQRAEANRTQG 205

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

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

 Score = 84.5 bits (209), Expect = 8e-21
 Identities = 48/158 (30%), Positives = 82/158 (51%), Gaps = 2/158 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F    F      TI  +F  K + +       +I DTAG E++ +
Sbjct: 6   VLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFAS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G ++VY +  +Q+F ++    ++ +R    + + I+LVGNK DLE+ R V
Sbjct: 65  MRDLYIKNGQGFIVVYSLVNQQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREV 124

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            + + +  AE+ G  FMETSA   T V   F  ++ ++
Sbjct: 125 SSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 162

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

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

 Score = 84.3 bits (208), Expect = 2e-20
 Identities = 48/150 (32%), Positives = 76/150 (50%), Gaps = 3/150 (2%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD   GK+  + R    EF     AT+GVE        +   ++  +WDTAGQE++  +
Sbjct: 1   VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGL 60

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT 121
              YY     A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  R V  
Sbjct: 61  RDGYYIQGQCAIIMFDVTARVTYKNVPNWHRDL-VRVCENIPIVLCGNKVDVKD-RKVKA 118

Query: 122 EDAKEFAEKEGLCFMETSALESTNVELAFL 151
           +    F  K+ L + + SA  + N E  FL
Sbjct: 119 KSIT-FHRKKNLQYYDISAKSNYNFEKPFL 147

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

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

 Score = 79.4 bits (196), Expect = 9e-19
 Identities = 52/164 (31%), Positives = 79/164 (48%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD AVGK+ L+  +  + +  +   T    F    LV   K V+ Q+ DTAGQ+ +  
Sbjct: 5   LVGDGAVGKTSLIVSYTTNGYPTEYVPTAFDNFSVVVLV-DGKPVRLQLCDTAGQDEFDK 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y      +L + +    SF N++ +W+ E+R H  K  II LVG ++DL T    
Sbjct: 64  LRPLCYPDTDVFLLCFSVVNPSSFQNISEKWIPEIRKHNPKAPII-LVGTQADLRTDVNV 122

Query: 116 --------LRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAF 150
                    + V    AK  AEK G C ++E SAL   N++  F
Sbjct: 123 LIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVF 166

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

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

 Score = 78.3 bits (193), Expect = 2e-18
 Identities = 49/157 (31%), Positives = 72/157 (45%), Gaps = 4/157 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G   VGKS L+ RF +  F      TI   ++ + +         QI DT G  ++ A
Sbjct: 6   VFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTYR-QVISCSKSICTLQITDTTGSHQFPA 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLE---ELRGHADKNIIIMLVGNKSDLETLR 117
           +           +LVY IT +QS + +    E   E++G+  + I IMLVGNK D    R
Sbjct: 65  MQRLSISKGHAFILVYSITSKQSLEELKPIYELICEIKGNNLEKIPIMLVGNKCDESPSR 124

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL 154
            V + +    A      FMETSA  + NV+  F  +L
Sbjct: 125 EVSSSEGAALARTWNCAFMETSAKTNHNVQELFQELL 161

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

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

 Score = 77.4 bits (191), Expect = 8e-18
 Identities = 49/173 (28%), Positives = 76/173 (43%), Gaps = 15/173 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD   GK+ LL  +A+  F  +   T+   + T   V + K ++  +WDTAGQE Y  
Sbjct: 8   VVGDGGCGKTCLLMVYAQGSFPEEYVPTVFENYVTTLQVPNGKIIELALWDTAGQEDYDR 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL------ 113
           +    Y      ++ Y +    S DNV  +W  E+  H      I+LVG K+DL      
Sbjct: 68  LRPLSYPDVDVILICYSVDNPTSLDNVEDKWYPEVN-HFCPGTPIVLVGLKTDLRKDKNS 126

Query: 114 -ETLRA-----VPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYR 159
              LRA     V  E  +  A+  G + ++E SA    NV+  F   +     
Sbjct: 127 VSKLRAQGLEPVTPEQGESVAKSIGAVAYIECSAKLMENVDEVFDAAINVALS 179

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

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

 Score = 72.8 bits (179), Expect = 7e-17
 Identities = 38/113 (33%), Positives = 54/113 (47%), Gaps = 4/113 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD   GKS LL++    EF  +     G      TL +        IWD  G+E  + 
Sbjct: 4   VIGDKGSGKSSLLSQLVGGEFPPEPLEIQGDTLAVDTLEVDGDTGLLNIWDFGGREELKF 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR---WLEELRGHADKNIIIMLVGNK 110
               + + A   +LVYD+T R+S + V+R   WL  LR      I ++LVGNK
Sbjct: 64  EHIIFMKWADAILLVYDLTDRESLNEVSRLIAWLPNLRK-LGGKIPVILVGNK 115

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

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

 Score = 71.8 bits (176), Expect = 8e-16
 Identities = 53/188 (28%), Positives = 80/188 (42%), Gaps = 20/188 (10%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F R  F    + T+  E     + +    V+  +WDTAGQE +  
Sbjct: 5   VLGDGACGKTSLLNVFTRGYFPQVYEPTV-FENYIHDIFVDGLAVELSLWDTAGQEEFDR 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           + S  Y      ML + +    S +NV ++WL E+R H    + ++LV  K DL   R  
Sbjct: 64  LRSLSYADTHVIMLCFSVDNPDSLENVESKWLAEIRHHCP-GVKLVLVALKCDLREPRNE 122

Query: 120 PTEDAKEFAEKEGLC---------FMETSALESTNVELAFLTVLTEIYRIVSKKALTAND 170
                   + +EGL          ++E SA  +  V  AF    TE  R+    AL A  
Sbjct: 123 RDRGTHTISYEEGLAVAKRINACRYLECSAKLNRGVNEAF----TEAARV----ALNARP 174

Query: 171 ESESGGSS 178
                 + 
Sbjct: 175 PHPHSRAC 182

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

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

 Score = 71.3 bits (175), Expect = 1e-15
 Identities = 50/166 (30%), Positives = 76/166 (45%), Gaps = 16/166 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 6   IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL------ 113
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL      
Sbjct: 65  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 123

Query: 114 -ETLR-----AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLT 152
              L       V  E+ +  AEK G   ++E SA     V   F  
Sbjct: 124 IRELAKMKQEPVKPEEGRAMAEKIGAFGYLECSAKTKEGVREVFEM 169

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

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

 Score = 71.4 bits (175), Expect = 1e-15
 Identities = 49/157 (31%), Positives = 73/157 (46%), Gaps = 3/157 (1%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +G + VGK+ L+ RF  D F    + T+  E  +K   +    V   I DT+G   + A+
Sbjct: 5   MGAAGVGKTALIQRFLYDTFEPKHRRTVE-ELHSKEYEVAGVKVTIDILDTSGSYSFPAM 63

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVP 120
                +      LVY +   +SF+ V R  EE L    DK + I++VGNK D    R V 
Sbjct: 64  RKLSIQNGDAFALVYSVDDPESFEEVKRLREEILEVKEDKFVPIVVVGNKIDSLAERQVE 123

Query: 121 TEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTE 156
             DA    E +    F+E SA ++ NV   F  +L +
Sbjct: 124 AADALSTVELDWNNGFVEASAKDNENVTEVFKELLQQ 160

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

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

 Score = 70.3 bits (172), Expect = 2e-15
 Identities = 52/163 (31%), Positives = 82/163 (50%), Gaps = 14/163 (8%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ +L  +  + F  D   T+   F +  +V+    V   +WDTAGQE Y  +
Sbjct: 7   VGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQEDYNRL 65

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLR--- 117
               YRGA   +L + +  + S++NV  +W+ ELR +A   + I+LVG K DL   +   
Sbjct: 66  RPLSYRGADVFLLAFSLISKASYENVLKKWIPELRHYA-PGVPIVLVGTKLDLRDDKQFF 124

Query: 118 -----AVP--TEDAKEFAEKEGLC-FMETSALESTNVELAFLT 152
                AVP  T   +E  ++ G   ++E S+    NV+  F  
Sbjct: 125 ADHPGAVPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDA 167

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

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

 Score = 69.7 bits (171), Expect = 9e-15
 Identities = 54/189 (28%), Positives = 85/189 (44%), Gaps = 10/189 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GDS VGKS L   F    +   +    G +   +T+ +  +     ++D   QE    
Sbjct: 5   LLGDSGVGKSSLANIFTAGVYEDSAYEASGDDTYERTVSVDGEEATLVVYDHWEQEDGMW 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +  +  +     ++VY +T R SF+  +    +LR     ++I I+LVGNKSDL   R V
Sbjct: 65  LEDSCMQVGDAYVIVYSVTDRSSFEKASELRIQLRRARQAEDIPIILVGNKSDLVRSREV 124

Query: 120 PTED----AKEFAEKEGLCFMETSALESTNVELAFLTVLTEI-YRIVSKKALTANDESES 174
             ++    A  F  K    F+ETSA    NV+  F  ++ ++  R  SK+  T    S  
Sbjct: 125 SVQEGRACAVVFDCK----FIETSAALQHNVDELFEGIVRQVRLRRDSKEKNTRRMASRK 180

Query: 175 GGSSSLLKA 183
              S   KA
Sbjct: 181 RRESITKKA 189

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

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

 Score = 68.7 bits (168), Expect = 1e-14
 Identities = 54/162 (33%), Positives = 77/162 (47%), Gaps = 14/162 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F   EF  +   T+   + T   V   K V+  +WDTAGQE Y  
Sbjct: 6   IVGDGACGKTSLLYVFTLGEFPEEYHPTVFENYVTDCRV-DGKPVQLALWDTAGQEEYER 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLE----- 114
           +    Y  A   ++ + I    S +NV  +W+EE+R +   N+ ++LVG K DL      
Sbjct: 65  LRPLSYSKAHVILIGFAIDTPDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQEAVA 123

Query: 115 -----TLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF 150
                T   VP + AK  A   G   +ME SAL    V+  F
Sbjct: 124 KGNYATDEFVPIQQAKLVARAIGAKKYMECSALTGEGVDDVF 165

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

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

 Score = 67.0 bits (164), Expect = 3e-14
 Identities = 32/154 (20%), Positives = 57/154 (37%), Gaps = 14/154 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTL-VIHHKNVKAQIWDTAGQERYR 59
           L+G   VGK+ L  +   ++F  D  +T G+  Q   +     K ++  +WD  GQE Y 
Sbjct: 6   LVGQGGVGKTSLCKQLIGEKFDGDESSTHGINVQDWKIPAPERKKIRLNVWDFGGQEIYH 65

Query: 60  AV------TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL 113
           A       + + Y      +LV+D+        V  WL +++     + +I LVG   D 
Sbjct: 66  ATHQFFLTSRSLY------LLVFDLRTGDEVSRVPYWLRQIKAFGGVSPVI-LVGTHIDE 118

Query: 114 ETLRAVPTEDAKEFAEKEGLCFMETSALESTNVE 147
                +  +   +            S      + 
Sbjct: 119 SCDEDILKKALNKKFPAIINDIHFVSCKNGKGIA 152

RocCOR (or Roco) protein family is characterized by a superdomain containing a Ras-like GTPase domain, called Roc (Ras of complex proteins), and a characteristic second domain called COR (C-terminal of Roc). A kinase domain and diverse regulatory domains are also often found in Roco proteins. Their functions are diverse; in Dictyostelium discoideum, which encodes 11 Roco proteins, they are involved in cell division, chemotaxis and development, while in human, where 4 Roco proteins (LRRK1, LRRK2, DAPK1, and MFHAS1) are encoded, these proteins are involved in epilepsy and cancer. Mutations in LRRK2 (leucine-rich repeat kinase 2) are known to cause familial Parkinson's disease. Length = 161

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

 Score = 63.4 bits (155), Expect = 6e-13
 Identities = 32/115 (27%), Positives = 55/115 (47%), Gaps = 6/115 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +    E    +  TIG  F  +T  + +KNVK  +WD  GQ++ R 
Sbjct: 4   MLGLDGAGKTTILYKLKLGEVV-TTIPTIG--FNVET--VEYKNVKFTVWDVGGQDKIRP 58

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE 114
           +   YY    G + V D + R+  +     L +L    + K   ++++ NK DL 
Sbjct: 59  LWKHYYENTDGLIFVVDSSDRERIEEAKNELHKLLNEEELKGAPLLILANKQDLP 113

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

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

 Score = 62.5 bits (152), Expect = 2e-12
 Identities = 38/116 (32%), Positives = 63/116 (54%), Gaps = 3/116 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GDS  GK+ LL  FA+D F  +   T+  E  T +  +  + ++  +WDT+G   Y  
Sbjct: 6   LVGDSQCGKTALLQVFAKDSFPENYVPTV-FENYTASFEVDKQRIELSLWDTSGSPYYDN 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   ++ +DI++ ++ D+V + W  E+R     N  ++LVG KSDL T
Sbjct: 65  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEVREFC-PNTPVLLVGCKSDLRT 119

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

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

 Score = 63.2 bits (154), Expect = 2e-12
 Identities = 41/166 (24%), Positives = 78/166 (46%), Gaps = 13/166 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G S VGK+ +++RF    F      TI  +F  K   I  +  +  I DT+G   + A
Sbjct: 5   VLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPA 63

Query: 61  VTS-AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK---------NIIIMLVGNK 110
           +   +   G V  +LV+ +  R+SF+ V R  E++                I +++ GNK
Sbjct: 64  MRRLSILTGDV-FILVFSLDNRESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNK 122

Query: 111 SDLETLRAVPTEDAKEF-AEKEGLCFMETSALESTNVELAFLTVLT 155
           +D +  R V  ++ ++     E   + E SA +++N++  F  + +
Sbjct: 123 ADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFS 168

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

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

 Score = 62.7 bits (152), Expect = 2e-12
 Identities = 47/178 (26%), Positives = 81/178 (45%), Gaps = 16/178 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +  +T V   + V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNYSAQTAV-DGRTVSLNLWDTAGQEEYDR 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           + +  Y      ++ + I    S++NV  +W  E+  H   N+ I+LVG K DL    +T
Sbjct: 67  LRTLSYPQTNVFIICFSIASPSSYENVRHKWHPEV-CHHCPNVPILLVGTKKDLRNDADT 125

Query: 116 LRAVPTEDAKEFAEKEG---------LCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           L+ +  +       ++G         + ++E SAL    V+  F   +  +      K
Sbjct: 126 LKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLNPTPIK 183

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

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

 Score = 61.6 bits (149), Expect = 5e-12
 Identities = 37/116 (31%), Positives = 63/116 (54%), Gaps = 3/116 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+  E  T +  I  + ++  +WDT+G   Y  
Sbjct: 10  VVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDN 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   ++ +DI++ ++ D+V + W  E++     N  ++LVG KSDL T
Sbjct: 69  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRT 123

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

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

 Score = 60.8 bits (148), Expect = 6e-12
 Identities = 45/153 (29%), Positives = 70/153 (45%), Gaps = 14/153 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+ L+   A  +FS D+  T+G   +  T      NV  ++WD  GQ R+R+
Sbjct: 4   LVGLQNSGKTTLVNVIASGQFSEDTIPTVGFNMRKVTK----GNVTIKVWDLGGQPRFRS 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLV-GNKSDLETLRAV 119
           +   Y RG    + V D   R+  +     L +L        I +LV GNK+DL    A+
Sbjct: 60  MWERYCRGVNAIVYVVDAADREKLEVAKNELHDLLEKPSLEGIPLLVLGNKNDLPG--AL 117

Query: 120 PTED------AKEFAEKEGLCFMETSALESTNV 146
             ++       K   ++E  C+   SA E TN+
Sbjct: 118 SVDELIEQMNLKSITDREVSCYS-ISAKEKTNI 149

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

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

 Score = 59.4 bits (144), Expect = 3e-11
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 6   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 65  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 123

Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 124 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 167

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

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

 Score = 57.3 bits (139), Expect = 1e-10
 Identities = 49/158 (31%), Positives = 70/158 (44%), Gaps = 22/158 (13%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLD-----SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ 55
           LIGD  VGKS L+     +EF  +      + TI  +   + +          I DT+ +
Sbjct: 7   LIGDEGVGKSSLIMSLVSEEFPENVPRVLPEITIPADVTPERVPTT-------IVDTSSR 59

Query: 56  ERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLE 114
            + RA  +A  R A    LVY + +  + + +  +WL  +R    K  II LVGNKSDL 
Sbjct: 60  PQDRANLAAEIRKANVICLVYSVDRPSTLERIRTKWLPLIRRLGVKVPII-LVGNKSDLR 118

Query: 115 TLRAVPT-EDA-----KEFAEKEGLCFMETSALESTNV 146
              +    E+       EF E E  C +E SA    NV
Sbjct: 119 DGSSQAGLEEEMLPIMNEFREIE-TC-VECSAKTLINV 154

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

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

 Score = 56.6 bits (136), Expect = 3e-10
 Identities = 44/164 (26%), Positives = 75/164 (45%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +A D F  +   T+   +   ++ +  K     ++DTAGQE Y  
Sbjct: 5   VVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHYAV-SVTVGGKQYLLGLYDTAGQEDYDR 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLE----T 115
           +    Y      ++ + +    SF NV   W+ EL+ +A  N+  +L+G + DL     T
Sbjct: 64  LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPYLLIGTQIDLRDDPKT 122

Query: 116 LRAVPTEDAKEFAEKEGL---------CFMETSALESTNVELAF 150
           L  +     K    ++G          C++E SAL    ++  F
Sbjct: 123 LARLNDMKEKPITVEQGQKLAKEIGACCYVECSALTQKGLKTVF 166

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

>gnl|CDD|133356 cd04156, ARLTS1, Arf-like tumor suppressor gene 1 (ARLTS1 or Arl11)

 Score = 55.5 bits (134), Expect = 6e-10
 Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 8/132 (6%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           DSA GKS LL +    E  + +  T+G  F  + L +  K++   +WD  GQE+ R V  
Sbjct: 8   DSA-GKSTLLYKLKHAEL-VTTIPTVG--FNVEMLQLE-KHLSLTVWDVGGQEKMRTVWK 62

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVPTE 122
            Y     G + V D +     D   + L+  L+    K + ++L+ NK DL    A+  E
Sbjct: 63  CYLENTDGLVYVVDSSDEARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG--ALTAE 120

Query: 123 DAKEFAEKEGLC 134
           +     + +  C
Sbjct: 121 EITRRFKLKKYC 132

ARLTS1 (Arf-like tumor suppressor gene 1), also known as Arl11, is a member of the Arf family of small GTPases that is believed to play a major role in apoptotic signaling. ARLTS1 is widely expressed and functions as a tumor suppressor gene in several human cancers. ARLTS1 is a low-penetrance suppressor that accounts for a small percentage of familial melanoma or familial chronic lymphocytic leukemia (CLL). ARLTS1 inactivation seems to occur most frequently through biallelic down-regulation by hypermethylation of the promoter. In breast cancer, ARLTS1 alterations were typically a combination of a hypomorphic polymorphism plus loss of heterozygosity. In a case of thyroid adenoma, ARLTS1 alterations were polymorphism plus promoter hypermethylation. The nonsense polymorphism Trp149Stop occurs with significantly greater frequency in familial cancer cases than in sporadic cancer cases, and the Cys148Arg polymorphism is associated with an increase in high-risk familial breast cancer. Length = 160

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

 Score = 55.3 bits (133), Expect = 7e-10
 Identities = 37/134 (27%), Positives = 60/134 (44%), Gaps = 11/134 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E S+ +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 18  MVGLDAAGKTTILYKLKLGE-SVTTIPTIGFNVET----VTYKNISFTVWDVGGQDKIRP 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY    G + V D   R   D     L  +    + ++ +I++  NK DL      
Sbjct: 73  LWRHYYTNTQGLIFVVDSNDRDRIDEAREELHRMLNEDELRDAVILVFANKQDLPD---- 128

Query: 120 PTEDAKEFAEKEGL 133
               A E  EK GL
Sbjct: 129 -AMKAAEITEKLGL 141

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

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

 Score = 54.9 bits (133), Expect = 9e-10
 Identities = 34/132 (25%), Positives = 55/132 (41%), Gaps = 9/132 (6%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ +L +    E    +  TIG  F  +T+    KNVK  +WD  GQE  R +  
Sbjct: 23  DNA-GKTTILYKLKLGEIV-TTIPTIG--FNVETVTY--KNVKFTVWDVGGQESLRPLWR 76

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            Y+      + V D   R   +     L  L    +  +  ++++ NK DL    A+   
Sbjct: 77  NYFPNTDAVIFVVDSADRDRIEEAKEELHALLNEEELADAPLLILANKQDLPG--AMSEA 134

Query: 123 DAKEFAEKEGLC 134
           + +E      L 
Sbjct: 135 EIRELLGLHELK 146

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

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

 Score = 53.9 bits (129), Expect = 3e-09
 Identities = 34/134 (25%), Positives = 60/134 (44%), Gaps = 8/134 (5%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +G    GK+ +L +  +DEF +    TIG   +T    + +KN+K  IWD  G+ + R +
Sbjct: 5   LGLDGAGKTTILFKLKQDEF-MQPIPTIGFNVET----VEYKNLKFTIWDVGGKHKLRPL 59

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVP 120
              YY      + V D + R         L +L    + ++ ++++  NK D+    A+ 
Sbjct: 60  WKHYYLNTQAVVFVIDSSHRDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALS 117

Query: 121 TEDAKEFAEKEGLC 134
            E+  E      LC
Sbjct: 118 VEEMTELLSLHKLC 131

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

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

 Score = 52.8 bits (126), Expect = 1e-08
 Identities = 34/116 (29%), Positives = 59/116 (50%), Gaps = 3/116 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ +L   A+D +      T+  E  T  L    + V+  +WDT+G   Y  
Sbjct: 18  LVGDVQCGKTAMLQVLAKDCYPETYVPTV-FENYTACLETEEQRVELSLWDTSGSPYYDN 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDN-VARWLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   +L +DI++ + FD+ + +W  E+  +   +  I+L+G K+DL T
Sbjct: 77  VRPLCYSDSDAVLLCFDISRPEIFDSALKKWRAEILDYC-PSTRILLIGCKTDLRT 131

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

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

 Score = 51.2 bits (123), Expect = 2e-08
 Identities = 40/158 (25%), Positives = 66/158 (41%), Gaps = 20/158 (12%)

Query: 4   DSAVGKSQLLARFARDEFSLDSK--------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQ 55
           D+A GK+  L +  + +FS + K         T+G+   T    I     +   WD  GQ
Sbjct: 8   DNA-GKTTFLEQ-TKTKFSKNYKGLNPSKITPTVGLNIGT----IEVGKARLMFWDLGGQ 61

Query: 56  ERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLE 114
           E  R++   YY  + G + V D T R+ F+      E+ +   A + + ++++ NK DL 
Sbjct: 62  EELRSLWDKYYAESHGVIYVIDSTDRERFNESKSAFEKVINNEALEGVPLLVLANKQDLP 121

Query: 115 TLRAVPT-----EDAKEFAEKEGLCFMETSALESTNVE 147
              +V       +D      +        SALE   VE
Sbjct: 122 DALSVAEIKEVFDDCIALIGRRDCLVQPVSALEGEGVE 159

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

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

 Score = 50.9 bits (122), Expect = 2e-08
 Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 6/114 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 14  MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL 113
           +   YY G  G + V D   R   D   + L  +    + ++ ++++  NK DL
Sbjct: 69  LWRHYYTGTQGLIFVVDSADRDRIDEARQELHRIINDREMRDALLLVFANKQDL 122

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

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

 Score = 50.8 bits (121), Expect = 6e-08
 Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 7/122 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD+  GK+ LL  FA+D +      T+  E  T +  I    ++  +WDT+G   Y  
Sbjct: 6   VVGDTQCGKTALLHVFAKDNYPESYVPTV-FENYTASFEIDKHRIELNMWDTSGSSYYDN 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNK----SDLET 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E +     N  ++LVG K    +DL T
Sbjct: 65  VRPLAYPDSDAVLICFDISRPETLDSVLKKWQGETQEFC-PNAKLVLVGCKLDMRTDLST 123

Query: 116 LR 117
           LR
Sbjct: 124 LR 125

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

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

 Score = 49.9 bits (119), Expect = 9e-08
 Identities = 35/177 (19%), Positives = 63/177 (35%), Gaps = 42/177 (23%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH---------KNVKAQIWD 51
           ++GDS VGKS L+    +++   +   T+G     +    HH         K    ++WD
Sbjct: 5   VLGDSGVGKSSLVHLLCKNQVLGNPSWTVGCSVDVR----HHTYGEGTPEEKTFYVELWD 60

Query: 52  TAGQ----ERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL------------- 94
             G     E  ++  + +Y    G + V+D+T ++S  N+ RW  E              
Sbjct: 61  VGGSVGSAESVKSTRAVFYNQINGIIFVHDLTNKKSSQNLYRWSLEALNRDTFPAGLLVT 120

Query: 95  ------RGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTN 145
                    A   + ++++G K D         E  + +         E    E  N
Sbjct: 121 NGDYDSEQFAGNPVPLLVIGTKLD------QIPEAKRNWVLTRTAFLSEDFNAEEIN 171

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

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

 Score = 49.9 bits (119), Expect = 1e-07
 Identities = 46/173 (26%), Positives = 73/173 (42%), Gaps = 26/173 (15%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWD--------- 51
           ++G   VGK+ ++ +F   EF  +   T         +V+  +     I D         
Sbjct: 5   VLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPG 64

Query: 52  TAGQE----RYRAV--TSAYYRGAVGAMLVYDITKRQSFDNVA---RWLEELRGHADKNI 102
           TAGQE    R+R +  + A+       +LVYDI    SF  V    + + E R   +K  
Sbjct: 65  TAGQEWMDPRFRGLRNSRAF-------ILVYDICSPDSFHYVKLLRQQILETRPAGNKEP 117

Query: 103 IIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVL 154
            I++VGNK D +  R  P         K   C ++E SA  + ++ L F  +L
Sbjct: 118 PIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELL 170

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

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

 Score = 49.1 bits (117), Expect = 1e-07
 Identities = 39/155 (25%), Positives = 73/155 (47%), Gaps = 16/155 (10%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 6   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL------ 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL      
Sbjct: 65  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPK-TPFLLVGTQIDLRDDPST 123

Query: 114 ------ETLRAVPTEDAKEFA-EKEGLCFMETSAL 141
                    + +  E  ++ A + + + ++E SAL
Sbjct: 124 IEKLAKNKQKPITPETGEKLARDLKAVKYVECSAL 158

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

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

 Score = 48.5 bits (116), Expect = 2e-07
 Identities = 34/117 (29%), Positives = 58/117 (49%), Gaps = 10/117 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIG--VEFQTKTLVIHHKNVKAQIWDTAGQERY 58
           ++G    GK+ +L +F   E  + +  TIG  VE       I +KN++  +WD  GQE  
Sbjct: 20  IVGLDNAGKTTILYQFLLGE-VVHTSPTIGSNVE------EIVYKNIRFLMWDIGGQESL 72

Query: 59  RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE 114
           R+  + YY      +LV D T R+        L ++  H D +  +++++ NK DL+
Sbjct: 73  RSSWNTYYTNTDAVILVIDSTDRERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLK 129

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

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

 Score = 48.3 bits (115), Expect = 3e-07
 Identities = 30/114 (26%), Positives = 57/114 (50%), Gaps = 6/114 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+K  +WD  GQ++ R 
Sbjct: 22  MVGLDAAGKTTILYKLKLGEV-VTTIPTIGFNVET----VEYKNLKFTMWDVGGQDKLRP 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL 113
           +   YY+   G + V D   R+   +    LE +    + ++ ++++  NK DL
Sbjct: 77  LWRHYYQNTNGLIFVVDSNDRERIGDAREELERMLSEDELRDAVLLVFANKQDL 130

Length = 182

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

 Score = 48.3 bits (115), Expect = 6e-07
 Identities = 38/164 (23%), Positives = 72/164 (43%), Gaps = 31/164 (18%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-------------HHKNVKA 47
           ++GDS VGKS L+    +         TIG     K +                 ++   
Sbjct: 26  VVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFV 85

Query: 48  QIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR------------ 95
           ++WD +G ERY+   S +Y    G + V+D+++R++  ++ +W  E+             
Sbjct: 86  ELWDVSGHERYKDCRSLFYSQINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSG 145

Query: 96  GHADKNIIIMLVGNKSDL---ETLRAVP---TEDAKEFAEKEGL 133
           G     +  +++GNK+D+   E  R       + A+++ EK+GL
Sbjct: 146 GPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGL 189

Length = 334

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

 Score = 47.0 bits (112), Expect = 7e-07
 Identities = 32/134 (23%), Positives = 61/134 (45%), Gaps = 11/134 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 5   MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y++   G + V D   R+        L+ +    + ++ ++++  NK DL      
Sbjct: 60  LWRHYFQNTQGLIFVVDSNDRERIGEAREELQRMLNEDELRDAVLLVFANKQDLPN---- 115

Query: 120 PTEDAKEFAEKEGL 133
               A E  +K GL
Sbjct: 116 -AMSAAEVTDKLGL 128

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

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

 Score = 45.7 bits (108), Expect = 2e-06
 Identities = 37/139 (26%), Positives = 66/139 (47%), Gaps = 21/139 (15%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 22  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 76

Query: 61  VTSAYYRGAVGAMLVYDITKR----QSFDNVARWL--EELRGHADKNIIIMLVGNKSDLE 114
           +   Y++   G + V D   R    ++ D + R L  +ELR     + ++++  NK DL 
Sbjct: 77  LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-----DAVLLVFANKQDLP 131

Query: 115 TLRAVPTEDAKEFAEKEGL 133
                   +A E  +K GL
Sbjct: 132 N-----AMNAAEITDKLGL 145

Length = 181

>gnl|CDD|133275 cd01873, RhoBTB, RhoBTB protein is an atypical member of the Rho family of small GTPases

 Score = 45.0 bits (106), Expect = 5e-06
 Identities = 44/185 (23%), Positives = 71/185 (38%), Gaps = 38/185 (20%)

Query: 1   LIGDSAVGK---------------SQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV 45
           ++GD+AVGK                QLLA      +++D         +    V+   +V
Sbjct: 7   VVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSV 66

Query: 46  KAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIII 104
             ++WDT G +  +    AY R  V  +L + I    S  NV   W  E+R      + +
Sbjct: 67  SLRLWDTFG-DHDKDRRFAYGRSDV-VLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPV 123

Query: 105 MLVGNKSDLETL-------------------RAVPTEDAKEFAEKEGLCFMETSALESTN 145
           +LVG K DL                        +P E  +  A++ G+ + ETS +    
Sbjct: 124 ILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFG 183

Query: 146 VELAF 150
           V+  F
Sbjct: 184 VKDVF 188

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. Length = 195

>gnl|CDD|206684 cd01897, NOG, Nucleolar GTP-binding protein (NOG)

 Score = 43.7 bits (104), Expect = 1e-05
 Identities = 43/162 (26%), Positives = 74/162 (45%), Gaps = 37/162 (22%)

Query: 7   VGKSQLLARFARDEFSLDSKATIGVE-----FQTKTLVIHH---KNVKAQIWDTAG---- 54
           VGKS L+ +  R +           E     F TK+L + H   K ++ Q+ DT G    
Sbjct: 11  VGKSSLVNKLTRAK----------PEVAPYPFTTKSLFVGHFDYKYLRWQVIDTPGILDR 60

Query: 55  --QER----YRAVTS-AYYRGAVGAMLVYDITKR--QSFDNVARWLEELRGHADKNIIIM 105
             +ER     +A+T+ A+ R AV  +   D ++    S +      +E++   +K +I++
Sbjct: 61  PLEERNTIEMQAITALAHLRAAV--LFFIDPSETCGYSIEEQLSLFKEIKPLFNKPVIVV 118

Query: 106 LVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVE 147
           L  NK DL T   +   + ++  EKEG   ++ S L    V+
Sbjct: 119 L--NKIDLLTEEDLS--EIEKELEKEGEEVIKISTLTEEGVD 156

NOG1 is a nucleolar GTP-binding protein present in eukaryotes ranging from trypanosomes to humans. 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. Length = 167

>gnl|CDD|206721 cd04155, Arl3, Arf-like 3 (Arl3) GTPase

 Score = 42.8 bits (101), Expect = 3e-05
 Identities = 38/131 (29%), Positives = 54/131 (41%), Gaps = 11/131 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+ +L + A ++ S     T G  F  K +       K  +WD  GQ + R 
Sbjct: 20  LLGLDNAGKTTILKQLASEDIS-HITPTQG--FNIKNVQ--ADGFKLNVWDIGGQRKIRP 74

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLV-GNKSDLETLRAV 119
               Y+      + V D   R+ F+   + L EL        + +LV  NK DL T  A 
Sbjct: 75  YWRNYFENTDVLIYVIDSADRKRFEEAGQELVELLEEEKLAGVPVLVFANKQDLLT--AA 132

Query: 120 PTEDAKEFAEK 130
           P E   E AE 
Sbjct: 133 PAE---EVAEA 140

Arl3 (Arf-like 3) is an Arf family protein that differs from most Arf family members in the N-terminal extension. In is inactive, GDP-bound form, the N-terminal extension forms an elongated loop that is hydrophobically anchored into the membrane surface; however, it has been proposed that this region might form a helix in the GTP-bound form. The delta subunit of the rod-specific cyclic GMP phosphodiesterase type 6 (PDEdelta) is an Arl3 effector. Arl3 binds microtubules in a regulated manner to alter specific aspects of cytokinesis via interactions with retinitis pigmentosa 2 (RP2). It has been proposed that RP2 functions in concert with Arl3 to link the cell membrane and the cytoskeleton in photoreceptors as part of the cell signaling or vesicular transport machinery. In mice, the absence of Arl3 is associated with abnormal epithelial cell proliferation and cyst formation. Length = 174

>gnl|CDD|225138 COG2229, COG2229, Predicted GTPase [General function prediction only]

 Score = 42.1 bits (99), Expect = 5e-05
 Identities = 34/146 (23%), Positives = 61/146 (41%), Gaps = 22/146 (15%)

Query: 1   LIGDSAVGKSQLLARFA------------RDEFSLDSKATIGVEFQTKTLVIHHKNVKAQ 48
           +IG    GK+  +   +                      T+ ++F +  L          
Sbjct: 15  VIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGSIELDEDTG---VH 71

Query: 49  IWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVG 108
           ++ T GQER++ +     RGAVGA+++ D ++  +F      ++ L     +N I ++V 
Sbjct: 72  LFGTPGQERFKFMWEILSRGAVGAIVLVDSSRPITFHAE-EIIDFLT---SRNPIPVVVA 127

Query: 109 -NKSDLETLRAVPTEDAKEFAEKEGL 133
            NK DL    A+P E  +E  + E L
Sbjct: 128 INKQDLFD--ALPPEKIREALKLELL 151

Length = 187

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

 Score = 41.7 bits (98), Expect = 6e-05
 Identities = 29/117 (24%), Positives = 57/117 (48%), Gaps = 7/117 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKA---QIWDTAGQER 57
           ++G  + GK+ +L R   +EF +++  T G  F T+ + +   N K      WD  GQE+
Sbjct: 8   MLGLDSAGKTTVLYRLKFNEF-VNTVPTKG--FNTEKIKVSLGNAKGVTFHFWDVGGQEK 64

Query: 58  YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDL 113
            R +  +Y R   G + V D    +  +     L ++ +   ++ + ++++ NK DL
Sbjct: 65  LRPLWKSYTRCTDGIVFVVDSVDVERMEEAKTELHKITKFSENQGVPVLVLANKQDL 121

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

>gnl|CDD|206718 cd04151, Arl1, ADP ribosylation factor 1 (Arf1)

 Score = 40.1 bits (94), Expect = 2e-04
 Identities = 33/115 (28%), Positives = 51/115 (44%), Gaps = 13/115 (11%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D A GK+ +L R    E  + +  TIG   +T    + +KN+K Q+WD  GQ   R    
Sbjct: 8   DGA-GKTTILYRLQVGEV-VTTIPTIGFNVET----VTYKNLKFQVWDLGGQTSIRPYWR 61

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLE 114
            YY      + V D T R   D +     EL    +    K+ ++++  NK D+ 
Sbjct: 62  CYYSNTDAIIYVVDSTDR---DRLGISKSELHAMLEEEELKDAVLLVFANKQDMP 113

Arl1 subfamily. Arl1 (Arf-like 1) localizes to the Golgi complex, where it is believed to recruit effector proteins to the trans-Golgi network. Like most members of the Arf family, Arl1 is myristoylated at its N-terminal helix and mutation of the myristoylation site disrupts Golgi targeting. In humans, the Golgi-localized proteins golgin-97 and golgin-245 have been identified as Arl1 effectors. Golgins are large coiled-coil proteins found in the Golgi, and these golgins contain a C-terminal GRIP domain, which is the site of Arl1 binding. Additional Arl1 effectors include the GARP (Golgi-associated retrograde protein)/VFT (Vps53) vesicle-tethering complex and Arfaptin 2. Arl1 is not required for exocytosis, but appears necessary for trafficking from the endosomes to the Golgi. In Drosophila zygotes, mutation of Arl1 is lethal, and in the host-bloodstream form of Trypanosoma brucei, Arl1 is essential for viability. Length = 158

>gnl|CDD|206722 cd04157, Arl6, Arf-like 6 (Arl6) GTPase

 Score = 38.9 bits (91), Expect = 4e-04
 Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 3/74 (4%)

Query: 44  NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD---K 100
           N+    +D +GQ +YR +   YY+   G + V D + R         LE L  H D   +
Sbjct: 44  NLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSSDRLRMVVAKDELELLLNHPDIKHR 103

Query: 101 NIIIMLVGNKSDLE 114
            I I+   NK DL 
Sbjct: 104 RIPILFYANKMDLP 117

Arl6 (Arf-like 6) forms a subfamily of the Arf family of small GTPases. Arl6 expression is limited to the brain and kidney in adult mice, but it is expressed in the neural plate and somites during embryogenesis, suggesting a possible role for Arl6 in early development. Arl6 is also believed to have a role in cilia or flagella function. Several proteins have been identified that bind Arl6, including Arl6 interacting protein (Arl6ip), and SEC61beta, a subunit of the heterotrimeric conducting channel SEC61p. Based on Arl6 binding to these effectors, Arl6 is also proposed to play a role in protein transport, membrane trafficking, or cell signaling during hematopoietic maturation. At least three specific homozygous Arl6 mutations in humans have been found to cause Bardet-Biedl syndrome, a disorder characterized by obesity, retinopathy, polydactyly, renal and cardiac malformations, learning disabilities, and hypogenitalism. Older literature suggests that Arl6 is a part of the Arl4/Arl7 subfamily, but analyses based on more recent sequence data place Arl6 in its own subfamily. Length = 162

>gnl|CDD|206645 cd00879, Sar1, Sar1 is an essential component of COPII vesicle coats

 Score = 36.9 bits (86), Expect = 0.003
 Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 3/84 (3%)

Query: 44  NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRG-HADKNI 102
           NVK   +D  G E+ R V   Y+    G + + D    + F      L+ L       N+
Sbjct: 62  NVKFTTFDLGGHEQARRVWKDYFPEVDGIVFLVDAADPERFQESKEELDSLLNDEELANV 121

Query: 103 IIMLVGNKSDLETLRAVPTEDAKE 126
            I+++GNK D     AV  E+ +E
Sbjct: 122 PILILGNKIDKP--GAVSEEELRE 143

Sar1 is an essential component of COPII vesicle coats involved in export of cargo from the ER. The GTPase activity of Sar1 functions as a molecular switch to control protein-protein and protein-lipid interactions that direct vesicle budding from the ER. Activation of the GDP to the GTP-bound form of Sar1 involves the membrane-associated guanine nucleotide exchange factor (GEF) Sec12. Sar1 is unlike all Ras superfamily GTPases that use either myristoyl or prenyl groups to direct membrane association and function, in that Sar1 lacks such modification. Instead, Sar1 contains a unique nine-amino-acid N-terminal extension. This extension contains an evolutionarily conserved cluster of bulky hydrophobic amino acids, referred to as the Sar1-N-terminal activation recruitment (STAR) motif. The STAR motif mediates the recruitment of Sar1 to ER membranes and facilitates its interaction with mammalian Sec12 GEF leading to activation. Length = 191

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	206
KOG0084	205	consensus GTPase Rab1/YPT1, small G protein superf	100.0
KOG0092	200	consensus GTPase Rab5/YPT51 and related small G pr	100.0
KOG0098	216	consensus GTPase Rab2, small G protein superfamily	100.0
KOG0078	207	consensus GTP-binding protein SEC4, small G protei	100.0
KOG0087	222	consensus GTPase Rab11/YPT3, small G protein super	100.0
KOG0094	221	consensus GTPase Rab6/YPT6/Ryh1, small G protein s	100.0
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	100.0
KOG0079	198	consensus GTP-binding protein H-ray, small G prote	100.0
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	100.0
PLN03110	216	Rab GTPase; Provisional	100.0
KOG0080	209	consensus GTPase Rab18, small G protein superfamil	100.0
KOG0091	213	consensus GTPase Rab39, small G protein superfamil	100.0
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	100.0
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	100.0
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	100.0
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	100.0
KOG0086	214	consensus GTPase Rab4, small G protein superfamily	100.0
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	100.0
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	100.0
KOG0093	193	consensus GTPase Rab3, small G protein superfamily	100.0
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	100.0
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	100.0
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	100.0
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	100.0
PTZ00369	189	Ras-like protein; Provisional	100.0
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	100.0
PLN03108	210	Rab family protein; Provisional	100.0
KOG0095	213	consensus GTPase Rab30, small G protein superfamil	100.0
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	100.0
KOG0394	210	consensus Ras-related GTPase [General function pre	100.0
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	100.0
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	100.0
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	100.0
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	100.0
KOG0088	218	consensus GTPase Rab21, small G protein superfamil	100.0
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	100.0
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	100.0
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	100.0
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	100.0
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	100.0
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	100.0
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
KOG0097	215	consensus GTPase Rab14, small G protein superfamil	100.0
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	100.0
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	100.0
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	100.0
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	100.0
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	100.0
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	100.0
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	100.0
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	100.0
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	100.0
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	100.0
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	100.0
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	100.0
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	100.0
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	100.0
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	100.0
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	100.0
KOG0081	219	consensus GTPase Rab27, small G protein superfamil	100.0
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	100.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	100.0
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	100.0
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	100.0
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	100.0
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	100.0
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	100.0
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	100.0
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	100.0
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	100.0
KOG0083	192	consensus GTPase Rab26/Rab37, small G protein supe	100.0
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	100.0
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	100.0
PLN03118	211	Rab family protein; Provisional	100.0
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	100.0
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	100.0
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	99.98
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.98
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	99.97
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.97
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.97
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	99.97
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.97
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	99.97
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.97
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.97
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.97
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.97
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.97
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.97
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.97
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.97
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.97
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	99.97
KOG0395	196	consensus Ras-related GTPase [General function pre	99.97
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.96
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.96
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	99.96
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	99.96
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	99.96
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	99.96
PLN00223	181	ADP-ribosylation factor; Provisional	99.96
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.96
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	99.96
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	99.96
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	99.96
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	99.96
PTZ00133	182	ADP-ribosylation factor; Provisional	99.96
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	99.96
KOG0393	198	consensus Ras-related small GTPase, Rho type [Gene	99.96
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	99.96
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	99.95
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	99.95
PTZ00099	176	rab6; Provisional	99.95
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	99.95
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	99.95
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	99.95
KOG4252	246	consensus GTP-binding protein [Signal transduction	99.95
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	99.95
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	99.95
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	99.94
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	99.94
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	99.94
PLN00023	334	GTP-binding protein; Provisional	99.94
smart00178	184	SAR Sar1p-like members of the Ras-family of small	99.94
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	99.94
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	99.93
PRK12299	335	obgE GTPase CgtA; Reviewed	99.93
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	99.93
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	99.93
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	99.93
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	99.92
KOG0073	185	consensus GTP-binding ADP-ribosylation factor-like	99.92
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	99.92
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	99.92
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	99.92
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	99.92
COG1100	219	GTPase SAR1 and related small G proteins [General	99.91
cd01881	176	Obg_like The Obg-like subfamily consists of five w	99.91
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.91
KOG0070	181	consensus GTP-binding ADP-ribosylation factor Arf1	99.91
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	99.91
KOG3883	198	consensus Ras family small GTPase [Signal transduc	99.9
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	99.9
KOG1673	205	consensus Ras GTPases [General function prediction	99.9
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	99.9
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	99.9
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	99.9
KOG0075	186	consensus GTP-binding ADP-ribosylation factor-like	99.89
PRK04213	201	GTP-binding protein; Provisional	99.89
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	99.89
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	99.89
PRK12297	424	obgE GTPase CgtA; Reviewed	99.89
cd00881	189	GTP_translation_factor GTP translation factor fami	99.88
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	99.88
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	99.88
KOG0071	180	consensus GTP-binding ADP-ribosylation factor Arf6	99.88
PRK15494	339	era GTPase Era; Provisional	99.88
PRK03003	472	GTP-binding protein Der; Reviewed	99.88
PF08477	119	Miro: Miro-like protein; InterPro: IPR013684 Mitoc	99.87
PRK15467	158	ethanolamine utilization protein EutP; Provisional	99.87
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	99.87
PRK11058	426	GTPase HflX; Provisional	99.87
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	99.87
PRK03003	472	GTP-binding protein Der; Reviewed	99.87
PRK12296	500	obgE GTPase CgtA; Reviewed	99.87
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	99.87
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	99.86
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	99.86
PRK12298	390	obgE GTPase CgtA; Reviewed	99.86
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	99.86
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.86
PRK00089	292	era GTPase Era; Reviewed	99.86
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	99.86
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	99.86
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	99.85
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	99.85
CHL00189	742	infB translation initiation factor 2; Provisional	99.84
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	99.84
PRK05306	787	infB translation initiation factor IF-2; Validated	99.84
COG1159	298	Era GTPase [General function prediction only]	99.84
KOG0076	197	consensus GTP-binding ADP-ribosylation factor-like	99.84
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	99.83
cd04105	203	SR_beta Signal recognition particle receptor, beta	99.83
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	99.83
PRK00093	435	GTP-binding protein Der; Reviewed	99.83
KOG0096	216	consensus GTPase Ran/TC4/GSP1 (nuclear protein tra	99.82
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	99.82
PRK05433	600	GTP-binding protein LepA; Provisional	99.82
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.82
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	99.82
PRK00093	435	GTP-binding protein Der; Reviewed	99.82
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	99.82
COG1160	444	Predicted GTPases [General function prediction onl	99.81
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	99.81
KOG0072	182	consensus GTP-binding ADP-ribosylation factor-like	99.79
COG0486	454	ThdF Predicted GTPase [General function prediction	99.79
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	99.79
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	99.79
cd01896	233	DRG The developmentally regulated GTP-binding prot	99.79
KOG4423	229	consensus GTP-binding protein-like, RAS superfamil	99.78
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	99.78
PRK10218	607	GTP-binding protein; Provisional	99.78
KOG0074	185	consensus GTP-binding ADP-ribosylation factor-like	99.78
PRK04004	586	translation initiation factor IF-2; Validated	99.78
cd04168	237	TetM_like Tet(M)-like subfamily. Tet(M), Tet(O), T	99.78
PRK12317	425	elongation factor 1-alpha; Reviewed	99.77
COG2229	187	Predicted GTPase [General function prediction only	99.77
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	99.77
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	99.77
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	99.76
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	99.76
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	99.76
COG1160	444	Predicted GTPases [General function prediction onl	99.76
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	99.74
cd04167	213	Snu114p Snu114p subfamily. Snu114p is one of sever	99.74
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	99.74
PRK04000	411	translation initiation factor IF-2 subunit gamma;	99.74
COG1084	346	Predicted GTPase [General function prediction only	99.73
COG2262	411	HflX GTPases [General function prediction only]	99.72
COG0218	200	Predicted GTPase [General function prediction only	99.72
KOG1489	366	consensus Predicted GTP-binding protein (ODN super	99.71
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	99.71
cd04169	267	RF3 RF3 subfamily. Peptide chain release factor 3	99.71
PRK12736	394	elongation factor Tu; Reviewed	99.7
PF04670	232	Gtr1_RagA: Gtr1/RagA G protein conserved region; I	99.7
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	99.7
PRK12735	396	elongation factor Tu; Reviewed	99.69
KOG1423	379	consensus Ras-like GTPase ERA [Cell cycle control,	99.69
TIGR00485	394	EF-Tu translation elongation factor TU. This align	99.68
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.67
KOG0077	193	consensus Vesicle coat complex COPII, GTPase subun	99.67
CHL00071	409	tufA elongation factor Tu	99.66
cd04170	268	EF-G_bact Elongation factor G (EF-G) subfamily. Tr	99.66
cd01850	276	CDC_Septin CDC/Septin. Septins are a conserved fam	99.66
PRK00741	526	prfC peptide chain release factor 3; Provisional	99.66
cd01886	270	EF-G Elongation factor G (EF-G) subfamily. Translo	99.66
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	99.66
COG0536	369	Obg Predicted GTPase [General function prediction	99.65
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	99.65
cd01885	222	EF2 EF2 (for archaea and eukarya). Translocation r	99.65
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	99.64
COG3596	296	Predicted GTPase [General function prediction only	99.64
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	99.63
COG1163	365	DRG Predicted GTPase [General function prediction	99.63
PRK13351	687	elongation factor G; Reviewed	99.62
PLN00043	447	elongation factor 1-alpha; Provisional	99.62
PRK00049	396	elongation factor Tu; Reviewed	99.61
PLN03126	478	Elongation factor Tu; Provisional	99.61
KOG0462	650	consensus Elongation factor-type GTP-binding prote	99.61
KOG1145	683	consensus Mitochondrial translation initiation fac	99.61
PF01926	116	MMR_HSR1: 50S ribosome-binding GTPase; InterPro: I	99.6
cd01852	196	AIG1 AIG1 (avrRpt2-induced gene 1). This represent	99.6
KOG1191	531	consensus Mitochondrial GTPase [Translation, ribos	99.6
PLN03127	447	Elongation factor Tu; Provisional	99.59
PTZ00141	446	elongation factor 1- alpha; Provisional	99.58
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	99.58
KOG1490	620	consensus GTP-binding protein CRFG/NOG1 (ODN super	99.57
PRK12740	668	elongation factor G; Reviewed	99.57
PRK12739	691	elongation factor G; Reviewed	99.56
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	99.56
PF09439	181	SRPRB: Signal recognition particle receptor beta s	99.56
PRK14845	1049	translation initiation factor IF-2; Provisional	99.55
TIGR00503	527	prfC peptide chain release factor 3. This translat	99.55
PRK09866	741	hypothetical protein; Provisional	99.54
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	99.54
TIGR00484	689	EF-G translation elongation factor EF-G. After pep	99.53
PRK00007	693	elongation factor G; Reviewed	99.51
PRK09602	396	translation-associated GTPase; Reviewed	99.51
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	99.46
COG5256	428	TEF1 Translation elongation factor EF-1alpha (GTPa	99.46
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	99.44
KOG3905	473	consensus Dynein light intermediate chain [Cell mo	99.41
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	99.41
TIGR00490	720	aEF-2 translation elongation factor aEF-2. This mo	99.39
PRK13768	253	GTPase; Provisional	99.39
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	99.38
cd01853	249	Toc34_like Toc34-like (Translocon at the Outer-env	99.37
TIGR00101	199	ureG urease accessory protein UreG. This model rep	99.36
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	99.36
KOG1144	1064	consensus Translation initiation factor 5B (eIF-5B	99.36
PRK09435	332	membrane ATPase/protein kinase; Provisional	99.36
TIGR00991	313	3a0901s02IAP34 GTP-binding protein (Chloroplast En	99.36
PTZ00258	390	GTP-binding protein; Provisional	99.36
PF04548	212	AIG1: AIG1 family; InterPro: IPR006703 This entry	99.35
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	99.33
KOG0090	238	consensus Signal recognition particle receptor, be	99.32
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	99.31
PRK09601	364	GTP-binding protein YchF; Reviewed	99.29
KOG1707	625	consensus Predicted Ras related/Rac-GTP binding pr	99.28
PRK07560	731	elongation factor EF-2; Reviewed	99.27
PTZ00416	836	elongation factor 2; Provisional	99.27
PLN00116	843	translation elongation factor EF-2 subunit; Provis	99.26
COG1217	603	TypA Predicted membrane GTPase involved in stress	99.26
cd01882	225	BMS1 Bms1. Bms1 is an essential, evolutionarily co	99.26
PF00350	168	Dynamin_N: Dynamin family; InterPro: IPR001401 Mem	99.25
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	99.24
TIGR02836	492	spore_IV_A stage IV sporulation protein A. A compa	99.24
KOG1532	366	consensus GTPase XAB1, interacts with DNA repair p	99.24
cd01900	274	YchF YchF subfamily. YchF is a member of the Obg f	99.22
KOG3886	295	consensus GTP-binding protein [Signal transduction	99.19
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	99.17
cd00066	317	G-alpha G protein alpha subunit. The alpha subunit	99.14
COG4108	528	PrfC Peptide chain release factor RF-3 [Translatio	99.14
COG0480	697	FusA Translation elongation factors (GTPases) [Tra	99.13
PF00735	281	Septin: Septin; InterPro: IPR000038 Septins consti	99.13
PF05049	376	IIGP: Interferon-inducible GTPase (IIGP); InterPro	99.12
KOG0458	603	consensus Elongation factor 1 alpha [Translation,	99.12
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	99.11
COG0050	394	TufB GTPases - translation elongation factors [Tra	99.11
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	99.11
smart00275	342	G_alpha G protein alpha subunit. Subunit of G prot	99.1
KOG0410	410	consensus Predicted GTP binding protein [General f	99.1
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	99.07
smart00053	240	DYNc Dynamin, GTPase. Large GTPases that mediate v	99.05
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	99.04
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	99.04
KOG0461	522	consensus Selenocysteine-specific elongation facto	99.02
TIGR00993	763	3a0901s04IAP86 chloroplast protein import componen	99.01
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	99.01
COG5019	373	CDC3 Septin family protein [Cell division and chro	99.0
COG0012	372	Predicted GTPase, probable translation factor [Tra	98.99
COG3276	447	SelB Selenocysteine-specific translation elongatio	98.99
PRK12289	352	GTPase RsgA; Reviewed	98.96
KOG0468	971	consensus U5 snRNP-specific protein [Translation,	98.94
KOG2655	366	consensus Septin family protein (P-loop GTPase) [C	98.93
KOG3887	347	consensus Predicted small GTPase involved in nucle	98.93
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.93
KOG0705	749	consensus GTPase-activating protein Centaurin gamm	98.91
PRK12288	347	GTPase RsgA; Reviewed	98.88
PRK00098	298	GTPase RsgA; Reviewed	98.86
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.83
KOG1954	532	consensus Endocytosis/signaling protein EHD1 [Sign	98.77
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.75
KOG1547	336	consensus Septin CDC10 and related P-loop GTPases	98.67
KOG0460	449	consensus Mitochondrial translation elongation fac	98.64
KOG0082	354	consensus G-protein alpha subunit (small G protein	98.64
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	98.58
KOG1486	364	consensus GTP-binding protein DRG2 (ODN superfamil	98.58
KOG0465	721	consensus Mitochondrial elongation factor [Transla	98.57
PRK10416	318	signal recognition particle-docking protein FtsY;	98.57
TIGR03348	1169	VI_IcmF type VI secretion protein IcmF. Members of	98.55
KOG0448	749	consensus Mitofusin 1 GTPase, involved in mitochon	98.54
COG1618	179	Predicted nucleotide kinase [Nucleotide transport	98.54
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	98.54
KOG0464	753	consensus Elongation factor G [Translation, riboso	98.52
TIGR00064	272	ftsY signal recognition particle-docking protein F	98.52
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	98.5
COG5258	527	GTPBP1 GTPase [General function prediction only]	98.48
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	98.48
PRK14974	336	cell division protein FtsY; Provisional	98.45
TIGR01425	429	SRP54_euk signal recognition particle protein SRP5	98.45
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.44
TIGR00092	368	GTP-binding protein YchF. This predicted GTP-bindi	98.43
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	98.43
PRK13796	365	GTPase YqeH; Provisional	98.43
PRK12288	347	GTPase RsgA; Reviewed	98.42
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.41
COG1161	322	Predicted GTPases [General function prediction onl	98.41
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	98.39
PRK01889	356	GTPase RsgA; Reviewed	98.39
KOG2486	320	consensus Predicted GTPase [General function predi	98.38
cd01851	224	GBP Guanylate-binding protein (GBP), N-terminal do	98.38
COG1162	301	Predicted GTPases [General function prediction onl	98.35
PRK12289	352	GTPase RsgA; Reviewed	98.34
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.3
KOG1491	391	consensus Predicted GTP-binding protein (ODN super	98.28
PRK14722	374	flhF flagellar biosynthesis regulator FlhF; Provis	98.28
KOG0466	466	consensus Translation initiation factor 2, gamma s	98.28
cd03112	158	CobW_like The function of this protein family is u	98.27
PF09547	492	Spore_IV_A: Stage IV sporulation protein A (spore_	98.26
KOG0467	887	consensus Translation elongation factor 2/ribosome	98.25
COG1162	301	Predicted GTPases [General function prediction onl	98.25
PF00503	389	G-alpha: G-protein alpha subunit; InterPro: IPR001	98.25
cd03115	173	SRP The signal recognition particle (SRP) mediates	98.23
COG5192	1077	BMS1 GTP-binding protein required for 40S ribosome	98.22
PRK09563	287	rbgA GTPase YlqF; Reviewed	98.22
PF00448	196	SRP54: SRP54-type protein, GTPase domain; InterPro	98.2
COG3523	1188	IcmF Type VI protein secretion system component Va	98.2
KOG4273	418	consensus Uncharacterized conserved protein [Funct	98.2
PRK13796	365	GTPase YqeH; Provisional	98.15
KOG1143	591	consensus Predicted translation elongation factor	98.14
KOG1487	358	consensus GTP-binding protein DRG1 (ODN superfamil	98.11
PRK14721	420	flhF flagellar biosynthesis regulator FlhF; Provis	98.11
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.1
PRK00098	298	GTPase RsgA; Reviewed	98.09
cd03114	148	ArgK-like The function of this protein family is u	98.07
PRK12727	559	flagellar biosynthesis regulator FlhF; Provisional	98.06
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	98.03
PRK05703	424	flhF flagellar biosynthesis regulator FlhF; Valida	98.03
KOG3859	406	consensus Septins (P-loop GTPases) [Cell cycle con	98.01
PRK00771	437	signal recognition particle protein Srp54; Provisi	97.96
cd02038	139	FleN-like FleN is a member of the Fer4_NifH superf	97.96
PRK11537	318	putative GTP-binding protein YjiA; Provisional	97.96
KOG0447	980	consensus Dynamin-like GTP binding protein [Genera	97.95
PRK10867	433	signal recognition particle protein; Provisional	97.94
KOG0085	359	consensus G protein subunit Galphaq/Galphay, small	97.93
KOG1534	273	consensus Putative transcription factor FET5 [Tran	97.93
PRK14723	767	flhF flagellar biosynthesis regulator FlhF; Provis	97.93
COG1419	407	FlhF Flagellar GTP-binding protein [Cell motility	97.91
KOG0099	379	consensus G protein subunit Galphas, small G prote	97.91
PRK06995	484	flhF flagellar biosynthesis regulator FlhF; Valida	97.89
COG0523	323	Putative GTPases (G3E family) [General function pr	97.88
PRK11889	436	flhF flagellar biosynthesis regulator FlhF; Provis	97.88
KOG0463	641	consensus GTP-binding protein GP-1 [General functi	97.85
PF06858	58	NOG1: Nucleolar GTP-binding protein 1 (NOG1); Inte	97.83
TIGR00959	428	ffh signal recognition particle protein. This mode	97.82
KOG1424	562	consensus Predicted GTP-binding protein MMR1 [Gene	97.79
PRK12726	407	flagellar biosynthesis regulator FlhF; Provisional	97.77
cd03111	106	CpaE_like This protein family consists of proteins	97.75
PRK12724	432	flagellar biosynthesis regulator FlhF; Provisional	97.75
PRK13695	174	putative NTPase; Provisional	97.73
PRK12723	388	flagellar biosynthesis regulator FlhF; Provisional	97.71
PF02492	178	cobW: CobW/HypB/UreG, nucleotide-binding domain; I	97.69
PF03266	168	NTPase_1: NTPase; InterPro: IPR004948 This entry r	97.63
cd02036	179	MinD Bacterial cell division requires the formatio	97.6
cd03110	179	Fer4_NifH_child This protein family's function is	97.57
cd02042	104	ParA ParA and ParB of Caulobacter crescentus belon	97.56
cd01983	99	Fer4_NifH The Fer4_NifH superfamily contains a var	97.54
KOG0780	483	consensus Signal recognition particle, subunit Srp	97.48
KOG1533	290	consensus Predicted GTPase [General function predi	97.47
PRK06731	270	flhF flagellar biosynthesis regulator FlhF; Valida	97.47
cd00009	151	AAA The AAA+ (ATPases Associated with a wide varie	97.44
PF07015	231	VirC1: VirC1 protein; InterPro: IPR009744 This fam	97.4
KOG0459	501	consensus Polypeptide release factor 3 [Translatio	97.27
TIGR02475	341	CobW cobalamin biosynthesis protein CobW. A broade	97.25
PF13401	131	AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S	97.25
PF13555	62	AAA_29: P-loop containing region of AAA domain	97.25
COG0541	451	Ffh Signal recognition particle GTPase [Intracellu	97.25
PF00004	132	AAA: ATPase family associated with various cellula	97.17
KOG2484	435	consensus GTPase [General function prediction only	97.15
PF05621	302	TniB: Bacterial TniB protein; InterPro: IPR008868	97.14
KOG2485	335	consensus Conserved ATP/GTP binding protein [Gener	97.14
TIGR00150	133	HI0065_YjeE ATPase, YjeE family. Members of this f	97.06
COG0802	149	Predicted ATPase or kinase [General function predi	97.01
PF13207	121	AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6	97.01
COG3845	501	ABC-type uncharacterized transport systems, ATPase	96.98
cd03222	177	ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibi	96.97
COG0552	340	FtsY Signal recognition particle GTPase [Intracell	96.96
PRK04195	482	replication factor C large subunit; Provisional	96.96
KOG0469	842	consensus Elongation factor 2 [Translation, riboso	96.95
PF13671	143	AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1	96.95
PRK10646	153	ADP-binding protein; Provisional	96.9
cd02019	69	NK Nucleoside/nucleotide kinase (NK) is a protein	96.86
PRK00411	394	cdc6 cell division control protein 6; Reviewed	96.8
PF00005	137	ABC_tran: ABC transporter This structure is on hol	96.73
COG3640	255	CooC CO dehydrogenase maturation factor [Cell divi	96.73
PF05879	742	RHD3: Root hair defective 3 GTP-binding protein (R	96.73
PRK08118	167	topology modulation protein; Reviewed	96.7
COG0194	191	Gmk Guanylate kinase [Nucleotide transport and met	96.7
COG1126	240	GlnQ ABC-type polar amino acid transport system, A	96.69
cd04178	172	Nucleostemin_like Nucleostemin-like. Nucleostemin	96.69
PRK01889	356	GTPase RsgA; Reviewed	96.68
PRK07261	171	topology modulation protein; Provisional	96.64
smart00382	148	AAA ATPases associated with a variety of cellular	96.64
COG0563	178	Adk Adenylate kinase and related kinases [Nucleoti	96.64
COG1136	226	SalX ABC-type antimicrobial peptide transport syst	96.63
cd01131	198	PilT Pilus retraction ATPase PilT. PilT is a nucle	96.61
PF02367	123	UPF0079: Uncharacterised P-loop hydrolase UPF0079;	96.61
PRK05416	288	glmZ(sRNA)-inactivating NTPase; Provisional	96.6
KOG2423	572	consensus Nucleolar GTPase [General function predi	96.6
cd00267	157	ABC_ATPase ABC (ATP-binding cassette) transporter	96.59
cd03221	144	ABCF_EF-3 ABCF_EF-3 Elongation factor 3 (EF-3) is	96.59
COG1120	258	FepC ABC-type cobalamin/Fe3+-siderophores transpor	96.59
PLN03025	319	replication factor C subunit; Provisional	96.58
PF11111	176	CENP-M: Centromere protein M (CENP-M); InterPro: I	96.57
PRK14737	186	gmk guanylate kinase; Provisional	96.56
cd00071	137	GMPK Guanosine monophosphate kinase (GMPK, EC 2.7.	96.52
PHA02518	211	ParA-like protein; Provisional	96.48
cd01129	264	PulE-GspE PulE/GspE The type II secretory pathway	96.48
PRK10078	186	ribose 1,5-bisphosphokinase; Provisional	96.47
COG1161	322	Predicted GTPases [General function prediction onl	96.46
cd03255	218	ABC_MJ0796_Lo1CDE_FtsE This family is comprised of	96.45
COG1116	248	TauB ABC-type nitrate/sulfonate/bicarbonate transp	96.45
TIGR02322	179	phosphon_PhnN phosphonate metabolism protein/1,5-b	96.44
PRK14738	206	gmk guanylate kinase; Provisional	96.44
cd01130	186	VirB11-like_ATPase Type IV secretory pathway compo	96.43
COG1121	254	ZnuC ABC-type Mn/Zn transport systems, ATPase comp	96.42
PF13238	129	AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB	96.42
TIGR01360	188	aden_kin_iso1 adenylate kinase, isozyme 1 subfamil	96.42
cd03225	211	ABC_cobalt_CbiO_domain1 Domain I of the ABC compon	96.41
PRK13851	344	type IV secretion system protein VirB11; Provision	96.39
TIGR01166	190	cbiO cobalt transport protein ATP-binding subunit.	96.38
cd03226	205	ABC_cobalt_CbiO_domain2 Domain II of the ABC compo	96.37
cd00820	107	PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPC	96.35
TIGR00960	216	3a0501s02 Type II (General) Secretory Pathway (IIS	96.34
cd03261	235	ABC_Org_Solvent_Resistant ABC (ATP-binding cassett	96.33
cd02023	198	UMPK Uridine monophosphate kinase (UMPK, EC 2.7.1.	96.33
cd02025	220	PanK Pantothenate kinase (PanK) catalyzes the phos	96.32
cd03238	176	ABC_UvrA The excision repair protein UvrA; Nucleot	96.31
cd03293	220	ABC_NrtD_SsuB_transporters NrtD and SsuB are the A	96.3
cd03229	178	ABC_Class3 This class is comprised of all BPD (Bin	96.3
PRK08727	233	hypothetical protein; Validated	96.3
PRK08233	182	hypothetical protein; Provisional	96.3
PF03205	140	MobB: Molybdopterin guanine dinucleotide synthesis	96.3
PF00406	151	ADK: Adenylate kinase; InterPro: IPR000850 Adenyla	96.29
COG4559	259	ABC-type hemin transport system, ATPase component	96.29
TIGR00235	207	udk uridine kinase. Model contains a number of lon	96.29
TIGR02673	214	FtsE cell division ATP-binding protein FtsE. This	96.29
COG1117	253	PstB ABC-type phosphate transport system, ATPase c	96.28

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

Probab=100.00  E-value=2e-41  Score=235.13  Aligned_cols=164  Identities=53%  Similarity=0.831  Sum_probs=157.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.|||||+|+.||.+..|...+..|+|.++..+.+.+++..+.++||||+|+++|++....|+++|+++|+|||+++
T Consensus        14 liGds~VGKtCL~~Rf~~~~f~e~~~sTIGVDf~~rt~e~~gk~iKlQIWDTAGQERFrtit~syYR~ahGii~vyDiT~   93 (205)
T KOG0084|consen   14 LIGDSGVGKTCLLLRFKDDTFTESYISTIGVDFKIRTVELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIFVYDITK   93 (205)
T ss_pred             EECCCCcChhhhhhhhccCCcchhhcceeeeEEEEEEeeecceEEEEEeeeccccHHHhhhhHhhccCCCeEEEEEEccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      .+||..+..|+.++.++...++|.++|+||+|+...+.++.++++.++.+++++ ++++||+++.||+++|..+...+.+
T Consensus        94 ~~SF~~v~~Wi~Ei~~~~~~~v~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~  173 (205)
T KOG0084|consen   94 QESFNNVKRWIQEIDRYASENVPKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQ  173 (205)
T ss_pred             HHHhhhHHHHHHHhhhhccCCCCeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHH
Confidence            999999999999999999889999999999999988999999999999999999 9999999999999999999988877


Q ss_pred             Hhhhh
Q 040835          160 IVSKK  164 (206)
Q Consensus       160 ~~~~~  164 (206)
                      +....
T Consensus       174 ~~~~~  178 (205)
T KOG0084|consen  174 RKGLH  178 (205)
T ss_pred             hcccC
Confidence            75544

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

Probab=100.00  E-value=1.5e-40  Score=230.00  Aligned_cols=166  Identities=45%  Similarity=0.737  Sum_probs=157.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..+||||||+.||..+.|.+...+|+|--+....+.++...++|.||||+|+++|..+.+.|+++|+++|+|||+++
T Consensus        10 LLG~~~VGKSSlV~Rfvk~~F~e~~e~TIGaaF~tktv~~~~~~ikfeIWDTAGQERy~slapMYyRgA~AAivvYDit~   89 (200)
T KOG0092|consen   10 LLGDSGVGKSSLVLRFVKDQFHENIEPTIGAAFLTKTVTVDDNTIKFEIWDTAGQERYHSLAPMYYRGANAAIVVYDITD   89 (200)
T ss_pred             EECCCCCCchhhhhhhhhCccccccccccccEEEEEEEEeCCcEEEEEEEEcCCcccccccccceecCCcEEEEEEeccc
Confidence            58999999999999999999999889999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .+||..++.|+..+.+..++++-+.+++||+|+...+++..+++..++...|+.+||+||+++.||+++|..|.+.+...
T Consensus        90 ~~SF~~aK~WvkeL~~~~~~~~vialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~  169 (200)
T KOG0092|consen   90 EESFEKAKNWVKELQRQASPNIVIALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCS  169 (200)
T ss_pred             HHHHHHHHHHHHHHHhhCCCCeEEEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCc
Confidence            99999999999999998888888999999999998899999999999999999999999999999999999999998877


Q ss_pred             hhhhhc
Q 040835          161 VSKKAL  166 (206)
Q Consensus       161 ~~~~~~  166 (206)
                      ......
T Consensus       170 ~~~~~~  175 (200)
T KOG0092|consen  170 DPQERQ  175 (200)
T ss_pred             cccccc
Confidence            655443

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

Probab=100.00  E-value=4.6e-40  Score=225.93  Aligned_cols=203  Identities=45%  Similarity=0.770  Sum_probs=177.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|||||+|+.+|+...|.+..+.|+|.++....++++++.++++||||+|++.|.+.++.|++.+-++|+|||+++
T Consensus        11 iiGd~gVGKSclllrf~~krF~~~hd~TiGvefg~r~~~id~k~IKlqiwDtaGqe~frsv~~syYr~a~GalLVydit~   90 (216)
T KOG0098|consen   11 IIGDTGVGKSCLLLRFTDKRFQPVHDLTIGVEFGARMVTIDGKQIKLQIWDTAGQESFRSVTRSYYRGAAGALLVYDITR   90 (216)
T ss_pred             EECCCCccHHHHHHHHhccCccccccceeeeeeceeEEEEcCceEEEEEEecCCcHHHHHHHHHHhccCcceEEEEEccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +++|..+..|+..+..+...+..+++++||+|+...+.++.+|.+.|++++|+.++++||++++||++.|......|++.
T Consensus        91 r~sF~hL~~wL~D~rq~~~~NmvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~  170 (216)
T KOG0098|consen   91 RESFNHLTSWLEDARQHSNENMVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRK  170 (216)
T ss_pred             hhhHHHHHHHHHHHHHhcCCCcEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHH
Confidence            99999999999999998778999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhhhcccCCCCCC-CCCCccccccccccCCCCCCCCCCC--cccc
Q 040835          161 VSKKALTANDESES-GGSSSLLKATNIVVPGQEPESGRRS--YNCC  203 (206)
Q Consensus       161 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~  203 (206)
                      -.........+... -....+++..++....++-.-.++-  .+||
T Consensus       171 ~q~g~~~~~~~~k~k~k~~p~~~~~~~~~~~~~~~~~~~~~s~gcc  216 (216)
T KOG0098|consen  171 IQDGVFDDINESKGKIKIGPQIRRIRVSIASSDMSGSEGGASDGCC  216 (216)
T ss_pred             HHhcccccccccccceeecccccccccCcccccccccccccccCCC
Confidence            77766555444433 2345556666666655443222222  4566

>KOG0078 consensus GTP-binding protein SEC4, small G protein superfamily, and related Ras family GTP-binding proteins [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.9e-39  Score=228.42  Aligned_cols=166  Identities=47%  Similarity=0.814  Sum_probs=159.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||+|+.+|..+.+...+..|+|.++..+.+.+++..+.+++|||+|+++|..+...|++.|+++++|||+++
T Consensus        17 liGDs~vGKt~~l~rf~d~~f~~~~~sTiGIDFk~kti~l~g~~i~lQiWDtaGQerf~ti~~sYyrgA~gi~LvyDitn   96 (207)
T KOG0078|consen   17 LIGDSGVGKTCLLLRFSDDSFNTSFISTIGIDFKIKTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGILLVYDITN   96 (207)
T ss_pred             EECCCCCchhHhhhhhhhccCcCCccceEEEEEEEEEEEeCCeEEEEEEEEcccchhHHHHHHHHHhhcCeeEEEEEccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ..+|+++..|+..+..+....+|.++|+||+|+...++++.+..++++.++|++++||||++|.||+++|..|.+.++..
T Consensus        97 e~Sfeni~~W~~~I~e~a~~~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k  176 (207)
T KOG0078|consen   97 EKSFENIRNWIKNIDEHASDDVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQK  176 (207)
T ss_pred             hHHHHHHHHHHHHHHhhCCCCCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhh
Confidence            99999999999999999988999999999999999999999999999999999999999999999999999999999986


Q ss_pred             hhhhhc
Q 040835          161 VSKKAL  166 (206)
Q Consensus       161 ~~~~~~  166 (206)
                      ......
T Consensus       177 ~~~~~~  182 (207)
T KOG0078|consen  177 LEDAEL  182 (207)
T ss_pred             cchhhh
Confidence            665533

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

Probab=100.00  E-value=6.3e-39  Score=224.86  Aligned_cols=172  Identities=76%  Similarity=1.135  Sum_probs=165.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||-|+.+|..+.|...+.+|+|.++....+.++++.+..+||||+|+++|+.....|++++.++++|||++.
T Consensus        19 liGDS~VGKsnLlsRftrnEF~~~SksTIGvef~t~t~~vd~k~vkaqIWDTAGQERyrAitSaYYrgAvGAllVYDITr   98 (222)
T KOG0087|consen   19 LIGDSAVGKSNLLSRFTRNEFSLESKSTIGVEFATRTVNVDGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITR   98 (222)
T ss_pred             EeCCCccchhHHHHHhcccccCcccccceeEEEEeeceeecCcEEEEeeecccchhhhccccchhhcccceeEEEEechh
Confidence            48999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+|+.+.+|+.+++.+...++++++|+||+||...+.+..++...+++..++.++++||.+..||.++|..++..|++.
T Consensus        99 ~~Tfenv~rWL~ELRdhad~nivimLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~  178 (222)
T KOG0087|consen   99 RQTFENVERWLKELRDHADSNIVIMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKI  178 (222)
T ss_pred             HHHHHHHHHHHHHHHhcCCCCeEEEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHH
Confidence            99999999999999999999999999999999998899999999999999999999999999999999999999999999


Q ss_pred             hhhhhcccCCCC
Q 040835          161 VSKKALTANDES  172 (206)
Q Consensus       161 ~~~~~~~~~~~~  172 (206)
                      ..++........
T Consensus       179 vs~k~~~~~~~~  190 (222)
T KOG0087|consen  179 VSKKQLDENNDP  190 (222)
T ss_pred             HHHHhhhccccc
Confidence            999877666543

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

Probab=100.00  E-value=8.3e-39  Score=221.43  Aligned_cols=161  Identities=40%  Similarity=0.713  Sum_probs=151.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..+||||||+++|+.+.|...|.+|+|.++...++.+.+..+.+++|||+|+++|+.+.+.|++++.++|+|||+++
T Consensus        27 flGdqsVGKTslItRf~yd~fd~~YqATIGiDFlskt~~l~d~~vrLQlWDTAGQERFrslipsY~Rds~vaviVyDit~  106 (221)
T KOG0094|consen   27 FLGDQSVGKTSLITRFMYDKFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSSVAVIVYDITD  106 (221)
T ss_pred             EEccCccchHHHHHHHHHhhhcccccceeeeEEEEEEEEEcCcEEEEEEEecccHHHHhhhhhhhccCCeEEEEEEeccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCC-CCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~-~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ..+|++...|+..+....+. ++-+++|+||.||...+++..++....++++++.|+++||+.|+||..+|..|...++.
T Consensus       107 ~~Sfe~t~kWi~dv~~e~gs~~viI~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~  186 (221)
T KOG0094|consen  107 RNSFENTSKWIEDVRRERGSDDVIIFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPG  186 (221)
T ss_pred             cchHHHHHHHHHHHHhccCCCceEEEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccC
Confidence            99999999999999877765 58899999999999999999999999999999999999999999999999987766655


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       187 ~~  188 (221)
T KOG0094|consen  187 ME  188 (221)
T ss_pred             cc
Confidence            53

>cd04120 Rab12 Rab12 subfamily

Probab=100.00  E-value=4.3e-37  Score=223.95  Aligned_cols=160  Identities=42%  Similarity=0.768  Sum_probs=147.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..|||||||+++|..+.+...+.+|++..+....+.+++..+.+.+|||+|++.|..++..+++++|++|+|||+++
T Consensus         5 vlG~~gVGKTSli~r~~~~~f~~~~~~Ti~~~~~~~~i~~~~~~v~l~iwDtaGqe~~~~l~~~y~~~ad~iIlVfDvtd   84 (202)
T cd04120           5 IIGSRGVGKTSLMRRFTDDTFCEACKSGVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITK   84 (202)
T ss_pred             EECcCCCCHHHHHHHHHhCCCCCcCCCcceeEEEEEEEEECCEEEEEEEEeCCCchhhHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999999998888998888887788888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++|+.+..|+..+......+.|+++|+||+|+...+.+..++..++++++ ++.+++|||++|.||+++|.++++.+.+
T Consensus        85 ~~Sf~~l~~w~~~i~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~  164 (202)
T cd04120          85 KETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK  164 (202)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHH
Confidence            999999999999887766567999999999999877888888899999885 7899999999999999999999988865


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       165 ~  165 (202)
T cd04120         165 K  165 (202)
T ss_pred             h
Confidence            4

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

>KOG0079 consensus GTP-binding protein H-ray, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.9e-37  Score=205.30  Aligned_cols=160  Identities=51%  Similarity=0.795  Sum_probs=155.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||+|+.+|..+.|...|..|+|+++..+++.+++..++++|||++|++.|..+...|+++.+++|+|||+++
T Consensus        13 IigDsgVGKssLl~rF~ddtFs~sYitTiGvDfkirTv~i~G~~VkLqIwDtAGqErFrtitstyyrgthgv~vVYDVTn   92 (198)
T KOG0079|consen   13 IIGDSGVGKSSLLLRFADDTFSGSYITTIGVDFKIRTVDINGDRVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN   92 (198)
T ss_pred             eecCCcccHHHHHHHHhhcccccceEEEeeeeEEEEEeecCCcEEEEEEeecccHHHHHHHHHHHccCCceEEEEEECcc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++|.+.++|++.++..+ +.+|-++|+||.|....+.+..++++.++...|+.+||+|++..+|+...|..|.+.+++.
T Consensus        93 ~ESF~Nv~rWLeei~~nc-dsv~~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~  171 (198)
T KOG0079|consen   93 GESFNNVKRWLEEIRNNC-DSVPKVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQA  171 (198)
T ss_pred             hhhhHhHHHHHHHHHhcC-ccccceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHH
Confidence            999999999999999988 4799999999999998889999999999999999999999999999999999999999888


Q ss_pred             h
Q 040835          161 V  161 (206)
Q Consensus       161 ~  161 (206)
                      .
T Consensus       172 k  172 (198)
T KOG0079|consen  172 K  172 (198)
T ss_pred             H
Confidence            7

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=100.00  E-value=2.9e-36  Score=220.66  Aligned_cols=166  Identities=37%  Similarity=0.626  Sum_probs=146.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|+++.+...+.+|.+.++....+.++ +..+.+.+|||+|++.+..++..+++++|++|+|||++
T Consensus         5 ivG~~~vGKTsli~~l~~~~~~~~~~~t~~~d~~~~~v~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~a~~~ilv~D~t   84 (201)
T cd04107           5 VIGDLGVGKTSIIKRYVHGIFSQHYKATIGVDFALKVIEWDPNTVVRLQLWDIAGQERFGGMTRVYYRGAVGAIIVFDVT   84 (201)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCCCEEEEEEEECCCchhhhhhHHHHhCCCCEEEEEEECC
Confidence            68999999999999999999988888988877777777777 77899999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++++.+..|+..+....    ..++|+++|+||+|+...+.+..+++..++...+ ..++++||+++.|++++|.+++
T Consensus        85 ~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~  164 (201)
T cd04107          85 RPSTFEAVLKWKADLDSKVTLPNGEPIPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLV  164 (201)
T ss_pred             CHHHHHHHHHHHHHHHHhhcccCCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHH
Confidence            9999999999998876432    3578999999999997656778889999999998 6899999999999999999999


Q ss_pred             HHHHHHhhhhhc
Q 040835          155 TEIYRIVSKKAL  166 (206)
Q Consensus       155 ~~i~~~~~~~~~  166 (206)
                      +.+.+.......
T Consensus       165 ~~l~~~~~~~~~  176 (201)
T cd04107         165 KNILANDKNLQQ  176 (201)
T ss_pred             HHHHHhchhhHh
Confidence            999876554433

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.

>PLN03110 Rab GTPase; Provisional

Probab=100.00  E-value=8.5e-36  Score=220.15  Aligned_cols=165  Identities=73%  Similarity=1.113  Sum_probs=150.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.|||++|++++..++..+++.++++|+|||+++
T Consensus        17 ivG~~~vGKStLi~~l~~~~~~~~~~~t~g~~~~~~~v~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   96 (216)
T PLN03110         17 LIGDSGVGKSNILSRFTRNEFCLESKSTIGVEFATRTLQVEGKTVKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK   96 (216)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+++.+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|++++..+.+.
T Consensus        97 ~~s~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~  176 (216)
T PLN03110         97 RQTFDNVQRWLRELRDHADSNIVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHI  176 (216)
T ss_pred             hHHHHHHHHHHHHHHHhCCCCCeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998877666899999999999977777888889999998999999999999999999999999999886


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      ...+.
T Consensus       177 ~~~~~  181 (216)
T PLN03110        177 ISKKA  181 (216)
T ss_pred             hhccc
Confidence            54433

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

Probab=100.00  E-value=3.5e-36  Score=202.00  Aligned_cols=160  Identities=46%  Similarity=0.724  Sum_probs=152.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|+|||+|+.+|..+.|.+..+.|+|.++..+.+.+++..+++.||||+|+++|+.+++.|++++.++|+|||++.
T Consensus        16 lIGeSGVGKSSLllrFv~~~fd~~~~~tIGvDFkvk~m~vdg~~~KlaiWDTAGqErFRtLTpSyyRgaqGiIlVYDVT~   95 (209)
T KOG0080|consen   16 LIGESGVGKSSLLLRFVSNTFDDLHPTTIGVDFKVKVMQVDGKRLKLAIWDTAGQERFRTLTPSYYRGAQGIILVYDVTS   95 (209)
T ss_pred             EEccCCccHHHHHHHHHhcccCccCCceeeeeEEEEEEEEcCceEEEEEEeccchHhhhccCHhHhccCceeEEEEEccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++|..+..|+.++.-++ ++++-.++|+||+|.+.++.++.++...+++++++.|+|+||++.+||...|+.++..|++
T Consensus        96 Rdtf~kLd~W~~Eld~Ystn~diikmlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~  175 (209)
T KOG0080|consen   96 RDTFVKLDIWLKELDLYSTNPDIIKMLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIE  175 (209)
T ss_pred             hhhHHhHHHHHHHHHhhcCCccHhHhhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhc
Confidence            999999999999998776 5678889999999999889999999999999999999999999999999999999999887


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       176 t  176 (209)
T KOG0080|consen  176 T  176 (209)
T ss_pred             C
Confidence            5

>KOG0091 consensus GTPase Rab39, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.9e-36  Score=202.92  Aligned_cols=179  Identities=41%  Similarity=0.703  Sum_probs=163.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|+.-+|||+|++.|+.+.+..-++||+|.+++...+.+ ++..+++++|||+|+++|++++..|+++.-++++|||++
T Consensus        13 vigdstvgkssll~~ft~gkfaelsdptvgvdffarlie~~pg~riklqlwdtagqerfrsitksyyrnsvgvllvydit   92 (213)
T KOG0091|consen   13 VIGDSTVGKSSLLRYFTEGKFAELSDPTVGVDFFARLIELRPGYRIKLQLWDTAGQERFRSITKSYYRNSVGVLLVYDIT   92 (213)
T ss_pred             EEcCCcccHHHHHHHHhcCcccccCCCccchHHHHHHHhcCCCcEEEEEEeeccchHHHHHHHHHHhhcccceEEEEecc
Confidence            5899999999999999999999999999999998887766 577899999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      |+++|+++..|+.+...+.+  ..+-+.+|++|+|+...+++..++++.++..+|+.++|||++++.||++.|..+.+.+
T Consensus        93 nr~sfehv~~w~~ea~m~~q~P~k~VFlLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeI  172 (213)
T KOG0091|consen   93 NRESFEHVENWVKEAAMATQGPDKVVFLLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEI  172 (213)
T ss_pred             chhhHHHHHHHHHHHHHhcCCCCeeEEEEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHH
Confidence            99999999999988765543  3455788999999999899999999999999999999999999999999999999999


Q ss_pred             HHHhhhhhcccCCCCCCCCCCc
Q 040835          158 YRIVSKKALTANDESESGGSSS  179 (206)
Q Consensus       158 ~~~~~~~~~~~~~~~~~~~~~~  179 (206)
                      +....+-.+..+++-..-.+|.
T Consensus       173 f~~i~qGeik~edgw~gvKSsr  194 (213)
T KOG0091|consen  173 FQAIQQGEIKLEDGWGGVKSSR  194 (213)
T ss_pred             HHHHhcCceeeeeccccccccC
Confidence            9999988888887776666643

>cd04121 Rab40 Rab40 subfamily

Probab=100.00  E-value=3.5e-35  Score=212.07  Aligned_cols=159  Identities=38%  Similarity=0.667  Sum_probs=146.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..|||||||+.+|..+.+...+.++.+..+....+.+++..+.+.+|||+|++.|..++..+++.+|++|+|||+++
T Consensus        11 viG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~l~~~~~~~ad~illVfD~t~   90 (189)
T cd04121          11 LVGDSDVGKGEILASLQDGSTESPYGYNMGIDYKTTTILLDGRRVKLQLWDTSGQGRFCTIFRSYSRGAQGIILVYDITN   90 (189)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCcceeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999998888777787777777777888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+|+.+..|+..+.... .+.|++||+||.|+...+.+..++++.+++..++++++|||+++.||+++|.++++.+...
T Consensus        91 ~~Sf~~~~~w~~~i~~~~-~~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~  169 (189)
T cd04121          91 RWSFDGIDRWIKEIDEHA-PGVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMR  169 (189)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            999999999999997765 5799999999999987778889999999999999999999999999999999999877654

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

>cd04111 Rab39 Rab39 subfamily

Probab=100.00  E-value=1.1e-34  Score=213.46  Aligned_cols=203  Identities=41%  Similarity=0.696  Sum_probs=169.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+ ++..+.+.+|||+|++.+..++..+++++|++|+|||++
T Consensus         7 vvG~~~vGKTsLi~~l~~~~~~~~~~~ti~~d~~~~~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~   86 (211)
T cd04111           7 VIGDSTVGKSSLLKRFTEGRFAEVSDPTVGVDFFSRLIEIEPGVRIKLQLWDTAGQERFRSITRSYYRNSVGVLLVFDIT   86 (211)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCceeceEEEEEEEEECCCCEEEEEEEeCCcchhHHHHHHHHhcCCcEEEEEEECC
Confidence            5899999999999999999998888888887777766666 456789999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++++.+..|+..+..... ...|+++|+||+|+...+.+..++...+++.++++++++||+++.|++++|++|.+.+.
T Consensus        87 ~~~Sf~~l~~~~~~i~~~~~~~~~~iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~  166 (211)
T cd04111          87 NRESFEHVHDWLEEARSHIQPHRPVFILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIY  166 (211)
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCeEEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            99999999999998876543 45788999999999776778888899999999999999999999999999999999998


Q ss_pred             HHhhhhhcccCCCCCCCCCCccccccccccCCCCCCCCCCCccccC
Q 040835          159 RIVSKKALTANDESESGGSSSLLKATNIVVPGQEPESGRRSYNCCT  204 (206)
Q Consensus       159 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (206)
                      +............. .++...-+++-++....+-|-=.--...|||
T Consensus       167 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  211 (211)
T cd04111         167 ERIKRGELCALDGW-DGVKSGFPAGRAFSLEERSPTFASPEKSCCC  211 (211)
T ss_pred             HHhhcCCCCccccc-cccccCCCcccccccCcccccccCCCCCCCC
Confidence            88665544444444 5555556666688877776654444445776

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.

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=100.00  E-value=9.8e-35  Score=214.98  Aligned_cols=186  Identities=23%  Similarity=0.380  Sum_probs=156.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.|||||+|+++|..+.+...+.||++..+. ..+.+++..+.+.||||+|++.|..++..+++++|++|+|||+++
T Consensus        18 vvGd~~VGKTsLi~r~~~~~F~~~y~pTi~~~~~-~~i~~~~~~v~l~iwDTaG~e~~~~~~~~~~~~ad~vIlVyDit~   96 (232)
T cd04174          18 LVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYT-AGLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISR   96 (232)
T ss_pred             EECCCCCcHHHHHHHHhcCCCCCCcCCceeeeeE-EEEEECCEEEEEEEEeCCCchhhHHHHHHHcCCCcEEEEEEECCC
Confidence            5899999999999999999999999999876654 457778889999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEeccCCCC-C
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEGL-CFMETSALEST-N  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~-~  145 (206)
                      +++|+.+ ..|+..+.... .+.|+++|+||+|+..            .+.+..+++.++++.+++ .|++|||++++ |
T Consensus        97 ~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~  175 (232)
T cd04174          97 PETVDSALKKWKAEIMDYC-PSTRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKS  175 (232)
T ss_pred             hHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcC
Confidence            9999974 88999988765 4789999999999853            256888999999999998 69999999997 8


Q ss_pred             HHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCcccccccccc
Q 040835          146 VELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIVV  188 (206)
Q Consensus       146 v~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  188 (206)
                      |+++|..++..+++............+..+-..+.|-...+..
T Consensus       176 V~e~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  218 (232)
T cd04174         176 IHSIFRSASLLCLNKLSPPIKKSPVRSLSKRLLHLPSRSELIS  218 (232)
T ss_pred             HHHHHHHHHHHHHHhcccccccccccccccccccCCCcccccc
Confidence            9999999999888765554444444444444555555555554

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

>cd04144 Ras2 Ras2 subfamily

Probab=100.00  E-value=6.8e-35  Score=211.60  Aligned_cols=162  Identities=33%  Similarity=0.517  Sum_probs=140.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.|..++..+++.+|++|+|||+++
T Consensus         4 ivG~~~vGKTsli~~l~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~   82 (190)
T cd04144           4 VLGDGGVGKTALTIQLCLNHFVETYDPTIEDSY-RKQVVVDGQPCMLEVLDTAGQEEYTALRDQWIREGEGFILVYSITS   82 (190)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCccCCCchHhhE-EEEEEECCEEEEEEEEECCCchhhHHHHHHHHHhCCEEEEEEECCC
Confidence            589999999999999999998887878766443 3455677888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .++++.+..|+..+....   ..+.|+++|+||+|+...+.+...+...++..++++++++||+++.|++++|.++++.+
T Consensus        83 ~~s~~~~~~~~~~i~~~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l  162 (190)
T cd04144          83 RSTFERVERFREQIQRVKDESAADVPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRAL  162 (190)
T ss_pred             HHHHHHHHHHHHHHHHHhcccCCCCCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHH
Confidence            999999999988876543   25789999999999976677788888888888899999999999999999999999887


Q ss_pred             HHHhhh
Q 040835          158 YRIVSK  163 (206)
Q Consensus       158 ~~~~~~  163 (206)
                      ..+...
T Consensus       163 ~~~~~~  168 (190)
T cd04144         163 RQQRQG  168 (190)
T ss_pred             HHhhcc
Confidence            655433

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.

>KOG0086 consensus GTPase Rab4, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=2.5e-35  Score=196.42  Aligned_cols=169  Identities=48%  Similarity=0.767  Sum_probs=161.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|+|||+|+.+|..+.+......|+|.++....+.+.++.++++||||+|+++|++..+.|++++-+.++|||+++
T Consensus        14 ~iG~aGtGKSCLLh~Fie~kfkDdssHTiGveFgSrIinVGgK~vKLQIWDTAGQErFRSVtRsYYRGAAGAlLVYD~Ts   93 (214)
T KOG0086|consen   14 VIGSAGTGKSCLLHQFIENKFKDDSSHTIGVEFGSRIVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   93 (214)
T ss_pred             EeccCCCChhHHHHHHHHhhhcccccceeeeeecceeeeecCcEEEEEEeecccHHHHHHHHHHHhccccceEEEEeccc
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +++|+.+..|+...+.+..+++-+++++||.|+.+.+++...++..++++..+.++++|+++|+||.+.|-...+.|+..
T Consensus        94 rdsfnaLtnWL~DaR~lAs~nIvviL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~k  173 (214)
T KOG0086|consen   94 RDSFNALTNWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNK  173 (214)
T ss_pred             hhhHHHHHHHHHHHHhhCCCcEEEEEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHH
Confidence            99999999999999999988999999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhhhcccC
Q 040835          161 VSKKALTAN  169 (206)
Q Consensus       161 ~~~~~~~~~  169 (206)
                      -+..++.++
T Consensus       174 IE~GElDPe  182 (214)
T KOG0086|consen  174 IESGELDPE  182 (214)
T ss_pred             HhhcCCCHH
Confidence            777666554

>cd04110 Rab35 Rab35 subfamily

Probab=100.00  E-value=2.8e-34  Score=209.74  Aligned_cols=163  Identities=48%  Similarity=0.752  Sum_probs=145.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.+|.+.++....+.+++..+.+.+||+||++.+..++..+++.++++|+|||+++
T Consensus        11 vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~a~~iilv~D~~~   90 (199)
T cd04110          11 IIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGERVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTN   90 (199)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCcCccccceeEEEEEEECCEEEEEEEEeCCCchhHHHHHHHHhCCCcEEEEEEECCC
Confidence            68999999999999999999888888888877777777777888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+.... ...|++||+||+|+.....+..++...++...+.++|++|++++.||+++|+++.+.++..
T Consensus        91 ~~s~~~~~~~~~~i~~~~-~~~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~  169 (199)
T cd04110          91 GESFVNVKRWLQEIEQNC-DDVCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRA  169 (199)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHh
Confidence            999999999999887655 5689999999999976666778888889988899999999999999999999999999766


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ....
T Consensus       170 ~~~~  173 (199)
T cd04110         170 KKDN  173 (199)
T ss_pred             hhcc
Confidence            4433

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

>cd04109 Rab28 Rab28 subfamily

Probab=100.00  E-value=1.4e-34  Score=213.76  Aligned_cols=160  Identities=36%  Similarity=0.585  Sum_probs=143.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|.+..+...+.+|.+.++....+.+++ ..+.+.||||+|++.+..++..+++.+|++|+|||++
T Consensus         5 ivG~~~vGKSsLi~~l~~~~~~~~~~~T~~~d~~~~~i~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~ad~iilV~D~t   84 (215)
T cd04109           5 VLGDGAVGKTSLCRRFAKEGFGKSYKQTIGLDFFSKRVTLPGNLNVTLQVWDIGGQSIGGKMLDKYIYGAHAVFLVYDVT   84 (215)
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCcHHHHHHHHHHhhcCCEEEEEEECC
Confidence            589999999999999999999888899988888777777754 5789999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD---KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++++.+..|+..+.....   .+.|+++|+||+|+...+.+..++...++..++++++++||++|+|++++|+++.+.
T Consensus        85 ~~~s~~~~~~w~~~l~~~~~~~~~~~piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~  164 (215)
T cd04109          85 NSQSFENLEDWYSMVRKVLKSSETQPLVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAE  164 (215)
T ss_pred             CHHHHHHHHHHHHHHHHhccccCCCceEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHH
Confidence            99999999999998876542   356899999999997667788888999999999999999999999999999999998


Q ss_pred             HHHH
Q 040835          157 IYRI  160 (206)
Q Consensus       157 i~~~  160 (206)
                      +...
T Consensus       165 l~~~  168 (215)
T cd04109         165 LLGV  168 (215)
T ss_pred             HHhc
Confidence            8764

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

>KOG0093 consensus GTPase Rab3, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1.8e-35  Score=195.72  Aligned_cols=165  Identities=42%  Similarity=0.741  Sum_probs=157.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|...+|||+|+.++++..+.+.+..|.|..+..+++......+.++||||.|+++|..++..++++++++|++||++|
T Consensus        26 iiGnssvGKTSfl~ry~ddSFt~afvsTvGidFKvKTvyr~~kRiklQiwDTagqEryrtiTTayyRgamgfiLmyDitN  105 (193)
T KOG0093|consen   26 IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVYRSDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN  105 (193)
T ss_pred             EEccCCccchhhhHHhhccccccceeeeeeeeEEEeEeeecccEEEEEEEecccchhhhHHHHHHhhccceEEEEEecCC
Confidence            58999999999999999999999999999999999988888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++|..+..|...+..++..+.|+++++||||++.++.++.+..+.++.++|..+||+||+.+.||..+|..++..|-+.
T Consensus       106 eeSf~svqdw~tqIktysw~naqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~k  185 (193)
T KOG0093|consen  106 EESFNSVQDWITQIKTYSWDNAQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDK  185 (193)
T ss_pred             HHHHHHHHHHHHHheeeeccCceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHH
Confidence            99999999999999998889999999999999999999999999999999999999999999999999999999998877


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      ...+.
T Consensus       186 msesl  190 (193)
T KOG0093|consen  186 MSESL  190 (193)
T ss_pred             hhhhh
Confidence            66543

>cd04122 Rab14 Rab14 subfamily

Probab=100.00  E-value=4e-34  Score=203.36  Aligned_cols=159  Identities=50%  Similarity=0.868  Sum_probs=145.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|..+.+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++++|++|+|||+++
T Consensus         7 iiG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (166)
T cd04122           7 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVNGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   86 (166)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCcccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            58999999999999999999988888888888877777788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|.++.+.+++
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122          87 RSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            9999999999998877665678999999999998777788889999999999999999999999999999999988764

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

>cd04112 Rab26 Rab26 subfamily

Probab=100.00  E-value=7.9e-34  Score=206.16  Aligned_cols=160  Identities=48%  Similarity=0.780  Sum_probs=142.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|....+.. .+.++.+.++....+.+++..+.+.||||||++.+...+..+++.+|++|+|+|++
T Consensus         5 vvG~~~vGKTSli~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~D~~   84 (191)
T cd04112           5 LLGDSGVGKTCLLVRFKDGAFLNGNFIATVGIDFRNKVVTVDGVKVKLQIWDTAGQERFRSVTHAYYRDAHALLLLYDIT   84 (191)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCccCcCCcccceeEEEEEEECCEEEEEEEEeCCCcHHHHHhhHHHccCCCEEEEEEECC
Confidence            58999999999999999988854 56677676776666778888899999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++++.+..|+..+......+.|+++++||+|+...+.+..++...++..++.+++++||+++.|++++|.++.+.+..
T Consensus        85 ~~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~  164 (191)
T cd04112          85 NKASFDNIRAWLTEIKEYAQEDVVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKH  164 (191)
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999999887765679999999999997667777788889999999999999999999999999999988865


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       165 ~  165 (191)
T cd04112         165 R  165 (191)
T ss_pred             h
Confidence            5

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=100.00  E-value=6.6e-34  Score=209.55  Aligned_cols=184  Identities=23%  Similarity=0.392  Sum_probs=149.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||+|+++|..+.+...+.||++..+. ..+.+++..+.+.||||+|++.|..+++.+++.+|++|+|||+++
T Consensus         6 vvGd~~vGKTsLi~~~~~~~f~~~y~pTi~~~~~-~~~~~~~~~v~L~iwDt~G~e~~~~l~~~~~~~~d~illvfdis~   84 (222)
T cd04173           6 VVGDAECGKTALLQVFAKDAYPGSYVPTVFENYT-ASFEIDKRRIELNMWDTSGSSYYDNVRPLAYPDSDAVLICFDISR   84 (222)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCccCCccccceE-EEEEECCEEEEEEEEeCCCcHHHHHHhHHhccCCCEEEEEEECCC
Confidence            6899999999999999999999889999876554 566788889999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCC-
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTN-  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-  145 (206)
                      +++|+.+ ..|...+.... .+.|+++|+||+|+...            ..+..++...+++++++ +|+||||+++++ 
T Consensus        85 ~~Sf~~i~~~w~~~~~~~~-~~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~  163 (222)
T cd04173          85 PETLDSVLKKWQGETQEFC-PNAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERS  163 (222)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcC
Confidence            9999998 46877665544 57999999999998542            13677889999999995 899999999885 


Q ss_pred             HHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCcccccccc
Q 040835          146 VELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNI  186 (206)
Q Consensus       146 v~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  186 (206)
                      |+++|..++...+.............+..+..+.++.++.+
T Consensus       164 V~~~F~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  204 (222)
T cd04173         164 VRDVFHVATVASLGRGHRQLRRTDSRRGLQRSAQLSGRPDR  204 (222)
T ss_pred             HHHHHHHHHHHHHhccCCccccccccccccccccCCCcccc
Confidence            99999999998776554333333344444444455554333

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

>cd04125 RabA_like RabA-like subfamily

Probab=100.00  E-value=1.3e-33  Score=204.56  Aligned_cols=161  Identities=48%  Similarity=0.776  Sum_probs=146.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||++|.+.+...+..+++.+|++|+|||+++
T Consensus         5 v~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~g~~~~~~~~~~~~~~~d~iilv~d~~~   84 (188)
T cd04125           5 IIGDYGVGKSSLLKRFTEDEFSESTKSTIGVDFKIKTVYIENKIIKLQIWDTNGQERFRSLNNSYYRGAHGYLLVYDVTD   84 (188)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHhhHHHHccCCCEEEEEEECcC
Confidence            58999999999999999999987788888877777777888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+........|+++++||+|+...+.+..++...++...+++++++||+++.|++++|.++++.+.+.
T Consensus        85 ~~s~~~i~~~~~~i~~~~~~~~~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~  164 (188)
T cd04125          85 QESFENLKFWINEINRYARENVIKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKR  164 (188)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998876656789999999999987677788888889888899999999999999999999999998765


Q ss_pred             h
Q 040835          161 V  161 (206)
Q Consensus       161 ~  161 (206)
                      .
T Consensus       165 ~  165 (188)
T cd04125         165 L  165 (188)
T ss_pred             h
Confidence            3

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.

>PTZ00369 Ras-like protein; Provisional

Probab=100.00  E-value=5e-34  Score=206.89  Aligned_cols=159  Identities=36%  Similarity=0.571  Sum_probs=140.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++|+|||+++
T Consensus        10 iiG~~~~GKTsLi~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~iilv~D~s~   88 (189)
T PTZ00369         10 VVGGGGVGKSALTIQFIQNHFIDEYDPTIEDSY-RKQCVIDEETCLLDILDTAGQEEYSAMRDQYMRTGQGFLCVYSITS   88 (189)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcCcCCchhhEE-EEEEEECCEEEEEEEEeCCCCccchhhHHHHhhcCCEEEEEEECCC
Confidence            589999999999999999998888888876555 4566778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+.... ..+.|+++|+||+|+...+.+...+...++..++++++++||+++.|++++|.++++.+.+
T Consensus        89 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~  168 (189)
T PTZ00369         89 RSSFEEIASFREQILRVKDKDRVPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRK  168 (189)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            999999999998886654 3578999999999997666677777888888888999999999999999999999988865


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       169 ~  169 (189)
T PTZ00369        169 Y  169 (189)
T ss_pred             H
Confidence            4

>cd04126 Rab20 Rab20 subfamily

Probab=100.00  E-value=8.7e-34  Score=208.80  Aligned_cols=161  Identities=33%  Similarity=0.520  Sum_probs=138.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+.. ..++++..+....    ...+.+.||||+|++.|..++..+++.+|++|+|||+++
T Consensus         5 ivG~~~vGKTSLi~r~~~~~f~~-~~~Tig~~~~~~~----~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~IlV~Dvt~   79 (220)
T cd04126           5 LLGDMNVGKTSLLHRYMERRFKD-TVSTVGGAFYLKQ----WGPYNISIWDTAGREQFHGLGSMYCRGAAAVILTYDVSN   79 (220)
T ss_pred             EECCCCCcHHHHHHHHhcCCCCC-CCCccceEEEEEE----eeEEEEEEEeCCCcccchhhHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999864 5667665554332    246789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-------------------CCCCCHHHHHHHHHHcC---------
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET-------------------LRAVPTEDAKEFAEKEG---------  132 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~-------------------~~~~~~~~~~~~~~~~~---------  132 (206)
                      +++|..+..|+..+......+.|+++|+||+|+..                   .+.+..+++..++++++         
T Consensus        80 ~~Sf~~l~~~~~~l~~~~~~~~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~  159 (220)
T cd04126          80 VQSLEELEDRFLGLTDTANEDCLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDL  159 (220)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccc
Confidence            99999998887777665556799999999999864                   46788899999999876         


Q ss_pred             -----CeEEEeccCCCCCHHHHHHHHHHHHHHHhhhhhc
Q 040835          133 -----LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL  166 (206)
Q Consensus       133 -----~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~~~  166 (206)
                           ++|++|||++|.||+++|..+++.++....++..
T Consensus       160 ~~~~~~~~~E~SA~tg~~V~elf~~i~~~~~~~~~~~~~  198 (220)
T cd04126         160 SPAAEKMCFETSAKTGYNVDELFEYLFNLVLPLILAQRA  198 (220)
T ss_pred             cccccceEEEeeCCCCCCHHHHHHHHHHHHHHHHHhhhh
Confidence                 6899999999999999999999999877666654

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

>PLN03108 Rab family protein; Provisional

Probab=100.00  E-value=2.7e-33  Score=206.01  Aligned_cols=164  Identities=51%  Similarity=0.866  Sum_probs=148.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|+...+.+.+.++++.++....+.+++..+.+.+|||+|++.+..++..+++.+|++|+|+|+++
T Consensus        11 ivG~~gvGKStLi~~l~~~~~~~~~~~ti~~~~~~~~i~~~~~~i~l~l~Dt~G~~~~~~~~~~~~~~ad~~vlv~D~~~   90 (210)
T PLN03108         11 IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDNKPIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   90 (210)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCCccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCc
Confidence            58999999999999999999988888888888877778888888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+........|+++++||+|+...+.+..++...+++.++++++++||+++.|++++|.++++.+++.
T Consensus        91 ~~s~~~l~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~  170 (210)
T PLN03108         91 RETFNHLASWLEDARQHANANMTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKK  170 (210)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999887766556799999999999987677888899999999999999999999999999999999999876


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ....
T Consensus       171 ~~~~  174 (210)
T PLN03108        171 IQDG  174 (210)
T ss_pred             hhhc
Confidence            5433

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

Probab=100.00  E-value=5.7e-35  Score=194.04  Aligned_cols=168  Identities=42%  Similarity=0.718  Sum_probs=157.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|+|||+|+++|..+-|++..-.|+|.++..+++.+++..++++||||+|+++|++.+..|++.++++|++||++.
T Consensus        12 lvgnagvgktclvrrftqglfppgqgatigvdfmiktvev~gekiklqiwdtagqerfrsitqsyyrsahalilvydisc   91 (213)
T KOG0095|consen   12 LVGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEVNGEKIKLQIWDTAGQERFRSITQSYYRSAHALILVYDISC   91 (213)
T ss_pred             EEccCCcCcchhhhhhhccCCCCCCCceeeeeEEEEEEEECCeEEEEEEeeccchHHHHHHHHHHhhhcceEEEEEeccc
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++|+-+.+|+.++..+.+..+..++|+||.|+.+.++++.+..++++......++++||++.+|++.+|..+.-.+...
T Consensus        92 qpsfdclpewlreie~yan~kvlkilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~  171 (213)
T KOG0095|consen   92 QPSFDCLPEWLREIEQYANNKVLKILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISE  171 (213)
T ss_pred             CcchhhhHHHHHHHHHHhhcceEEEeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHH
Confidence            99999999999999999888889999999999998889999999999999888999999999999999999998887766


Q ss_pred             hhhhhccc
Q 040835          161 VSKKALTA  168 (206)
Q Consensus       161 ~~~~~~~~  168 (206)
                      ...+....
T Consensus       172 ar~~d~v~  179 (213)
T KOG0095|consen  172 ARQNDLVN  179 (213)
T ss_pred             HHhccchh
Confidence            65554433

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=100.00  E-value=7.5e-34  Score=204.13  Aligned_cols=156  Identities=30%  Similarity=0.526  Sum_probs=140.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|||||||+++|..+.+...+.||.+..+ ...+.+++..+.+.||||+|++.|..++..+++++|++|+|||+++
T Consensus        10 vvGd~~vGKTsli~~~~~~~f~~~~~pT~~~~~-~~~~~~~~~~~~l~iwDtaG~e~~~~~~~~~~~~ad~~ilvyDit~   88 (182)
T cd04172          10 VVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   88 (182)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccCCceeeee-EEEEEECCEEEEEEEEECCCchhhHhhhhhhcCCCCEEEEEEECCC
Confidence            589999999999999999999988888877554 4567788889999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEeccCCCCC-
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEGL-CFMETSALESTN-  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-  145 (206)
                      +.+|+.+ ..|+..+.... .+.|+++|+||+|+..            .+.+..+++.++++++++ +|+||||++++| 
T Consensus        89 ~~Sf~~~~~~w~~~i~~~~-~~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~  167 (182)
T cd04172          89 PETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENS  167 (182)
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCC
Confidence            9999997 78999988765 5799999999999853            246889999999999995 899999999998 


Q ss_pred             HHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIY  158 (206)
Q Consensus       146 v~~~~~~l~~~i~  158 (206)
                      |+++|..+++.++
T Consensus       168 v~~~F~~~~~~~~  180 (182)
T cd04172         168 VRDIFHVATLACV  180 (182)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998654

Rnd3/RhoE/Rho8 is a member of the novel Rho subfamily Rnd, together with Rnd1/Rho6 and Rnd2/Rho7. Rnd3/RhoE is known to bind the serine-threonine kinase ROCK I. Unphosphorylated Rnd3/RhoE associates primarily with membranes, but ROCK I-phosphorylated Rnd3/RhoE localizes in the cytosol. Phosphorylation of Rnd3/RhoE correlates with its activity in disrupting RhoA-induced stress fibers and inhibiting Ras-induced fibroblast transformation. In cells that lack stress fibers, such as macrophages and monocytes, Rnd3/RhoE induces a redistribution of actin, causing morphological changes in the cell. In addition, Rnd3/RhoE has been shown to inhibit cell cycle progression in G1 phase at a point upstream of the pRb family pocket protein checkpoint. Rnd3/RhoE has also been shown to inhibit Ras- and Raf-induced fibroblast transformation. In mammary epithelial tumor cells, Rnd3/RhoE regulates the assembly of the apical junction complex and tight

>KOG0394 consensus Ras-related GTPase [General function prediction only]

Probab=100.00  E-value=1.4e-34  Score=198.52  Aligned_cols=163  Identities=37%  Similarity=0.655  Sum_probs=151.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||+|++++.+..|...+..|+|..+-.+.+.+++..+.++||||+|+++|.++.-.+++++|.++++||+++
T Consensus        14 iLGDsGVGKtSLmn~yv~~kF~~qykaTIgadFltKev~Vd~~~vtlQiWDTAGQERFqsLg~aFYRgaDcCvlvydv~~   93 (210)
T KOG0394|consen   14 ILGDSGVGKTSLMNQYVNKKFSQQYKATIGADFLTKEVQVDDRSVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVNN   93 (210)
T ss_pred             EeCCCCccHHHHHHHHHHHHHHHHhccccchhheeeEEEEcCeEEEEEEEecccHHHhhhcccceecCCceEEEEeecCC
Confidence            57999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCc--CCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLET--LRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~----~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      +.+|+.+..|+.++.....    ...|+||++||+|+..  .+.++...+..|+... ++||||+||+...||.++|..+
T Consensus        94 ~~Sfe~L~~Wr~EFl~qa~~~~Pe~FPFVilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~i  173 (210)
T KOG0394|consen   94 PKSFENLENWRKEFLIQASPQDPETFPFVILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEI  173 (210)
T ss_pred             hhhhccHHHHHHHHHHhcCCCCCCcccEEEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHH
Confidence            9999999999999877663    4579999999999964  3788999999999987 5899999999999999999999


Q ss_pred             HHHHHHHhhh
Q 040835          154 LTEIYRIVSK  163 (206)
Q Consensus       154 ~~~i~~~~~~  163 (206)
                      .+.++.....
T Consensus       174 a~~aL~~E~~  183 (210)
T KOG0394|consen  174 ARRALANEDR  183 (210)
T ss_pred             HHHHHhccch
Confidence            9999887654

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=100.00  E-value=1.7e-33  Score=201.07  Aligned_cols=159  Identities=31%  Similarity=0.467  Sum_probs=141.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|..+.+...+.++.+..+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++|+|||+++
T Consensus         7 vvG~~~vGKTsL~~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~~d~~ilv~d~~~   85 (172)
T cd04141           7 MLGAGGVGKSAVTMQFISHSFPDYHDPTIEDAY-KQQARIDNEPALLDILDTAGQAEFTAMRDQYMRCGEGFIICYSVTD   85 (172)
T ss_pred             EECCCCCcHHHHHHHHHhCCCCCCcCCcccceE-EEEEEECCEEEEEEEEeCCCchhhHHHhHHHhhcCCEEEEEEECCc
Confidence            589999999999999999999888888876444 4456778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ..++|+++|+||+|+...+.++.++...+++..++++++|||+++.||+++|.++++.+.+
T Consensus        86 ~~Sf~~~~~~~~~i~~~~~~~~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  165 (172)
T cd04141          86 RHSFQEASEFKKLITRVRLTEDIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRR  165 (172)
T ss_pred             hhHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            999999998888776643 3579999999999997767788889999999999999999999999999999999988776


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       166 ~  166 (172)
T cd04141         166 K  166 (172)
T ss_pred             h
Confidence            4

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

>cd04133 Rop_like Rop subfamily

Probab=100.00  E-value=9.7e-34  Score=202.40  Aligned_cols=156  Identities=32%  Similarity=0.563  Sum_probs=139.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|+|||+|+.+|..+.+...+.+|.+..+ ...+.+++..+.+.||||+|+++|..++..+++++|++|+|||+++
T Consensus         6 v~G~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~-~~~~~~~~~~v~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilvyd~~~   84 (176)
T cd04133           6 TVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVSVDGNTVNLGLWDTAGQEDYNRLRPLSYRGADVFVLAFSLIS   84 (176)
T ss_pred             EECCCCCcHHHHHHHHhcCCCCCCCCCcceeee-EEEEEECCEEEEEEEEECCCCccccccchhhcCCCcEEEEEEEcCC
Confidence            589999999999999999999888999987655 4456778888999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCC----------CCCHHHHHHHHHHcCC-eEEEeccCCCCCHHH
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLR----------AVPTEDAKEFAEKEGL-CFMETSALESTNVEL  148 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~  148 (206)
                      +++|+.+ ..|+..+.... .+.|+++|+||+|+.+.+          .+..+++..+++..++ .++||||+++.||++
T Consensus        85 ~~Sf~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~  163 (176)
T cd04133          85 RASYENVLKKWVPELRHYA-PNVPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKA  163 (176)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHH
Confidence            9999998 68999987665 479999999999996432          4788899999999998 599999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          149 AFLTVLTEIY  158 (206)
Q Consensus       149 ~~~~l~~~i~  158 (206)
                      +|..+++.++
T Consensus       164 ~F~~~~~~~~  173 (176)
T cd04133         164 VFDAAIKVVL  173 (176)
T ss_pred             HHHHHHHHHh
Confidence            9999998763

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,

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=100.00  E-value=2.8e-33  Score=199.16  Aligned_cols=159  Identities=49%  Similarity=0.845  Sum_probs=145.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++.+|++|+|+|+++
T Consensus         8 vvG~~~~GKSsl~~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~l~D~~g~~~~~~~~~~~~~~ad~~i~v~d~~~   87 (167)
T cd01867           8 LIGDSGVGKSCLLLRFSEDSFNPSFISTIGIDFKIRTIELDGKKIKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   87 (167)
T ss_pred             EECCCCCCHHHHHHHHhhCcCCcccccCccceEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhCCCCEEEEEEECcC
Confidence            58999999999999999999999889998887777777788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+......+.|+++++||+|+...+.+..+++..++..++.+++++||+++.|++++|.++.+.+..
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867          88 EKSFENIRNWMRNIEEHASEDVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999887665679999999999997666777888889999999999999999999999999999998864

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

>cd01865 Rab3 Rab3 subfamily

Probab=100.00  E-value=3.5e-33  Score=198.32  Aligned_cols=159  Identities=44%  Similarity=0.758  Sum_probs=143.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||++|++.+...+..+++.+|++++|+|+++
T Consensus         6 i~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~g~~~~~~~~~~~~~~~~~~l~v~d~~~   85 (165)
T cd01865           6 IIGNSSVGKTSFLFRYADDSFTSAFVSTVGIDFKVKTVFRNDKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN   85 (165)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHccCCcEEEEEEECCC
Confidence            58999999999999999999988888888877766667777778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+........|+++|+||+|+...+....++..+++...+++++++||+++.|++++|++++..+.+
T Consensus        86 ~~s~~~~~~~~~~i~~~~~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (165)
T cd01865          86 EESFNAVQDWSTQIKTYSWDNAQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIICD  164 (165)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            9999999999999877665678999999999997767777788888888889999999999999999999999987653

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

>KOG0088 consensus GTPase Rab21, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=1.1e-34  Score=194.41  Aligned_cols=167  Identities=38%  Similarity=0.670  Sum_probs=154.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..=+|||+|+-+++.+.|......|.--.+..+.+.+.+....++||||+|+++|..+-+.|+++.+++++|||++|
T Consensus        18 LLGEGCVGKtSLVLRy~EnkFn~kHlsTlQASF~~kk~n~ed~ra~L~IWDTAGQErfHALGPIYYRgSnGalLVyDITD   97 (218)
T KOG0088|consen   18 LLGEGCVGKTSLVLRYVENKFNCKHLSTLQASFQNKKVNVEDCRADLHIWDTAGQERFHALGPIYYRGSNGALLVYDITD   97 (218)
T ss_pred             EEcCCccchhHHHHHHHHhhcchhhHHHHHHHHhhcccccccceeeeeeeeccchHhhhccCceEEeCCCceEEEEeccc
Confidence            46888899999999999999988877776667777788888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +++|..++.|..+++...+..+-++||+||+|++.++.+..++++.+++.-|+.++++||+++.||.++|..+...++++
T Consensus        98 rdSFqKVKnWV~Elr~mlGnei~l~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~  177 (218)
T KOG0088|consen   98 RDSFQKVKNWVLELRTMLGNEIELLIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEH  177 (218)
T ss_pred             hHHHHHHHHHHHHHHHHhCCeeEEEEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHH
Confidence            99999999999999998888899999999999999999999999999999999999999999999999999999999988


Q ss_pred             hhhhhcc
Q 040835          161 VSKKALT  167 (206)
Q Consensus       161 ~~~~~~~  167 (206)
                      .......
T Consensus       178 ~s~~qr~  184 (218)
T KOG0088|consen  178 SSQRQRT  184 (218)
T ss_pred             hhhcccc
Confidence            7655433

>cd04117 Rab15 Rab15 subfamily

Probab=100.00  E-value=3.7e-33  Score=197.40  Aligned_cols=156  Identities=42%  Similarity=0.723  Sum_probs=142.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||||+++|+.+.+.+.+.++.+.++....+.+++..+.+.+||++|++.+..++..+++.+|++++|||+++
T Consensus         5 vvG~~~~GKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (161)
T cd04117           5 LIGDSGVGKTCLLCRFTDNEFHSSHISTIGVDFKMKTIEVDGIKVRIQIWDTAGQERYQTITKQYYRRAQGIFLVYDISS   84 (161)
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCCcHhHHhhHHHHhcCCcEEEEEEECCC
Confidence            58999999999999999999988888888877777777788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +++++.+..|+..+......+.|+++|+||.|+...+.+..++...+++.++.+++++||+++.|++++|.+|.+.
T Consensus        85 ~~sf~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117          85 ERSYQHIMKWVSDVDEYAPEGVQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            9999999999998877665579999999999997767788889999999999999999999999999999999864

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

>cd04131 Rnd Rnd subfamily

Probab=100.00  E-value=2.7e-33  Score=200.79  Aligned_cols=156  Identities=28%  Similarity=0.497  Sum_probs=138.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|..+.+...+.||.+..+ ...+.+++..+.+.+|||+|++.|..+++.+++++|++|+|||+++
T Consensus         6 ~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~~ilvfdit~   84 (178)
T cd04131           6 VVGDVQCGKTALLQVFAKDCYPETYVPTVFENY-TASFEIDEQRIELSLWDTSGSPYYDNVRPLCYPDSDAVLICFDISR   84 (178)
T ss_pred             EECCCCCCHHHHHHHHHhCcCCCCcCCceEEEE-EEEEEECCEEEEEEEEECCCchhhhhcchhhcCCCCEEEEEEECCC
Confidence            589999999999999999999888888876554 3567788889999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEeccCCCCC-
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEGL-CFMETSALESTN-  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-  145 (206)
                      +++|+.+ ..|+..+.... .+.|+++|+||+|+..            .+.+..+++.++++++++ ++++|||+++++ 
T Consensus        85 ~~Sf~~~~~~w~~~i~~~~-~~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~  163 (178)
T cd04131          85 PETLDSVLKKWRGEIQEFC-PNTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKS  163 (178)
T ss_pred             hhhHHHHHHHHHHHHHHHC-CCCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcC
Confidence            9999996 78999988765 5799999999999853            245788999999999997 799999999995 


Q ss_pred             HHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIY  158 (206)
Q Consensus       146 v~~~~~~l~~~i~  158 (206)
                      |+++|..+++..+
T Consensus       164 v~~~F~~~~~~~~  176 (178)
T cd04131         164 VRDIFHVATMACL  176 (178)
T ss_pred             HHHHHHHHHHHHh
Confidence            9999999998654

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=100.00  E-value=5.5e-33  Score=197.47  Aligned_cols=158  Identities=33%  Similarity=0.651  Sum_probs=143.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..+++.+|++|+|+|+++
T Consensus         5 ~vG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~   84 (168)
T cd04119           5 SMGNSGVGKSCIIKRYCEGRFVSKYLPTIGIDYGVKKVSVRNKEVRVNFFDLSGHPEYLEVRNEFYKDTQGVLLVYDVTD   84 (168)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCeEEEEEEEECCccHHHHHHHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999988889998888877788888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-----KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ++++..+..|+..+.....     .+.|+++|+||+|+...+....++...++...+++++++||+++.|++++|+++++
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  164 (168)
T cd04119          85 RQSFEALDSWLKEMKQEGGPHGNMENIVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFS  164 (168)
T ss_pred             HHHHHhHHHHHHHHHHhccccccCCCceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHH
Confidence            9999999999998876553     46899999999999755667788888888888999999999999999999999998


Q ss_pred             HHH
Q 040835          156 EIY  158 (206)
Q Consensus       156 ~i~  158 (206)
                      .++
T Consensus       165 ~l~  167 (168)
T cd04119         165 SIV  167 (168)
T ss_pred             HHh
Confidence            875

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.

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=100.00  E-value=8.6e-33  Score=196.44  Aligned_cols=158  Identities=53%  Similarity=0.845  Sum_probs=144.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         7 i~G~~~vGKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~   86 (166)
T cd01869           7 LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIIVYDVTD   86 (166)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhCcCCEEEEEEECcC
Confidence            58999999999999999999888888887877777777788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|+..+......+.|+++++||+|+...+.+..++...++...+++++++||+++.|++++|.++.+.+.
T Consensus        87 ~~s~~~l~~~~~~~~~~~~~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869          87 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            999999999999987766567899999999999776777888899999999999999999999999999999998775

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

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=100.00  E-value=6.1e-33  Score=196.39  Aligned_cols=158  Identities=39%  Similarity=0.698  Sum_probs=149.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.+.....+..++..+.+.+||++|++.+..++..+++.+|++|+|||+++
T Consensus         4 vvG~~~vGKtsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ii~fd~~~   83 (162)
T PF00071_consen    4 VVGDSGVGKTSLINRLINGEFPENYIPTIGIDSYSKEVSIDGKPVNLEIWDTSGQERFDSLRDIFYRNSDAIIIVFDVTD   83 (162)
T ss_dssp             EEESTTSSHHHHHHHHHHSSTTSSSETTSSEEEEEEEEEETTEEEEEEEEEETTSGGGHHHHHHHHTTESEEEEEEETTB
T ss_pred             EECCCCCCHHHHHHHHHhhccccccccccccccccccccccccccccccccccccccccccccccccccccccccccccc
Confidence            58999999999999999999999999998889998999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++.+..|+..+........|++|++||.|+...+.+..+++..++.+++.+++++|++++.||.++|..+++.++
T Consensus        84 ~~S~~~~~~~~~~i~~~~~~~~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen   84 EESFENLKKWLEEIQKYKPEDIPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             HHHHHTHHHHHHHHHHHSTTTSEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             cccccccccccccccccccccccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            999999999999998887667999999999999877899999999999999999999999999999999999999875

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 ....

>cd01875 RhoG RhoG subfamily

Probab=100.00  E-value=7.8e-33  Score=200.85  Aligned_cols=157  Identities=27%  Similarity=0.499  Sum_probs=137.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.|||||||+.+|..+.+...+.||.+..+ ...+.+++..+.+.||||+|++.|..++..+++++|++|+|||+++
T Consensus         8 ~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~e~~~~l~~~~~~~a~~~ilvydit~   86 (191)
T cd01875           8 VVGDGAVGKTCLLICYTTNAFPKEYIPTVFDNY-SAQTAVDGRTVSLNLWDTAGQEEYDRLRTLSYPQTNVFIICFSIAS   86 (191)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcCCCCceEeee-EEEEEECCEEEEEEEEECCCchhhhhhhhhhccCCCEEEEEEECCC
Confidence            589999999999999999999888888877554 3445678888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEG-LCFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v  146 (206)
                      +.+|+.+. .|+..+.... .++|+++|+||.|+...            +.+..++...++..++ ++++++||++++||
T Consensus        87 ~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v  165 (191)
T cd01875          87 PSSYENVRHKWHPEVCHHC-PNVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGV  165 (191)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCH
Confidence            99999996 5888776654 57999999999999543            2356778889999988 58999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|.++++.+..
T Consensus       166 ~e~f~~l~~~~~~  178 (191)
T cd01875         166 KEVFAEAVRAVLN  178 (191)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999987754

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

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=100.00  E-value=1.5e-32  Score=199.77  Aligned_cols=156  Identities=31%  Similarity=0.549  Sum_probs=139.5

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCCh
Q 040835            2 IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKR   81 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~   81 (206)
                      +|..|||||||+++|+.+.+...+.+|++.++....+.+++..+.+.||||+|++.|..++..+++++|++|+|||++++
T Consensus         1 vG~~~vGKTsLi~r~~~~~f~~~~~~Tig~~~~~~~~~~~~~~~~l~iwDt~G~e~~~~l~~~~~~~ad~~ilV~D~t~~   80 (200)
T smart00176        1 VGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIRFNVWDTAGQEKFGGLRDGYYIQGQCAIIMFDVTAR   80 (200)
T ss_pred             CCCCCCCHHHHHHHHhcCCCCCCCCCceeEEEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhcCCCEEEEEEECCCh
Confidence            69999999999999999988888889988888888888888899999999999999999999999999999999999999


Q ss_pred             hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           82 QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        82 ~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++..+..|+..+.... .++|+++|+||+|+.. +.+..+. ..++...++.+++|||++++||+++|.++++.+.+.
T Consensus        81 ~S~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       81 VTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             HHHHHHHHHHHHHHHhC-CCCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999998765 5799999999999854 3444444 467778889999999999999999999999988653

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

>KOG0097 consensus GTPase Rab14, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=1e-32  Score=181.94  Aligned_cols=188  Identities=47%  Similarity=0.762  Sum_probs=166.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+-|+|||+|+..|....|...-+.+++..+....+.+.+..++++||||+|+++|+...+.|++++-+.++|||++.
T Consensus        16 iigdmgvgkscllhqftekkfmadcphtigvefgtriievsgqkiklqiwdtagqerfravtrsyyrgaagalmvyditr   95 (215)
T KOG0097|consen   16 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   95 (215)
T ss_pred             EEccccccHHHHHHHHHHHHHhhcCCcccceecceeEEEecCcEEEEEEeecccHHHHHHHHHHHhccccceeEEEEehh
Confidence            58999999999999999999999999999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++.++..|+...+.+.+++..+++++||.|++..+.+..++...++++.|+.++++|+++|.||.+.|-.....+++.
T Consensus        96 rstynhlsswl~dar~ltnpnt~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqn  175 (215)
T KOG0097|consen   96 RSTYNHLSSWLTDARNLTNPNTVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQN  175 (215)
T ss_pred             hhhhhhHHHHHhhhhccCCCceEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHh
Confidence            99999999999999998888999999999999999899999999999999999999999999999999999999999888


Q ss_pred             hhhhhcccC-CCCCCCCCCcccccccccc
Q 040835          161 VSKKALTAN-DESESGGSSSLLKATNIVV  188 (206)
Q Consensus       161 ~~~~~~~~~-~~~~~~~~~~~~~~~~~~~  188 (206)
                      -.......+ -++..+-.-..|+++.+..
T Consensus       176 iqdgsldlnaaesgvq~k~~~p~~~~l~s  204 (215)
T KOG0097|consen  176 IQDGSLDLNAAESGVQHKPSQPSRTSLSS  204 (215)
T ss_pred             hhcCcccccchhccCcCCCCCCCcccccc
Confidence            766554333 2333333333344444443

>cd04127 Rab27A Rab27a subfamily

Probab=100.00  E-value=1.9e-32  Score=197.11  Aligned_cols=160  Identities=42%  Similarity=0.713  Sum_probs=141.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC----------CeEEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------HKNVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      ++|++|||||||+++|....+...+.++.+.++....+.+.          +..+.+.+||++|++.+...+..+++++|
T Consensus         9 ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~   88 (180)
T cd04127           9 ALGDSGVGKTSFLYQYTDNKFNPKFITTVGIDFREKRVVYNSSGPGGTLGRGQRIHLQLWDTAGQERFRSLTTAFFRDAM   88 (180)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCccCCCccceEEEEEEEEEcCccccccccCCCEEEEEEEeCCChHHHHHHHHHHhCCCC
Confidence            58999999999999999999988888888877766555543          35688999999999999999999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      ++|+|||+++++++..+..|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++
T Consensus        89 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~l  168 (180)
T cd04127          89 GFLLIFDLTNEQSFLNVRNWMSQLQTHAYCENPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEKA  168 (180)
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHH
Confidence            9999999999999999999999887653 357899999999999776778888899999999999999999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          150 FLTVLTEIYRI  160 (206)
Q Consensus       150 ~~~l~~~i~~~  160 (206)
                      |+++++.++++
T Consensus       169 ~~~l~~~~~~~  179 (180)
T cd04127         169 VERLLDLVMKR  179 (180)
T ss_pred             HHHHHHHHHhh
Confidence            99999887653

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

>cd01866 Rab2 Rab2 subfamily

Probab=100.00  E-value=2.7e-32  Score=194.28  Aligned_cols=159  Identities=52%  Similarity=0.885  Sum_probs=144.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.+..+...+.++.+.+.....+..++....+.+||++|++++..++..+++.+|++++|+|+++
T Consensus         9 vvG~~~vGKSsLl~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~il~v~d~~~   88 (168)
T cd01866           9 IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   88 (168)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999888888888888877778888888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+......+.|+++|+||.|+...+.+..++...++...+++++++||++++|++++|.++.+.+++
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866          89 RETFNHLTSWLEDARQHSNSNMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999998877655679999999999997666778888899999999999999999999999999999988764

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

>cd04128 Spg1 Spg1p

Probab=100.00  E-value=1.6e-32  Score=197.53  Aligned_cols=159  Identities=28%  Similarity=0.534  Sum_probs=139.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|||||||+++|+.+.+...+.+|.+.++....+.+++..+.+.+||++|++.|..++..+++++|++++|||+++
T Consensus         5 vlG~~~vGKTsLi~~~~~~~f~~~~~~T~g~~~~~~~i~~~~~~~~l~iwDt~G~~~~~~~~~~~~~~a~~iilv~D~t~   84 (182)
T cd04128           5 LLGDAQIGKTSLMVKYVEGEFDEDYIQTLGVNFMEKTISIRGTEITFSIWDLGGQREFINMLPLVCNDAVAILFMFDLTR   84 (182)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCchhHHHhhHHHCcCCCEEEEEEECcC
Confidence            58999999999999999999988899998888877788888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-----CCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET-----LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ++++..+..|+..+........| ++|+||+|+..     .+....++...+++..+++++++||+++.|++++|.++++
T Consensus        85 ~~s~~~i~~~~~~~~~~~~~~~p-ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~  163 (182)
T cd04128          85 KSTLNSIKEWYRQARGFNKTAIP-ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLA  163 (182)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCE-EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHH
Confidence            99999999999988776545567 57899999842     1112245677888888999999999999999999999999


Q ss_pred             HHHHH
Q 040835          156 EIYRI  160 (206)
Q Consensus       156 ~i~~~  160 (206)
                      .++..
T Consensus       164 ~l~~~  168 (182)
T cd04128         164 KAFDL  168 (182)
T ss_pred             HHHhc
Confidence            88753

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

>cd01868 Rab11_like Rab11-like

Probab=100.00  E-value=2.5e-32  Score=193.88  Aligned_cols=157  Identities=75%  Similarity=1.147  Sum_probs=143.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+..++..+++.++++|+|+|+++
T Consensus         8 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   87 (165)
T cd01868           8 LIGDSGVGKSNLLSRFTRNEFNLDSKSTIGVEFATRSIQIDGKTIKAQIWDTAGQERYRAITSAYYRGAVGALLVYDITK   87 (165)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHCCCCEEEEEEECcC
Confidence            58999999999999999999988888888888888888888888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+......++|+++|+||.|+...+....++...++...+++++++||+++.|++++|++++..+
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868          88 KQTFENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            99999999999998877655799999999999977677778888889888899999999999999999999998775

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

>cd04132 Rho4_like Rho4-like subfamily

Probab=100.00  E-value=3.3e-32  Score=197.05  Aligned_cols=162  Identities=31%  Similarity=0.483  Sum_probs=137.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|.++.+...+.++.+..+.. .+... +..+.+.+|||+|++.+..++..+++.+|++|+|||++
T Consensus         5 vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~-~i~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~v~d~~   83 (187)
T cd04132           5 VVGDGGCGKTCLLIVYSQGKFPEEYVPTVFENYVT-NIQGPNGKIIELALWDTAGQEEYDRLRPLSYPDVDVLLICYAVD   83 (187)
T ss_pred             EECCCCCCHHHHHHHHHhCcCCCCCCCeeeeeeEE-EEEecCCcEEEEEEEECCCchhHHHHHHHhCCCCCEEEEEEECC
Confidence            68999999999999999999988887776655443 34444 66789999999999999999999999999999999999


Q ss_pred             ChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC----CCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHH
Q 040835           80 KRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL----RAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTV  153 (206)
Q Consensus        80 ~~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~----~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      ++++++.+. .|+..+.... .+.|+++|+||.|+...    +.+..++..+++..+++ +++++||+++.|++++|..+
T Consensus        84 ~~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l  162 (187)
T cd04132          84 NPTSLDNVEDKWFPEVNHFC-PGTPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTA  162 (187)
T ss_pred             CHHHHHHHHHHHHHHHHHhC-CCCCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHH
Confidence            999999885 5887776543 57999999999998542    34667888999999988 89999999999999999999


Q ss_pred             HHHHHHHhhhh
Q 040835          154 LTEIYRIVSKK  164 (206)
Q Consensus       154 ~~~i~~~~~~~  164 (206)
                      ++.++....+.
T Consensus       163 ~~~~~~~~~~~  173 (187)
T cd04132         163 IEEALKKEGKA  173 (187)
T ss_pred             HHHHHhhhhhh
Confidence            99988664443

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

>cd04118 Rab24 Rab24 subfamily

Probab=100.00  E-value=9.5e-32  Score=195.60  Aligned_cols=160  Identities=36%  Similarity=0.622  Sum_probs=139.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|+.+.+.. .+.++.+..+....+.+++..+.+.+||++|++.+..++..+++.+|++|+|||++
T Consensus         5 vvG~~~vGKSsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~iilv~d~~   84 (193)
T cd04118           5 MLGKESVGKTSLVERYVHHRFLVGPYQNTIGAAFVAKRMVVGERVVTLGIWDTAGSERYEAMSRIYYRGAKAAIVCYDLT   84 (193)
T ss_pred             EECCCCCCHHHHHHHHHhCCcCCcCcccceeeEEEEEEEEECCEEEEEEEEECCCchhhhhhhHhhcCCCCEEEEEEECC
Confidence            68999999999999999998874 57777777776777888888899999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc----CCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET----LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.++++.+..|+..+.... .+.|+++|+||+|+..    .+.+..+++..++..++++++++||+++.|++++|+++.+
T Consensus        85 ~~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~  163 (193)
T cd04118          85 DSSSFERAKFWVKELQNLE-EHCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAE  163 (193)
T ss_pred             CHHHHHHHHHHHHHHHhcC-CCCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999998887654 4799999999999843    2345566778888888999999999999999999999998


Q ss_pred             HHHHHh
Q 040835          156 EIYRIV  161 (206)
Q Consensus       156 ~i~~~~  161 (206)
                      .+.+..
T Consensus       164 ~~~~~~  169 (193)
T cd04118         164 DFVSRA  169 (193)
T ss_pred             HHHHhc
Confidence            887543

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

>cd04136 Rap_like Rap-like subfamily

Probab=100.00  E-value=2.4e-32  Score=193.41  Aligned_cols=156  Identities=33%  Similarity=0.506  Sum_probs=136.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+ ......+.+++..+.+.+|||||++.+..++..+++.+|++++|||+++
T Consensus         6 i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   84 (163)
T cd04136           6 VLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQIEVDGQQCMLEILDTAGTEQFTAMRDLYIKNGQGFVLVYSITS   84 (163)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCccccchHHHHHhhcCCEEEEEEECCC
Confidence            589999999999999999988877777765 3445566778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +++++.+..|+..+.... ..+.|+++|+||+|+...+.+..++...+++.++.+++++||+++.|++++|.++++.+
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136          85 QSSFNDLQDLREQILRVKDTENVPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            999999999998887654 35799999999999976566777778888888889999999999999999999998754

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.

>cd04113 Rab4 Rab4 subfamily

Probab=100.00  E-value=5.3e-32  Score=191.44  Aligned_cols=156  Identities=54%  Similarity=0.858  Sum_probs=142.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+..+....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         5 v~G~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (161)
T cd04113           5 IIGSSGTGKSCLLHRFVENKFKEDSQHTIGVEFGSKIIRVGGKRVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITN   84 (161)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEECcchHHHHHhHHHHhcCCCEEEEEEECCC
Confidence            68999999999999999999988888887877777777888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++..+..|+..+......+.|+++++||+|+...+.+..++...++...++.++++||+++.|++++|+++.+.
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113          85 RTSFEALPTWLSDARALASPNIVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            9999999999998877666789999999999997767778888999999999999999999999999999999875

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

>cd01874 Cdc42 Cdc42 subfamily

Probab=100.00  E-value=4.1e-32  Score=194.44  Aligned_cols=155  Identities=25%  Similarity=0.446  Sum_probs=134.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|..+.+...+.||.+..+. ..+.+++..+.+.||||+|++.+..++..+++.+|++|+|||+++
T Consensus         6 vvG~~~vGKTsl~~~~~~~~f~~~~~pt~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~a~~~ilv~d~~~   84 (175)
T cd01874           6 VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYA-VTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVS   84 (175)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCceeeeeE-EEEEECCEEEEEEEEECCCccchhhhhhhhcccCCEEEEEEECCC
Confidence            5899999999999999999998888888765553 355677888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEG-LCFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v  146 (206)
                      +++++.+. .|+..+.... .++|+++|+||+|+...            +.+..+++..++++.+ ..++++||++|.|+
T Consensus        85 ~~s~~~~~~~w~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v  163 (175)
T cd01874          85 PSSFENVKEKWVPEITHHC-PKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGL  163 (175)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCH
Confidence            99999996 5988887654 57999999999998542            4567788888988887 68999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++|+.++..+
T Consensus       164 ~~~f~~~~~~~  174 (175)
T cd01874         164 KNVFDEAILAA  174 (175)
T ss_pred             HHHHHHHHHHh
Confidence            99999998753

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

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=100.00  E-value=1.2e-31  Score=191.25  Aligned_cols=159  Identities=35%  Similarity=0.629  Sum_probs=139.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|..+.+...+.++.+..+....+.+++..+.+.+|||+|++.|..++..+++.+|++++|||+++
T Consensus         5 ivG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~   84 (170)
T cd04108           5 VVGDLSVGKTCLINRFCKDVFDKNYKATIGVDFEMERFEILGVPFSLQLWDTAGQERFKCIASTYYRGAQAIIIVFDLTD   84 (170)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEeCCChHHHHhhHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999999998999998888877778888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+.... ....|+++|+||+|+...+.  ...+++..++.+++.+++++||+++.|++++|..+++.+
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~  164 (170)
T cd04108          85 VASLEHTRQWLEDALKENDPSSVLLFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALT  164 (170)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCeEEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHH
Confidence            999999999999875543 34578999999999854333  345667788888889999999999999999999999887


Q ss_pred             HH
Q 040835          158 YR  159 (206)
Q Consensus       158 ~~  159 (206)
                      .+
T Consensus       165 ~~  166 (170)
T cd04108         165 FE  166 (170)
T ss_pred             HH
Confidence            64

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=100.00  E-value=4.9e-32  Score=200.36  Aligned_cols=157  Identities=31%  Similarity=0.552  Sum_probs=139.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++++.+.+...+.++.+.++....+..++..+.+.+|||+|++.|..++..+++.+|++|+|||+++
T Consensus        18 vvG~~gvGKTsli~~~~~~~f~~~~~~tig~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilvfD~~~   97 (219)
T PLN03071         18 IVGDGGTGKTTFVKRHLTGEFEKKYEPTIGVEVHPLDFFTNCGKIRFYCWDTAGQEKFGGLRDGYYIHGQCAIIMFDVTA   97 (219)
T ss_pred             EECcCCCCHHHHHHHHhhCCCCCccCCccceeEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHcccccEEEEEEeCCC
Confidence            58999999999999999999988889998888887777777778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+.... .+.|+++|+||+|+.. +.+..++. .++...++++|++||+++.|++++|.++++.+.+.
T Consensus        98 ~~s~~~i~~w~~~i~~~~-~~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071         98 RLTYKNVPTWHRDLCRVC-ENIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            999999999999988765 5799999999999864 34444444 67777889999999999999999999999988654

>cd04106 Rab23_lke Rab23-like subfamily

Probab=100.00  E-value=7.3e-32  Score=190.84  Aligned_cols=155  Identities=35%  Similarity=0.637  Sum_probs=139.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC--CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH--HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   78 (206)
                      |+|.+|+|||||+++|+.+.+...+.++.+.++....+.+.  +..+.+.+|||||++.+...+..+++.+|++++|+|+
T Consensus         5 ~vG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~v~v~d~   84 (162)
T cd04106           5 VVGNGNVGKSSMIQRFVKGIFTKDYKKTIGVDFLEKQIFLRQSDEDVRLMLWDTAGQEEFDAITKAYYRGAQACILVFST   84 (162)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCcEEEEEEEEEEEEcCCCCEEEEEEeeCCchHHHHHhHHHHhcCCCEEEEEEEC
Confidence            58999999999999999999888888887777766666666  6778999999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           79 TKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        79 ~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++++..+..|+..+.... .+.|+++++||+|+...+.+..++...++...+++++++|++++.|++++|.++...
T Consensus        85 ~~~~s~~~l~~~~~~~~~~~-~~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106          85 TDRESFEAIESWKEKVEAEC-GDIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CCHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999998887654 579999999999997767778888899999999999999999999999999998754

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

>cd01864 Rab19 Rab19 subfamily

Probab=100.00  E-value=1.1e-31  Score=190.55  Aligned_cols=156  Identities=53%  Similarity=0.829  Sum_probs=139.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|..+.+...+.++.+.+.....+..++..+.+.+||+||++.+...+..+++.+|++++|||+++
T Consensus         8 vvG~~~~GKTsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~llv~d~~~   87 (165)
T cd01864           8 LIGDSNVGKTCVVQRFKSGTFSERQGNTIGVDFTMKTLEIEGKRVKLQIWDTAGQERFRTITQSYYRSANGAIIAYDITR   87 (165)
T ss_pred             EECCCCCCHHHHHHHHhhCCCcccCCCccceEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECcC
Confidence            58999999999999999998888888887777777777778877899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++..+..|+..+......+.|+++|+||+|+...+.....++..+++..+. .++++||+++.|++++|.++.+.
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864          88 RSSFESVPHWIEEVEKYGASNVVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            99999999999998776556799999999999977667777888899988875 68999999999999999999865

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.

>smart00175 RAB Rab subfamily of small GTPases

Probab=100.00  E-value=1.6e-31  Score=189.40  Aligned_cols=159  Identities=62%  Similarity=0.951  Sum_probs=143.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|.+..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         5 v~G~~~~GKTtli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (164)
T smart00175        5 LIGDSGVGKSSLLSRFTDGKFSEQYKSTIGVDFKTKTIEVDGKRVKLQIWDTAGQERFRSITSSYYRGAVGALLVYDITN   84 (164)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCChHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            58999999999999999999888888887877777777888888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.+++.+..|+..+......++|+++++||+|+...+.+..+.+..++...+++++++|+.++.|++++|+++.+.+.+
T Consensus        85 ~~s~~~~~~~l~~~~~~~~~~~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175       85 RESFENLKNWLKELREYADPNVVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            9999999999998877665689999999999997666777888888999889999999999999999999999988754

Rab GTPases are implicated in vesicle trafficking.

>cd04175 Rap1 Rap1 subgroup

Probab=100.00  E-value=1e-31  Score=190.59  Aligned_cols=156  Identities=31%  Similarity=0.514  Sum_probs=136.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++++.+.+...+.++.+..+ ...+.+++..+.+.+|||||++.+..++..+++.+|++|+|||+++
T Consensus         6 ~~G~~~~GKTsli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (164)
T cd04175           6 VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDGQQCMLEILDTAGTEQFTAMRDLYMKNGQGFVLVYSITA   84 (164)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCcchheE-EEEEEECCEEEEEEEEECCCcccchhHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999888777777766544 3566777788999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ..+++.+..|+..+.... ..+.|+++++||+|+...+.+..++...+++..+++++++||+++.|++++|.++.+.+
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175          85 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            999999999988886543 36799999999999976666677778888888899999999999999999999998765

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

>cd04176 Rap2 Rap2 subgroup

Probab=100.00  E-value=1.4e-31  Score=189.70  Aligned_cols=156  Identities=30%  Similarity=0.501  Sum_probs=136.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||++++..+.+...+.++.+ ......+.+++..+.+.+|||+|++.|..++..+++++|++|+|||+++
T Consensus         6 i~G~~~vGKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~~i~v~d~~~   84 (163)
T cd04176           6 VLGSGGVGKSALTVQFVSGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFIVVYSLVN   84 (163)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCchh-heEEEEEEECCEEEEEEEEECCCcccccchHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999999888777754 4555667778888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+.... ..++|+++++||+|+.....+...+...++..++++++++||+++.|++++|.++.+.+
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176          85 QQTFQDIKPMRDQIVRVKGYEKVPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            999999999988887653 35799999999999976566666777888888889999999999999999999998654

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

>KOG0081 consensus GTPase Rab27, small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=100.00  E-value=9.6e-33  Score=185.23  Aligned_cols=164  Identities=41%  Similarity=0.692  Sum_probs=149.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC---------CeEEEEEEEeCCCchhhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH---------HKNVKAQIWDTAGQERYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~   71 (206)
                      .+|+.|+|||+|+.++..+.|......|+|+++..+.+.++         +..+.+++|||+|+++|++++..++++|=+
T Consensus        14 aLGDSGVGKTs~Ly~YTD~~F~~qFIsTVGIDFreKrvvY~s~gp~g~gr~~rihLQlWDTAGQERFRSLTTAFfRDAMG   93 (219)
T KOG0081|consen   14 ALGDSGVGKTSFLYQYTDGKFNTQFISTVGIDFREKRVVYNSSGPGGGGRGQRIHLQLWDTAGQERFRSLTTAFFRDAMG   93 (219)
T ss_pred             hhccCCCCceEEEEEecCCcccceeEEEeecccccceEEEeccCCCCCCcceEEEEeeeccccHHHHHHHHHHHHHhhcc
Confidence            37999999999999999999999999999999988877663         345889999999999999999999999999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  150 (206)
                      +++++|+++..+|-+++.|+..+.-+. -.+.-+++++||+|+++.+.++.+++..++.++|+||||+||-++.||.+..
T Consensus        94 FlLiFDlT~eqSFLnvrnWlSQL~~hAYcE~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kav  173 (219)
T KOG0081|consen   94 FLLIFDLTSEQSFLNVRNWLSQLQTHAYCENPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAV  173 (219)
T ss_pred             ceEEEeccchHHHHHHHHHHHHHHHhhccCCCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHH
Confidence            999999999999999999999987554 2456699999999999989999999999999999999999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040835          151 LTVLTEIYRIVSKK  164 (206)
Q Consensus       151 ~~l~~~i~~~~~~~  164 (206)
                      +.+++.++++...-
T Consensus       174 e~LldlvM~Rie~~  187 (219)
T KOG0081|consen  174 ELLLDLVMKRIEQC  187 (219)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999998887654

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

Probab=100.00  E-value=2.1e-31  Score=189.33  Aligned_cols=156  Identities=33%  Similarity=0.585  Sum_probs=136.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++++.+.+...+.++.+.+.....+..++..+.+.+|||+|++.+..++..++..+|++|+|||+++
T Consensus         5 vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (166)
T cd00877           5 LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLDFHTNRGKIRFNVWDTAGQEKFGGLRDGYYIGGQCAIIMFDVTS   84 (166)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCChhhccccHHHhcCCCEEEEEEECCC
Confidence            58999999999999999988888888888877777667777788999999999999999888999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+..... ++|+++|+||+|+.. +... .+...++...+++++++||++++|++++|.++.+.+.+
T Consensus        85 ~~s~~~~~~~~~~i~~~~~-~~piiiv~nK~Dl~~-~~~~-~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877          85 RVTYKNVPNWHRDLVRVCG-NIPIVLCGNKVDIKD-RKVK-AKQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             HHHHHHHHHHHHHHHHhCC-CCcEEEEEEchhccc-ccCC-HHHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            9999999999999887764 799999999999863 3333 33456677778899999999999999999999988864

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

>cd04124 RabL2 RabL2 subfamily

Probab=100.00  E-value=2.8e-31  Score=187.83  Aligned_cols=156  Identities=35%  Similarity=0.567  Sum_probs=135.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|....+.+...++.+.+.......+++..+.+.+|||+|++.|..++..+++.+|++|+|+|+++
T Consensus         5 vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (161)
T cd04124           5 LLGDSAVGKSKLVERFLMDGYEPQQLSTYALTLYKHNAKFEGKTILVDFWDTAGQERFQTMHASYYHKAHACILVFDVTR   84 (161)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhCCCCEEEEEEECCC
Confidence            58999999999999999999988877777777766677778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+.... .+.|+++++||+|+...   ...+...++...+++++++||+++.|++++|+.+++.+.+.
T Consensus        85 ~~s~~~~~~~~~~i~~~~-~~~p~ivv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  160 (161)
T cd04124          85 KITYKNLSKWYEELREYR-PEIPCIVVANKIDLDPS---VTQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVSY  160 (161)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCcEEEEEECccCchh---HHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            999999999999887654 46899999999998531   23445566777789999999999999999999999888764

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

>cd04140 ARHI_like ARHI subfamily

Probab=100.00  E-value=2e-31  Score=189.26  Aligned_cols=155  Identities=30%  Similarity=0.388  Sum_probs=134.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++++++.+...+.++.+.++ ...+..+...+.+.+|||+|++.+..++..+++.+|++|+|||+++
T Consensus         6 ~vG~~~vGKTsli~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   84 (165)
T cd04140           6 VFGAGGVGKSSLVLRFVKGTFRESYIPTIEDTY-RQVISCSKNICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSVTS   84 (165)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCcCCcchheE-EEEEEECCEEEEEEEEECCCCCcchHHHHHHhhcCCEEEEEEECCC
Confidence            589999999999999999998877777765433 4455666778899999999999999989999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +++++.+..|+..+....   ..+.|+++|+||+|+...+.+...+...++..++++++++||++++|++++|++|++.
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~~  163 (165)
T cd04140          85 KQSLEELKPIYELICEIKGNNIEKIPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLNL  163 (165)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHhc
Confidence            999999999888776543   2578999999999997666777778888888888999999999999999999999753

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

>cd01860 Rab5_related Rab5-related subfamily

Probab=100.00  E-value=5.3e-31  Score=186.60  Aligned_cols=157  Identities=50%  Similarity=0.847  Sum_probs=142.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+.....++.+..+....+.+++..+.+.+||+||++.+...+..+++++|++|+|+|+++
T Consensus         6 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~v~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   85 (163)
T cd01860           6 LLGDSSVGKSSLVLRFVKNEFSENQESTIGAAFLTQTVNLDDTTVKFEIWDTAGQERYRSLAPMYYRGAAAAIVVYDITS   85 (163)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCchHHHHHHHHHHhccCCEEEEEEECcC
Confidence            58999999999999999999988777887777777788888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+.......+|+++++||+|+...+....++...++...+++++++||+++.|+.++|+++++.+
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860          86 EESFEKAKSWVKELQRNASPNIIIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            99999999999988776657799999999999876667788888899999899999999999999999999999875

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

>cd04134 Rho3 Rho3 subfamily

Probab=100.00  E-value=2e-31  Score=193.21  Aligned_cols=157  Identities=29%  Similarity=0.488  Sum_probs=134.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+..+. ..+.+++..+.+.||||+|++.+..++..+++.+|++|+|||+++
T Consensus         5 ivG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~-~~i~~~~~~~~l~i~Dt~G~~~~~~l~~~~~~~a~~~ilv~dv~~   83 (189)
T cd04134           5 VLGDGACGKTSLLNVFTRGYFPQVYEPTVFENYV-HDIFVDGLHIELSLWDTAGQEEFDRLRSLSYADTDVIMLCFSVDS   83 (189)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCccCCcceeeeE-EEEEECCEEEEEEEEECCCChhccccccccccCCCEEEEEEECCC
Confidence            5899999999999999999998888888665543 455667778999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcC-CeEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLR------------AVPTEDAKEFAEKEG-LCFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v  146 (206)
                      +++++.+. .|+..+.... .+.|+++|+||+|+...+            .+..++...++...+ ++++++||+++.|+
T Consensus        84 ~~sf~~~~~~~~~~i~~~~-~~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v  162 (189)
T cd04134          84 PDSLENVESKWLGEIREHC-PGVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGV  162 (189)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCH
Confidence            99999886 5888887654 479999999999986432            345566778887776 68999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|.++++.+..
T Consensus       163 ~e~f~~l~~~~~~  175 (189)
T cd04134         163 NEAFTEAARVALN  175 (189)
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988863

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.

>cd01861 Rab6 Rab6 subfamily

Probab=100.00  E-value=5.7e-31  Score=186.08  Aligned_cols=156  Identities=42%  Similarity=0.753  Sum_probs=140.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         5 liG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~D~~G~~~~~~~~~~~~~~~~~ii~v~d~~~   84 (161)
T cd01861           5 FLGDQSVGKTSIITRFMYDTFDNQYQATIGIDFLSKTMYLEDKTVRLQLWDTAGQERFRSLIPSYIRDSSVAVVVYDITN   84 (161)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCccCCCceeeeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhccCCEEEEEEECcC
Confidence            58999999999999999999988888887878878788888878899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++..+..|+..+......+.|+++++||+|+...+....++...++...+++++++|++++.|++++|.++.+.
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861          85 RQSFDNTDKWIDDVRDERGNDVIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            9999999999998876554579999999999996556777788888888889999999999999999999999864

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

>cd04116 Rab9 Rab9 subfamily

Probab=100.00  E-value=5.4e-31  Score=187.90  Aligned_cols=155  Identities=39%  Similarity=0.669  Sum_probs=137.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.++.+...+.++.+.+.....+.+++..+.+.|||+||++.+..++..+++.+|++|+|||+++
T Consensus        10 vvG~~~~GKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   89 (170)
T cd04116          10 LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTLQIWDTAGQERFRSLRTPFYRGSDCCLLTFAVDD   89 (170)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCcCcCCceeeEEEEEEEEECCeEEEEEEEeCCChHHHHHhHHHHhcCCCEEEEEEECCC
Confidence            58999999999999999999988888887777766777788889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ++++..+..|+..+....    ..+.|+++++||+|+. .+.+..+++.+++++.+ .+++++||+++.|+.++|.++++
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~  168 (170)
T cd04116          90 SQSFQNLSNWKKEFIYYADVKEPESFPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVR  168 (170)
T ss_pred             HHHHHhHHHHHHHHHHhcccccCCCCcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHh
Confidence            999999999988776543    2568999999999986 35677888999998887 47999999999999999999986


Q ss_pred             H
Q 040835          156 E  156 (206)
Q Consensus       156 ~  156 (206)
                      .
T Consensus       169 ~  169 (170)
T cd04116         169 R  169 (170)
T ss_pred             h
Confidence            5

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

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=100.00  E-value=4.7e-31  Score=187.06  Aligned_cols=157  Identities=40%  Similarity=0.583  Sum_probs=136.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+ +.......+++..+.+.+|||||++++..++..+++.+|++++|+|+++
T Consensus         5 v~G~~~~GKTsli~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (164)
T smart00173        5 VLGSGGVGKSALTIQFVQGHFVDDYDPTIE-DSYRKQIEIDGEVCLLDILDTAGQEEFSAMRDQYMRTGEGFLLVYSITD   83 (164)
T ss_pred             EECCCCCCHHHHHHHHHhCcCCcccCCchh-hhEEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999988877777755 3334556677778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++.+..|...+.... ..+.|+++|+||+|+...+....++...++...+++++++||+++.|++++|+++++.+.
T Consensus        84 ~~s~~~~~~~~~~i~~~~~~~~~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173       84 RQSFEEIKKFREQILRVKDRDDVPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            999999999888876543 347899999999999766667777888888888999999999999999999999987654

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=100.00  E-value=5.9e-31  Score=187.75  Aligned_cols=157  Identities=41%  Similarity=0.712  Sum_probs=140.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-hhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-AVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ++|++|||||||+++|+...+...+.++.+.++....+.+++..+.+.+||++|++.+. .++..+++++|++|+|||++
T Consensus         7 vvG~~~vGKTsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~d~~i~v~d~~   86 (170)
T cd04115           7 VIGDSNVGKTCLTYRFCAGRFPERTEATIGVDFRERTVEIDGERIKVQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDVT   86 (170)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccccceeEEEEEEEEEECCeEEEEEEEeCCChHHHHHhhHHHhhcCCCEEEEEEECC
Confidence            58999999999999999999888888888877777778888888999999999999886 57888899999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCC---CCCHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALE---STNVELAFLTVLT  155 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~v~~~~~~l~~  155 (206)
                      +++++..+..|+..+.... ..++|+++|+||+|+...+.+..++...++...+++++++||++   +.+++++|..+++
T Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~  166 (170)
T cd04115          87 NMASFHSLPSWIEECEQHSLPNEVPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAH  166 (170)
T ss_pred             CHHHHHhHHHHHHHHHHhcCCCCCCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHH
Confidence            9999999999998887654 35799999999999987777888888899998899999999999   8999999999987


Q ss_pred             HH
Q 040835          156 EI  157 (206)
Q Consensus       156 ~i  157 (206)
                      .+
T Consensus       167 ~~  168 (170)
T cd04115         167 KL  168 (170)
T ss_pred             Hh
Confidence            65

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=100.00  E-value=3.7e-31  Score=189.33  Aligned_cols=154  Identities=29%  Similarity=0.476  Sum_probs=133.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+.+++.+.+...+.++.+. .....+.+++..+.+.||||+|++.+..++..+++++|++|+|||+++
T Consensus         6 iiG~~~vGKSsli~~~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   84 (174)
T cd01871           6 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFD-NYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVS   84 (174)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCcCCCccee-eeEEEEEECCEEEEEEEEECCCchhhhhhhhhhcCCCCEEEEEEECCC
Confidence            5899999999999999999998888888653 334456678888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      ++++..+. .|+..+.... .++|+++|+||+|+...            +.+..+++..++.+++. ++++|||++++|+
T Consensus        85 ~~sf~~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i  163 (174)
T cd01871          85 PASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGL  163 (174)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCH
Confidence            99999985 5888776654 57999999999998532            34778888999999984 8999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          147 ELAFLTVLTE  156 (206)
Q Consensus       147 ~~~~~~l~~~  156 (206)
                      +++|+.+++.
T Consensus       164 ~~~f~~l~~~  173 (174)
T cd01871         164 KTVFDEAIRA  173 (174)
T ss_pred             HHHHHHHHHh
Confidence            9999998863

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

>KOG0083 consensus GTPase Rab26/Rab37, small G protein superfamily [General function prediction only]

Probab=100.00  E-value=2.1e-33  Score=183.19  Aligned_cols=160  Identities=47%  Similarity=0.777  Sum_probs=148.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ++|+.++|||+|+-++..+.|.. ....|+|+++..+.+..++..+++++|||+|+++|++....|++.+|+.+++||+.
T Consensus         2 llgds~~gktcllir~kdgafl~~~fistvgid~rnkli~~~~~kvklqiwdtagqerfrsvt~ayyrda~allllydia   81 (192)
T KOG0083|consen    2 LLGDSCTGKTCLLIRFKDGAFLAGNFISTVGIDFRNKLIDMDDKKVKLQIWDTAGQERFRSVTHAYYRDADALLLLYDIA   81 (192)
T ss_pred             ccccCccCceEEEEEeccCceecCceeeeeeeccccceeccCCcEEEEEEeeccchHHHhhhhHhhhcccceeeeeeecc
Confidence            58999999999999988887753 45778899999899999999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +..+|++...|+.++.++....+.+.+++||+|+..++.+..++.+.+++.+++|++++||++|.||+-.|-.|.+.+.+
T Consensus        82 nkasfdn~~~wlsei~ey~k~~v~l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k  161 (192)
T KOG0083|consen   82 NKASFDNCQAWLSEIHEYAKEAVALMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKK  161 (192)
T ss_pred             cchhHHHHHHHHHHHHHHHHhhHhHhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHH
Confidence            99999999999999999888888999999999998889999999999999999999999999999999999998887765


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       162 ~  162 (192)
T KOG0083|consen  162 L  162 (192)
T ss_pred             h
Confidence            4

>cd04142 RRP22 RRP22 subfamily

Probab=100.00  E-value=3.9e-31  Score=192.61  Aligned_cols=160  Identities=23%  Similarity=0.293  Sum_probs=132.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh--------hhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR--------AVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+++|.++.+...+.|+.+.......+..++..+.+.+|||||.+.+.        ......++.+|++
T Consensus         5 ivG~~~vGKTsLi~~~~~~~f~~~~~pt~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~~~~~~~e~~~~~~~~~~~ad~i   84 (198)
T cd04142           5 VLGAPGVGKTAIVRQFLAQEFPEEYIPTEHRRLYRPAVVLSGRVYDLHILDVPNMQRYPGTAGQEWMDPRFRGLRNSRAF   84 (198)
T ss_pred             EECCCCCcHHHHHHHHHcCCCCcccCCccccccceeEEEECCEEEEEEEEeCCCcccCCccchhHHHHHHHhhhccCCEE
Confidence            58999999999999999999988888887766665666778888999999999965432        1233457899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEeccCCCCCHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-KEGLCFMETSALESTNVEL  148 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~  148 (206)
                      |+|||++++++++.+..|+..+....   ..++|+++|+||+|+...+....++...++. .+++++++|||++|.|+++
T Consensus        85 ilv~D~~~~~S~~~~~~~~~~i~~~~~~~~~~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~  164 (198)
T cd04142          85 ILVYDICSPDSFHYVKLLRQQILETRPAGNKEPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILL  164 (198)
T ss_pred             EEEEECCCHHHHHHHHHHHHHHHHhcccCCCCCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHH
Confidence            99999999999999999988876653   3679999999999997656667777777654 5689999999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          149 AFLTVLTEIYRI  160 (206)
Q Consensus       149 ~~~~l~~~i~~~  160 (206)
                      +|+.+++.++..
T Consensus       165 lf~~i~~~~~~~  176 (198)
T cd04142         165 LFKELLISATTR  176 (198)
T ss_pred             HHHHHHHHhhcc
Confidence            999999887743

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.

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

Probab=100.00  E-value=3.8e-31  Score=189.33  Aligned_cols=157  Identities=29%  Similarity=0.500  Sum_probs=135.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++....+ ...+.+++..+.+.+|||+|++.+..++..+++.+|++|+|||+++
T Consensus         3 i~G~~~vGKTsli~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   81 (174)
T smart00174        3 VVGDGAVGKTCLLISYTTNAFPEDYVPTVFENY-SADVEVDGKPVELGLWDTAGQEDYDRLRPLSYPDTDVFLICFSVDS   81 (174)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCcEEeee-eEEEEECCEEEEEEEEECCCCcccchhchhhcCCCCEEEEEEECCC
Confidence            689999999999999999999887777755443 4456677888899999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +++++.+. .|+..+.... .++|+++|+||+|+...            +.+..++...+++..+. +++++||+++.|+
T Consensus        82 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v  160 (174)
T smart00174       82 PASFENVKEKWYPEVKHFC-PNTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGV  160 (174)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCH
Confidence            99999885 5888887654 57999999999998542            23677788889999986 8999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|..+++.+++
T Consensus       161 ~~lf~~l~~~~~~  173 (174)
T smart00174      161 REVFEEAIRAALN  173 (174)
T ss_pred             HHHHHHHHHHhcC
Confidence            9999999988753

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

>PLN03118 Rab family protein; Provisional

Probab=100.00  E-value=2.4e-30  Score=190.66  Aligned_cols=159  Identities=45%  Similarity=0.727  Sum_probs=137.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+. .+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|++|+|||+++
T Consensus        19 ivG~~~vGKTsli~~l~~~~~~-~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~vlv~D~~~   97 (211)
T PLN03118         19 LIGDSGVGKSSLLVSFISSSVE-DLAPTIGVDFKIKQLTVGGKRLKLTIWDTAGQERFRTLTSSYYRNAQGIILVYDVTR   97 (211)
T ss_pred             EECcCCCCHHHHHHHHHhCCCC-CcCCCceeEEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            5899999999999999998774 556777777777777777888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHH-HHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVAR-WLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~-~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++..+.. |...+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|.+|.+.+.
T Consensus        98 ~~sf~~~~~~~~~~~~~~~~~~~~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~  177 (211)
T PLN03118         98 RETFTNLSDVWGKEVELYSTNQDCVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIM  177 (211)
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            999998865 665554332 246899999999999766677778888888888999999999999999999999999986


Q ss_pred             HH
Q 040835          159 RI  160 (206)
Q Consensus       159 ~~  160 (206)
                      ..
T Consensus       178 ~~  179 (211)
T PLN03118        178 EV  179 (211)
T ss_pred             hh
Confidence            65

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

Probab=100.00  E-value=1e-30  Score=184.71  Aligned_cols=155  Identities=34%  Similarity=0.567  Sum_probs=134.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+||++|++.+..++..+++.+|++++|+|+++
T Consensus         6 iiG~~~vGKTsl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~l~~~~~~~~~~~i~v~~~~~   84 (162)
T cd04138           6 VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINS   84 (162)
T ss_pred             EECCCCCCHHHHHHHHHhCCCcCCcCCcchheE-EEEEEECCEEEEEEEEECCCCcchHHHHHHHHhcCCEEEEEEECCC
Confidence            589999999999999999998888877765443 4556677778889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ..++..+..|+..+.... ..+.|+++|+||+|+.. +.....+...++...+++++++||+++.|++++|.++++.+
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138          85 RKSFEDIHTYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            999999998988877654 35789999999999865 45567778888888899999999999999999999998654

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.

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

Probab=100.00  E-value=1e-30  Score=185.21  Aligned_cols=156  Identities=35%  Similarity=0.513  Sum_probs=135.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||||++++++..+...+.++.+.. ......+++..+.+.+|||||++++..++..+++.+|++++|+|+++
T Consensus         7 i~G~~~~GKtsl~~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (164)
T cd04145           7 VVGGGGVGKSALTIQFIQSYFVTDYDPTIEDS-YTKQCEIDGQWAILDILDTAGQEEFSAMREQYMRTGEGFLLVFSVTD   85 (164)
T ss_pred             EECCCCCcHHHHHHHHHhCCCCcccCCCccce-EEEEEEECCEEEEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCC
Confidence            58999999999999999988877777775533 34456677888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ..++..+..|+..+.... ..+.|+++++||+|+...+.+..++...+++..+++++++||+++.|++++|+++++.+
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145          86 RGSFEEVDKFHTQILRVKDRDEFPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            999999999988876643 35789999999999976666677788888888889999999999999999999998764

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

>cd04123 Rab21 Rab21 subfamily

Probab=99.98  E-value=2.5e-30  Score=182.75  Aligned_cols=157  Identities=41%  Similarity=0.700  Sum_probs=139.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|+...+.....++.+.......+...+....+.+||++|++.+..++..+++.+|++++|+|+++
T Consensus         5 i~G~~~~GKStli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (162)
T cd04123           5 LLGEGRVGKTSLVLRYVENKFNEKHESTTQASFFQKTVNIGGKRIDLAIWDTAGQERYHALGPIYYRDADGAILVYDITD   84 (162)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCcCCccceeEEEEEEEECCEEEEEEEEECCchHHHHHhhHHHhccCCEEEEEEECCC
Confidence            58999999999999999998877776666666666666667777899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+......++|+++++||+|+...+.+..++...++...+.+++++|++++.|++++|+++.+.+
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123          85 ADSFQKVKKWIKELKQMRGNNISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999888776656799999999999986667778888888888899999999999999999999998765

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.98  E-value=2.4e-30  Score=183.47  Aligned_cols=156  Identities=33%  Similarity=0.570  Sum_probs=136.0

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   77 (206)
                      |+|++|||||||+++|...  .+...+.++.+.++....+.++ +..+.+.+|||+|++.+..++..++..+|++++|+|
T Consensus         5 vvG~~~~GKtsl~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d   84 (164)
T cd04101           5 VVGDPAVGKTAFVQMFHSNGAVFPKNYLMTTGCDFVVKEVPVDTDNTVELFIFDSAGQELYSDMVSNYWESPSVFILVYD   84 (164)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcCccCCCceEEEEEEEEEEeCCCCEEEEEEEECCCHHHHHHHHHHHhCCCCEEEEEEE
Confidence            5899999999999999865  6777888887777766666554 567899999999999999999999999999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           78 ITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        78 ~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +++++++..+..|+..+.... .+.|+++|+||+|+.....+...+...+....+++++++||+++.|++++|..+.+.+
T Consensus        85 ~~~~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101          85 VSNKASFENCSRWVNKVRTAS-KHMPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             CcCHHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            999999999999998887654 5699999999999976666777777778888889999999999999999999998865

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.

>cd01862 Rab7 Rab7 subfamily

Probab=99.97  E-value=5.6e-30  Score=182.83  Aligned_cols=160  Identities=42%  Similarity=0.702  Sum_probs=140.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|.+..+.....++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|+++|+++
T Consensus         5 viG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (172)
T cd01862           5 ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVTVDDKLVTLQIWDTAGQERFQSLGVAFYRGADCCVLVYDVTN   84 (172)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcCcCCccceEEEEEEEEECCEEEEEEEEeCCChHHHHhHHHHHhcCCCEEEEEEECCC
Confidence            58999999999999999999888888887777777777788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ++++..+..|...+.....    .++|+++|+||+|+..+.....++...+.+..+ .+++++|++++.|++++|+++.+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~  164 (172)
T cd01862          85 PKSFESLDSWRDEFLIQASPSDPENFPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIAR  164 (172)
T ss_pred             HHHHHHHHHHHHHHHHhcCccCCCCceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHH
Confidence            9999888888877654432    379999999999997556667788888888887 78999999999999999999999


Q ss_pred             HHHHH
Q 040835          156 EIYRI  160 (206)
Q Consensus       156 ~i~~~  160 (206)
                      .+++.
T Consensus       165 ~~~~~  169 (172)
T cd01862         165 KALEQ  169 (172)
T ss_pred             HHHhc
Confidence            88776

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-

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.97  E-value=2e-30  Score=188.27  Aligned_cols=153  Identities=25%  Similarity=0.404  Sum_probs=125.0

Q ss_pred             CccCCCCCHHHHHH-HHhcCC-----CCCCCccccce-eeEEEE--------EEECCeEEEEEEEeCCCchhhhhhhHhH
Q 040835            1 LIGDSAVGKSQLLA-RFARDE-----FSLDSKATIGV-EFQTKT--------LVIHHKNVKAQIWDTAGQERYRAVTSAY   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~-~l~~~~-----~~~~~~~~~~~-~~~~~~--------~~~~~~~~~~~i~D~~G~~~~~~~~~~~   65 (206)
                      ++|+.|||||||+. ++.+..     +...+.||++. +.+...        ..+++..+.+.||||+|++..  ....+
T Consensus         7 ~vG~~~vGKTsLi~~~~~~~~~~~~~f~~~~~pTi~~~~~~~~~~~~~~~~~~~~~~~~v~l~iwDTaG~~~~--~~~~~   84 (195)
T cd01873           7 VVGDNAVGKTRLICARACNKTLTQYQLLATHVPTVWAIDQYRVCQEVLERSRDVVDGVSVSLRLWDTFGDHDK--DRRFA   84 (195)
T ss_pred             EECCCCcCHHHHHHHHHhCCCcccccCccccCCceecccceeEEeeeccccceeeCCEEEEEEEEeCCCChhh--hhccc
Confidence            58999999999995 555443     44566777642 222222        246788899999999999753  45678


Q ss_pred             hcCCcEEEEEeeCCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc-------------------CCCCCHHHHH
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET-------------------LRAVPTEDAK  125 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~-------------------~~~~~~~~~~  125 (206)
                      ++++|++|+|||++++.+++.+. .|+..+.... .+.|+++|+||+|+..                   .+.+..+++.
T Consensus        85 ~~~ad~iilv~d~t~~~Sf~~~~~~w~~~i~~~~-~~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~  163 (195)
T cd01873          85 YGRSDVVLLCFSIASPNSLRNVKTMWYPEIRHFC-PRVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGR  163 (195)
T ss_pred             CCCCCEEEEEEECCChhHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHH
Confidence            99999999999999999999996 5988887655 4789999999999853                   3678889999


Q ss_pred             HHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          126 EFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       126 ~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      .++++++++|+||||+++.||+++|..+++.
T Consensus       164 ~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         164 AVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             HHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            9999999999999999999999999998864

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.

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.97  E-value=2.3e-30  Score=183.77  Aligned_cols=157  Identities=34%  Similarity=0.495  Sum_probs=133.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-hhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-YRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++++...+...+.++.... ....+.+++..+.+.+||+||++. +......+++.+|++|+|+|++
T Consensus         4 vvG~~~~GKtsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~   82 (165)
T cd04146           4 VLGASGVGKSALVVRFLTKRFIGEYDPNLESL-YSRQVTIDGEQVSLEILDTAGQQQADTEQLERSIRWADGFVLVYSIT   82 (165)
T ss_pred             EECCCCCcHHHHHHHHHhCccccccCCChHHh-ceEEEEECCEEEEEEEEECCCCcccccchHHHHHHhCCEEEEEEECC
Confidence            68999999999999999988877777765433 345567788889999999999885 3445678899999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCC-CCHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALES-TNVELAFLTVLTE  156 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~-~~v~~~~~~l~~~  156 (206)
                      ++++++.+..|+..+....  ..+.|+++|+||+|+...+.+..++...++...+.+++++||+++ .|++++|..+.+.
T Consensus        83 ~~~s~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~  162 (165)
T cd04146          83 DRSSFDEISQLKQLIREIKKRDREIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCRE  162 (165)
T ss_pred             CHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHH
Confidence            9999999999988877654  357999999999999766777888888999999999999999999 5999999999987


Q ss_pred             HH
Q 040835          157 IY  158 (206)
Q Consensus       157 i~  158 (206)
                      +.
T Consensus       163 ~~  164 (165)
T cd04146         163 VR  164 (165)
T ss_pred             Hh
Confidence            64

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

>cd00154 Rab Rab family

Probab=99.97  E-value=7.4e-30  Score=179.37  Aligned_cols=154  Identities=57%  Similarity=0.907  Sum_probs=140.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+...+.++.+.+.....+..+...+.+.+||+||++.+...+..+++++|++|+|+|+++
T Consensus         5 ~~G~~~~GKStl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~   84 (159)
T cd00154           5 LIGDSGVGKTSLLLRFVDGKFDENYKSTIGVDFKSKTIEIDGKTVKLQIWDTAGQERFRSITPSYYRGAHGAILVYDITN   84 (159)
T ss_pred             EECCCCCCHHHHHHHHHhCcCCCccCCceeeeeEEEEEEECCEEEEEEEEecCChHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+........|+++++||+|+........+++..++...+.+++++|++++.|++++|.++.
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154          85 RESFENLDKWLKELKEYAPENIPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            99999999999988877656799999999999975567778889999998899999999999999999999886

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.97  E-value=7.2e-30  Score=181.80  Aligned_cols=157  Identities=32%  Similarity=0.508  Sum_probs=137.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|.++.+...+.++.+.. ....+.+++..+.+.+||+||++.|..++..+++.++++++|+|+++
T Consensus         6 liG~~~~GKTsli~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~vlv~~~~~   84 (168)
T cd04177           6 VLGAGGVGKSALTVQFVQNVFIESYDPTIEDS-YRKQVEIDGRQCDLEILDTAGTEQFTAMRELYIKSGQGFLLVYSVTS   84 (168)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCcchhe-EEEEEEECCEEEEEEEEeCCCcccchhhhHHHHhhCCEEEEEEECCC
Confidence            58999999999999999999887777776644 34566677788999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++.+..|...+.... ..+.|+++++||+|+...+.+..++...+++.++ ++++++||+++.|++++|.+++..++
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177          85 EASLNELGELREQVLRIKDSDNVPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999999988876543 3579999999999997667777788888888887 89999999999999999999998764

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

>cd01863 Rab18 Rab18 subfamily

Probab=99.97  E-value=9e-30  Score=179.97  Aligned_cols=155  Identities=52%  Similarity=0.849  Sum_probs=138.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+.....++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus         5 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   84 (161)
T cd01863           5 LIGDSGVGKSSLLLRFTDDTFDPDLAATIGVDFKVKTLTVDGKKVKLAIWDTAGQERFRTLTSSYYRGAQGVILVYDVTR   84 (161)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCcccCCcccceEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHhCCCCEEEEEEECCC
Confidence            58999999999999999998877778887877777777777778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +.++..+..|+..+.... ..++|+++++||+|+.. .....++...++...+++++++|++++.|++++|+.+++.
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~~~~iv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863          85 RDTFTNLETWLNELETYSTNNDIVKMLVGNKIDKEN-REVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             HHHHHhHHHHHHHHHHhCCCCCCcEEEEEECCcccc-cccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            999999999998887664 46799999999999974 4556778888999899999999999999999999998875

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.97  E-value=6.3e-30  Score=191.73  Aligned_cols=156  Identities=25%  Similarity=0.426  Sum_probs=134.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.+|++ +.....+.+++..+.+.||||+|++.|..++..++..+|++|+|||+++
T Consensus         5 vlG~~gvGKTSLi~r~~~~~f~~~y~pTi~-d~~~k~~~i~~~~~~l~I~Dt~G~~~~~~~~~~~~~~ad~iIlVfdv~~   83 (247)
T cd04143           5 VLGASKVGKTAIVSRFLGGRFEEQYTPTIE-DFHRKLYSIRGEVYQLDILDTSGNHPFPAMRRLSILTGDVFILVFSLDN   83 (247)
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCChh-HhEEEEEEECCEEEEEEEEECCCChhhhHHHHHHhccCCEEEEEEeCCC
Confidence            589999999999999999999888878765 4555667778888999999999999998888888999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc---------CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEeccCCCCCHHHHH
Q 040835           81 RQSFDNVARWLEELRGH---------ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELAF  150 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~---------~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~~~  150 (206)
                      +++|+.+..|+..+...         ...++|+++|+||+|+...+.+..+++.+++.. .++.++++||+++.|++++|
T Consensus        84 ~~Sf~~i~~~~~~I~~~k~~~~~~~~~~~~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf  163 (247)
T cd04143          84 RESFEEVCRLREQILETKSCLKNKTKENVKIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMF  163 (247)
T ss_pred             HHHHHHHHHHHHHHHHhhcccccccccCCCCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHH
Confidence            99999999998887643         224789999999999976566777888777764 36789999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      .+|...+
T Consensus       164 ~~L~~~~  170 (247)
T cd04143         164 RALFSLA  170 (247)
T ss_pred             HHHHHHh
Confidence            9999754

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

>cd04114 Rab30 Rab30 subfamily

Probab=99.97  E-value=1.9e-29  Score=179.70  Aligned_cols=157  Identities=45%  Similarity=0.750  Sum_probs=138.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||||+++|....+.+...++.+.......+.+.+..+.+.+||++|++.+...+..++..+|++++|+|+++
T Consensus        12 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~d~~i~v~d~~~   91 (169)
T cd04114          12 LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEIKGEKIKLQIWDTAGQERFRSITQSYYRSANALILTYDITC   91 (169)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCceeeEEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999888877777777767776677788888899999999999999988999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+......++|+++++||+|+...+.+..+....+.+....+++++|++++.|++++|+++.+.+
T Consensus        92 ~~s~~~~~~~~~~l~~~~~~~~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114          92 EESFRCLPEWLREIEQYANNKVITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            99999999999888776656799999999999976667776767777777778899999999999999999998764

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.

>cd04148 RGK RGK subfamily

Probab=99.97  E-value=1.2e-29  Score=187.85  Aligned_cols=163  Identities=26%  Similarity=0.329  Sum_probs=136.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhc-CCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYR-GAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~-~~d~~i~v~d~   78 (206)
                      |+|++|||||||+++|..+.+. ..+.++.+.+.....+.+++....+.+||++|++.+  ....++. .+|++|+|||+
T Consensus         5 lvG~~gvGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~~~~--~~~~~~~~~ad~iilV~d~   82 (221)
T cd04148           5 MLGSPGVGKSSLASQFTSGEYDDHAYDASGDDDTYERTVSVDGEESTLVVIDHWEQEMW--TEDSCMQYQGDAFVVVYSV   82 (221)
T ss_pred             EECCCCCcHHHHHHHHhcCCcCccCcCCCccccceEEEEEECCEEEEEEEEeCCCcchH--HHhHHhhcCCCEEEEEEEC
Confidence            5899999999999999888876 566666554666677778888899999999999832  3345566 89999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           79 TKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        79 ~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +++.++..+..|+..+.... ..++|+++|+||+|+...+.+..++...++...+++++++||+++.||+++|+++++.+
T Consensus        83 td~~S~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~  162 (221)
T cd04148          83 TDRSSFERASELRIQLRRNRQLEDRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQI  162 (221)
T ss_pred             CCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHH
Confidence            99999999999998887654 25799999999999977677777888888888899999999999999999999999988


Q ss_pred             HHHhhhhh
Q 040835          158 YRIVSKKA  165 (206)
Q Consensus       158 ~~~~~~~~  165 (206)
                      .......+
T Consensus       163 ~~~~~~~~  170 (221)
T cd04148         163 RLRRDSKE  170 (221)
T ss_pred             Hhhhcccc
Confidence            76554443

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

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.97  E-value=8.2e-30  Score=179.51  Aligned_cols=149  Identities=20%  Similarity=0.350  Sum_probs=125.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.|||||||+.+++.+.+...+.++ +..+ ...+.+++..+.+.+||++|++.     ..+++.+|++++|||+++
T Consensus         5 vvG~~gvGKTsli~~~~~~~f~~~~~~~-~~~~-~~~i~~~~~~~~l~i~D~~g~~~-----~~~~~~~~~~ilv~d~~~   77 (158)
T cd04103           5 IVGNLQSGKSALVHRYLTGSYVQLESPE-GGRF-KKEVLVDGQSHLLLIRDEGGAPD-----AQFASWVDAVIFVFSLEN   77 (158)
T ss_pred             EECCCCCcHHHHHHHHHhCCCCCCCCCC-ccce-EEEEEECCEEEEEEEEECCCCCc-----hhHHhcCCEEEEEEECCC
Confidence            5899999999999999998887766554 3233 45677888888999999999975     346788999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE--TLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +++|..+..|+..+..... .+.|+++|+||.|+.  ..+.+..++..+++++. ++.|++|||+++.||+++|..+.+.
T Consensus        78 ~~sf~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103          78 EASFQTVYNLYHQLSSYRNISEIPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            9999999999999876653 568999999999984  35678888888998876 5899999999999999999998854

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.

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.97  E-value=1.3e-29  Score=181.23  Aligned_cols=153  Identities=31%  Similarity=0.538  Sum_probs=131.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||||+.++..+.+...+.++. .+.....+.+++..+.+.+||+||++.+..++..+++++|++|+|||+++
T Consensus         5 i~G~~~~GKtsl~~~~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~a~~~i~v~d~~~   83 (173)
T cd04130           5 LVGDGAVGKTSLIVSYTTNGYPTEYVPTA-FDNFSVVVLVDGKPVRLQLCDTAGQDEFDKLRPLCYPDTDVFLLCFSVVN   83 (173)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCce-eeeeeEEEEECCEEEEEEEEECCCChhhccccccccCCCcEEEEEEECCC
Confidence            58999999999999999999888887774 44555567778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +++++.+. .|+..+.... .+.|+++++||+|+..            .+.+..+++..+++..+. .++++||+++.|+
T Consensus        84 ~~sf~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v  162 (173)
T cd04130          84 PSSFQNISEKWIPEIRKHN-PKAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNL  162 (173)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCH
Confidence            99999884 6888777543 4699999999999853            356677888999999887 8999999999999


Q ss_pred             HHHHHHHHH
Q 040835          147 ELAFLTVLT  155 (206)
Q Consensus       147 ~~~~~~l~~  155 (206)
                      +++|+.++-
T Consensus       163 ~~lf~~~~~  171 (173)
T cd04130         163 KEVFDTAIL  171 (173)
T ss_pred             HHHHHHHHh
Confidence            999988763

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,

>cd01892 Miro2 Miro2 subfamily

Probab=99.97  E-value=9.5e-30  Score=181.27  Aligned_cols=156  Identities=22%  Similarity=0.224  Sum_probs=133.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|+++.+. ..+.+|.+..+....+.+++..+.+.+||++|++.+..++..+++.+|++|+|+|++
T Consensus         9 ~vG~~~vGKTsli~~~~~~~f~~~~~~~T~~~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~d~~llv~d~~   88 (169)
T cd01892           9 VLGAKGSGKSALLRAFLGRSFSLNAYSPTIKPRYAVNTVEVYGQEKYLILREVGEDEVAILLNDAELAACDVACLVYDSS   88 (169)
T ss_pred             EECCCCCcHHHHHHHHhCCCCCcccCCCccCcceEEEEEEECCeEEEEEEEecCCcccccccchhhhhcCCEEEEEEeCC
Confidence            5899999999999999999998 788888877776667777888889999999999999888999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++.+++.+..|+..+...  .++|+++|+||+|+...+.....+...+++.+++ .++++||+++.|++++|..+.+.+.
T Consensus        89 ~~~s~~~~~~~~~~~~~~--~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892          89 DPKSFSYCAEVYKKYFML--GEIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             CHHHHHHHHHHHHHhccC--CCCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            999999888888765432  3699999999999965444444456677787877 4799999999999999999998765

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.

>cd04135 Tc10 TC10 subfamily

Probab=99.97  E-value=2.7e-29  Score=179.72  Aligned_cols=155  Identities=29%  Similarity=0.498  Sum_probs=132.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|..+.+...+.++.. ......+.+++..+.+.+|||+|++.+...+..+++.+|++|+|+|+++
T Consensus         5 i~G~~~~GKTsl~~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~ilv~~~~~   83 (174)
T cd04135           5 VVGDGAVGKTCLLMSYANDAFPEEYVPTVF-DHYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN   83 (174)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccccccCCCCCEEEEEEECCC
Confidence            589999999999999999998877777754 3334456777888889999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.+++.+. .|+..+... ..+.|+++++||+|+.+.            ..+..+++..+++..+. +++++||+++.|+
T Consensus        84 ~~s~~~~~~~~~~~l~~~-~~~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi  162 (174)
T cd04135          84 PASFQNVKEEWVPELKEY-APNVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGL  162 (174)
T ss_pred             HHHHHHHHHHHHHHHHhh-CCCCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCH
Confidence            99998885 587777655 468999999999998532            25667788888888886 7999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++|+.+++.+
T Consensus       163 ~~~f~~~~~~~  173 (174)
T cd04135         163 KTVFDEAILAI  173 (174)
T ss_pred             HHHHHHHHHHh
Confidence            99999998875

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

>cd00876 Ras Ras family

Probab=99.97  E-value=6.5e-29  Score=175.13  Aligned_cols=156  Identities=37%  Similarity=0.580  Sum_probs=136.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+.....++.. .........++..+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus         4 i~G~~~~GKTsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   82 (160)
T cd00876           4 VLGAGGVGKSAITIQFVKGTFVEEYDPTIE-DSYRKTIVVDGETYTLDILDTAGQEEFSAMRDLYIRQGDGFILVYSITD   82 (160)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcCcCCChh-HeEEEEEEECCEEEEEEEEECCChHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            589999999999999999888777777755 4555556666677899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|...+..... ..+|+++++||+|+........+++..++..++.+++++|++++.|++++|++|++.+
T Consensus        83 ~~s~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~i  160 (160)
T cd00876          83 RESFEEIKGYREQILRVKDDEDIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVREI  160 (160)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhhC
Confidence            9999999998888776553 5799999999999977667778889999998899999999999999999999998753

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

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.97  E-value=1.2e-28  Score=174.45  Aligned_cols=157  Identities=39%  Similarity=0.574  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|+...+...+.++.+.. .......++..+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus         5 ~~G~~~~GKTsl~~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (164)
T cd04139           5 VVGAGGVGKSALTLQFMYDEFVEDYEPTKADS-YRKKVVLDGEDVQLNILDTAGQEDYAAIRDNYHRSGEGFLLVFSITD   83 (164)
T ss_pred             EECCCCCCHHHHHHHHHhCCCccccCCcchhh-EEEEEEECCEEEEEEEEECCChhhhhHHHHHHhhcCCEEEEEEECCC
Confidence            58999999999999999998887777775533 34555677788999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++..+..|+..+.... ..++|+++++||+|+.........+...+...++++++++||++++|++++|+++.+.+.
T Consensus        84 ~~s~~~~~~~~~~~~~~~~~~~~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139          84 MESFTATAEFREQILRVKDDDNVPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            999999999888877653 357999999999999764556777788888888999999999999999999999988765

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

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=99.97  E-value=5.8e-30  Score=181.52  Aligned_cols=150  Identities=19%  Similarity=0.286  Sum_probs=123.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+...+.||.+...    ..+++..+.+.+||++|++.+...+..+++++|++|+|+|.++
T Consensus         4 ivG~~~vGKTsli~~~~~~~~~~~~~pt~g~~~----~~i~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~t~   79 (164)
T cd04162           4 VLGLDGAGKTSLLHSLSSERSLESVVPTTGFNS----VAIPTQDAIMELLEIGGSQNLRKYWKRYLSGSQGLIFVVDSAD   79 (164)
T ss_pred             EECCCCCCHHHHHHHHhcCCCcccccccCCcce----EEEeeCCeEEEEEECCCCcchhHHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999888777788876543    2345567899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH----HHHHHHHHHcCCeEEEeccCC------CCCHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT----EDAKEFAEKEGLCFMETSALE------STNVELAF  150 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~----~~~~~~~~~~~~~~~~~Sa~~------~~~v~~~~  150 (206)
                      +.++...+.|+..+.... .++|+++|+||+|+...+.+..    .++..++.+.++.++++||++      ++||+++|
T Consensus        80 ~~s~~~~~~~l~~~~~~~-~~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~  158 (164)
T cd04162          80 SERLPLARQELHQLLQHP-PDLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLL  158 (164)
T ss_pred             HHHHHHHHHHHHHHHhCC-CCCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHH
Confidence            999998888888776543 5799999999999865443221    123455566678899998888      99999999


Q ss_pred             HHHHH
Q 040835          151 LTVLT  155 (206)
Q Consensus       151 ~~l~~  155 (206)
                      ..++.
T Consensus       159 ~~~~~  163 (164)
T cd04162         159 SQLIN  163 (164)
T ss_pred             HHHhc
Confidence            98864

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.

>KOG0395 consensus Ras-related GTPase [General function prediction only]

Probab=99.97  E-value=1e-28  Score=178.40  Aligned_cols=161  Identities=36%  Similarity=0.502  Sum_probs=148.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|+|||+|..+|....|...++||++ +.+...+.+++....+.|+||+|++++..+...++..+|++++||++++
T Consensus         8 vlG~~gVGKSal~~qf~~~~f~~~y~ptie-d~y~k~~~v~~~~~~l~ilDt~g~~~~~~~~~~~~~~~~gF~lVysitd   86 (196)
T KOG0395|consen    8 VLGAGGVGKSALTIQFLTGRFVEDYDPTIE-DSYRKELTVDGEVCMLEILDTAGQEEFSAMRDLYIRNGDGFLLVYSITD   86 (196)
T ss_pred             EECCCCCCcchheeeecccccccccCCCcc-ccceEEEEECCEEEEEEEEcCCCcccChHHHHHhhccCcEEEEEEECCC
Confidence            589999999999999999999999999977 6777888899999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.||+.+..++..+.+... ..+|+++|+||+|+...+.+..++...++..++++++|+||+.+.+++++|..+++.+-.
T Consensus        87 ~~SF~~~~~l~~~I~r~~~~~~~PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~  166 (196)
T KOG0395|consen   87 RSSFEEAKQLREQILRVKGRDDVPIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRL  166 (196)
T ss_pred             HHHHHHHHHHHHHHHHhhCcCCCCEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHh
Confidence            9999999999998855443 568999999999999889999999999999999999999999999999999999988876


Q ss_pred             Hhh
Q 040835          160 IVS  162 (206)
Q Consensus       160 ~~~  162 (206)
                      .+.
T Consensus       167 ~~~  169 (196)
T KOG0395|consen  167 PRE  169 (196)
T ss_pred             hhc
Confidence            433

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.96  E-value=5e-28  Score=174.12  Aligned_cols=159  Identities=38%  Similarity=0.564  Sum_probs=135.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|+|||||+++|.+..+.....++.+..+ ......++..+.+.+||+||++.+...+..++..++++++++|+++
T Consensus         6 l~G~~g~GKTtl~~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (180)
T cd04137           6 VLGSRSVGKSSLTVQFVEGHFVESYYPTIENTF-SKIIRYKGQDYHLEIVDTAGQDEYSILPQKYSIGIHGYILVYSVTS   84 (180)
T ss_pred             EECCCCCCHHHHHHHHHhCCCccccCcchhhhE-EEEEEECCEEEEEEEEECCChHhhHHHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999888776777654433 3455666777889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ..+++.+..|+..+.+.. ..+.|+++++||+|+...+.+..++...++..++.+++++||+++.|+.++|.++.+.+..
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  164 (180)
T cd04137          85 RKSFEVVKVIYDKILDMLGKESVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEK  164 (180)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999988877775543 3578999999999997656667777788888888999999999999999999999988765


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       165 ~  165 (180)
T cd04137         165 V  165 (180)
T ss_pred             h
Confidence            4

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

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.96  E-value=4.7e-28  Score=173.46  Aligned_cols=155  Identities=30%  Similarity=0.515  Sum_probs=129.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|....+...+.++.+..+. ..+.+++..+.+.+|||+|++.+...+..++.++|++++|+|+++
T Consensus         6 iiG~~~~GKTsl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~~~~~   84 (175)
T cd01870           6 IVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDS   84 (175)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccccceE-EEEEECCEEEEEEEEeCCCchhhhhccccccCCCCEEEEEEECCC
Confidence            5899999999999999999998878777664443 456677788899999999999998888888999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +++++.+. .|+..+.... .++|+++++||+|+...            ..+...+...++...+. ++++|||+++.|+
T Consensus        85 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  163 (175)
T cd01870          85 PDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGV  163 (175)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCH
Confidence            99998885 5877776543 47999999999998532            23445667778877764 7999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++|.++.+.+
T Consensus       164 ~~lf~~l~~~~  174 (175)
T cd01870         164 REVFEMATRAA  174 (175)
T ss_pred             HHHHHHHHHHh
Confidence            99999998654

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

>cd04147 Ras_dva Ras-dva subfamily

Probab=99.96  E-value=5.3e-28  Score=176.50  Aligned_cols=157  Identities=31%  Similarity=0.426  Sum_probs=130.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+...+...+.++.. ......+.+.+..+.+.+||++|+..+..++..++..+|++|+|||+++
T Consensus         4 vvG~~~vGKTsll~~~~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~G~~~~~~~~~~~~~~ad~vilv~d~~~   82 (198)
T cd04147           4 FMGAAGVGKTALIQRFLYDTFEPKYRRTVE-EMHRKEYEVGGVSLTLDILDTSGSYSFPAMRKLSIQNSDAFALVYAVDD   82 (198)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCccCCCchh-hheeEEEEECCEEEEEEEEECCCchhhhHHHHHHhhcCCEEEEEEECCC
Confidence            589999999999999999988877766654 3445566677777899999999999999888999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCc-CCCCCHHHHHHHHH-HcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLET-LRAVPTEDAKEFAE-KEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.+++.+..|+..+..... .++|+++|+||+|+.. .+.+..++..+... .++.+++++||+++.|++++|+++++.+
T Consensus        83 ~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~  162 (198)
T cd04147          83 PESFEEVERLREEILEVKEDKFVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQA  162 (198)
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHh
Confidence            9999999999888766543 5799999999999854 34455544444443 4567899999999999999999999866


Q ss_pred             H
Q 040835          158 Y  158 (206)
Q Consensus       158 ~  158 (206)
                      .
T Consensus       163 ~  163 (198)
T cd04147         163 N  163 (198)
T ss_pred             h
Confidence            4

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.

>cd04158 ARD1 ARD1 subfamily

Probab=99.96  E-value=2.4e-28  Score=174.08  Aligned_cols=153  Identities=22%  Similarity=0.359  Sum_probs=123.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|.+..+.. +.+|.+.....    ++...+.+.+||+||++.+...+..+++.+|++++|+|.++
T Consensus         4 lvG~~~~GKTsl~~~l~~~~~~~-~~~T~~~~~~~----~~~~~~~i~l~Dt~G~~~~~~~~~~~~~~ad~ii~V~D~s~   78 (169)
T cd04158           4 TLGLDGAGKTTILFKLKQDEFMQ-PIPTIGFNVET----VEYKNLKFTIWDVGGKHKLRPLWKHYYLNTQAVVFVVDSSH   78 (169)
T ss_pred             EECCCCCCHHHHHHHHhcCCCCC-cCCcCceeEEE----EEECCEEEEEEECCCChhcchHHHHHhccCCEEEEEEeCCc
Confidence            58999999999999999987643 56666555432    23346889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC------CeEEEeccCCCCCHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG------LCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~------~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      ++++..+..|+..+.... ..+.|+++++||+|+..  .+..+++..++...+      +.++++||+++.||+++|++|
T Consensus        79 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l  156 (169)
T cd04158          79 RDRVSEAHSELAKLLTEKELRDALLLIFANKQDVAG--ALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWL  156 (169)
T ss_pred             HHHHHHHHHHHHHHhcChhhCCCCEEEEEeCcCccc--CCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHH
Confidence            999999988888776543 24589999999999863  356666666654222      368899999999999999999


Q ss_pred             HHHHHHH
Q 040835          154 LTEIYRI  160 (206)
Q Consensus       154 ~~~i~~~  160 (206)
                      .+.+...
T Consensus       157 ~~~~~~~  163 (169)
T cd04158         157 SRQLVAA  163 (169)
T ss_pred             HHHHhhc
Confidence            8877654

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=99.96  E-value=7.5e-28  Score=173.62  Aligned_cols=160  Identities=18%  Similarity=0.342  Sum_probs=126.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ++|.+|||||||+++|....+... .+|.+.+.....+.. ++..+.+.+|||+|++.+..++..+++.+|++|+|+|++
T Consensus         8 ~vG~~~~GKTsli~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~   86 (183)
T cd04152           8 MLGLDSAGKTTVLYRLKFNEFVNT-VPTKGFNTEKIKVSLGNSKGITFHFWDVGGQEKLRPLWKSYTRCTDGIVFVVDSV   86 (183)
T ss_pred             EECCCCCCHHHHHHHHhcCCcCCc-CCccccceeEEEeeccCCCceEEEEEECCCcHhHHHHHHHHhccCCEEEEEEECC
Confidence            589999999999999999887644 566666665555444 346789999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH--H----cCCeEEEeccCCCCCHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE--K----EGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~--~----~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      +..++..+..|+..+.... ..+.|+++++||+|+..  ....++...+..  .    .+++++++||++++|++++|++
T Consensus        87 ~~~~~~~~~~~~~~i~~~~~~~~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~  164 (183)
T cd04152          87 DVERMEEAKTELHKITRFSENQGVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEK  164 (183)
T ss_pred             CHHHHHHHHHHHHHHHhhhhcCCCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHH
Confidence            9998888888877765432 35799999999999853  234444444432  1    1246899999999999999999


Q ss_pred             HHHHHHHHhhh
Q 040835          153 VLTEIYRIVSK  163 (206)
Q Consensus       153 l~~~i~~~~~~  163 (206)
                      |.+.+.+.++-
T Consensus       165 l~~~l~~~~~~  175 (183)
T cd04152         165 LYEMILKRRKM  175 (183)
T ss_pred             HHHHHHHHHhh
Confidence            99998766543

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.

>cd04149 Arf6 Arf6 subfamily

Probab=99.96  E-value=2.5e-28  Score=173.79  Aligned_cols=148  Identities=22%  Similarity=0.393  Sum_probs=117.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|..+.+. .+.||.+.++..  +.  ...+.+.+|||+|++.+...+..+++.+|++|+|||+++
T Consensus        14 i~G~~~~GKTsli~~l~~~~~~-~~~~t~g~~~~~--~~--~~~~~~~l~Dt~G~~~~~~~~~~~~~~a~~ii~v~D~t~   88 (168)
T cd04149          14 MLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVET--VT--YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSAD   88 (168)
T ss_pred             EECcCCCCHHHHHHHHccCCCc-cccCCcccceEE--EE--ECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCc
Confidence            5899999999999999887764 356676665542  22  346889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+.... ..++|+++|+||+|+..  .+..+++..+...     ...+++++||++|.|++++|++|.
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~  166 (168)
T cd04149          89 RDRIDEARQELHRIINDREMRDALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLS  166 (168)
T ss_pred             hhhHHHHHHHHHHHhcCHhhcCCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHh
Confidence            999988887776654322 24689999999999864  2455666655431     234689999999999999999986


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       167 ~  167 (168)
T cd04149         167 S  167 (168)
T ss_pred             c
Confidence            4

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

>PLN00223 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=3.7e-28  Score=174.78  Aligned_cols=152  Identities=20%  Similarity=0.346  Sum_probs=118.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|||||||+++|..+.+. .+.||.+.+...    ++...+.+.+||+||++.+..++..+++++|++|+|+|+++
T Consensus        22 ivG~~~~GKTsl~~~l~~~~~~-~~~pt~g~~~~~----~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~a~~iI~V~D~s~   96 (181)
T PLN00223         22 MVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND   96 (181)
T ss_pred             EECCCCCCHHHHHHHHccCCCc-cccCCcceeEEE----EEECCEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEeCCc
Confidence            5899999999999999987775 456776665432    23346889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-----CeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-----LCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..++..+... ...+.|++|++||+|+...  ...++......-..     +.++++||++|+|++++|++|.
T Consensus        97 ~~s~~~~~~~l~~~l~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  174 (181)
T PLN00223         97 RDRVVEARDELHRMLNEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLS  174 (181)
T ss_pred             HHHHHHHHHHHHHHhcCHhhCCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHH
Confidence            99998887776665432 2247899999999998642  33344333322111     2466899999999999999998


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       175 ~~~~~  179 (181)
T PLN00223        175 NNIAN  179 (181)
T ss_pred             HHHhh
Confidence            88765

>cd04129 Rho2 Rho2 subfamily

Probab=99.96  E-value=8.1e-28  Score=174.04  Aligned_cols=158  Identities=32%  Similarity=0.527  Sum_probs=131.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|..+.+...+.++....+ ...+.+++..+.+.+||++|++.+......++..+|++++++|+++
T Consensus         6 ivG~~g~GKStLl~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~a~~~llv~~i~~   84 (187)
T cd04129           6 IVGDGACGKTSLLSVFTLGEFPEEYHPTVFENY-VTDCRVDGKPVQLALWDTAGQEEYERLRPLSYSKAHVILIGFAVDT   84 (187)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCcccceE-EEEEEECCEEEEEEEEECCCChhccccchhhcCCCCEEEEEEECCC
Confidence            689999999999999998888766666644333 3355667777889999999999888777778899999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc----------CCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET----------LRAVPTEDAKEFAEKEGL-CFMETSALESTNVEL  148 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~----------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~  148 (206)
                      .+++..+. .|+..+.... ...|+++|+||+|+..          .+.+..++...+++..+. ++|++||+++.|+++
T Consensus        85 ~~s~~~~~~~~~~~i~~~~-~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~  163 (187)
T cd04129          85 PDSLENVRTKWIEEVRRYC-PNVPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDD  163 (187)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHH
Confidence            99999986 5888887654 4699999999999843          234556778888888885 799999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          149 AFLTVLTEIYRI  160 (206)
Q Consensus       149 ~~~~l~~~i~~~  160 (206)
                      +|.++.+.+...
T Consensus       164 ~f~~l~~~~~~~  175 (187)
T cd04129         164 VFEAATRAALLV  175 (187)
T ss_pred             HHHHHHHHHhcc
Confidence            999999877555

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).

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=99.96  E-value=1.1e-27  Score=168.97  Aligned_cols=148  Identities=20%  Similarity=0.367  Sum_probs=114.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|..+.+. .+.||.+.....  +.  ...+.+.+||+||++.+...+..+++++|++|+|+|+++
T Consensus         5 ~~G~~~~GKTsli~~l~~~~~~-~~~pt~g~~~~~--~~--~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~~i~v~D~~~   79 (159)
T cd04150           5 MVGLDAAGKTTILYKLKLGEIV-TTIPTIGFNVET--VE--YKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND   79 (159)
T ss_pred             EECCCCCCHHHHHHHHhcCCCc-ccCCCCCcceEE--EE--ECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCC
Confidence            5899999999999999887775 466776665432  22  246889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+... .....|+++++||+|+...  ...+++.....     ..++.++++||++|.|++++|++|.
T Consensus        80 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~  157 (159)
T cd04150          80 RERIGEAREELQRMLNEDELRDAVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLS  157 (159)
T ss_pred             HHHHHHHHHHHHHHHhcHHhcCCCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHh
Confidence            99999888877665432 2246899999999998642  22333322221     1234578999999999999999986


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       158 ~  158 (159)
T cd04150         158 N  158 (159)
T ss_pred             c
Confidence            4

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

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

Probab=99.96  E-value=2.3e-27  Score=169.88  Aligned_cols=150  Identities=22%  Similarity=0.371  Sum_probs=116.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|..+.+. .+.||.+..+..  ..  ...+.+.+||+||++.+...+..+++++|++|+|+|+++
T Consensus        18 l~G~~~~GKTsL~~~~~~~~~~-~~~~t~~~~~~~--~~--~~~~~l~l~D~~G~~~~~~~~~~~~~~ad~ii~v~D~t~   92 (175)
T smart00177       18 MVGLDAAGKTTILYKLKLGESV-TTIPTIGFNVET--VT--YKNISFTVWDVGGQDKIRPLWRHYYTNTQGLIFVVDSND   92 (175)
T ss_pred             EEcCCCCCHHHHHHHHhcCCCC-CcCCccccceEE--EE--ECCEEEEEEECCCChhhHHHHHHHhCCCCEEEEEEECCC
Confidence            5899999999999999877764 456776665542  22  245889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +++++....|+..+.... ..+.|++||+||+|+...  ...+++......     ..+.++++||++|+|++++|++|.
T Consensus        93 ~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  170 (175)
T smart00177       93 RDRIDEAREELHRMLNEDELRDAVILVFANKQDLPDA--MKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLS  170 (175)
T ss_pred             HHHHHHHHHHHHHHhhCHhhcCCcEEEEEeCcCcccC--CCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHH
Confidence            999998888877765432 246899999999998642  233333332211     123477899999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +.+
T Consensus       171 ~~~  173 (175)
T smart00177      171 NNL  173 (175)
T ss_pred             HHh
Confidence            764

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).

>cd01893 Miro1 Miro1 subfamily

Probab=99.96  E-value=2.3e-27  Score=168.52  Aligned_cols=156  Identities=28%  Similarity=0.346  Sum_probs=120.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.++.+...+.++ ... ......+.+..+.+.+|||+|.+.+...+..++..+|++++|||+++
T Consensus         5 ivG~~~vGKTsl~~~l~~~~~~~~~~~~-~~~-~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~ad~~ilv~d~~~   82 (166)
T cd01893           5 LIGDEGVGKSSLIMSLVSEEFPENVPRV-LPE-ITIPADVTPERVPTTIVDTSSRPQDRANLAAEIRKANVICLVYSVDR   82 (166)
T ss_pred             EECCCCCCHHHHHHHHHhCcCCccCCCc-ccc-eEeeeeecCCeEEEEEEeCCCchhhhHHHhhhcccCCEEEEEEECCC
Confidence            5899999999999999999886554332 222 22334455677899999999998888778888899999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHcC--CeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEKEG--LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.+++.+. .|+..+.... .+.|+++|+||+|+.+....  ..+++..++..+.  .+++++||+++.|++++|+.+..
T Consensus        83 ~~s~~~~~~~~~~~i~~~~-~~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  161 (166)
T cd01893          83 PSTLERIRTKWLPLIRRLG-VKVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQK  161 (166)
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHH
Confidence            99999875 6888777655 47999999999999653332  1233334444432  37999999999999999999988


Q ss_pred             HHHH
Q 040835          156 EIYR  159 (206)
Q Consensus       156 ~i~~  159 (206)
                      .+++
T Consensus       162 ~~~~  165 (166)
T cd01893         162 AVLH  165 (166)
T ss_pred             HhcC
Confidence            7654

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.

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=99.96  E-value=6.1e-27  Score=170.33  Aligned_cols=144  Identities=24%  Similarity=0.383  Sum_probs=121.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-----CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-----HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLV   75 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-----~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   75 (206)
                      ++|..|||||||+++|..+.+...+.+|++.++....+.++     +..+.+.||||+|++.|..++..+++++|++|+|
T Consensus         5 lvGd~gVGKTSLi~~~~~~~f~~~~~~Tig~~~~~k~~~~~~~~~~~~~~~l~IwDtaG~e~~~~l~~~~yr~ad~iIlV   84 (202)
T cd04102           5 VVGDSGVGKSSLVHLICKNQVLGRPSWTVGCSVDVKHHTYKEGTPEEKTFFVELWDVGGSESVKSTRAVFYNQVNGIILV   84 (202)
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCcceeeeEEEEEEEEcCCCCCCcEEEEEEEecCCchhHHHHHHHHhCcCCEEEEE
Confidence            58999999999999999999988888888877766666653     4578899999999999999999999999999999


Q ss_pred             eeCCChhhHHHHHHHHHHHHhc-------------------CCCCCcEEEEEeCCCCCcCCCCCHHH----HHHHHHHcC
Q 040835           76 YDITKRQSFDNVARWLEELRGH-------------------ADKNIIIMLVGNKSDLETLRAVPTED----AKEFAEKEG  132 (206)
Q Consensus        76 ~d~~~~~s~~~~~~~~~~~~~~-------------------~~~~~p~ivv~nK~D~~~~~~~~~~~----~~~~~~~~~  132 (206)
                      ||++++.+++.+..|+..+...                   ...++|+++|+||.|+..++.+....    ...++.+.+
T Consensus        85 yDvtn~~Sf~~l~~W~~ei~~~~~~~~~~~~~~~~~~~~~~~~~~~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~  164 (202)
T cd04102          85 HDLTNRKSSQNLQRWSLEALNKDTFPTGLLVTNGDYDSEQFGGNQIPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGN  164 (202)
T ss_pred             EECcChHHHHHHHHHHHHHHHhhccccccccccccccccccCCCCceEEEEEECccchhhcccchHHHhhHhhhHHHhcC
Confidence            9999999999999999998653                   12468999999999997655554442    446678889


Q ss_pred             CeEEEeccCCCC
Q 040835          133 LCFMETSALEST  144 (206)
Q Consensus       133 ~~~~~~Sa~~~~  144 (206)
                      ++.++.++.+..
T Consensus       165 ~~~i~~~c~~~~  176 (202)
T cd04102         165 AEEINLNCTNGR  176 (202)
T ss_pred             CceEEEecCCcc
Confidence            998888877554

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=99.96  E-value=4.5e-27  Score=169.34  Aligned_cols=153  Identities=23%  Similarity=0.379  Sum_probs=117.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||++++..+.+.. +.||.+.++..  +  +...+.+.+||++|++.+...+..+++.+|++|+|+|+++
T Consensus        22 lvG~~~vGKTsli~~~~~~~~~~-~~~T~~~~~~~--~--~~~~~~~~l~D~~G~~~~~~~~~~~~~~ad~iI~v~D~t~   96 (182)
T PTZ00133         22 MVGLDAAGKTTILYKLKLGEVVT-TIPTIGFNVET--V--EYKNLKFTMWDVGGQDKLRPLWRHYYQNTNGLIFVVDSND   96 (182)
T ss_pred             EEcCCCCCHHHHHHHHhcCCccc-cCCccccceEE--E--EECCEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCC
Confidence            58999999999999998877754 56676655432  2  2346889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++.....++..+... ....+|+++++||.|+..  ....+++......     ..+.++++||+++.|++++|++|.
T Consensus        97 ~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~  174 (182)
T PTZ00133         97 RERIGDAREELERMLSEDELRDAVLLVFANKQDLPN--AMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLS  174 (182)
T ss_pred             HHHHHHHHHHHHHHHhCHhhcCCCEEEEEeCCCCCC--CCCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHH
Confidence            99998887776665432 224689999999999853  2233333222211     123577999999999999999999


Q ss_pred             HHHHHH
Q 040835          155 TEIYRI  160 (206)
Q Consensus       155 ~~i~~~  160 (206)
                      +.+.+.
T Consensus       175 ~~i~~~  180 (182)
T PTZ00133        175 ANIKKS  180 (182)
T ss_pred             HHHHHh
Confidence            877664

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=99.96  E-value=1.3e-26  Score=171.30  Aligned_cols=156  Identities=31%  Similarity=0.552  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++++.+.+...+.++.+.++....+..+...+.+.+||++|++.+...+..++..++++|+|+|+++
T Consensus        14 liG~~g~GKTtLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~i~i~~~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   93 (215)
T PTZ00132         14 LVGDGGVGKTTFVKRHLTGEFEKKYIPTLGVEVHPLKFYTNCGPICFNVWDTAGQEKFGGLRDGYYIKGQCAIIMFDVTS   93 (215)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCchhhhhhhHHHhccCCEEEEEEECcC
Confidence            58999999999999999888888888998888877777778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... .+.|+++++||+|+.. +.... +...++...++.++++|++++.|+++.|.++.+.+..
T Consensus        94 ~~s~~~~~~~~~~i~~~~-~~~~i~lv~nK~Dl~~-~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~  169 (215)
T PTZ00132         94 RITYKNVPNWHRDIVRVC-ENIPIVLVGNKVDVKD-RQVKA-RQITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTN  169 (215)
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECccCcc-ccCCH-HHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            999999999999887655 5689999999999864 33333 3346677778899999999999999999999988765

>KOG0393 consensus Ras-related small GTPase, Rho type [General function prediction only]

Probab=99.96  E-value=2e-28  Score=173.40  Aligned_cols=159  Identities=31%  Similarity=0.528  Sum_probs=143.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |||+.++|||+|+-.+..+.|+..+.||+. +-+...++++ +..+.+.+|||+|+++|+.+++..++++|++++||++.
T Consensus         9 vVGDga~GKT~ll~~~t~~~fp~~yvPTVF-dnys~~v~V~dg~~v~L~LwDTAGqedYDrlRplsY~~tdvfl~cfsv~   87 (198)
T KOG0393|consen    9 VVGDGAVGKTCLLISYTTNAFPEEYVPTVF-DNYSANVTVDDGKPVELGLWDTAGQEDYDRLRPLSYPQTDVFLLCFSVV   87 (198)
T ss_pred             EECCCCcCceEEEEEeccCcCcccccCeEE-ccceEEEEecCCCEEEEeeeecCCCcccccccccCCCCCCEEEEEEEcC
Confidence            689999999999999999999999999976 4555678885 99999999999999999999988999999999999999


Q ss_pred             ChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEeccCCCCC
Q 040835           80 KRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEG-LCFMETSALESTN  145 (206)
Q Consensus        80 ~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~  145 (206)
                      ++++++++ ..|+.++...+ +++|+++|++|.|+..+            ..+..++...+++++| ..|+||||++..|
T Consensus        88 ~p~S~~nv~~kW~pEi~~~c-p~vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~  166 (198)
T KOG0393|consen   88 SPESFENVKSKWIPEIKHHC-PNVPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKG  166 (198)
T ss_pred             ChhhHHHHHhhhhHHHHhhC-CCCCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCC
Confidence            99999997 55999999988 78999999999999632            3567788999999999 5699999999999


Q ss_pred             HHHHHHHHHHHHHHHh
Q 040835          146 VELAFLTVLTEIYRIV  161 (206)
Q Consensus       146 v~~~~~~l~~~i~~~~  161 (206)
                      ++++|+..+...+...
T Consensus       167 v~~vF~~a~~~~l~~~  182 (198)
T KOG0393|consen  167 VKEVFDEAIRAALRPP  182 (198)
T ss_pred             cHHHHHHHHHHHhccc
Confidence            9999999999888763

>cd00157 Rho Rho (Ras homology) family

Probab=99.96  E-value=6.2e-27  Score=166.90  Aligned_cols=153  Identities=31%  Similarity=0.543  Sum_probs=127.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.. .........++..+.+.+||+||++.+......+++.+|++++|||+++
T Consensus         5 i~G~~~~GKSsli~~l~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~~~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   83 (171)
T cd00157           5 VVGDGAVGKTCLLISYTTGKFPTEYVPTVF-DNYSATVTVDGKQVNLGLWDTAGQEEYDRLRPLSYPNTDVFLICFSVDS   83 (171)
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCcee-eeeEEEEEECCEEEEEEEEeCCCcccccccchhhcCCCCEEEEEEECCC
Confidence            589999999999999999998766666644 3344455667888999999999999888888888999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC-----------CCCHHHHHHHHHHcCC-eEEEeccCCCCCHH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLR-----------AVPTEDAKEFAEKEGL-CFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-----------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~  147 (206)
                      ++++.... .|+..+.... .+.|+++|+||+|+....           .+..++...+...++. +++++||+++.|++
T Consensus        84 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~  162 (171)
T cd00157          84 PSSFENVKTKWIPEIRHYC-PNVPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVK  162 (171)
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHH
Confidence            99987764 5777776554 479999999999985433           2356777888888887 89999999999999


Q ss_pred             HHHHHHHH
Q 040835          148 LAFLTVLT  155 (206)
Q Consensus       148 ~~~~~l~~  155 (206)
                      ++|.++++
T Consensus       163 ~l~~~i~~  170 (171)
T cd00157         163 EVFEEAIR  170 (171)
T ss_pred             HHHHHHhh
Confidence            99999875

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

>cd04157 Arl6 Arl6 subfamily

Probab=99.95  E-value=3.3e-27  Score=166.91  Aligned_cols=149  Identities=20%  Similarity=0.335  Sum_probs=115.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC-CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF-SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ++|++|||||||+++|.+..+ ...+.++.+.+...    +....+.+.+|||||++.+...+..+++.+|++|+|+|++
T Consensus         4 ~vG~~~~GKTsl~~~l~~~~~~~~~~~~t~g~~~~~----~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~   79 (162)
T cd04157           4 VVGLDNSGKTTIINQLKPENAQSQIIVPTVGFNVES----FEKGNLSFTAFDMSGQGKYRGLWEHYYKNIQGIIFVIDSS   79 (162)
T ss_pred             EECCCCCCHHHHHHHHcccCCCcceecCccccceEE----EEECCEEEEEEECCCCHhhHHHHHHHHccCCEEEEEEeCC
Confidence            589999999999999998753 45566776654432    2234688999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++.++.....|+..+....   ..++|+++++||+|+....  ...++.....     ....+++++||+++.|++++|+
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~  157 (162)
T cd04157          80 DRLRLVVVKDELELLLNHPDIKHRRVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQ  157 (162)
T ss_pred             cHHHHHHHHHHHHHHHcCcccccCCCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHH
Confidence            9999888888877765432   3579999999999986422  2233322221     1134589999999999999999


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      +|.+
T Consensus       158 ~l~~  161 (162)
T cd04157         158 WLQA  161 (162)
T ss_pred             HHhc
Confidence            9864

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

>cd04154 Arl2 Arl2 subfamily

Probab=99.95  E-value=4.6e-27  Score=168.08  Aligned_cols=148  Identities=23%  Similarity=0.357  Sum_probs=116.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+ ....++.+...  ..+.++  .+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus        19 ivG~~~~GKTsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~--~~~l~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   93 (173)
T cd04154          19 ILGLDNAGKTTILKKLLGEDI-DTISPTLGFQI--KTLEYE--GYKLNIWDVGGQKTLRPYWRNYFESTDALIWVVDSSD   93 (173)
T ss_pred             EECCCCCCHHHHHHHHccCCC-CCcCCccccce--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCC
Confidence            589999999999999998755 34556655433  233333  5789999999999998899999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++.....|+..+... ...+.|+++|+||+|+...  ...+++..+..     ..+++++++||++|.|++++|.+++
T Consensus        94 ~~s~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  171 (173)
T cd04154          94 RLRLDDCKRELKELLQEERLAGATLLILANKQDLPGA--LSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLV  171 (173)
T ss_pred             HHHHHHHHHHHHHHHhChhhcCCCEEEEEECcccccC--CCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHh
Confidence            99998888887776432 2357999999999998642  24455555543     2356899999999999999999986


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       172 ~  172 (173)
T cd04154         172 D  172 (173)
T ss_pred             c
Confidence            4

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.

>PTZ00099 rab6; Provisional

Probab=99.95  E-value=2.4e-26  Score=164.31  Aligned_cols=141  Identities=40%  Similarity=0.705  Sum_probs=126.8

Q ss_pred             CCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcC
Q 040835           19 DEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA   98 (206)
Q Consensus        19 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~   98 (206)
                      +.|...+.+|++.++....+.+++..+.+.||||+|++.+..++..+++++|++|+|||++++++|+.+..|+..+....
T Consensus         3 ~~F~~~~~~Tig~~~~~~~~~~~~~~v~l~iwDt~G~e~~~~~~~~~~~~ad~~ilv~D~t~~~sf~~~~~w~~~i~~~~   82 (176)
T PTZ00099          3 DTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRSLIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNER   82 (176)
T ss_pred             CCcCCCCCCccceEEEEEEEEECCEEEEEEEEECCChHHhhhccHHHhCCCcEEEEEEECCCHHHHHHHHHHHHHHHHhc
Confidence            35677888999988888888888889999999999999999999999999999999999999999999999999887655


Q ss_pred             CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           99 DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        99 ~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ..++|+++|+||+|+...+.+..++...++..++..++++||++++||+++|.+|++.+.+
T Consensus        83 ~~~~piilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~  143 (176)
T PTZ00099         83 GKDVIIALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPN  143 (176)
T ss_pred             CCCCeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            5678999999999997666778888888998889999999999999999999999988755

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=99.95  E-value=1.9e-27  Score=169.07  Aligned_cols=148  Identities=21%  Similarity=0.303  Sum_probs=116.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+. +...+.+|.+.+.  ..+.  ...+.+.+||+||++.+..++..+++++|++|+|+|+++
T Consensus         4 ~~G~~~~GKTsl~~~l~~~-~~~~~~~t~g~~~--~~~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~a~~ii~V~D~s~   78 (167)
T cd04161           4 TVGLDNAGKTTLVSALQGE-IPKKVAPTVGFTP--TKLR--LDKYEVCIFDLGGGANFRGIWVNYYAEAHGLVFVVDSSD   78 (167)
T ss_pred             EECCCCCCHHHHHHHHhCC-CCccccCcccceE--EEEE--ECCEEEEEEECCCcHHHHHHHHHHHcCCCEEEEEEECCc
Confidence            5899999999999999976 6666777776543  2333  345789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHH------HHHHHHc--CCeEEEeccCCC------CC
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDA------KEFAEKE--GLCFMETSALES------TN  145 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~------~~~~~~~--~~~~~~~Sa~~~------~~  145 (206)
                      ..++..+..|+..+.... ..++|+++|+||+|+...+  ...++      ..++.+.  .+.+++|||++|      .|
T Consensus        79 ~~s~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~~~--~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g  156 (167)
T cd04161          79 DDRVQEVKEILRELLQHPRVSGKPILVLANKQDKKNAL--LGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPS  156 (167)
T ss_pred             hhHHHHHHHHHHHHHcCccccCCcEEEEEeCCCCcCCC--CHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccC
Confidence            999999999988876543 2578999999999986533  22222      2233222  246788999998      89


Q ss_pred             HHHHHHHHHH
Q 040835          146 VELAFLTVLT  155 (206)
Q Consensus       146 v~~~~~~l~~  155 (206)
                      +.+.|+||..
T Consensus       157 ~~~~~~wl~~  166 (167)
T cd04161         157 IVEGLRWLLA  166 (167)
T ss_pred             HHHHHHHHhc
Confidence            9999999974

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=99.95  E-value=1.9e-26  Score=165.06  Aligned_cols=148  Identities=24%  Similarity=0.388  Sum_probs=114.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|+|||||+++|..+.+.. ..++.+.+...  ...  ..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus        20 ~~G~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~~--~~~--~~~~~~l~D~~G~~~~~~~~~~~~~~~d~vi~V~D~s~   94 (174)
T cd04153          20 IVGLDNAGKTTILYQFLLGEVVH-TSPTIGSNVEE--IVY--KNIRFLMWDIGGQESLRSSWNTYYTNTDAVILVIDSTD   94 (174)
T ss_pred             EECCCCCCHHHHHHHHccCCCCC-cCCccccceEE--EEE--CCeEEEEEECCCCHHHHHHHHHHhhcCCEEEEEEECCC
Confidence            58999999999999999887764 45665655432  222  35889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++.....++..+.... ..+.|+++++||+|+..  ....+++....     ...+++++++||++++|++++|++|.
T Consensus        95 ~~~~~~~~~~l~~~~~~~~~~~~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~  172 (174)
T cd04153          95 RERLPLTKEELYKMLAHEDLRKAVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIA  172 (174)
T ss_pred             HHHHHHHHHHHHHHHhchhhcCCCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHh
Confidence            998887777666654332 24689999999999864  22344433222     22345799999999999999999986


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       173 ~  173 (174)
T cd04153         173 S  173 (174)
T ss_pred             c
Confidence            4

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.

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=99.95  E-value=1.8e-26  Score=162.93  Aligned_cols=149  Identities=25%  Similarity=0.407  Sum_probs=114.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+.. ..++.+.+..  .+.. ...+.+.+||+||++.+...+..++..+|++|+|+|.++
T Consensus         4 i~G~~~~GKTsl~~~~~~~~~~~-~~~t~~~~~~--~~~~-~~~~~l~i~D~~G~~~~~~~~~~~~~~~~~iv~v~D~~~   79 (160)
T cd04156           4 LLGLDSAGKSTLLYKLKHAELVT-TIPTVGFNVE--MLQL-EKHLSLTVWDVGGQEKMRTVWKCYLENTDGLVYVVDSSD   79 (160)
T ss_pred             EEcCCCCCHHHHHHHHhcCCccc-ccCccCcceE--EEEe-CCceEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCc
Confidence            58999999999999999988754 3566554443  2323 245789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH------HHcCCeEEEeccCCCCCHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA------EKEGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~------~~~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      +.++.....|+..+.... ..+.|+++++||+|+..  ....+++....      ...+++++++||++++|++++|++|
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i  157 (160)
T cd04156          80 EARLDESQKELKHILKNEHIKGVPVVLLANKQDLPG--ALTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKL  157 (160)
T ss_pred             HHHHHHHHHHHHHHHhchhhcCCCEEEEEECccccc--CcCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHH
Confidence            998888888777765432 25799999999999853  12233333222      1234579999999999999999998


Q ss_pred             HH
Q 040835          154 LT  155 (206)
Q Consensus       154 ~~  155 (206)
                      .+
T Consensus       158 ~~  159 (160)
T cd04156         158 AS  159 (160)
T ss_pred             hc
Confidence            64

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

>KOG4252 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.95  E-value=2.6e-28  Score=167.13  Aligned_cols=162  Identities=31%  Similarity=0.550  Sum_probs=152.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..++||||++++++.+-|...+..+++.++....+.+.+..+.+.+||++|+++|......|+++|.+.++||+-+|
T Consensus        25 ivGng~VGKssmiqryCkgifTkdykktIgvdflerqi~v~~Edvr~mlWdtagqeEfDaItkAyyrgaqa~vLVFSTTD  104 (246)
T KOG4252|consen   25 IVGNGSVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIKVLIEDVRSMLWDTAGQEEFDAITKAYYRGAQASVLVFSTTD  104 (246)
T ss_pred             EECCCccchHHHHHHHhccccccccccccchhhhhHHHHhhHHHHHHHHHHhccchhHHHHHHHHhccccceEEEEeccc
Confidence            58999999999999999999999999999999888888888888889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+|+....|+..+.... ..+|.++|-||+|+..+..+...+++.+++.....++.+|++...||..+|..|+..+.+.
T Consensus       105 r~SFea~~~w~~kv~~e~-~~IPtV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~  183 (246)
T KOG4252|consen  105 RYSFEATLEWYNKVQKET-ERIPTVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQ  183 (246)
T ss_pred             HHHHHHHHHHHHHHHHHh-ccCCeEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHH
Confidence            999999999999998777 4799999999999998899999999999999999999999999999999999999999887


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ..+
T Consensus       184 ~kq  186 (246)
T KOG4252|consen  184 KKQ  186 (246)
T ss_pred             HHH
Confidence            665

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=99.95  E-value=3.5e-26  Score=162.50  Aligned_cols=149  Identities=25%  Similarity=0.401  Sum_probs=114.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC------CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEF------SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   74 (206)
                      |+|++|+|||||+++|.....      ...+.++.+....  .+.+  ....+.+|||||++.+...+..++..+|++++
T Consensus         4 ~vG~~~~GKstLi~~l~~~~~~~~~~~~~~~~~t~~~~~~--~~~~--~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~v~   79 (167)
T cd04160           4 ILGLDNAGKTTFLEQLKTLFSKYKGLPPSKITPTVGLNIG--TIEV--GNARLKFWDLGGQESLRSLWDKYYAECHAIIY   79 (167)
T ss_pred             EEecCCCCHHHHHHHHhhhcccccCCcccccCCccccceE--EEEE--CCEEEEEEECCCChhhHHHHHHHhCCCCEEEE
Confidence            589999999999999986432      1223444444432  2333  35789999999999999999999999999999


Q ss_pred             EeeCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-------cCCeEEEeccCCCCCH
Q 040835           75 VYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-------EGLCFMETSALESTNV  146 (206)
Q Consensus        75 v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-------~~~~~~~~Sa~~~~~v  146 (206)
                      |+|+++++++.....|+..+.... ..++|+++++||+|+..  .....++..+...       .+++++++||++++|+
T Consensus        80 vvd~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv  157 (167)
T cd04160          80 VIDSTDRERFEESKSALEKVLRNEALEGVPLLILANKQDLPD--ALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGV  157 (167)
T ss_pred             EEECchHHHHHHHHHHHHHHHhChhhcCCCEEEEEEcccccc--CCCHHHHHHHhccccccccCCceEEEEeeCCCCcCH
Confidence            999999988888888877765432 35799999999999864  2334445544433       2457999999999999


Q ss_pred             HHHHHHHHH
Q 040835          147 ELAFLTVLT  155 (206)
Q Consensus       147 ~~~~~~l~~  155 (206)
                      ++++++|.+
T Consensus       158 ~e~~~~l~~  166 (167)
T cd04160         158 REGIEWLVE  166 (167)
T ss_pred             HHHHHHHhc
Confidence            999999864

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.

>cd00879 Sar1 Sar1 subfamily

Probab=99.95  E-value=5.2e-26  Score=164.99  Aligned_cols=149  Identities=22%  Similarity=0.319  Sum_probs=118.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+. .+.++.+.+.  ..+.++  ...+.+||+||+..+...+..+++.+|++++|+|.++
T Consensus        24 ilG~~~~GKStLi~~l~~~~~~-~~~~T~~~~~--~~i~~~--~~~~~l~D~~G~~~~~~~~~~~~~~ad~iilV~D~~~   98 (190)
T cd00879          24 FLGLDNAGKTTLLHMLKDDRLA-QHVPTLHPTS--EELTIG--NIKFKTFDLGGHEQARRLWKDYFPEVDGIVFLVDAAD   98 (190)
T ss_pred             EECCCCCCHHHHHHHHhcCCCc-ccCCccCcce--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhccCCEEEEEEECCc
Confidence            5899999999999999987764 4555555433  233443  4778999999999998889999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH----------------cCCeEEEeccCCC
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK----------------EGLCFMETSALES  143 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----------------~~~~~~~~Sa~~~  143 (206)
                      .+++.....|+..+.... ..+.|+++++||+|+..  .+..+++..+...                ....+++|||+++
T Consensus        99 ~~s~~~~~~~~~~i~~~~~~~~~pvivv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  176 (190)
T cd00879          99 PERFQESKEELDSLLSDEELANVPFLILGNKIDLPG--AVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKR  176 (190)
T ss_pred             HHHHHHHHHHHHHHHcCccccCCCEEEEEeCCCCCC--CcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCC
Confidence            988888877777765533 25699999999999863  4556666666542                2246899999999


Q ss_pred             CCHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTE  156 (206)
Q Consensus       144 ~~v~~~~~~l~~~  156 (206)
                      +|++++|.++.+.
T Consensus       177 ~gv~e~~~~l~~~  189 (190)
T cd00879         177 QGYGEAFRWLSQY  189 (190)
T ss_pred             CChHHHHHHHHhh
Confidence            9999999999875

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.

>cd04151 Arl1 Arl1 subfamily

Probab=99.94  E-value=9.3e-26  Score=159.02  Aligned_cols=148  Identities=23%  Similarity=0.363  Sum_probs=111.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++++|||||+++|....+.. ..++.+.+..  .+  ++..+.+.+|||||++.+...+..++..+|++|+|+|+++
T Consensus         4 lvG~~~~GKTsl~~~l~~~~~~~-~~~t~~~~~~--~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~   78 (158)
T cd04151           4 ILGLDNAGKTTILYRLQLGEVVT-TIPTIGFNVE--TV--TYKNLKFQVWDLGGQTSIRPYWRCYYSNTDAIIYVVDSTD   78 (158)
T ss_pred             EECCCCCCHHHHHHHHccCCCcC-cCCccCcCeE--EE--EECCEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            58999999999999998877653 4556555443  22  2346789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHH-HhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~-~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++.....++..+ ......+.|+++++||+|+....  ...++.....     ..+.+++++||+++.|++++|+++.
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  156 (158)
T cd04151          79 RDRLGTAKEELHAMLEEEELKGAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLV  156 (158)
T ss_pred             HHHHHHHHHHHHHHHhchhhcCCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHh
Confidence            88877666655443 32222469999999999986422  2223222211     1234699999999999999999987


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       157 ~  157 (158)
T cd04151         157 N  157 (158)
T ss_pred             c
Confidence            5

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.

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

Probab=99.94  E-value=5.6e-26  Score=160.07  Aligned_cols=148  Identities=23%  Similarity=0.377  Sum_probs=116.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||++++++... ....++.+.+...  +.+  ....+.+||+||++.+...+..++..+|++++|+|+++
T Consensus         4 iiG~~~~GKssli~~~~~~~~-~~~~~t~~~~~~~--~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~D~~~   78 (158)
T cd00878           4 ILGLDGAGKTTILYKLKLGEV-VTTIPTIGFNVET--VEY--KNVSFTVWDVGGQDKIRPLWKHYYENTNGIIFVVDSSD   78 (158)
T ss_pred             EEcCCCCCHHHHHHHHhcCCC-CCCCCCcCcceEE--EEE--CCEEEEEEECCCChhhHHHHHHHhccCCEEEEEEECCC
Confidence            589999999999999999874 4455555554433  222  35789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++.....|+..+.... ..+.|+++++||+|+....  ..++.......     ..++++++||+++.|++++|++|+
T Consensus        79 ~~~~~~~~~~~~~~~~~~~~~~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~  156 (158)
T cd00878          79 RERIEEAKEELHKLLNEEELKGVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLL  156 (158)
T ss_pred             HHHHHHHHHHHHHHHhCcccCCCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHh
Confidence            999988888777765533 3578999999999986422  23333333322     245799999999999999999987


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      .
T Consensus       157 ~  157 (158)
T cd00878         157 Q  157 (158)
T ss_pred             h
Confidence            4

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

>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=99.94  E-value=9e-26  Score=161.48  Aligned_cols=150  Identities=28%  Similarity=0.467  Sum_probs=120.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|||||||+++|..+... ...||.+.+...  +.+  .+..+.+||.+|+..+...|..+++.+|++|||+|.++
T Consensus        19 ilGl~~sGKTtll~~l~~~~~~-~~~pT~g~~~~~--i~~--~~~~~~~~d~gG~~~~~~~w~~y~~~~~~iIfVvDssd   93 (175)
T PF00025_consen   19 ILGLDGSGKTTLLNRLKNGEIS-ETIPTIGFNIEE--IKY--KGYSLTIWDLGGQESFRPLWKSYFQNADGIIFVVDSSD   93 (175)
T ss_dssp             EEESTTSSHHHHHHHHHSSSEE-EEEEESSEEEEE--EEE--TTEEEEEEEESSSGGGGGGGGGGHTTESEEEEEEETTG
T ss_pred             EECCCccchHHHHHHhhhcccc-ccCcccccccce--eee--CcEEEEEEeccccccccccceeeccccceeEEEEeccc
Confidence            5899999999999999986653 366676666544  333  45778999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------cCCeEEEeccCCCCCHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK------EGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      .+.+......+..+... ...++|++|++||+|+..  ....+++......      ..+.++.|||.+|+|+.+.++||
T Consensus        94 ~~~l~e~~~~L~~ll~~~~~~~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL  171 (175)
T PF00025_consen   94 PERLQEAKEELKELLNDPELKDIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWL  171 (175)
T ss_dssp             GGGHHHHHHHHHHHHTSGGGTTSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHH
T ss_pred             ceeecccccchhhhcchhhcccceEEEEeccccccC--cchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHH
Confidence            98888888777666543 235799999999999864  4455666554432      23458999999999999999999


Q ss_pred             HHHH
Q 040835          154 LTEI  157 (206)
Q Consensus       154 ~~~i  157 (206)
                      .+.+
T Consensus       172 ~~~~  175 (175)
T PF00025_consen  172 IEQI  175 (175)
T ss_dssp             HHHH
T ss_pred             HhcC
Confidence            9865

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 ....

>PLN00023 GTP-binding protein; Provisional

Probab=99.94  E-value=4.9e-25  Score=167.94  Aligned_cols=133  Identities=26%  Similarity=0.543  Sum_probs=114.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-------------eEEEEEEEeCCCchhhhhhhHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-------------KNVKAQIWDTAGQERYRAVTSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-------------~~~~~~i~D~~G~~~~~~~~~~~~~   67 (206)
                      |+|..|||||||+++|.++.+...+.+|++.++....+.++.             ..+.+.||||+|++.|..++..+++
T Consensus        26 LLGdsGVGKTSLI~rf~~g~F~~~~~pTIG~d~~ik~I~~~~~~~~~~~ik~d~~k~v~LqIWDTAGqErfrsL~~~yyr  105 (334)
T PLN00023         26 VVGDSGVGKSSLVHLIVKGSSIARPPQTIGCTVGVKHITYGSPGSSSNSIKGDSERDFFVELWDVSGHERYKDCRSLFYS  105 (334)
T ss_pred             EECCCCCcHHHHHHHHhcCCcccccCCceeeeEEEEEEEECCcccccccccccCCceEEEEEEECCCChhhhhhhHHhcc
Confidence            589999999999999999999888889988887766666542             4688999999999999999999999


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCC------------CCCcEEEEEeCCCCCcCC---C---CCHHHHHHHHH
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHAD------------KNIIIMLVGNKSDLETLR---A---VPTEDAKEFAE  129 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------------~~~p~ivv~nK~D~~~~~---~---~~~~~~~~~~~  129 (206)
                      ++|++|+|||++++.+++.+..|+..+.....            .++|++||+||+|+...+   .   +..++++++++
T Consensus       106 ~AdgiILVyDITdr~SFenL~kWl~eI~~~~~~s~p~~s~~~~~~~ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~  185 (334)
T PLN00023        106 QINGVIFVHDLSQRRTKTSLQKWASEVAATGTFSAPLGSGGPGGLPVPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVE  185 (334)
T ss_pred             CCCEEEEEEeCCCHHHHHHHHHHHHHHHHhcccccccccccccCCCCcEEEEEECccccccccccccccccHHHHHHHHH
Confidence            99999999999999999999999999876531            358999999999996532   2   35788999999


Q ss_pred             HcCC
Q 040835          130 KEGL  133 (206)
Q Consensus       130 ~~~~  133 (206)
                      +.++
T Consensus       186 ~~g~  189 (334)
T PLN00023        186 KQGL  189 (334)
T ss_pred             HcCC
Confidence            9874

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

Probab=99.94  E-value=3.5e-25  Score=159.85  Aligned_cols=149  Identities=19%  Similarity=0.268  Sum_probs=115.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|.+..+.. +.|+.+.+..  .+..  .++.+.+||+||++.+...+..++..+|++|+|+|+++
T Consensus        22 ivG~~~~GKTsli~~l~~~~~~~-~~~t~~~~~~--~~~~--~~~~~~~~D~~G~~~~~~~~~~~~~~ad~ii~vvD~~~   96 (184)
T smart00178       22 FLGLDNAGKTTLLHMLKNDRLAQ-HQPTQHPTSE--ELAI--GNIKFTTFDLGGHQQARRLWKDYFPEVNGIVYLVDAYD   96 (184)
T ss_pred             EECCCCCCHHHHHHHHhcCCCcc-cCCccccceE--EEEE--CCEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECCc
Confidence            58999999999999999876643 3455444332  2222  35789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------------cCCeEEEeccCCCCCHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK------------EGLCFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa~~~~~v~  147 (206)
                      +.++.....++..+.... ..+.|+++++||+|+..  .++.+++.+...-            ....++++||++++|++
T Consensus        97 ~~~~~~~~~~l~~l~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~  174 (184)
T smart00178       97 KERFAESKRELDALLSDEELATVPFLILGNKIDAPY--AASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYG  174 (184)
T ss_pred             HHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccC--CCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChH
Confidence            998888887777665432 25789999999999853  4455665544321            12348999999999999


Q ss_pred             HHHHHHHHH
Q 040835          148 LAFLTVLTE  156 (206)
Q Consensus       148 ~~~~~l~~~  156 (206)
                      ++++||...
T Consensus       175 ~~~~wl~~~  183 (184)
T smart00178      175 EGFKWLSQY  183 (184)
T ss_pred             HHHHHHHhh
Confidence            999999864

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=99.94  E-value=2.9e-25  Score=156.03  Aligned_cols=149  Identities=26%  Similarity=0.433  Sum_probs=117.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+...+.++.+.....  +..  ..+.+.+||+||++.+...+..++..+|++++|+|+++
T Consensus         4 i~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~--~~~--~~~~~~~~D~~g~~~~~~~~~~~~~~~d~ii~v~d~~~   79 (159)
T cd04159           4 LVGLQNSGKTTLVNVIAGGQFSEDTIPTVGFNMRK--VTK--GNVTLKVWDLGGQPRFRSMWERYCRGVNAIVYVVDAAD   79 (159)
T ss_pred             EEcCCCCCHHHHHHHHccCCCCcCccCCCCcceEE--EEE--CCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECCC
Confidence            58999999999999999999988888887765543  222  23789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++.....|+..+.... ..++|+++++||+|+.....  ..+.....     ....++++++|++++.|++++++++.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~D~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  157 (159)
T cd04159          80 RTALEAAKNELHDLLEKPSLEGIPLLVLGNKNDLPGALS--VDELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLI  157 (159)
T ss_pred             HHHHHHHHHHHHHHHcChhhcCCCEEEEEeCccccCCcC--HHHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHh
Confidence            988887777766654322 25789999999999864222  22222211     11245789999999999999999987


Q ss_pred             H
Q 040835          155 T  155 (206)
Q Consensus       155 ~  155 (206)
                      +
T Consensus       158 ~  158 (159)
T cd04159         158 K  158 (159)
T ss_pred             h
Confidence            5

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.

>cd01890 LepA LepA subfamily

Probab=99.93  E-value=1.1e-24  Score=156.57  Aligned_cols=151  Identities=23%  Similarity=0.273  Sum_probs=110.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC-------CCCCCcc------ccceeeEEEEEEE-----CCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE-------FSLDSKA------TIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-------~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      ++|.+++|||||+++|++..       +...+.+      +.+.++.......     +...+.+.+|||||++.+...+
T Consensus         5 ~vG~~~~GKssL~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~   84 (179)
T cd01890           5 IIAHIDHGKSTLADRLLELTGTVSKREMKEQVLDSMDLERERGITIKAQTVRLNYKAKDGQEYLLNLIDTPGHVDFSYEV   84 (179)
T ss_pred             EEeecCCCHHHHHHHHHHHhCCCCcCCCceEeccCChhHHHCCCeEecceEEEEEecCCCCcEEEEEEECCCChhhHHHH
Confidence            58999999999999999742       1111211      1233443333222     4567889999999999999999


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe---EEEec
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC---FMETS  139 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~S  139 (206)
                      ..+++.+|++|+|+|++++.+......|....    ..++|+++++||+|+....  .......+++..+++   ++++|
T Consensus        85 ~~~~~~ad~~i~v~D~~~~~~~~~~~~~~~~~----~~~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~S  158 (179)
T cd01890          85 SRSLAACEGALLLVDATQGVEAQTLANFYLAL----ENNLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVS  158 (179)
T ss_pred             HHHHHhcCeEEEEEECCCCccHhhHHHHHHHH----HcCCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEee
Confidence            99999999999999999876665555554322    1468999999999985421  222334556666653   89999


Q ss_pred             cCCCCCHHHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLTEI  157 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~~i  157 (206)
                      |+++.|++++|+++.+.+
T Consensus       159 a~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         159 AKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             ccCCCCHHHHHHHHHhhC
Confidence            999999999999998764

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=99.93  E-value=2e-24  Score=168.02  Aligned_cols=159  Identities=14%  Similarity=0.048  Sum_probs=114.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-------hhhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------YRAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~~i   73 (206)
                      |+|.||||||||+++|+.........+..+.......+.+. ....+.+||+||..+       ....+...++.++++|
T Consensus       163 lVG~PNaGKSTLln~ls~a~~~va~ypfTT~~p~~G~v~~~-~~~~~~i~D~PGli~ga~~~~gLg~~flrhie~a~vlI  241 (335)
T PRK12299        163 LVGLPNAGKSTLISAVSAAKPKIADYPFTTLHPNLGVVRVD-DYKSFVIADIPGLIEGASEGAGLGHRFLKHIERTRLLL  241 (335)
T ss_pred             EEcCCCCCHHHHHHHHHcCCCccCCCCCceeCceEEEEEeC-CCcEEEEEeCCCccCCCCccccHHHHHHHHhhhcCEEE
Confidence            58999999999999999865433322322222222223331 345689999999632       1222334566899999


Q ss_pred             EEeeCCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           74 LVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        74 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +|+|+++.++++.+..|...+..+..  .++|+++|+||+|+.............++...+.+++++||++++|++++++
T Consensus       242 ~ViD~s~~~s~e~~~~~~~EL~~~~~~L~~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~  321 (335)
T PRK12299        242 HLVDIEAVDPVEDYKTIRNELEKYSPELADKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLR  321 (335)
T ss_pred             EEEcCCCCCCHHHHHHHHHHHHHhhhhcccCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHH
Confidence            99999988788888889888876542  4689999999999865443333444555556678999999999999999999


Q ss_pred             HHHHHHHHH
Q 040835          152 TVLTEIYRI  160 (206)
Q Consensus       152 ~l~~~i~~~  160 (206)
                      ++.+.+.+.
T Consensus       322 ~L~~~l~~~  330 (335)
T PRK12299        322 ALWELLEEA  330 (335)
T ss_pred             HHHHHHHhh
Confidence            999887653

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

Probab=99.93  E-value=1.3e-24  Score=154.50  Aligned_cols=152  Identities=20%  Similarity=0.210  Sum_probs=104.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh---------hhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR---------AVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~   71 (206)
                      ++|.+|+|||||+++|++..+.....+.  .+............+.+.+|||||.....         .........+|+
T Consensus         5 ~~G~~~~GKssli~~l~~~~~~~~~~~~--~t~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~d~   82 (168)
T cd01897           5 IAGYPNVGKSSLVNKLTRAKPEVAPYPF--TTKSLFVGHFDYKYLRWQVIDTPGLLDRPLEERNTIEMQAITALAHLRAA   82 (168)
T ss_pred             EEcCCCCCHHHHHHHHhcCCCccCCCCC--cccceeEEEEccCceEEEEEECCCcCCccccCCchHHHHHHHHHHhccCc
Confidence            5899999999999999998764332221  12222222233346789999999974210         011112234689


Q ss_pred             EEEEeeCCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           72 AMLVYDITKRQS--FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        72 ~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      +|+|+|+++..+  +.....|+..+.... .+.|+++++||+|+.....+.  +...+....+.+++++||+++.|++++
T Consensus        83 ~l~v~d~~~~~~~~~~~~~~~~~~l~~~~-~~~pvilv~NK~Dl~~~~~~~--~~~~~~~~~~~~~~~~Sa~~~~gi~~l  159 (168)
T cd01897          83 VLFLFDPSETCGYSLEEQLSLFEEIKPLF-KNKPVIVVLNKIDLLTFEDLS--EIEEEEELEGEEVLKISTLTEEGVDEV  159 (168)
T ss_pred             EEEEEeCCcccccchHHHHHHHHHHHhhc-CcCCeEEEEEccccCchhhHH--HHHHhhhhccCceEEEEecccCCHHHH
Confidence            999999998764  355566777775543 379999999999986533322  244555555778999999999999999


Q ss_pred             HHHHHHHH
Q 040835          150 FLTVLTEI  157 (206)
Q Consensus       150 ~~~l~~~i  157 (206)
                      |+++.+.+
T Consensus       160 ~~~l~~~~  167 (168)
T cd01897         160 KNKACELL  167 (168)
T ss_pred             HHHHHHHh
Confidence            99998876

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=99.93  E-value=1.2e-23  Score=146.29  Aligned_cols=153  Identities=48%  Similarity=0.760  Sum_probs=120.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCC-CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF-SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|+|||||+++|.+... .....++. ................+.+||+||...+...+..+++.+|++++|+|++
T Consensus         1 iiG~~~~GKStl~~~l~~~~~~~~~~~~t~-~~~~~~~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~   79 (157)
T cd00882           1 VVGDSGVGKTSLLNRLLGGEFVPEEYETTI-IDFYSKTIEVDGKKVKLQIWDTAGQERFRSLRRLYYRGADGIILVYDVT   79 (157)
T ss_pred             CCCcCCCcHHHHHHHHHhCCcCCcccccch-hheeeEEEEECCEEEEEEEEecCChHHHHhHHHHHhcCCCEEEEEEECc
Confidence            689999999999999999887 44555554 5666666666667889999999999988888888999999999999999


Q ss_pred             ChhhHHHHHHHH-HHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           80 KRQSFDNVARWL-EELRGHADKNIIIMLVGNKSDLETLRAVPTED-AKEFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        80 ~~~s~~~~~~~~-~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++.+...+..|. .........++|+++++||+|+.......... ..........+++++|+.++.|+.++++++.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882          80 DRESFENVKEWLLLILINKEGENIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CHHHHHHHHHHHHHHHHhhccCCCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            998888887762 22333344689999999999986533332222 3444555678999999999999999999875

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

>cd01898 Obg Obg subfamily

Probab=99.93  E-value=1.4e-24  Score=154.65  Aligned_cols=154  Identities=16%  Similarity=0.116  Sum_probs=106.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch----hhhhhhHhH---hcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----RYRAVTSAY---YRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~---~~~~d~~i   73 (206)
                      |+|.+|||||||+++|.+........+..+.......+...+ ...+.+|||||..    .+..+...+   +..+|+++
T Consensus         5 ivG~~~~GKStl~~~l~~~~~~v~~~~~~t~~~~~~~~~~~~-~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~d~vi   83 (170)
T cd01898           5 LVGLPNAGKSTLLSAISNAKPKIADYPFTTLVPNLGVVRVDD-GRSFVVADIPGLIEGASEGKGLGHRFLRHIERTRLLL   83 (170)
T ss_pred             EECCCCCCHHHHHHHHhcCCccccCCCccccCCcceEEEcCC-CCeEEEEecCcccCcccccCCchHHHHHHHHhCCEEE
Confidence            589999999999999997654322212111111111222222 2479999999963    222223333   45699999


Q ss_pred             EEeeCCCh-hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEeccCCCCCHHHH
Q 040835           74 LVYDITKR-QSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELA  149 (206)
Q Consensus        74 ~v~d~~~~-~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~~  149 (206)
                      +|+|++++ .++..+..|...+.....  ..+|+++|+||+|+...... .+....+... .+.+++++|++++.|++++
T Consensus        84 ~v~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l  162 (170)
T cd01898          84 HVIDLSGDDDPVEDYKTIRNELELYNPELLEKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGLDEL  162 (170)
T ss_pred             EEEecCCCCCHHHHHHHHHHHHHHhCccccccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHHHH
Confidence            99999998 788888888888766532  36899999999998653332 3344455555 3678999999999999999


Q ss_pred             HHHHHHH
Q 040835          150 FLTVLTE  156 (206)
Q Consensus       150 ~~~l~~~  156 (206)
                      |+++.+.
T Consensus       163 ~~~i~~~  169 (170)
T cd01898         163 LRKLAEL  169 (170)
T ss_pred             HHHHHhh
Confidence            9998864

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.

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

Probab=99.92  E-value=1.1e-23  Score=148.15  Aligned_cols=147  Identities=17%  Similarity=0.145  Sum_probs=108.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh------hhHhHhc--CCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA------VTSAYYR--GAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~~--~~d~~   72 (206)
                      |+|.+|+|||||+++|.+..+.....+..+.......+.+++  ..+.+|||||+..+..      ++..++.  .+|++
T Consensus         1 l~G~~~~GKssl~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   78 (158)
T cd01879           1 LVGNPNVGKTTLFNALTGARQKVGNWPGVTVEKKEGRFKLGG--KEIEIVDLPGTYSLSPYSEDEKVARDFLLGEKPDLI   78 (158)
T ss_pred             CCCCCCCCHHHHHHHHhcCcccccCCCCcccccceEEEeeCC--eEEEEEECCCccccCCCChhHHHHHHHhcCCCCcEE
Confidence            689999999999999999865554444444444444455543  5789999999876553      3455564  99999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.+...   .|...+..   .++|+++++||+|+.....+. .....+....+.+++++|+++++|+++++.+
T Consensus        79 i~v~d~~~~~~~~---~~~~~~~~---~~~~~iiv~NK~Dl~~~~~~~-~~~~~~~~~~~~~~~~iSa~~~~~~~~l~~~  151 (158)
T cd01879          79 VNVVDATNLERNL---YLTLQLLE---LGLPVVVALNMIDEAEKRGIK-IDLDKLSELLGVPVVPTSARKGEGIDELKDA  151 (158)
T ss_pred             EEEeeCCcchhHH---HHHHHHHH---cCCCEEEEEehhhhcccccch-hhHHHHHHhhCCCeEEEEccCCCCHHHHHHH
Confidence            9999998765422   33333333   468999999999996544333 2345677777899999999999999999999


Q ss_pred             HHHH
Q 040835          153 VLTE  156 (206)
Q Consensus       153 l~~~  156 (206)
                      +.+.
T Consensus       152 l~~~  155 (158)
T cd01879         152 IAEL  155 (158)
T ss_pred             HHHH
Confidence            8875

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.

>KOG0073 consensus GTP-binding ADP-ribosylation factor-like protein ARL2 [Intracellular trafficking, secretion, and vesicular transport; Cytoskeleton]

Probab=99.92  E-value=1.1e-23  Score=142.32  Aligned_cols=153  Identities=20%  Similarity=0.335  Sum_probs=121.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..||||||++++|.+... ....|+.++++..    +....+.+.+||.+|+..++..|+.||..+|++|+|+|.+|
T Consensus        21 iLGLdNsGKTti~~kl~~~~~-~~i~pt~gf~Ikt----l~~~~~~L~iwDvGGq~~lr~~W~nYfestdglIwvvDssD   95 (185)
T KOG0073|consen   21 ILGLDNSGKTTIVKKLLGEDT-DTISPTLGFQIKT----LEYKGYTLNIWDVGGQKTLRSYWKNYFESTDGLIWVVDSSD   95 (185)
T ss_pred             EEecCCCCchhHHHHhcCCCc-cccCCccceeeEE----EEecceEEEEEEcCCcchhHHHHHHhhhccCeEEEEEECch
Confidence            579999999999999999874 4555666665544    33456889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHH------HHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTED------AKEFAEKEGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~------~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      +..++.-...+..+.. ..-.+.|++|++||.|+..  .+..++      +..+++...++++-||+.+|+++.+.+.|+
T Consensus        96 ~~r~~e~~~~L~~lL~eerlaG~~~Lvlank~dl~~--~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL  173 (185)
T KOG0073|consen   96 RMRMQECKQELTELLVEERLAGAPLLVLANKQDLPG--ALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWL  173 (185)
T ss_pred             HHHHHHHHHHHHHHHhhhhhcCCceEEEEecCcCcc--ccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHH
Confidence            9888776665554432 2225689999999999863  223322      445556678899999999999999999999


Q ss_pred             HHHHHHH
Q 040835          154 LTEIYRI  160 (206)
Q Consensus       154 ~~~i~~~  160 (206)
                      .+.+.+.
T Consensus       174 ~~~l~~r  180 (185)
T KOG0073|consen  174 CDDLMSR  180 (185)
T ss_pred             HHHHHHH
Confidence            9998873

>cd01878 HflX HflX subfamily

Probab=99.92  E-value=5.4e-24  Score=156.10  Aligned_cols=149  Identities=19%  Similarity=0.156  Sum_probs=106.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh---------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER---------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~   71 (206)
                      |+|++|||||||+++|++..+.....+..+.......+.+++. ..+.+|||||...         +...+ ..+..+|+
T Consensus        46 iiG~~g~GKStLl~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~-~~~~i~Dt~G~~~~~~~~~~~~~~~~~-~~~~~~d~  123 (204)
T cd01878          46 LVGYTNAGKSTLFNALTGADVYAEDQLFATLDPTTRRLRLPDG-REVLLTDTVGFIRDLPHQLVEAFRSTL-EEVAEADL  123 (204)
T ss_pred             EECCCCCCHHHHHHHHhcchhccCCccceeccceeEEEEecCC-ceEEEeCCCccccCCCHHHHHHHHHHH-HHHhcCCe
Confidence            5899999999999999998654332222222222233333332 3789999999722         22221 23678999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.++.....|...+......+.|+++|+||+|+......     .......+.+++++||+++.|++++++
T Consensus       124 ii~v~D~~~~~~~~~~~~~~~~l~~~~~~~~~viiV~NK~Dl~~~~~~-----~~~~~~~~~~~~~~Sa~~~~gi~~l~~  198 (204)
T cd01878         124 LLHVVDASDPDYEEQIETVEKVLKELGAEDIPMILVLNKIDLLDDEEL-----EERLEAGRPDAVFISAKTGEGLDELLE  198 (204)
T ss_pred             EEEEEECCCCChhhHHHHHHHHHHHcCcCCCCEEEEEEccccCChHHH-----HHHhhcCCCceEEEEcCCCCCHHHHHH
Confidence            999999999888877777777766655457899999999998642221     134445567899999999999999999


Q ss_pred             HHHHH
Q 040835          152 TVLTE  156 (206)
Q Consensus       152 ~l~~~  156 (206)
                      +|.+.
T Consensus       199 ~L~~~  203 (204)
T cd01878         199 AIEEL  203 (204)
T ss_pred             HHHhh
Confidence            98765

A distinct conserved domain with a glycine-rich segment N-terminal of the GTPase domain characterizes the HflX subfamily. The E. coli HflX has been implicated in the control of the lambda cII repressor proteolysis, but the actual biological functions of these GTPases remain unclear. HflX is widespread, but not universally represented in all three superkingdoms.

>cd04171 SelB SelB subfamily

Probab=99.92  E-value=9.2e-24  Score=149.41  Aligned_cols=148  Identities=18%  Similarity=0.125  Sum_probs=100.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC---CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDE---FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   77 (206)
                      |+|.+|||||||+++|.+..   +.....++.+.........+.. ...+.+|||||++.+......++..+|++++|+|
T Consensus         5 i~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~t~~~~~~~~~~~~-~~~~~~~DtpG~~~~~~~~~~~~~~ad~ii~V~d   83 (164)
T cd04171           5 TAGHIDHGKTTLIKALTGIETDRLPEEKKRGITIDLGFAYLDLPS-GKRLGFIDVPGHEKFIKNMLAGAGGIDLVLLVVA   83 (164)
T ss_pred             EEecCCCCHHHHHHHHhCcccccchhhhccCceEEeeeEEEEecC-CcEEEEEECCChHHHHHHHHhhhhcCCEEEEEEE
Confidence            58999999999999999743   2222222223333333333332 4679999999999887777778899999999999


Q ss_pred             CCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHH---cCCeEEEeccCCCCCHHHH
Q 040835           78 ITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEK---EGLCFMETSALESTNVELA  149 (206)
Q Consensus        78 ~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~---~~~~~~~~Sa~~~~~v~~~  149 (206)
                      +++   .++...+.    .+...  ...|+++++||+|+.....  ...++..+....   .+.+++++||++++|++++
T Consensus        84 ~~~~~~~~~~~~~~----~~~~~--~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  157 (164)
T cd04171          84 ADEGIMPQTREHLE----ILELL--GIKRGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEEL  157 (164)
T ss_pred             CCCCccHhHHHHHH----HHHHh--CCCcEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHH
Confidence            987   33332222    22221  1248999999999864211  112334444444   3578999999999999999


Q ss_pred             HHHHHH
Q 040835          150 FLTVLT  155 (206)
Q Consensus       150 ~~~l~~  155 (206)
                      |..+..
T Consensus       158 ~~~l~~  163 (164)
T cd04171         158 KEYLDE  163 (164)
T ss_pred             HHHHhh
Confidence            988753

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

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=99.92  E-value=3.8e-23  Score=144.89  Aligned_cols=152  Identities=34%  Similarity=0.489  Sum_probs=119.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|+|||||+++|....+...+.++.+.+.....+..++..+.+.+||+||+..+...+..+++.++.++.++|...
T Consensus         6 ~~G~~~~GKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~~~d~~~   85 (161)
T TIGR00231         6 IVGDPNVGKSTLLNRLLGNKFITEYKPGTTRNYVTTVIEEDGKTYKFNLLDTAGQEDYRAIRRLYYRAVESSLRVFDIVI   85 (161)
T ss_pred             EECCCCCCHHHHHHHHhCCCCcCcCCCCceeeeeEEEEEECCEEEEEEEEECCCcccchHHHHHHHhhhhEEEEEEEEee
Confidence            58999999999999999998777777777777766666777666889999999999999889999999999999999987


Q ss_pred             h-hhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHH
Q 040835           81 R-QSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        81 ~-~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      . .++.... .|...+......+.|+++++||+|+.... ........+......+++++||.++.|+.++|++|
T Consensus        86 ~v~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231        86 LVLDVEEILEKQTKEIIHHAESNVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             eehhhhhHhHHHHHHHHHhcccCCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            6 5555544 56666655543478999999999986533 23333333333345679999999999999999886

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.

>cd04155 Arl3 Arl3 subfamily

Probab=99.92  E-value=1.7e-23  Score=149.49  Aligned_cols=145  Identities=23%  Similarity=0.365  Sum_probs=109.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+. ...++.+.+..  .+..+  ...+.+||++|+..+...+..+++.+|++++|+|+++
T Consensus        19 i~G~~g~GKStLl~~l~~~~~~-~~~~t~g~~~~--~i~~~--~~~~~~~D~~G~~~~~~~~~~~~~~~~~ii~v~D~~~   93 (173)
T cd04155          19 ILGLDNAGKTTILKQLASEDIS-HITPTQGFNIK--TVQSD--GFKLNVWDIGGQRAIRPYWRNYFENTDCLIYVIDSAD   93 (173)
T ss_pred             EEccCCCCHHHHHHHHhcCCCc-ccCCCCCcceE--EEEEC--CEEEEEEECCCCHHHHHHHHHHhcCCCEEEEEEeCCC
Confidence            5899999999999999987663 34455554433  33333  4678999999999988888999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC--------eEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL--------CFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--------~~~~~Sa~~~~~v~~~~~  151 (206)
                      ..++.....++..+... ....+|+++++||+|+....  ..++   +....++        +++++||++++|++++|+
T Consensus        94 ~~~~~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~~---i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~  168 (173)
T cd04155          94 KKRLEEAGAELVELLEEEKLAGVPVLVFANKQDLATAA--PAEE---IAEALNLHDLRDRTWHIQACSAKTGEGLQEGMN  168 (173)
T ss_pred             HHHHHHHHHHHHHHHhChhhcCCCEEEEEECCCCccCC--CHHH---HHHHcCCcccCCCeEEEEEeECCCCCCHHHHHH
Confidence            88888777766655433 23569999999999985422  2222   2233332        478999999999999999


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      ||.+
T Consensus       169 ~l~~  172 (173)
T cd04155         169 WVCK  172 (173)
T ss_pred             HHhc
Confidence            9874

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.

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=99.91  E-value=1e-22  Score=150.91  Aligned_cols=164  Identities=40%  Similarity=0.560  Sum_probs=132.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.|||||||+++|....+...+.++.+..+...........+.+.+|||+|++++..++..++.+++++++++|..+
T Consensus        10 v~G~~g~GKTtl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~gq~~~~~~~~~y~~~~~~~l~~~d~~~   89 (219)
T COG1100          10 VLGDGGVGKTTLLNRLVGDEFPEGYPPTIGNLDPAKTIEPYRRNIKLQLWDTAGQEEYRSLRPEYYRGANGILIVYDSTL   89 (219)
T ss_pred             EEcCCCccHHHHHHHHhcCcCcccCCCceeeeeEEEEEEeCCCEEEEEeecCCCHHHHHHHHHHHhcCCCEEEEEEeccc
Confidence            58999999999999999999999999887777776666666568899999999999999999999999999999999999


Q ss_pred             hh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHc---CCeEEEeccC--C
Q 040835           81 RQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR------------AVPTEDAKEFAEKE---GLCFMETSAL--E  142 (206)
Q Consensus        81 ~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~---~~~~~~~Sa~--~  142 (206)
                      .. ..+....|+..+........|+++++||+|+....            ..............   ...++++|++  .
T Consensus        90 ~~~~~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~  169 (219)
T COG1100          90 RESSDELTEEWLEELRELAPDDVPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLT  169 (219)
T ss_pred             chhhhHHHHHHHHHHHHhCCCCceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCC
Confidence            55 55566789988888776679999999999996542            22222222222222   3348999999  9


Q ss_pred             CCCHHHHHHHHHHHHHHHhhhh
Q 040835          143 STNVELAFLTVLTEIYRIVSKK  164 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~~~~~~~  164 (206)
                      +.+++++|..++..+.+.....
T Consensus       170 ~~~v~~~~~~~~~~~~~~~~~~  191 (219)
T COG1100         170 GPNVNELFKELLRKLLEEIEKL  191 (219)
T ss_pred             CcCHHHHHHHHHHHHHHhhhhh
Confidence            9999999999999997765444

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

Probab=99.91  E-value=1.1e-23  Score=150.65  Aligned_cols=155  Identities=21%  Similarity=0.194  Sum_probs=105.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh----hhh---hHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY----RAV---TSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~---~~~~~~~~d~~i   73 (206)
                      |+|++|||||||+++|.+........+..+.......+..+ ....+.+|||||....    ..+   ....++.+|+++
T Consensus         1 iiG~~~~GKStll~~l~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~d~ii   79 (176)
T cd01881           1 LVGLPNVGKSTLLNALTNAKPKVANYPFTTLEPNLGVVEVP-DGARIQVADIPGLIEGASEGRGLGNQFLAHIRRADAIL   79 (176)
T ss_pred             CCCCCCCcHHHHHHHHhcCCccccCCCceeecCcceEEEcC-CCCeEEEEeccccchhhhcCCCccHHHHHHHhccCEEE
Confidence            68999999999999999986522211111111222222222 1567899999996321    112   234577899999


Q ss_pred             EEeeCCCh------hhHHHHHHHHHHHHhcCC-------CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEecc
Q 040835           74 LVYDITKR------QSFDNVARWLEELRGHAD-------KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus        74 ~v~d~~~~------~s~~~~~~~~~~~~~~~~-------~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      +|+|+++.      .++..+..|...+.....       .+.|+++++||+|+..................+.+++++|+
T Consensus        80 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa  159 (176)
T cd01881          80 HVVDASEDDDIGGVDPLEDYEILNAELKLYDLETILGLLTAKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISA  159 (176)
T ss_pred             EEEeccCCccccccCHHHHHHHHHHHHHHhhhhhHHHHHhhCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEeh
Confidence            99999987      467777777777654432       36999999999998653333322223344445678999999


Q ss_pred             CCCCCHHHHHHHHHHH
Q 040835          141 LESTNVELAFLTVLTE  156 (206)
Q Consensus       141 ~~~~~v~~~~~~l~~~  156 (206)
                      +++.|++++++++.+.
T Consensus       160 ~~~~gl~~l~~~l~~~  175 (176)
T cd01881         160 KTEEGLDELIRAIYEL  175 (176)
T ss_pred             hhhcCHHHHHHHHHhh
Confidence            9999999999988764

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.91  E-value=8.4e-24  Score=146.42  Aligned_cols=131  Identities=24%  Similarity=0.210  Sum_probs=96.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch-----hhhhhhHhHhcCCcEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE-----RYRAVTSAYYRGAVGAMLV   75 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-----~~~~~~~~~~~~~d~~i~v   75 (206)
                      ++|++|||||||+++|.+..+.  +.++.+.       .+.     -.+|||||..     .+..+. ..++++|++|+|
T Consensus         5 liG~~~vGKSsL~~~l~~~~~~--~~~t~~~-------~~~-----~~~iDt~G~~~~~~~~~~~~~-~~~~~ad~vilv   69 (142)
T TIGR02528         5 FIGSVGCGKTTLTQALQGEEIL--YKKTQAV-------EYN-----DGAIDTPGEYVENRRLYSALI-VTAADADVIALV   69 (142)
T ss_pred             EECCCCCCHHHHHHHHcCCccc--cccceeE-------EEc-----CeeecCchhhhhhHHHHHHHH-HHhhcCCEEEEE
Confidence            5899999999999999987652  2222211       111     1689999972     233333 358999999999


Q ss_pred             eeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHHH
Q 040835           76 YDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        76 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +|++++.++.. ..|...+      ..|+++++||+|+.+ +....++..++++..+. +++++||+++.|++++|.++.
T Consensus        70 ~d~~~~~s~~~-~~~~~~~------~~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        70 QSATDPESRFP-PGFASIF------VKPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             ecCCCCCcCCC-hhHHHhc------cCCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            99999887644 2343321      249999999999864 34456667777877776 799999999999999998874

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.

>KOG0070 consensus GTP-binding ADP-ribosylation factor Arf1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.91  E-value=1.6e-23  Score=145.09  Aligned_cols=152  Identities=20%  Similarity=0.368  Sum_probs=126.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..++||||++.+|....+... .||+|.+.+...+.    ++.+.+||.+|++.++.+|..|+++.+++|||+|.+|
T Consensus        22 mlGLD~AGKTTILykLk~~E~vtt-vPTiGfnVE~v~yk----n~~f~vWDvGGq~k~R~lW~~Y~~~t~~lIfVvDS~D   96 (181)
T KOG0070|consen   22 MVGLDAAGKTTILYKLKLGEIVTT-VPTIGFNVETVEYK----NISFTVWDVGGQEKLRPLWKHYFQNTQGLIFVVDSSD   96 (181)
T ss_pred             EEeccCCCceeeeEeeccCCcccC-CCccccceeEEEEc----ceEEEEEecCCCcccccchhhhccCCcEEEEEEeCCc
Confidence            589999999999999998888665 89989888875543    7999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-----CCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-----GLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++.+..++..+..+..... .+.|+++++||.|+..  .++..++.+...-.     ...+..|+|.+|+|+.+.++|+.
T Consensus        97 r~Ri~eak~eL~~~l~~~~l~~~~llv~aNKqD~~~--als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~  174 (181)
T KOG0070|consen   97 RERIEEAKEELHRMLAEPELRNAPLLVFANKQDLPG--ALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLS  174 (181)
T ss_pred             HHHHHHHHHHHHHHHcCcccCCceEEEEechhhccc--cCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHH
Confidence            9999988877766655443 6899999999999864  34444444443332     34588899999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+..
T Consensus       175 ~~~~~  179 (181)
T KOG0070|consen  175 NNLKK  179 (181)
T ss_pred             HHHhc
Confidence            87754

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

Probab=99.91  E-value=3.1e-23  Score=147.40  Aligned_cols=153  Identities=15%  Similarity=0.145  Sum_probs=105.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|+|||||+++|....+.....++.+.+.....+... .....+.+|||||+..+...+...+..+|++++|+|++
T Consensus         5 iiG~~~~GKtsli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~iiDtpG~~~~~~~~~~~~~~~d~il~v~d~~   84 (168)
T cd01887           5 VMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAFEVPAEVLKIPGITFIDTPGHEAFTNMRARGASLTDIAILVVAAD   84 (168)
T ss_pred             EEecCCCCHHHHHHHHHhcccccccCCCeEEeeccEEEecccCCcceEEEEeCCCcHHHHHHHHHHHhhcCEEEEEEECC
Confidence            58999999999999999988766544433333333333332 13578999999999999888888999999999999998


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHH----H--cCCeEEEeccCCCCCHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP-TEDAKEFAE----K--EGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~----~--~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      +....... ..+..+..   .++|+++++||+|+....... ......+..    .  ..++++++|+++++|+.+++++
T Consensus        85 ~~~~~~~~-~~~~~~~~---~~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~  160 (168)
T cd01887          85 DGVMPQTI-EAIKLAKA---ANVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEA  160 (168)
T ss_pred             CCccHHHH-HHHHHHHH---cCCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHH
Confidence            74321111 11222222   468999999999986321100 111111111    1  1357999999999999999999


Q ss_pred             HHHHH
Q 040835          153 VLTEI  157 (206)
Q Consensus       153 l~~~i  157 (206)
                      +.+..
T Consensus       161 l~~~~  165 (168)
T cd01887         161 ILLLA  165 (168)
T ss_pred             HHHhh
Confidence            98764

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.

>KOG3883 consensus Ras family small GTPase [Signal transduction mechanisms]

Probab=99.90  E-value=1.3e-22  Score=135.66  Aligned_cols=168  Identities=21%  Similarity=0.317  Sum_probs=135.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--CccccceeeEEEEEEE-CCeEEEEEEEeCCCchhh-hhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--SKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERY-RAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~-~~~~~~~~~~~d~~i~v~   76 (206)
                      |+|..++|||++++.|+.....+.  ..+|+. +++...+.. .+....+.++||.|...+ ..+-+.|+.-+|++++||
T Consensus        14 VcG~k~VGKTaileQl~yg~~~~~~e~~pTiE-DiY~~svet~rgarE~l~lyDTaGlq~~~~eLprhy~q~aDafVLVY   92 (198)
T KOG3883|consen   14 VCGMKSVGKTAILEQLLYGNHVPGTELHPTIE-DIYVASVETDRGAREQLRLYDTAGLQGGQQELPRHYFQFADAFVLVY   92 (198)
T ss_pred             EECCccccHHHHHHHHHhccCCCCCccccchh-hheeEeeecCCChhheEEEeecccccCchhhhhHhHhccCceEEEEe
Confidence            589999999999999987665544  345533 333333333 345567999999997766 667788999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +..|++||..+..+...+.... ...+|++|++||+|+.+.++++.+.+..|++.-.+..+++++.+...+-+.|..+..
T Consensus        93 s~~d~eSf~rv~llKk~Idk~KdKKEvpiVVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~  172 (198)
T KOG3883|consen   93 SPMDPESFQRVELLKKEIDKHKDKKEVPIVVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLAS  172 (198)
T ss_pred             cCCCHHHHHHHHHHHHHHhhccccccccEEEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHH
Confidence            9999999988766666665544 367999999999999888899999999999999999999999999999999999998


Q ss_pred             HHHHHhhhhhcccC
Q 040835          156 EIYRIVSKKALTAN  169 (206)
Q Consensus       156 ~i~~~~~~~~~~~~  169 (206)
                      .+...+.++.....
T Consensus       173 rl~~pqskS~Fpl~  186 (198)
T KOG3883|consen  173 RLHQPQSKSTFPLS  186 (198)
T ss_pred             hccCCcccccCcch
Confidence            88877666554433

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=99.90  E-value=1.3e-22  Score=157.71  Aligned_cols=155  Identities=16%  Similarity=0.114  Sum_probs=108.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh----hhhhH---hHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY----RAVTS---AYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----~~~~~---~~~~~~d~~i   73 (206)
                      |+|.||||||||+++|..........+..+.......+.++. ...+.+||+||..+.    ..+..   ..+..+++++
T Consensus       162 lvG~pnaGKSTLl~~lt~~~~~va~y~fTT~~p~ig~v~~~~-~~~~~i~D~PGli~~a~~~~gLg~~flrhierad~ll  240 (329)
T TIGR02729       162 LVGLPNAGKSTLISAVSAAKPKIADYPFTTLVPNLGVVRVDD-GRSFVIADIPGLIEGASEGAGLGHRFLKHIERTRVLL  240 (329)
T ss_pred             EEcCCCCCHHHHHHHHhcCCccccCCCCCccCCEEEEEEeCC-ceEEEEEeCCCcccCCcccccHHHHHHHHHHhhCEEE
Confidence            689999999999999998654332222222222222333332 367899999997421    12223   3355799999


Q ss_pred             EEeeCCCh---hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835           74 LVYDITKR---QSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus        74 ~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      +|+|+++.   ++++.+..|...+..+..  .+.|+++|+||+|+..... ..+....+.+..+.+++++||++++|+++
T Consensus       241 ~VvD~s~~~~~~~~e~l~~l~~EL~~~~~~l~~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~GI~e  319 (329)
T TIGR02729       241 HLIDISPLDGRDPIEDYEIIRNELKKYSPELAEKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGEGLDE  319 (329)
T ss_pred             EEEcCccccccCHHHHHHHHHHHHHHhhhhhccCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCcCHHH
Confidence            99999976   567777778777765432  4689999999999865322 23344555666678899999999999999


Q ss_pred             HHHHHHHHH
Q 040835          149 AFLTVLTEI  157 (206)
Q Consensus       149 ~~~~l~~~i  157 (206)
                      ++.++.+.+
T Consensus       320 L~~~I~~~l  328 (329)
T TIGR02729       320 LLYALAELL  328 (329)
T ss_pred             HHHHHHHHh
Confidence            999998754

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.

>KOG1673 consensus Ras GTPases [General function prediction only]

Probab=99.90  E-value=1.2e-23  Score=141.02  Aligned_cols=159  Identities=28%  Similarity=0.568  Sum_probs=140.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++..|||||+-++.++.+...+..+.|.++..+.+.+.+..+.+.|||.+|++++..+.+....++-++++++|++.
T Consensus        25 llGD~qiGKTs~mvkYV~~~~de~~~q~~GvN~mdkt~~i~~t~IsfSIwdlgG~~~~~n~lPiac~dsvaIlFmFDLt~  104 (205)
T KOG1673|consen   25 LLGDAQIGKTSLMVKYVQNEYDEEYTQTLGVNFMDKTVSIRGTDISFSIWDLGGQREFINMLPIACKDSVAILFMFDLTR  104 (205)
T ss_pred             eecccccCceeeehhhhcchhHHHHHHHhCccceeeEEEecceEEEEEEEecCCcHhhhccCceeecCcEEEEEEEecCc
Confidence            58999999999999999999998899999999999999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-----CCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET-----LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~-----~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.++..+..|+.+.+...+..+|+ +|++|.|+--     .++....+.+.+++..++++|++|+..+.||+.+|..++.
T Consensus       105 r~TLnSi~~WY~QAr~~NktAiPi-lvGTKyD~fi~lp~e~Q~~I~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlA  183 (205)
T KOG1673|consen  105 RSTLNSIKEWYRQARGLNKTAIPI-LVGTKYDLFIDLPPELQETISRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLA  183 (205)
T ss_pred             hHHHHHHHHHHHHHhccCCccceE-EeccchHhhhcCCHHHHHHHHHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHH
Confidence            999999999999988776666776 6799999621     1112234467888888999999999999999999999998


Q ss_pred             HHHHH
Q 040835          156 EIYRI  160 (206)
Q Consensus       156 ~i~~~  160 (206)
                      .++..
T Consensus       184 klFnL  188 (205)
T KOG1673|consen  184 KLFNL  188 (205)
T ss_pred             HHhCC
Confidence            87754

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

Probab=99.90  E-value=4.3e-23  Score=150.16  Aligned_cols=145  Identities=17%  Similarity=0.179  Sum_probs=102.7

Q ss_pred             CccCCCCCHHHHHHHHhc--CCCCCCC------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFAR--DEFSLDS------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|.+++|||||+++|+.  ..+....            ..+.+.++......+.+....+.+|||||++.|...+..++
T Consensus         7 ivG~~~~GKTsL~~~l~~~~~~~~~~~~~~~~~~~~~~~e~~~g~t~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~   86 (194)
T cd01891           7 IIAHVDHGKTTLVDALLKQSGTFRENEEVEERVMDSNDLERERGITILAKNTAVTYKDTKINIVDTPGHADFGGEVERVL   86 (194)
T ss_pred             EEecCCCCHHHHHHHHHHHcCCCCccCcccccccccchhHHhcccccccceeEEEECCEEEEEEECCCcHHHHHHHHHHH
Confidence            589999999999999997  4443332            12234555555555666678899999999999999999999


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHH-------HcCCeEEEe
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEFAE-------KEGLCFMET  138 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~-------~~~~~~~~~  138 (206)
                      +.+|++++|+|+++.. ......++..+..   .++|+++++||+|+...+. ...+++..+..       ..+++++++
T Consensus        87 ~~~d~~ilV~d~~~~~-~~~~~~~~~~~~~---~~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~  162 (194)
T cd01891          87 SMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYA  162 (194)
T ss_pred             HhcCEEEEEEECCCCc-cHHHHHHHHHHHH---cCCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEe
Confidence            9999999999998742 2222333333332   4689999999999864221 11233444442       236789999


Q ss_pred             ccCCCCCHHHH
Q 040835          139 SALESTNVELA  149 (206)
Q Consensus       139 Sa~~~~~v~~~  149 (206)
                      ||++|.|+.+.
T Consensus       163 Sa~~g~~~~~~  173 (194)
T cd01891         163 SAKNGWASLNL  173 (194)
T ss_pred             ehhcccccccc
Confidence            99999887544

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

>cd01894 EngA1 EngA1 subfamily

Probab=99.90  E-value=1.4e-22  Score=142.32  Aligned_cols=146  Identities=17%  Similarity=0.101  Sum_probs=98.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh--------hhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA--------VTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~   71 (206)
                      ++|.+|+|||||+++|++..... ...+..+..........  .+..+.+|||||...+..        .+...++.+|+
T Consensus         2 l~G~~~~GKssl~~~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~   79 (157)
T cd01894           2 IVGRPNVGKSTLFNRLTGRRDAIVEDTPGVTRDRIYGEAEW--GGREFILIDTGGIEPDDEGISKEIREQAELAIEEADV   79 (157)
T ss_pred             ccCCCCCCHHHHHHHHhCCcEEeecCCCCceeCceeEEEEE--CCeEEEEEECCCCCCchhHHHHHHHHHHHHHHHhCCE
Confidence            68999999999999999875321 11222122222223333  346789999999876433        34456789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~  150 (206)
                      +++|+|..+..+.... .+...+..   .+.|+++++||+|+.....    . .......+. +++++|++++.|++++|
T Consensus        80 ii~v~d~~~~~~~~~~-~~~~~~~~---~~~piiiv~nK~D~~~~~~----~-~~~~~~~~~~~~~~~Sa~~~~gv~~l~  150 (157)
T cd01894          80 ILFVVDGREGLTPADE-EIAKYLRK---SKKPVILVVNKVDNIKEED----E-AAEFYSLGFGEPIPISAEHGRGIGDLL  150 (157)
T ss_pred             EEEEEeccccCCccHH-HHHHHHHh---cCCCEEEEEECcccCChHH----H-HHHHHhcCCCCeEEEecccCCCHHHHH
Confidence            9999999875433322 12222322   3599999999999864221    1 233344565 78999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      +++.+.+
T Consensus       151 ~~l~~~~  157 (157)
T cd01894         151 DAILELL  157 (157)
T ss_pred             HHHHhhC
Confidence            9998753

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.

>TIGR00436 era GTP-binding protein Era

Probab=99.90  E-value=1.6e-22  Score=154.18  Aligned_cols=149  Identities=18%  Similarity=0.151  Sum_probs=100.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEE-EEEEECCeEEEEEEEeCCCchhh--------hhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQT-KTLVIHHKNVKAQIWDTAGQERY--------RAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++..+...+..+ +++... ..+... .+..+.+|||||....        ......++..+|+
T Consensus         5 liG~pnvGKSTLln~L~~~~~~~vs~~~-~TTr~~i~~i~~~-~~~qii~vDTPG~~~~~~~l~~~~~~~~~~~l~~aDv   82 (270)
T TIGR00436         5 ILGRPNVGKSTLLNQLHGQKISITSPKA-QTTRNRISGIHTT-GASQIIFIDTPGFHEKKHSLNRLMMKEARSAIGGVDL   82 (270)
T ss_pred             EECCCCCCHHHHHHHHhCCcEeecCCCC-CcccCcEEEEEEc-CCcEEEEEECcCCCCCcchHHHHHHHHHHHHHhhCCE
Confidence            5899999999999999998765433222 122222 222222 2356899999996432        1123456789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~  150 (206)
                      +++|+|+++..+..  ..++..+..   .+.|+++|+||+|+..... .......+....+. +++++||+++.|+++++
T Consensus        83 vl~VvD~~~~~~~~--~~i~~~l~~---~~~p~ilV~NK~Dl~~~~~-~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~  156 (270)
T TIGR00436        83 ILFVVDSDQWNGDG--EFVLTKLQN---LKRPVVLTRNKLDNKFKDK-LLPLIDKYAILEDFKDIVPISALTGDNTSFLA  156 (270)
T ss_pred             EEEEEECCCCCchH--HHHHHHHHh---cCCCEEEEEECeeCCCHHH-HHHHHHHHHhhcCCCceEEEecCCCCCHHHHH
Confidence            99999999876543  334444433   4689999999999863221 12233444444444 79999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      +++.+.+
T Consensus       157 ~~l~~~l  163 (270)
T TIGR00436       157 AFIEVHL  163 (270)
T ss_pred             HHHHHhC
Confidence            9987765

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

>KOG0075 consensus GTP-binding ADP-ribosylation factor-like protein [General function prediction only]

Probab=99.89  E-value=3.8e-23  Score=137.28  Aligned_cols=149  Identities=26%  Similarity=0.457  Sum_probs=121.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..++|||||+|....+.+...-.|+.|++...    +....+.+.+||.||+..|..+|..|++.+++++||+|+.+
T Consensus        25 lvGLq~sGKtt~Vn~ia~g~~~edmiptvGfnmrk----~tkgnvtiklwD~gGq~rfrsmWerycR~v~aivY~VDaad  100 (186)
T KOG0075|consen   25 LVGLQNSGKTTLVNVIARGQYLEDMIPTVGFNMRK----VTKGNVTIKLWDLGGQPRFRSMWERYCRGVSAIVYVVDAAD  100 (186)
T ss_pred             EEeeccCCcceEEEEEeeccchhhhcccccceeEE----eccCceEEEEEecCCCccHHHHHHHHhhcCcEEEEEeecCC
Confidence            58999999999999999989988888998877765    33567899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHH-hcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--------CeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--------LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~-~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--------~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++.+...+.-+..+. +..-.+.|++|++||.|+..  .++..   .+..+.|        +.+|.+|+++..|++-+.+
T Consensus       101 ~~k~~~sr~EL~~LL~k~~l~gip~LVLGnK~d~~~--AL~~~---~li~rmgL~sitdREvcC~siScke~~Nid~~~~  175 (186)
T KOG0075|consen  101 PDKLEASRSELHDLLDKPSLTGIPLLVLGNKIDLPG--ALSKI---ALIERMGLSSITDREVCCFSISCKEKVNIDITLD  175 (186)
T ss_pred             cccchhhHHHHHHHhcchhhcCCcEEEecccccCcc--cccHH---HHHHHhCccccccceEEEEEEEEcCCccHHHHHH
Confidence            988877766555443 33347899999999999863  33332   3333333        4589999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      |++++-.
T Consensus       176 Wli~hsk  182 (186)
T KOG0075|consen  176 WLIEHSK  182 (186)
T ss_pred             HHHHHhh
Confidence            9998753

>PRK04213 GTP-binding protein; Provisional

Probab=99.89  E-value=4.1e-23  Score=151.12  Aligned_cols=146  Identities=23%  Similarity=0.227  Sum_probs=99.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC-----------chhhhhhhHhHhc--
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG-----------QERYRAVTSAYYR--   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~--   67 (206)
                      ++|.+|||||||+++|.+..+.....++  .+.....+...    .+.+|||||           .+.+...+..++.  
T Consensus        14 i~G~~~~GKSsLin~l~~~~~~~~~~~~--~t~~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   87 (201)
T PRK04213         14 FVGRSNVGKSTLVRELTGKKVRVGKRPG--VTRKPNHYDWG----DFILTDLPGFGFMSGVPKEVQEKIKDEIVRYIEDN   87 (201)
T ss_pred             EECCCCCCHHHHHHHHhCCCCccCCCCc--eeeCceEEeec----ceEEEeCCccccccccCHHHHHHHHHHHHHHHHhh
Confidence            5899999999999999998765544443  34443333322    589999999           4566666666654  


Q ss_pred             --CCcEEEEEeeCCChhhH-H---------HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC--
Q 040835           68 --GAVGAMLVYDITKRQSF-D---------NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL--  133 (206)
Q Consensus        68 --~~d~~i~v~d~~~~~s~-~---------~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--  133 (206)
                        .++++++|+|.++...+ +         ....++..+..   .++|+++|+||+|+....   .+...++....++  
T Consensus        88 ~~~~~~vi~v~d~~~~~~~~~~~~~~~~~~~~~~l~~~~~~---~~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~  161 (201)
T PRK04213         88 ADRILAAVLVVDGKSFIEIIERWEGRGEIPIDVEMFDFLRE---LGIPPIVAVNKMDKIKNR---DEVLDEIAERLGLYP  161 (201)
T ss_pred             hhhheEEEEEEeCccccccccccccCCCcHHHHHHHHHHHH---cCCCeEEEEECccccCcH---HHHHHHHHHHhcCCc
Confidence              45788889988653221 0         01112222222   479999999999985422   3345555665554  


Q ss_pred             -------eEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          134 -------CFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       134 -------~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                             +++++||+++ |++++|++|.+.+..
T Consensus       162 ~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~~  193 (201)
T PRK04213        162 PWRQWQDIIAPISAKKG-GIEELKEAIRKRLHE  193 (201)
T ss_pred             cccccCCcEEEEecccC-CHHHHHHHHHHhhcC
Confidence                   5899999999 999999999987644

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=99.89  E-value=4.2e-22  Score=156.19  Aligned_cols=148  Identities=19%  Similarity=0.163  Sum_probs=104.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc---------hhhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ---------ERYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~   71 (206)
                      ++|.+|||||||+|+|++..+.....+..+.+.....+.+++ ...+.+|||+|.         +.|... ...+.++|+
T Consensus       194 lvG~~NvGKSSLln~L~~~~~~v~~~~~tT~d~~~~~i~~~~-~~~i~l~DT~G~~~~l~~~lie~f~~t-le~~~~ADl  271 (351)
T TIGR03156       194 LVGYTNAGKSTLFNALTGADVYAADQLFATLDPTTRRLDLPD-GGEVLLTDTVGFIRDLPHELVAAFRAT-LEEVREADL  271 (351)
T ss_pred             EECCCCCCHHHHHHHHhCCceeeccCCccccCCEEEEEEeCC-CceEEEEecCcccccCCHHHHHHHHHH-HHHHHhCCE
Confidence            589999999999999999875433322223344444555532 357899999997         223332 235789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.+......|...+......+.|+++|+||+|+...     .+...+. ....+++++||+++.|++++++
T Consensus       272 il~VvD~s~~~~~~~~~~~~~~L~~l~~~~~piIlV~NK~Dl~~~-----~~v~~~~-~~~~~~i~iSAktg~GI~eL~~  345 (351)
T TIGR03156       272 LLHVVDASDPDREEQIEAVEKVLEELGAEDIPQLLVYNKIDLLDE-----PRIERLE-EGYPEAVFVSAKTGEGLDLLLE  345 (351)
T ss_pred             EEEEEECCCCchHHHHHHHHHHHHHhccCCCCEEEEEEeecCCCh-----HhHHHHH-hCCCCEEEEEccCCCCHHHHHH
Confidence            999999999887777766666665544457899999999998642     1222221 2234689999999999999999


Q ss_pred             HHHHH
Q 040835          152 TVLTE  156 (206)
Q Consensus       152 ~l~~~  156 (206)
                      ++.+.
T Consensus       346 ~I~~~  350 (351)
T TIGR03156       346 AIAER  350 (351)
T ss_pred             HHHhh
Confidence            88764

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).

>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=99.89  E-value=1.3e-22  Score=140.34  Aligned_cols=144  Identities=19%  Similarity=0.217  Sum_probs=98.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh------hhhhhHhHh--cCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER------YRAVTSAYY--RGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~------~~~~~~~~~--~~~d~~   72 (206)
                      ++|.||||||||+|+|++........|.  .|.......+...+..+.++|+||...      .......++  ...|++
T Consensus         5 lvG~PNvGKStLfN~Ltg~~~~v~n~pG--~Tv~~~~g~~~~~~~~~~lvDlPG~ysl~~~s~ee~v~~~~l~~~~~D~i   82 (156)
T PF02421_consen    5 LVGNPNVGKSTLFNALTGAKQKVGNWPG--TTVEKKEGIFKLGDQQVELVDLPGIYSLSSKSEEERVARDYLLSEKPDLI   82 (156)
T ss_dssp             EEESTTSSHHHHHHHHHTTSEEEEESTT--SSSEEEEEEEEETTEEEEEEE----SSSSSSSHHHHHHHHHHHHTSSSEE
T ss_pred             EECCCCCCHHHHHHHHHCCCceecCCCC--CCeeeeeEEEEecCceEEEEECCCcccCCCCCcHHHHHHHHHhhcCCCEE
Confidence            5899999999999999998865544454  444444433333347899999999422      223334444  689999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.+.   -..+..++..   .++|+++++||+|......+.. +...+.+..|+|++.+||++++|++++++.
T Consensus        83 i~VvDa~~l~r---~l~l~~ql~e---~g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~  155 (156)
T PF02421_consen   83 IVVVDATNLER---NLYLTLQLLE---LGIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDA  155 (156)
T ss_dssp             EEEEEGGGHHH---HHHHHHHHHH---TTSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHH
T ss_pred             EEECCCCCHHH---HHHHHHHHHH---cCCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhh
Confidence            99999987432   2223333443   4699999999999865444332 467788888999999999999999999876


Q ss_pred             H
Q 040835          153 V  153 (206)
Q Consensus       153 l  153 (206)
                      |
T Consensus       156 I  156 (156)
T PF02421_consen  156 I  156 (156)
T ss_dssp             H
T ss_pred             C
Confidence            5

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 ....

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=99.89  E-value=2.5e-21  Score=154.34  Aligned_cols=155  Identities=19%  Similarity=0.176  Sum_probs=109.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----hhhhhHhH---hcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----YRAVTSAY---YRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~---~~~~d~~i   73 (206)
                      |+|.||||||||+++|++........+..+.......+.++ ....+.+||+||...    ...+...+   +..++++|
T Consensus       163 lVG~pNaGKSTLLn~Lt~ak~kIa~ypfTTl~PnlG~v~~~-~~~~~~laD~PGliega~~~~gLg~~fLrhier~~llI  241 (424)
T PRK12297        163 LVGFPNVGKSTLLSVVSNAKPKIANYHFTTLVPNLGVVETD-DGRSFVMADIPGLIEGASEGVGLGHQFLRHIERTRVIV  241 (424)
T ss_pred             EEcCCCCCHHHHHHHHHcCCCccccCCcceeceEEEEEEEe-CCceEEEEECCCCcccccccchHHHHHHHHHhhCCEEE
Confidence            58999999999999999876433322222222222222222 146799999999642    22233333   55699999


Q ss_pred             EEeeCCCh---hhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835           74 LVYDITKR---QSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus        74 ~v~d~~~~---~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      +|+|+++.   ++++....|...+..+..  .++|++||+||+|+..    ..+....+.+..+.+++++||++++|+++
T Consensus       242 ~VID~s~~~~~dp~e~~~~i~~EL~~y~~~L~~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeGI~e  317 (424)
T PRK12297        242 HVIDMSGSEGRDPIEDYEKINKELKLYNPRLLERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQGLDE  317 (424)
T ss_pred             EEEeCCccccCChHHHHHHHHHHHhhhchhccCCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCCHHH
Confidence            99999864   566777777777765432  4789999999999843    23445666666678899999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          149 AFLTVLTEIYRI  160 (206)
Q Consensus       149 ~~~~l~~~i~~~  160 (206)
                      +++++.+.+.+.
T Consensus       318 L~~~L~~~l~~~  329 (424)
T PRK12297        318 LLYAVAELLEET  329 (424)
T ss_pred             HHHHHHHHHHhC
Confidence            999998877554

>cd00881 GTP_translation_factor GTP translation factor family

Probab=99.88  E-value=1e-21  Score=142.08  Aligned_cols=153  Identities=19%  Similarity=0.214  Sum_probs=108.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcccc--------------ceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATI--------------GVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      |+|.+|+|||||+++|++...........              +.+..............+.+|||||...+...+..++
T Consensus         4 v~G~~~~GKStlln~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~   83 (189)
T cd00881           4 IAGHVDHGKTTLTERLLYVTGDIERDGTVEETFLDVLKEERERGITIKSGVATFEWPDRRVNFIDTPGHEDFSSEVIRGL   83 (189)
T ss_pred             EEeCCCCCHHHHHHHHHHhcCCCCcCCceecccccCCHHHHHcCCCeecceEEEeeCCEEEEEEeCCCcHHHHHHHHHHH
Confidence            58999999999999999877655432211              1222222223333457899999999998888889999


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHH--------------
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEK--------------  130 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~--------------  130 (206)
                      +.+|++++|+|++++.... ...++..+..   .+.|+++++||+|+......  ..+++.+..+.              
T Consensus        84 ~~~d~~i~v~d~~~~~~~~-~~~~~~~~~~---~~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  159 (189)
T cd00881          84 SVSDGAILVVDANEGVQPQ-TREHLRIARE---GGLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNG  159 (189)
T ss_pred             HhcCEEEEEEECCCCCcHH-HHHHHHHHHH---CCCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccC
Confidence            9999999999998765432 2233333333   47999999999998642221  12333333333              


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          131 EGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       131 ~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ...+++++||+++.|+++++.++.+.+
T Consensus       160 ~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         160 LLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             CcceEEEEecccCcCHHHHHHHHHhhC
Confidence            246799999999999999999998875

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.

>TIGR00450 mnmE_trmE_thdF tRNA modification GTPase TrmE

Probab=99.88  E-value=1.4e-21  Score=157.43  Aligned_cols=147  Identities=18%  Similarity=0.203  Sum_probs=106.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh--------hHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV--------TSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~   71 (206)
                      ++|++|||||||+|+|++..... ...+..+.+.....+.++  +..+.+|||||...+...        ...+++.+|+
T Consensus       208 IvG~~nvGKSSLiN~L~~~~~aivs~~pgtTrd~~~~~i~~~--g~~v~l~DTaG~~~~~~~ie~~gi~~~~~~~~~aD~  285 (442)
T TIGR00450       208 IVGSPNVGKSSLLNALLKQDRAIVSDIKGTTRDVVEGDFELN--GILIKLLDTAGIREHADFVERLGIEKSFKAIKQADL  285 (442)
T ss_pred             EECCCCCcHHHHHHHHhCCCCcccCCCCCcEEEEEEEEEEEC--CEEEEEeeCCCcccchhHHHHHHHHHHHHHHhhCCE
Confidence            58999999999999999875432 222332333333444444  456799999998554322        2457889999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.++...  |+..+..   .++|+++|+||+|+...      +...++...+.+++++|+++ .||+++|+
T Consensus       286 il~V~D~s~~~s~~~~--~l~~~~~---~~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~  353 (442)
T TIGR00450       286 VIYVLDASQPLTKDDF--LIIDLNK---SKKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVD  353 (442)
T ss_pred             EEEEEECCCCCChhHH--HHHHHhh---CCCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHHHH
Confidence            9999999988776654  6555432   46899999999998542      22345566778899999998 69999999


Q ss_pred             HHHHHHHHHh
Q 040835          152 TVLTEIYRIV  161 (206)
Q Consensus       152 ~l~~~i~~~~  161 (206)
                      .+.+.+.+..
T Consensus       354 ~L~~~i~~~~  363 (442)
T TIGR00450       354 LLTQKINAFY  363 (442)
T ss_pred             HHHHHHHHHh
Confidence            9999887654

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.

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

Probab=99.88  E-value=1.3e-21  Score=137.34  Aligned_cols=142  Identities=20%  Similarity=0.192  Sum_probs=100.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh--------hhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA--------VTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~--------~~~~~~~~~d~   71 (206)
                      ++|++|+|||||++++++..... ...+.............  ....+.+|||||...+..        .....+..+|+
T Consensus         6 l~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~   83 (157)
T cd04164           6 IVGKPNVGKSSLLNALAGRDRAIVSDIAGTTRDVIEESIDI--GGIPVRLIDTAGIRETEDEIEKIGIERAREAIEEADL   83 (157)
T ss_pred             EECCCCCCHHHHHHHHHCCceEeccCCCCCccceEEEEEEe--CCEEEEEEECCCcCCCcchHHHHHHHHHHHHHhhCCE
Confidence            58999999999999999876432 12222222222223332  346789999999754422        12346779999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.+......+..      ....|+++++||+|+......       .....+.+++++||+++.|++++++
T Consensus        84 ~v~v~d~~~~~~~~~~~~~~~------~~~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~  150 (157)
T cd04164          84 VLFVIDASRGLDEEDLEILEL------PADKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKE  150 (157)
T ss_pred             EEEEEECCCCCCHHHHHHHHh------hcCCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHH
Confidence            999999998776655544322      246999999999998653322       3444567899999999999999999


Q ss_pred             HHHHHH
Q 040835          152 TVLTEI  157 (206)
Q Consensus       152 ~l~~~i  157 (206)
                      ++.+.+
T Consensus       151 ~l~~~~  156 (157)
T cd04164         151 ALLELA  156 (157)
T ss_pred             HHHHhh
Confidence            987654

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.

>KOG0071 consensus GTP-binding ADP-ribosylation factor Arf6 (dArf3) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.88  E-value=2.3e-21  Score=127.88  Aligned_cols=150  Identities=25%  Similarity=0.439  Sum_probs=121.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..++||||++.+|..+.. ....||+|+++..++    ..++.|.+||.+|++..+..|+.|+.+..++|||+|..+
T Consensus        22 mlGLd~aGKTtiLyKLkl~~~-~~~ipTvGFnvetVt----ykN~kfNvwdvGGqd~iRplWrhYy~gtqglIFV~Dsa~   96 (180)
T KOG0071|consen   22 MLGLDAAGKTTILYKLKLGQS-VTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDSAD   96 (180)
T ss_pred             EEecccCCceehhhHHhcCCC-cccccccceeEEEEE----eeeeEEeeeeccCchhhhHHHHhhccCCceEEEEEeccc
Confidence            479999999999999988665 556678788777644    468999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-----CCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-----GLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++.++.++..+..+.... -..+|++|.+||.|+..  ....+++..+.+-.     ...+..+++.++.|+.+-|.|+.
T Consensus        97 ~dr~eeAr~ELh~ii~~~em~~~~~LvlANkQDlp~--A~~pqei~d~leLe~~r~~~W~vqp~~a~~gdgL~eglswls  174 (180)
T KOG0071|consen   97 RDRIEEARNELHRIINDREMRDAIILILANKQDLPD--AMKPQEIQDKLELERIRDRNWYVQPSCALSGDGLKEGLSWLS  174 (180)
T ss_pred             hhhHHHHHHHHHHHhCCHhhhcceEEEEecCccccc--ccCHHHHHHHhccccccCCccEeeccccccchhHHHHHHHHH
Confidence            988888877555544332 36799999999999974  44566666655432     23578899999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +.+
T Consensus       175 nn~  177 (180)
T KOG0071|consen  175 NNL  177 (180)
T ss_pred             hhc
Confidence            754

>PRK15494 era GTPase Era; Provisional

Probab=99.88  E-value=2.1e-21  Score=152.02  Aligned_cols=147  Identities=24%  Similarity=0.339  Sum_probs=99.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceee--EEEEEEECCeEEEEEEEeCCCchh-hhhh-------hHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEF--QTKTLVIHHKNVKAQIWDTAGQER-YRAV-------TSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~i~D~~G~~~-~~~~-------~~~~~~~~d   70 (206)
                      ++|.+|||||||+|+|++..+..... ..+++.  ....+..+  +..+.+|||||... +..+       ....+..+|
T Consensus        57 ivG~~nvGKSTLin~l~~~k~~ivs~-k~~tTr~~~~~~~~~~--~~qi~~~DTpG~~~~~~~l~~~~~r~~~~~l~~aD  133 (339)
T PRK15494         57 IIGRPNSGKSTLLNRIIGEKLSIVTP-KVQTTRSIITGIITLK--DTQVILYDTPGIFEPKGSLEKAMVRCAWSSLHSAD  133 (339)
T ss_pred             EEcCCCCCHHHHHHHHhCCceeeccC-CCCCccCcEEEEEEeC--CeEEEEEECCCcCCCcccHHHHHHHHHHHHhhhCC
Confidence            58999999999999999987753222 212222  22233333  45789999999742 2211       223478999


Q ss_pred             EEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCCCHH
Q 040835           71 GAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALESTNVE  147 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~  147 (206)
                      ++++|+|..+.  +... ..|+..+..   .+.|.++|+||+|+...   ...++.+++...+  ..+|++||+++.|++
T Consensus       134 vil~VvD~~~s--~~~~~~~il~~l~~---~~~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAktg~gv~  205 (339)
T PRK15494        134 LVLLIIDSLKS--FDDITHNILDKLRS---LNIVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALSGKNID  205 (339)
T ss_pred             EEEEEEECCCC--CCHHHHHHHHHHHh---cCCCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccCccCHH
Confidence            99999997653  3333 335444443   34677889999998542   2445555555543  579999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          148 LAFLTVLTEIY  158 (206)
Q Consensus       148 ~~~~~l~~~i~  158 (206)
                      ++|+++...+.
T Consensus       206 eL~~~L~~~l~  216 (339)
T PRK15494        206 GLLEYITSKAK  216 (339)
T ss_pred             HHHHHHHHhCC
Confidence            99999887654

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.88  E-value=1.7e-21  Score=158.96  Aligned_cols=149  Identities=23%  Similarity=0.206  Sum_probs=101.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch--------hhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE--------RYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++....... .+.+.+...........+..+.+|||||.+        .+...+..+++.+|++
T Consensus        43 IvG~~nvGKSSL~nrl~~~~~~~v~-~~~gvT~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~aD~i  121 (472)
T PRK03003         43 VVGRPNVGKSTLVNRILGRREAVVE-DVPGVTRDRVSYDAEWNGRRFTVVDTGGWEPDAKGLQASVAEQAEVAMRTADAV  121 (472)
T ss_pred             EEcCCCCCHHHHHHHHhCcCccccc-CCCCCCEeeEEEEEEECCcEEEEEeCCCcCCcchhHHHHHHHHHHHHHHhCCEE
Confidence            5899999999999999987653222 222344333333333334568999999975        2344566778999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|++++.+... ..+...+..   .++|+++|+||+|+....   .+....+  ..++ .++++||++|.|++++|+
T Consensus       122 l~VvD~~~~~s~~~-~~i~~~l~~---~~~piilV~NK~Dl~~~~---~~~~~~~--~~g~~~~~~iSA~~g~gi~eL~~  192 (472)
T PRK03003        122 LFVVDATVGATATD-EAVARVLRR---SGKPVILAANKVDDERGE---ADAAALW--SLGLGEPHPVSALHGRGVGDLLD  192 (472)
T ss_pred             EEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECccCCccc---hhhHHHH--hcCCCCeEEEEcCCCCCcHHHHH
Confidence            99999998765432 234344433   469999999999985311   1111222  2333 357999999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      ++++.+.+
T Consensus       193 ~i~~~l~~  200 (472)
T PRK03003        193 AVLAALPE  200 (472)
T ss_pred             HHHhhccc
Confidence            99988754

>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=99.87  E-value=1.3e-21  Score=131.39  Aligned_cols=111  Identities=33%  Similarity=0.595  Sum_probs=85.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC--CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS--LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   78 (206)
                      |+|++|||||||+++|++....  ....+..+.+..............+.+||++|.+.+...+..++..+|++|+|||+
T Consensus         4 V~G~~g~GKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~d~~ilv~D~   83 (119)
T PF08477_consen    4 VLGDSGVGKTSLIRRLCGGEFPDNSVPEETSEITIGVDVIVVDGDRQSLQFWDFGGQEEFYSQHQFFLKKADAVILVYDL   83 (119)
T ss_dssp             EECSTTSSHHHHHHHHHHSS--------SSTTSCEEEEEEEETTEEEEEEEEEESSSHCHHCTSHHHHHHSCEEEEEEEC
T ss_pred             EECcCCCCHHHHHHHHhcCCCcccccccccCCCcEEEEEEEecCCceEEEEEecCccceecccccchhhcCcEEEEEEcC
Confidence            6899999999999999998876  22233334455555566677777799999999999988888889999999999999


Q ss_pred             CChhhHHHHHHH---HHHHHhcCCCCCcEEEEEeCCC
Q 040835           79 TKRQSFDNVARW---LEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        79 ~~~~s~~~~~~~---~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      ++++++..+..+   +..+.... .++|+++|+||.|
T Consensus        84 s~~~s~~~~~~~~~~l~~~~~~~-~~~piilv~nK~D  119 (119)
T PF08477_consen   84 SDPESLEYLSQLLKWLKNIRKRD-KNIPIILVGNKSD  119 (119)
T ss_dssp             CGHHHHHHHHHHHHHHHHHHHHS-SCSEEEEEEE-TC
T ss_pred             CChHHHHHHHHHHHHHHHHHccC-CCCCEEEEEeccC
Confidence            999999887554   55555433 4699999999998

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.

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=99.87  E-value=1.8e-21  Score=136.90  Aligned_cols=138  Identities=14%  Similarity=0.145  Sum_probs=96.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch----hhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----RYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----~~~~~~~~~~~~~d~~i~v~   76 (206)
                      ++|.+|+|||||+|+|.+....  ...+.       .+.+...    .+|||||..    .+.......+..+|++++|+
T Consensus         6 ~iG~~~~GKstl~~~l~~~~~~--~~~~~-------~v~~~~~----~~iDtpG~~~~~~~~~~~~~~~~~~ad~il~v~   72 (158)
T PRK15467          6 FVGAVGAGKTTLFNALQGNYTL--ARKTQ-------AVEFNDK----GDIDTPGEYFSHPRWYHALITTLQDVDMLIYVH   72 (158)
T ss_pred             EECCCCCCHHHHHHHHcCCCcc--Cccce-------EEEECCC----CcccCCccccCCHHHHHHHHHHHhcCCEEEEEE
Confidence            5899999999999998865321  11111       1122222    269999962    22222233478999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC--eEEEeccCCCCCHHHHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL--CFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~--~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      |+++..++  +..|+..+    ..+.|+++++||+|+..   ...+...+++.+.+.  +++++||++++|++++|..+.
T Consensus        73 d~~~~~s~--~~~~~~~~----~~~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~  143 (158)
T PRK15467         73 GANDPESR--LPAGLLDI----GVSKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLA  143 (158)
T ss_pred             eCCCcccc--cCHHHHhc----cCCCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHH
Confidence            99987654  22343332    13678999999999853   245566777777774  899999999999999999998


Q ss_pred             HHHHHH
Q 040835          155 TEIYRI  160 (206)
Q Consensus       155 ~~i~~~  160 (206)
                      +.+.+.
T Consensus       144 ~~~~~~  149 (158)
T PRK15467        144 SLTKQE  149 (158)
T ss_pred             Hhchhh
Confidence            776544

>TIGR01393 lepA GTP-binding protein LepA

Probab=99.87  E-value=5e-21  Score=159.18  Aligned_cols=152  Identities=21%  Similarity=0.249  Sum_probs=111.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC-------CCCCCcc------ccceeeEEEEEEE-----CCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE-------FSLDSKA------TIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-------~~~~~~~------~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      ++|+.++|||||+++|+...       +...+..      ..|.++....+.+     ++..+.+.+|||||+..|...+
T Consensus         8 IIGh~d~GKTTL~~rLl~~~g~i~~~~~~~~~~D~~~~ErerGiTi~~~~v~~~~~~~~g~~~~l~liDTPG~~dF~~~v   87 (595)
T TIGR01393         8 IIAHIDHGKSTLADRLLEYTGAISEREMREQVLDSMDLERERGITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEV   87 (595)
T ss_pred             EECCCCCCHHHHHHHHHHHcCCCccccccccccCCChHHHhcCCCeeeeEEEEEEEcCCCCEEEEEEEECCCcHHHHHHH
Confidence            58999999999999998742       1112211      2255555444433     3456889999999999999999


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC---eEEEec
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL---CFMETS  139 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~S  139 (206)
                      ..++..+|++|+|+|+++..+......|...+.    .++|+++++||+|+....  ......++...+++   .++++|
T Consensus        88 ~~~l~~aD~aILVvDat~g~~~qt~~~~~~~~~----~~ipiIiViNKiDl~~~~--~~~~~~el~~~lg~~~~~vi~vS  161 (595)
T TIGR01393        88 SRSLAACEGALLLVDAAQGIEAQTLANVYLALE----NDLEIIPVINKIDLPSAD--PERVKKEIEEVIGLDASEAILAS  161 (595)
T ss_pred             HHHHHhCCEEEEEecCCCCCCHhHHHHHHHHHH----cCCCEEEEEECcCCCccC--HHHHHHHHHHHhCCCcceEEEee
Confidence            999999999999999998766655555544332    368999999999985311  12233455555565   389999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~~i~  158 (206)
                      |+++.|++++|+++.+.+.
T Consensus       162 AktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       162 AKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             ccCCCCHHHHHHHHHHhCC
Confidence            9999999999999987653

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.

>PRK11058 GTPase HflX; Provisional

Probab=99.87  E-value=8.2e-21  Score=152.15  Aligned_cols=154  Identities=19%  Similarity=0.139  Sum_probs=105.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh--hhh------hHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY--RAV------TSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--~~~------~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++..+.....+..+.+.....+.+.+ ...+.+|||+|....  ...      +...+..+|++
T Consensus       202 lVG~~NaGKSSLlN~Lt~~~~~v~~~~~tTld~~~~~i~l~~-~~~~~l~DTaG~~r~lp~~lve~f~~tl~~~~~ADlI  280 (426)
T PRK11058        202 LVGYTNAGKSTLFNRITEARVYAADQLFATLDPTLRRIDVAD-VGETVLADTVGFIRHLPHDLVAAFKATLQETRQATLL  280 (426)
T ss_pred             EECCCCCCHHHHHHHHhCCceeeccCCCCCcCCceEEEEeCC-CCeEEEEecCcccccCCHHHHHHHHHHHHHhhcCCEE
Confidence            589999999999999998766433333323333333444433 236789999997321  111      23446899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|++++.+...+..|...+......++|+++|+||+|+.....   ....  ....+.+ ++.+||++|+|++++++
T Consensus       281 L~VvDaS~~~~~e~l~~v~~iL~el~~~~~pvIiV~NKiDL~~~~~---~~~~--~~~~~~~~~v~ISAktG~GIdeL~e  355 (426)
T PRK11058        281 LHVVDAADVRVQENIEAVNTVLEEIDAHEIPTLLVMNKIDMLDDFE---PRID--RDEENKPIRVWLSAQTGAGIPLLFQ  355 (426)
T ss_pred             EEEEeCCCccHHHHHHHHHHHHHHhccCCCCEEEEEEcccCCCchh---HHHH--HHhcCCCceEEEeCCCCCCHHHHHH
Confidence            9999999988777765555545544445799999999999853211   1111  1123555 58899999999999999


Q ss_pred             HHHHHHHHH
Q 040835          152 TVLTEIYRI  160 (206)
Q Consensus       152 ~l~~~i~~~  160 (206)
                      ++.+.+...
T Consensus       356 ~I~~~l~~~  364 (426)
T PRK11058        356 ALTERLSGE  364 (426)
T ss_pred             HHHHHhhhc
Confidence            999888554

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=99.87  E-value=2.1e-21  Score=157.04  Aligned_cols=143  Identities=20%  Similarity=0.198  Sum_probs=102.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh--------hHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV--------TSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~   71 (206)
                      ++|.+|+|||||+|+|++..... ...+..+.+.....+.++  +..+.+|||||.+.+...        ...++..+|+
T Consensus       220 ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~--g~~i~l~DT~G~~~~~~~ie~~gi~~~~~~~~~aD~  297 (449)
T PRK05291        220 IAGRPNVGKSSLLNALLGEERAIVTDIAGTTRDVIEEHINLD--GIPLRLIDTAGIRETDDEVEKIGIERSREAIEEADL  297 (449)
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCCcccccEEEEEEEC--CeEEEEEeCCCCCCCccHHHHHHHHHHHHHHHhCCE
Confidence            58999999999999999976532 222322333333344444  467899999998654321        2346889999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.++.....|..      ..+.|+++|+||+|+.......        ...+.+++++||+++.|++++++
T Consensus       298 il~VvD~s~~~s~~~~~~l~~------~~~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~  363 (449)
T PRK05291        298 VLLVLDASEPLTEEDDEILEE------LKDKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDELRE  363 (449)
T ss_pred             EEEEecCCCCCChhHHHHHHh------cCCCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHHHH
Confidence            999999998877665444432      2468999999999986422211        33456799999999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      ++.+.+..
T Consensus       364 ~L~~~l~~  371 (449)
T PRK05291        364 AIKELAFG  371 (449)
T ss_pred             HHHHHHhh
Confidence            99988754

>PRK03003 GTP-binding protein Der; Reviewed

Probab=99.87  E-value=2.7e-21  Score=157.85  Aligned_cols=153  Identities=24%  Similarity=0.189  Sum_probs=103.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCc----------hhhhhhh-HhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----------ERYRAVT-SAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~-~~~~~~   68 (206)
                      |+|.+|||||||+++|++.... ....++.+.+.....+.+++  ..+.+|||||.          +.+.... ..+++.
T Consensus       216 iiG~~nvGKSSLin~l~~~~~~~~s~~~gtT~d~~~~~~~~~~--~~~~l~DTaG~~~~~~~~~~~e~~~~~~~~~~i~~  293 (472)
T PRK03003        216 LVGKPNVGKSSLLNKLAGEERSVVDDVAGTTVDPVDSLIELGG--KTWRFVDTAGLRRRVKQASGHEYYASLRTHAAIEA  293 (472)
T ss_pred             EECCCCCCHHHHHHHHhCCCcccccCCCCccCCcceEEEEECC--EEEEEEECCCccccccccchHHHHHHHHHHHHHhc
Confidence            5899999999999999998753 22333333333334444544  45689999995          3333332 346789


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHH-HHHHcCCeEEEeccCCCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKE-FAEKEGLCFMETSALESTN  145 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~-~~~~~~~~~~~~Sa~~~~~  145 (206)
                      +|++|+|+|++++.++.... ++..+..   .++|+++|+||+|+......  ...++.. +.....++++++||++|.|
T Consensus       294 ad~vilV~Da~~~~s~~~~~-~~~~~~~---~~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~g  369 (472)
T PRK03003        294 AEVAVVLIDASEPISEQDQR-VLSMVIE---AGRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRA  369 (472)
T ss_pred             CCEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCC
Confidence            99999999999987766654 3333333   46899999999999642111  0111221 1222346899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIYR  159 (206)
Q Consensus       146 v~~~~~~l~~~i~~  159 (206)
                      ++++|..+.+.+..
T Consensus       370 v~~lf~~i~~~~~~  383 (472)
T PRK03003        370 VDKLVPALETALES  383 (472)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999876643

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=99.87  E-value=6.8e-21  Score=153.69  Aligned_cols=158  Identities=16%  Similarity=0.127  Sum_probs=104.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----hhhh---hHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----YRAV---TSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~---~~~~~~~~d~~i   73 (206)
                      |+|.||||||||+++|++........+.  +|.....-.+......+.+||+||...    ...+   ....+..+|++|
T Consensus       164 LVG~PNAGKSTLln~Ls~akpkIadypf--TTl~P~lGvv~~~~~~f~laDtPGliegas~g~gLg~~fLrhieradvLv  241 (500)
T PRK12296        164 LVGFPSAGKSSLISALSAAKPKIADYPF--TTLVPNLGVVQAGDTRFTVADVPGLIPGASEGKGLGLDFLRHIERCAVLV  241 (500)
T ss_pred             EEEcCCCCHHHHHHHHhcCCccccccCc--ccccceEEEEEECCeEEEEEECCCCccccchhhHHHHHHHHHHHhcCEEE
Confidence            5899999999999999986554322232  222222222333346799999999532    1111   233467899999


Q ss_pred             EEeeCCCh----hhHHHHHHHHHHHHhcC-----------CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEe
Q 040835           74 LVYDITKR----QSFDNVARWLEELRGHA-----------DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMET  138 (206)
Q Consensus        74 ~v~d~~~~----~s~~~~~~~~~~~~~~~-----------~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (206)
                      +|+|+++.    +.+..+..+...+..+.           ....|++||+||+|+.....+ .+.........++++|++
T Consensus       242 ~VVD~s~~e~~rdp~~d~~~i~~EL~~y~~~l~~~~~~~~l~~kP~IVVlNKiDL~da~el-~e~l~~~l~~~g~~Vf~I  320 (500)
T PRK12296        242 HVVDCATLEPGRDPLSDIDALEAELAAYAPALDGDLGLGDLAERPRLVVLNKIDVPDAREL-AEFVRPELEARGWPVFEV  320 (500)
T ss_pred             EEECCcccccccCchhhHHHHHHHHHHhhhcccccchhhhhcCCCEEEEEECccchhhHHH-HHHHHHHHHHcCCeEEEE
Confidence            99999753    34444444444443322           136899999999998642221 222333444557899999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHh
Q 040835          139 SALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       139 Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                      ||++++|+++++.+|.+.+....
T Consensus       321 SA~tgeGLdEL~~~L~ell~~~r  343 (500)
T PRK12296        321 SAASREGLRELSFALAELVEEAR  343 (500)
T ss_pred             ECCCCCCHHHHHHHHHHHHHhhh
Confidence            99999999999999998876654

>cd01889 SelB_euk SelB subfamily

Probab=99.87  E-value=4.1e-21  Score=139.56  Aligned_cols=154  Identities=16%  Similarity=0.100  Sum_probs=97.7

Q ss_pred             CccCCCCCHHHHHHHHhcC----CCCCCC---ccccceeeEEEEEEEC------------CeEEEEEEEeCCCchhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARD----EFSLDS---KATIGVEFQTKTLVIH------------HKNVKAQIWDTAGQERYRAV   61 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~----~~~~~~---~~~~~~~~~~~~~~~~------------~~~~~~~i~D~~G~~~~~~~   61 (206)
                      ++|++++|||||+++|+..    .+....   .+..+.........+.            .....+.+|||||+..+...
T Consensus         5 i~G~~~~GKstLi~~l~~~~~~~~~~~~~~e~~~g~T~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~DtpG~~~~~~~   84 (192)
T cd01889           5 VLGHVDSGKTSLAKALSEIASTAAFDKNPQSQERGITLDLGFSSFYVDKPKHLRELINPGEENLQITLVDCPGHASLIRT   84 (192)
T ss_pred             EEecCCCCHHHHHHHHHhccchhhhccCHHHHHcCCeeeecceEEEecccccccccccccccCceEEEEECCCcHHHHHH
Confidence            5899999999999999973    111111   1111222222222222            23678999999999766544


Q ss_pred             hHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHH-------HcC
Q 040835           62 TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAE-------KEG  132 (206)
Q Consensus        62 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~-------~~~  132 (206)
                      .......+|++++|+|+++.........+.  +...  .+.|+++++||+|+......  ..+++.+...       ..+
T Consensus        85 ~~~~~~~~d~vi~VvD~~~~~~~~~~~~~~--~~~~--~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~  160 (192)
T cd01889          85 IIGGAQIIDLMLLVVDATKGIQTQTAECLV--IGEI--LCKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKN  160 (192)
T ss_pred             HHHHHhhCCEEEEEEECCCCccHHHHHHHH--HHHH--cCCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCC
Confidence            445567789999999998754333322222  1111  25799999999998532211  1222222211       135


Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          133 LCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       133 ~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++++||++++|++++++++.+.+.
T Consensus       161 ~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         161 SPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCEEEEeccCCCCHHHHHHHHHhccc
Confidence            78999999999999999999988764

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

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=99.86  E-value=7.8e-21  Score=158.05  Aligned_cols=146  Identities=20%  Similarity=0.191  Sum_probs=105.9

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh------hHhHh--cCCcEEEE
Q 040835            3 GDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV------TSAYY--RGAVGAML   74 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------~~~~~--~~~d~~i~   74 (206)
                      |++|+|||||+|+|++........+..+.+.....+..+  +..+.+|||||+..+...      .+.++  ..+|++++
T Consensus         1 G~pNvGKSSL~N~Ltg~~~~v~n~pG~Tv~~~~~~i~~~--~~~i~lvDtPG~~~~~~~s~~e~v~~~~l~~~~aDvvI~   78 (591)
T TIGR00437         1 GNPNVGKSTLFNALTGANQTVGNWPGVTVEKKEGKLGFQ--GEDIEIVDLPGIYSLTTFSLEEEVARDYLLNEKPDLVVN   78 (591)
T ss_pred             CCCCCCHHHHHHHHhCCCCeecCCCCeEEEEEEEEEEEC--CeEEEEEECCCccccCccchHHHHHHHHHhhcCCCEEEE
Confidence            899999999999999987655544543333333334443  456899999998766442      34443  37899999


Q ss_pred             EeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           75 VYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        75 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      |+|.++.+.   ...+...+.+   .++|+++++||+|+.+.+.+. .+...+.+..+++++++||++++|++++++++.
T Consensus        79 VvDat~ler---~l~l~~ql~~---~~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~  151 (591)
T TIGR00437        79 VVDASNLER---NLYLTLQLLE---LGIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIR  151 (591)
T ss_pred             EecCCcchh---hHHHHHHHHh---cCCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHH
Confidence            999987432   1222222322   479999999999986544443 456788888899999999999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +..
T Consensus       152 ~~~  154 (591)
T TIGR00437       152 KAI  154 (591)
T ss_pred             HHh
Confidence            753

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.

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=99.86  E-value=1e-20  Score=156.74  Aligned_cols=147  Identities=16%  Similarity=0.182  Sum_probs=105.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.++|||||+++|.+..+.....+.++.+.....+..++. ..+.+|||||++.|..++...+..+|++|+|+|+++
T Consensus        92 I~Ghvd~GKTSLl~~l~~~~v~~~e~~GIT~~ig~~~v~~~~~-~~i~~iDTPGhe~F~~~r~rga~~aDiaILVVda~d  170 (587)
T TIGR00487        92 IMGHVDHGKTSLLDSIRKTKVAQGEAGGITQHIGAYHVENEDG-KMITFLDTPGHEAFTSMRARGAKVTDIVVLVVAADD  170 (587)
T ss_pred             EECCCCCCHHHHHHHHHhCCcccccCCceeecceEEEEEECCC-cEEEEEECCCCcchhhHHHhhhccCCEEEEEEECCC
Confidence            5899999999999999998876655444444444444444322 278999999999999999889999999999999987


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC---------CeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG---------LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .........+ ...   ...++|+++++||+|+..   ...++........+         .+++++||++|+|++++|+
T Consensus       171 gv~~qT~e~i-~~~---~~~~vPiIVviNKiDl~~---~~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~  243 (587)
T TIGR00487       171 GVMPQTIEAI-SHA---KAANVPIIVAINKIDKPE---ANPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLD  243 (587)
T ss_pred             CCCHhHHHHH-HHH---HHcCCCEEEEEECccccc---CCHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHH
Confidence            4321111111 112   224689999999999853   13334443333322         4799999999999999999


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      ++..
T Consensus       244 ~I~~  247 (587)
T TIGR00487       244 MILL  247 (587)
T ss_pred             hhhh
Confidence            9863

This model discriminates eubacterial (and mitochondrial) translation initiation factor 2 (IF-2), encoded by the infB gene in bacteria, from similar proteins in the Archaea and Eukaryotes. In the bacteria and in organelles, the initiator tRNA is charged with N-formyl-Met instead of Met. This translation factor acts in delivering the initator tRNA to the ribosome. It is one of a number of GTP-binding translation factors recognized by the pfam model GTP_EFTU.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=99.86  E-value=2.2e-20  Score=148.07  Aligned_cols=158  Identities=18%  Similarity=0.073  Sum_probs=107.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh-------hhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-------RAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~d~~i   73 (206)
                      |+|.||||||||+|+|++........|..+.......+... ....+.++||||...-       .......+..+|+++
T Consensus       164 lVG~PNaGKSTLln~Lt~~k~~vs~~p~TT~~p~~Giv~~~-~~~~i~~vDtPGi~~~a~~~~~Lg~~~l~~i~radvlL  242 (390)
T PRK12298        164 LLGLPNAGKSTFIRAVSAAKPKVADYPFTTLVPNLGVVRVD-DERSFVVADIPGLIEGASEGAGLGIRFLKHLERCRVLL  242 (390)
T ss_pred             EEcCCCCCHHHHHHHHhCCcccccCCCCCccCcEEEEEEeC-CCcEEEEEeCCCccccccchhhHHHHHHHHHHhCCEEE
Confidence            58999999999999999876533333332222222233332 2346899999996431       111223578899999


Q ss_pred             EEeeCC---ChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCCCH
Q 040835           74 LVYDIT---KRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALESTNV  146 (206)
Q Consensus        74 ~v~d~~---~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v  146 (206)
                      +|+|++   +.+.++....|+..+.....  .+.|+++|+||+|+.....+ .+.+..+....+  .+++.+||+++.|+
T Consensus       243 ~VVD~s~~~~~d~~e~~~~l~~eL~~~~~~L~~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GI  321 (390)
T PRK12298        243 HLIDIAPIDGSDPVENARIIINELEKYSPKLAEKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGV  321 (390)
T ss_pred             EEeccCcccccChHHHHHHHHHHHHhhhhhhcCCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCH
Confidence            999988   45566677777777665432  36899999999998643222 233444555444  47899999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYRI  160 (206)
Q Consensus       147 ~~~~~~l~~~i~~~  160 (206)
                      +++++.|.+.+.+.
T Consensus       322 deLl~~I~~~L~~~  335 (390)
T PRK12298        322 KELCWDLMTFIEEN  335 (390)
T ss_pred             HHHHHHHHHHhhhC
Confidence            99999999877543

>cd00880 Era_like Era (E

Probab=99.86  E-value=1e-20  Score=132.67  Aligned_cols=151  Identities=20%  Similarity=0.163  Sum_probs=102.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------hhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------AVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~   72 (206)
                      |+|++|+|||||+++|++.... ....+.............. ....+.+||+||...+.       .....+++.+|++
T Consensus         1 i~G~~gsGKstl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~Dt~g~~~~~~~~~~~~~~~~~~~~~~d~i   79 (163)
T cd00880           1 LFGRTNAGKSSLLNALLGQEVAIVSPVPGTTTDPVEYVWELG-PLGPVVLIDTPGIDEAGGLGREREELARRVLERADLI   79 (163)
T ss_pred             CcCCCCCCHHHHHHHHhCccccccCCCCCcEECCeEEEEEec-CCCcEEEEECCCCCccccchhhHHHHHHHHHHhCCEE
Confidence            6899999999999999987665 2222222222222222221 15679999999976543       3445678999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH---HHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE---DAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~---~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      ++|+|.++........ +.....   ..+.|+++++||+|+.........   .........+.+++++|+.++.|+.++
T Consensus        80 l~v~~~~~~~~~~~~~-~~~~~~---~~~~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l  155 (163)
T cd00880          80 LFVVDADLRADEEEEK-LLELLR---ERGKPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDEL  155 (163)
T ss_pred             EEEEeCCCCCCHHHHH-HHHHHH---hcCCeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHH
Confidence            9999999876655444 333222   257999999999998653322211   112223334678999999999999999


Q ss_pred             HHHHHHH
Q 040835          150 FLTVLTE  156 (206)
Q Consensus       150 ~~~l~~~  156 (206)
                      ++++.+.
T Consensus       156 ~~~l~~~  162 (163)
T cd00880         156 REALIEA  162 (163)
T ss_pred             HHHHHhh
Confidence            9998864

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.86  E-value=1.3e-20  Score=152.68  Aligned_cols=153  Identities=23%  Similarity=0.178  Sum_probs=100.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh-----------hHhHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV-----------TSAYYRGA   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----------~~~~~~~~   69 (206)
                      ++|.+|+|||||+++|++......... .+++.......+...+..+.+|||||...+...           ...+++.+
T Consensus       177 ivG~~~~GKSsLin~l~~~~~~~~~~~-~gtt~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~e~~~~~~~~~~~~~a  255 (429)
T TIGR03594       177 IIGRPNVGKSTLVNALLGEERVIVSDI-AGTTRDSIDIPFERNGKKYLLIDTAGIRRKGKVTEGVEKYSVLRTLKAIERA  255 (429)
T ss_pred             EECCCCCCHHHHHHHHHCCCeeecCCC-CCceECcEeEEEEECCcEEEEEECCCccccccchhhHHHHHHHHHHHHHHhC
Confidence            589999999999999998764322211 123333332233223357899999996433211           13468899


Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-H----cCCeEEEeccCCCC
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-K----EGLCFMETSALEST  144 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~----~~~~~~~~Sa~~~~  144 (206)
                      |++|+|+|++++.+..... ++..+..   .++|+++|+||+|+.. .....++...... .    .+++++++||++|.
T Consensus       256 d~~ilV~D~~~~~~~~~~~-~~~~~~~---~~~~iiiv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~  330 (429)
T TIGR03594       256 DVVLLVLDATEGITEQDLR-IAGLILE---AGKALVIVVNKWDLVK-DEKTREEFKKELRRKLPFLDFAPIVFISALTGQ  330 (429)
T ss_pred             CEEEEEEECCCCccHHHHH-HHHHHHH---cCCcEEEEEECcccCC-CHHHHHHHHHHHHHhcccCCCCceEEEeCCCCC
Confidence            9999999999876655443 3233332   4689999999999862 1111222222222 2    24789999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 040835          145 NVELAFLTVLTEIYR  159 (206)
Q Consensus       145 ~v~~~~~~l~~~i~~  159 (206)
                      |++++|+++.+.+..
T Consensus       331 ~v~~l~~~i~~~~~~  345 (429)
T TIGR03594       331 GVDKLLDAIDEVYEN  345 (429)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999999876654

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00089 era GTPase Era; Reviewed

Probab=99.86  E-value=1.3e-20  Score=145.38  Aligned_cols=153  Identities=20%  Similarity=0.204  Sum_probs=100.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh--------hhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY--------RAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++..+...+..+..+......+.. .....+.+|||||....        .......+..+|++
T Consensus        10 iiG~pn~GKSTLin~L~g~~~~~vs~~~~tt~~~i~~i~~-~~~~qi~~iDTPG~~~~~~~l~~~~~~~~~~~~~~~D~i   88 (292)
T PRK00089         10 IVGRPNVGKSTLLNALVGQKISIVSPKPQTTRHRIRGIVT-EDDAQIIFVDTPGIHKPKRALNRAMNKAAWSSLKDVDLV   88 (292)
T ss_pred             EECCCCCCHHHHHHHHhCCceeecCCCCCcccccEEEEEE-cCCceEEEEECCCCCCchhHHHHHHHHHHHHHHhcCCEE
Confidence            5899999999999999998775443322122221122222 23478999999996432        22334567899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++|+|+++...- .....+..+.   ..+.|+++|+||+|+.............+....+ .+++++||+++.|++++++
T Consensus        89 l~vvd~~~~~~~-~~~~i~~~l~---~~~~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~  164 (292)
T PRK00089         89 LFVVDADEKIGP-GDEFILEKLK---KVKTPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLD  164 (292)
T ss_pred             EEEEeCCCCCCh-hHHHHHHHHh---hcCCCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHH
Confidence            999999873221 1122222232   2468999999999986322222334444544444 5799999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      ++.+.+.
T Consensus       165 ~L~~~l~  171 (292)
T PRK00089        165 VIAKYLP  171 (292)
T ss_pred             HHHHhCC
Confidence            9987763

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

Probab=99.86  E-value=1.1e-20  Score=138.40  Aligned_cols=111  Identities=20%  Similarity=0.156  Sum_probs=76.3

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~  122 (206)
                      ..+.+|||||++.+...+...+..+|++++|+|++++.........+..+...  ...|+++++||+|+......  ..+
T Consensus        83 ~~i~~iDtPG~~~~~~~~~~~~~~~D~~llVvd~~~~~~~~~t~~~l~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~~~  160 (203)
T cd01888          83 RHVSFVDCPGHEILMATMLSGAAVMDGALLLIAANEPCPQPQTSEHLAALEIM--GLKHIIIVQNKIDLVKEEQALENYE  160 (203)
T ss_pred             cEEEEEECCChHHHHHHHHHhhhcCCEEEEEEECCCCCCCcchHHHHHHHHHc--CCCcEEEEEEchhccCHHHHHHHHH
Confidence            67899999999998888888888999999999998732111111222222222  12578999999998642111  113


Q ss_pred             HHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          123 DAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       123 ~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++..+...+   +++++++||++++|++++|+++.+.+
T Consensus       161 ~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         161 QIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             HHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            334444432   56899999999999999999987644

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

>cd04163 Era Era subfamily

Probab=99.86  E-value=2.2e-20  Score=132.06  Aligned_cols=151  Identities=19%  Similarity=0.157  Sum_probs=99.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh--------hhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR--------AVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--------~~~~~~~~~~d~~   72 (206)
                      ++|.+|+|||||+++|++..+....... ..+..............+.+|||||.....        ......+..+|++
T Consensus         8 ~~G~~g~GKttl~~~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~~~d~i   86 (168)
T cd04163           8 IVGRPNVGKSTLLNALVGQKISIVSPKP-QTTRNRIRGIYTDDDAQIIFVDTPGIHKPKKKLGERMVKAAWSALKDVDLV   86 (168)
T ss_pred             EECCCCCCHHHHHHHHhCCceEeccCCC-CceeceEEEEEEcCCeEEEEEECCCCCcchHHHHHHHHHHHHHHHHhCCEE
Confidence            5899999999999999987654333222 112222222233345778999999964322        2334568899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++|+|++++... ....+...+..   .+.|+++++||+|+........+....+.... ..+++++|++++.|++++++
T Consensus        87 ~~v~d~~~~~~~-~~~~~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~  162 (168)
T cd04163          87 LFVVDASEPIGE-GDEFILELLKK---SKTPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLE  162 (168)
T ss_pred             EEEEECCCccCc-hHHHHHHHHHH---hCCCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHH
Confidence            999999986221 11223233332   25899999999998642222233344444444 36899999999999999999


Q ss_pred             HHHHH
Q 040835          152 TVLTE  156 (206)
Q Consensus       152 ~l~~~  156 (206)
                      +|.+.
T Consensus       163 ~l~~~  167 (168)
T cd04163         163 EIVKY  167 (168)
T ss_pred             HHHhh
Confidence            98765

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=99.85  E-value=8.3e-20  Score=133.02  Aligned_cols=150  Identities=18%  Similarity=0.197  Sum_probs=98.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc----------hhhhhhhHhHhcCC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----------ERYRAVTSAYYRGA-   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~~~~~~~-   69 (206)
                      |+|.+|+|||||+++|++..+.....++.+.+........   ...+.+|||||.          +.+......++..+ 
T Consensus        29 ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~---~~~l~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~~  105 (196)
T PRK00454         29 FAGRSNVGKSSLINALTNRKNLARTSKTPGRTQLINFFEV---NDKLRLVDLPGYGYAKVSKEEKEKWQKLIEEYLRTRE  105 (196)
T ss_pred             EEcCCCCCHHHHHHHHhCCCCcccccCCCCceeEEEEEec---CCeEEEeCCCCCCCcCCCchHHHHHHHHHHHHHHhCc
Confidence            5899999999999999997654455555454444333222   367999999994          34444555555544 


Q ss_pred             --cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHcCCeEEEeccCCCCC
Q 040835           70 --VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEKEGLCFMETSALESTN  145 (206)
Q Consensus        70 --d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~Sa~~~~~  145 (206)
                        +++++++|.+++...... .+...+..   .+.|+++++||+|+....+.  ..+++.........+++++|++++.|
T Consensus       106 ~~~~~~~v~d~~~~~~~~~~-~i~~~l~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~g  181 (196)
T PRK00454        106 NLKGVVLLIDSRHPLKELDL-QMIEWLKE---YGIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQG  181 (196)
T ss_pred             cceEEEEEEecCCCCCHHHH-HHHHHHHH---cCCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCC
Confidence              678888888765433221 11122222   36889999999998542221  11223344444467899999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEI  157 (206)
Q Consensus       146 v~~~~~~l~~~i  157 (206)
                      ++++++.+.+.+
T Consensus       182 i~~l~~~i~~~~  193 (196)
T PRK00454        182 IDELRAAIAKWL  193 (196)
T ss_pred             HHHHHHHHHHHh
Confidence            999999887654

>cd01895 EngA2 EngA2 subfamily

Probab=99.85  E-value=9e-20  Score=129.89  Aligned_cols=150  Identities=23%  Similarity=0.146  Sum_probs=96.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchhh----------hh-hhHhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY----------RA-VTSAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~----------~~-~~~~~~~~   68 (206)
                      ++|.+|+|||||+++|++....... .+.............+  ...+.+|||||....          .. .....+..
T Consensus         7 i~G~~~~GKstli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~iiDtpG~~~~~~~~~~~e~~~~~~~~~~~~~   84 (174)
T cd01895           7 IIGRPNVGKSSLVNALLGEERVIVSDIAGTTRDSIDVPFEYD--GKKYTLIDTAGIRRKGKVEEGIEKYSVLRTLKAIER   84 (174)
T ss_pred             EEcCCCCCHHHHHHHHhCccceeccCCCCCccCceeeEEEEC--CeeEEEEECCCCccccchhccHHHHHHHHHHHHHhh
Confidence            5899999999999999987643222 2221222222223333  345789999996422          11 11235678


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-HHc----CCeEEEeccCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFA-EKE----GLCFMETSALES  143 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-~~~----~~~~~~~Sa~~~  143 (206)
                      +|++++|+|++++.+..... ++..+..   .+.|+++++||+|+........+...... +..    +.+++++|++++
T Consensus        85 ~d~vi~v~d~~~~~~~~~~~-~~~~~~~---~~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  160 (174)
T cd01895          85 ADVVLLVIDATEGITEQDLR-IAGLILE---EGKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTG  160 (174)
T ss_pred             cCeEEEEEeCCCCcchhHHH-HHHHHHh---cCCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCC
Confidence            99999999999876654332 2222222   36899999999998653322222222222 222    367999999999


Q ss_pred             CCHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTE  156 (206)
Q Consensus       144 ~~v~~~~~~l~~~  156 (206)
                      .|++++++.+.+.
T Consensus       161 ~~i~~~~~~l~~~  173 (174)
T cd01895         161 QGVDKLFDAIDEV  173 (174)
T ss_pred             CCHHHHHHHHHHh
Confidence            9999999988753

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.

>CHL00189 infB translation initiation factor 2; Provisional

Probab=99.84  E-value=5.2e-20  Score=154.79  Aligned_cols=150  Identities=21%  Similarity=0.240  Sum_probs=105.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEE--EEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKT--LVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~   78 (206)
                      |+|..++|||||+++|....+.....+.++.+.....  ...++....+.+|||||++.|..++..++..+|++|+|+|+
T Consensus       249 IvGhvdvGKTSLld~L~~~~~~~~e~~GiTq~i~~~~v~~~~~~~~~kItfiDTPGhe~F~~mr~rg~~~aDiaILVVDA  328 (742)
T CHL00189        249 ILGHVDHGKTTLLDKIRKTQIAQKEAGGITQKIGAYEVEFEYKDENQKIVFLDTPGHEAFSSMRSRGANVTDIAILIIAA  328 (742)
T ss_pred             EECCCCCCHHHHHHHHHhccCccccCCccccccceEEEEEEecCCceEEEEEECCcHHHHHHHHHHHHHHCCEEEEEEEC
Confidence            5899999999999999988775544333222222222  22333468899999999999999999999999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-------HHHcC--CeEEEeccCCCCCHHHH
Q 040835           79 TKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF-------AEKEG--LCFMETSALESTNVELA  149 (206)
Q Consensus        79 ~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-------~~~~~--~~~~~~Sa~~~~~v~~~  149 (206)
                      +++........| ..+   ...++|+++++||+|+...   ..+++...       ...++  ++++++||++|.|++++
T Consensus       329 ~dGv~~QT~E~I-~~~---k~~~iPiIVViNKiDl~~~---~~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeL  401 (742)
T CHL00189        329 DDGVKPQTIEAI-NYI---QAANVPIIVAINKIDKANA---NTERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKL  401 (742)
T ss_pred             cCCCChhhHHHH-HHH---HhcCceEEEEEECCCcccc---CHHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHH
Confidence            874322221211 112   2246899999999998642   22222222       22233  68999999999999999


Q ss_pred             HHHHHHHH
Q 040835          150 FLTVLTEI  157 (206)
Q Consensus       150 ~~~l~~~i  157 (206)
                      |+++....
T Consensus       402 le~I~~l~  409 (742)
T CHL00189        402 LETILLLA  409 (742)
T ss_pred             HHhhhhhh
Confidence            99887653

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=99.84  E-value=7.4e-20  Score=152.10  Aligned_cols=150  Identities=17%  Similarity=0.137  Sum_probs=107.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC---CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDE---FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d   77 (206)
                      ++|..++|||||+++|++..   +..+..++++.+.....+..++  ..+.+||+||++.|.......+.++|++++|+|
T Consensus         5 iiG~~d~GKTTLi~aLtg~~~d~~~eE~~rGiTid~~~~~~~~~~--~~v~~iDtPGhe~f~~~~~~g~~~aD~aILVVD   82 (581)
T TIGR00475         5 TAGHVDHGKTTLLKALTGIAADRLPEEKKRGMTIDLGFAYFPLPD--YRLGFIDVPGHEKFISNAIAGGGGIDAALLVVD   82 (581)
T ss_pred             EECCCCCCHHHHHHHHhCccCcCChhHhcCCceEEeEEEEEEeCC--EEEEEEECCCHHHHHHHHHhhhccCCEEEEEEE
Confidence            58999999999999999743   3333334434444434444433  789999999999998888888999999999999


Q ss_pred             CCCh---hhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC--CHHHHHHHHHHc----CCeEEEeccCCCCCHH
Q 040835           78 ITKR---QSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV--PTEDAKEFAEKE----GLCFMETSALESTNVE  147 (206)
Q Consensus        78 ~~~~---~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~--~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~  147 (206)
                      +++.   .+.+.+    ..+..   .++| +++++||+|+.+...+  ..+++..+...+    +++++++||++++|++
T Consensus        83 a~~G~~~qT~ehl----~il~~---lgi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~  155 (581)
T TIGR00475        83 ADEGVMTQTGEHL----AVLDL---LGIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIG  155 (581)
T ss_pred             CCCCCcHHHHHHH----HHHHH---cCCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCch
Confidence            9973   333333    22222   3577 9999999998643222  123455555554    4789999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          148 LAFLTVLTEIYR  159 (206)
Q Consensus       148 ~~~~~l~~~i~~  159 (206)
                      +++..+...+..
T Consensus       156 eL~~~L~~l~~~  167 (581)
T TIGR00475       156 ELKKELKNLLES  167 (581)
T ss_pred             hHHHHHHHHHHh
Confidence            999988766544

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=99.84  E-value=6.3e-20  Score=155.52  Aligned_cols=146  Identities=17%  Similarity=0.192  Sum_probs=104.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..++|||||+++|....+.....+.++.+.....+..+  +..+.||||||++.|..++...+..+|++|+|+|+++
T Consensus       295 ImGhvd~GKTSLl~~Lr~~~v~~~e~~GIT~~iga~~v~~~--~~~ItfiDTPGhe~F~~m~~rga~~aDiaILVVdAdd  372 (787)
T PRK05306        295 IMGHVDHGKTSLLDAIRKTNVAAGEAGGITQHIGAYQVETN--GGKITFLDTPGHEAFTAMRARGAQVTDIVVLVVAADD  372 (787)
T ss_pred             EECCCCCCHHHHHHHHHhCCccccccCceeeeccEEEEEEC--CEEEEEEECCCCccchhHHHhhhhhCCEEEEEEECCC
Confidence            58999999999999999877765544433333333334433  4678999999999999999989999999999999987


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-------HHHHcC--CeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE-------FAEKEG--LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-------~~~~~~--~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ...-.....|    ......++|++|++||+|+...   +.+.+..       +...++  ++++++||++|+|++++|+
T Consensus       373 Gv~~qT~e~i----~~a~~~~vPiIVviNKiDl~~a---~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle  445 (787)
T PRK05306        373 GVMPQTIEAI----NHAKAAGVPIIVAINKIDKPGA---NPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLE  445 (787)
T ss_pred             CCCHhHHHHH----HHHHhcCCcEEEEEECcccccc---CHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHH
Confidence            4221111112    2122257999999999998531   2222221       122333  6899999999999999999


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      ++..
T Consensus       446 ~I~~  449 (787)
T PRK05306        446 AILL  449 (787)
T ss_pred             hhhh
Confidence            9875

>COG1159 Era GTPase [General function prediction only]

Probab=99.84  E-value=6.1e-20  Score=136.74  Aligned_cols=154  Identities=20%  Similarity=0.169  Sum_probs=105.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch--------hhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE--------RYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~d~~   72 (206)
                      ++|.||||||||+|+|++......+....++......+.. ..+..+.++||||..        .+.......+..+|++
T Consensus        11 IiGrPNvGKSTLlN~l~G~KisIvS~k~QTTR~~I~GI~t-~~~~QiIfvDTPGih~pk~~l~~~m~~~a~~sl~dvDli   89 (298)
T COG1159          11 IIGRPNVGKSTLLNALVGQKISIVSPKPQTTRNRIRGIVT-TDNAQIIFVDTPGIHKPKHALGELMNKAARSALKDVDLI   89 (298)
T ss_pred             EEcCCCCcHHHHHHHHhcCceEeecCCcchhhhheeEEEE-cCCceEEEEeCCCCCCcchHHHHHHHHHHHHHhccCcEE
Confidence            5899999999999999999998777655343333333333 347889999999943        2334455667899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +||+|+++...- .....++.+..   .+.|+++++||+|..............+..... ..++++||+++.|++.+.+
T Consensus        90 lfvvd~~~~~~~-~d~~il~~lk~---~~~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~  165 (298)
T COG1159          90 LFVVDADEGWGP-GDEFILEQLKK---TKTPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLE  165 (298)
T ss_pred             EEEEeccccCCc-cHHHHHHHHhh---cCCCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHH
Confidence            999999874322 11222333333   468999999999986533321222233333332 3699999999999999888


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      .+...+.+
T Consensus       166 ~i~~~Lpe  173 (298)
T COG1159         166 IIKEYLPE  173 (298)
T ss_pred             HHHHhCCC
Confidence            88776644

>KOG0076 consensus GTP-binding ADP-ribosylation factor-like protein yARL3 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.84  E-value=2.1e-20  Score=127.80  Aligned_cols=154  Identities=22%  Similarity=0.319  Sum_probs=118.2

Q ss_pred             CccCCCCCHHHHHHHHhcC-------CCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARD-------EFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   73 (206)
                      ++|..++|||||+.++...       --.....+|++.+...+.+.    ...+.+||.+|++...++|..|+..++++|
T Consensus        22 IlgldnAGKttfLe~~Kt~~~~~~~~l~~~ki~~tvgLnig~i~v~----~~~l~fwdlgGQe~lrSlw~~yY~~~H~ii   97 (197)
T KOG0076|consen   22 ILGLDNAGKTTFLEALKTDFSKAYGGLNPSKITPTVGLNIGTIEVC----NAPLSFWDLGGQESLRSLWKKYYWLAHGII   97 (197)
T ss_pred             eeccccCCchhHHHHHHHHHHhhhcCCCHHHeecccceeecceeec----cceeEEEEcCChHHHHHHHHHHHHHhceeE
Confidence            5799999999999986542       11233456666666554432    577899999999999999999999999999


Q ss_pred             EEeeCCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH---Hc---CCeEEEeccCCCCCH
Q 040835           74 LVYDITKRQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE---KE---GLCFMETSALESTNV  146 (206)
Q Consensus        74 ~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~---~~---~~~~~~~Sa~~~~~v  146 (206)
                      +++|+++++.++.....+..+.. ....++|+++.+||.|+.+..  ..+++.....   ..   ..++..+||.+|+||
T Consensus        98 ~viDa~~~eR~~~~~t~~~~v~~~E~leg~p~L~lankqd~q~~~--~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv  175 (197)
T KOG0076|consen   98 YVIDATDRERFEESKTAFEKVVENEKLEGAPVLVLANKQDLQNAM--EAAELDGVFGLAELIPRRDNPFQPVSALTGEGV  175 (197)
T ss_pred             EeecCCCHHHHHHHHHHHHHHHHHHHhcCCchhhhcchhhhhhhh--hHHHHHHHhhhhhhcCCccCccccchhhhcccH
Confidence            99999999998877665555433 334789999999999997522  3334433333   22   357999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYRI  160 (206)
Q Consensus       147 ~~~~~~l~~~i~~~  160 (206)
                      ++...|++..+.++
T Consensus       176 ~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  176 KEGIEWLVKKLEKN  189 (197)
T ss_pred             HHHHHHHHHHHhhc
Confidence            99999999888776

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

Probab=99.83  E-value=9.5e-20  Score=130.94  Aligned_cols=140  Identities=21%  Similarity=0.267  Sum_probs=91.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc----------hhhhhhhHhHhc---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----------ERYRAVTSAYYR---   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~~~~~---   67 (206)
                      |+|.+|+|||||+++|++..+.....++.+.+........+   ..+.+|||||.          +.+......+++   
T Consensus        23 ivG~~~~GKStlin~l~~~~~~~~~~~~~~~t~~~~~~~~~---~~~~liDtpG~~~~~~~~~~~~~~~~~~~~~l~~~~   99 (179)
T TIGR03598        23 FAGRSNVGKSSLINALTNRKKLARTSKTPGRTQLINFFEVN---DGFRLVDLPGYGYAKVSKEEKEKWQKLIEEYLEKRE   99 (179)
T ss_pred             EEcCCCCCHHHHHHHHhCCCCcccccCCCCcceEEEEEEeC---CcEEEEeCCCCccccCChhHHHHHHHHHHHHHHhCh
Confidence            58999999999999999986444444444555444333333   26899999994          234444445555   


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcC--CeEEEeccCCC
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEKEG--LCFMETSALES  143 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~--~~~~~~Sa~~~  143 (206)
                      .++++++|+|.+++.+.... .++..+..   .++|+++++||+|+.....  ...+++++.....+  .++|++||+++
T Consensus       100 ~~~~ii~vvd~~~~~~~~~~-~~~~~~~~---~~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g  175 (179)
T TIGR03598       100 NLKGVVLLMDIRHPLKELDL-EMLEWLRE---RGIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKK  175 (179)
T ss_pred             hhcEEEEEecCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCC
Confidence            35799999999875443333 22233332   4689999999999853211  12344445555543  47999999999


Q ss_pred             CCHH
Q 040835          144 TNVE  147 (206)
Q Consensus       144 ~~v~  147 (206)
                      +|++
T Consensus       176 ~gi~  179 (179)
T TIGR03598       176 TGID  179 (179)
T ss_pred             CCCC
Confidence            9973

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.

>cd04105 SR_beta Signal recognition particle receptor, beta subunit (SR-beta)

Probab=99.83  E-value=3.6e-19  Score=130.20  Aligned_cols=113  Identities=21%  Similarity=0.328  Sum_probs=84.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCC-cEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGA-VGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~-d~~i~v~d~~   79 (206)
                      ++|++|||||+|+++|....+.....++ ..+..............+.+||+||+..+...+..+++.+ +++|+|+|++
T Consensus         5 l~G~~~sGKTsL~~~l~~~~~~~t~~s~-~~~~~~~~~~~~~~~~~~~l~D~pG~~~~~~~~~~~~~~~~~~vV~VvD~~   83 (203)
T cd04105           5 LLGPSDSGKTALFTKLTTGKYRSTVTSI-EPNVATFILNSEGKGKKFRLVDVPGHPKLRDKLLETLKNSAKGIVFVVDSA   83 (203)
T ss_pred             EEcCCCCCHHHHHHHHhcCCCCCccCcE-eecceEEEeecCCCCceEEEEECCCCHHHHHHHHHHHhccCCEEEEEEECc
Confidence            5899999999999999998776554433 2222222221123457799999999999998888999998 9999999999


Q ss_pred             Ch-hhHHHHHHHHHHHHhc---CCCCCcEEEEEeCCCCC
Q 040835           80 KR-QSFDNVARWLEELRGH---ADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        80 ~~-~s~~~~~~~~~~~~~~---~~~~~p~ivv~nK~D~~  114 (206)
                      +. .++..+..|+..+...   ...++|+++++||+|+.
T Consensus        84 ~~~~~~~~~~~~l~~il~~~~~~~~~~pvliv~NK~Dl~  122 (203)
T cd04105          84 TFQKNLKDVAEFLYDILTDLEKVKNKIPVLIACNKQDLF  122 (203)
T ss_pred             cchhHHHHHHHHHHHHHHHHhhccCCCCEEEEecchhhc
Confidence            87 5677666655443221   12579999999999985

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

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=99.83  E-value=1.1e-19  Score=147.46  Aligned_cols=149  Identities=22%  Similarity=0.164  Sum_probs=102.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc--------hhhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ--------ERYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~--------~~~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++........ ..+.+...........+..+.+|||||.        +.+......+++.+|++
T Consensus         4 ivG~~nvGKStL~n~l~~~~~~~v~~-~~g~t~d~~~~~~~~~~~~~~liDTpG~~~~~~~~~~~~~~~~~~~~~~ad~v   82 (429)
T TIGR03594         4 IVGRPNVGKSTLFNRLTGKRDAIVSD-TPGVTRDRKYGDAEWGGREFILIDTGGIEEDDDGLDKQIREQAEIAIEEADVI   82 (429)
T ss_pred             EECCCCCCHHHHHHHHhCCCcceecC-CCCcccCceEEEEEECCeEEEEEECCCCCCcchhHHHHHHHHHHHHHhhCCEE
Confidence            58999999999999999876432221 1233333333333334467999999995        44555667788999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++|+|..++.+... ..+...+.+   .++|+++|+||+|+..... .   ... ....++ +++++||.++.|++++++
T Consensus        83 l~vvD~~~~~~~~d-~~i~~~l~~---~~~piilVvNK~D~~~~~~-~---~~~-~~~lg~~~~~~vSa~~g~gv~~ll~  153 (429)
T TIGR03594        83 LFVVDGREGLTPED-EEIAKWLRK---SGKPVILVANKIDGKKEDA-V---AAE-FYSLGFGEPIPISAEHGRGIGDLLD  153 (429)
T ss_pred             EEEEeCCCCCCHHH-HHHHHHHHH---hCCCEEEEEECccCCcccc-c---HHH-HHhcCCCCeEEEeCCcCCChHHHHH
Confidence            99999987543322 122222333   3689999999999864222 1   122 334566 699999999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      .+.+.+..
T Consensus       154 ~i~~~l~~  161 (429)
T TIGR03594       154 AILELLPE  161 (429)
T ss_pred             HHHHhcCc
Confidence            98877643

EngA (YfgK, Der) is a ribosome-associated essential GTPase with a duplication of its GTP-binding domain. It is broadly to universally distributed among bacteria. It appears to function in ribosome biogenesis or stability.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.83  E-value=1.9e-19  Score=146.14  Aligned_cols=142  Identities=23%  Similarity=0.186  Sum_probs=98.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchh--------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|.+..... ...+..+.+.....+..+  +..+.+|||||.+.        +......++..+|+
T Consensus         6 ivG~~~vGKStL~n~l~~~~~~~v~~~~~~t~d~~~~~~~~~--~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~   83 (435)
T PRK00093          6 IVGRPNVGKSTLFNRLTGKRDAIVADTPGVTRDRIYGEAEWL--GREFILIDTGGIEPDDDGFEKQIREQAELAIEEADV   83 (435)
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeCCCCCCcccceEEEEEEC--CcEEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCE
Confidence            58999999999999999876432 222222333333334443  37899999999876        33334567889999


Q ss_pred             EEEEeeCCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHHH
Q 040835           72 AMLVYDITKRQSFD--NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVEL  148 (206)
Q Consensus        72 ~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~  148 (206)
                      +|+|+|+.++.+..  .+..|+.   .   .+.|+++++||+|...    ......++ ...++. ++++||+++.|+++
T Consensus        84 il~vvd~~~~~~~~~~~~~~~l~---~---~~~piilv~NK~D~~~----~~~~~~~~-~~lg~~~~~~iSa~~g~gv~~  152 (435)
T PRK00093         84 ILFVVDGRAGLTPADEEIAKILR---K---SNKPVILVVNKVDGPD----EEADAYEF-YSLGLGEPYPISAEHGRGIGD  152 (435)
T ss_pred             EEEEEECCCCCCHHHHHHHHHHH---H---cCCcEEEEEECccCcc----chhhHHHH-HhcCCCCCEEEEeeCCCCHHH
Confidence            99999998754332  2233332   2   3689999999999643    12222222 345654 89999999999999


Q ss_pred             HHHHHHH
Q 040835          149 AFLTVLT  155 (206)
Q Consensus       149 ~~~~l~~  155 (206)
                      +|+.+..
T Consensus       153 l~~~I~~  159 (435)
T PRK00093        153 LLDAILE  159 (435)
T ss_pred             HHHHHHh
Confidence            9999887

>KOG0096 consensus GTPase Ran/TC4/GSP1 (nuclear protein transport pathway), small G protein superfamily [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.82  E-value=1.6e-20  Score=130.10  Aligned_cols=155  Identities=32%  Similarity=0.544  Sum_probs=135.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|.||||++++.+.+.+...+.+|.+.........-+...+.+..|||.|++.+......++-++...|+++|++.
T Consensus        15 lvGdgg~gKtt~vkr~ltgeFe~~y~at~Gv~~~pl~f~tn~g~irf~~wdtagqEk~gglrdgyyI~~qcAiimFdVts   94 (216)
T KOG0096|consen   15 LVGDGGTGKTTFVKRHLTGEFEKTYPATLGVEVHPLLFDTNRGQIRFNVWDTAGQEKKGGLRDGYYIQGQCAIIMFDVTS   94 (216)
T ss_pred             EecCCcccccchhhhhhcccceecccCcceeEEeeeeeecccCcEEEEeeecccceeecccccccEEecceeEEEeeeee
Confidence            47999999999999999999999999999998887776665567999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++.++.+|...+.+.+ .++|+++++||.|.....  .......+..+.++.+++.|++.+.|+..-|.|+.+.+.
T Consensus        95 r~t~~n~~rwhrd~~rv~-~NiPiv~cGNKvDi~~r~--~k~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~  169 (216)
T KOG0096|consen   95 RFTYKNVPRWHRDLVRVR-ENIPIVLCGNKVDIKARK--VKAKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLT  169 (216)
T ss_pred             hhhhhcchHHHHHHHHHh-cCCCeeeeccceeccccc--cccccceeeecccceeEEeecccccccccchHHHhhhhc
Confidence            999999999999998888 469999999999986522  233445566677889999999999999999999987764

>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=99.82  E-value=5e-20  Score=133.37  Aligned_cols=154  Identities=23%  Similarity=0.238  Sum_probs=102.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC----------------ccccceeeEEEEEEEC--CeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS----------------KATIGVEFQTKTLVIH--HKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~----------------~~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      ++|+.++|||||+++|+........                ....+.+.........  .....+.++||||+..|....
T Consensus         8 i~G~~~sGKTTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~e~~~~~ti~~~~~~~~~~~~~~~i~~iDtPG~~~f~~~~   87 (188)
T PF00009_consen    8 IIGHVDSGKTTLLGALLGKAGAIDKRGIEETKNAFLDKHPEERERGITIDLSFISFEKNENNRKITLIDTPGHEDFIKEM   87 (188)
T ss_dssp             EEESTTSSHHHHHHHHHHHHTSSSSHHHHHHHHCHHHSSHHHHHCTSSSSSEEEEEEBTESSEEEEEEEESSSHHHHHHH
T ss_pred             EECCCCCCcEeechhhhhhccccccccccccccccccccchhhhcccccccccccccccccccceeecccccccceeecc
Confidence            5899999999999999965432111                0001222222233333  556889999999999998888


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHH-HHHHHc------CCe
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAK-EFAEKE------GLC  134 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~-~~~~~~------~~~  134 (206)
                      ...+..+|++|+|+|+.+.... .....+..+..   .++|+++++||+|+...+. ...+++. .+.+..      .++
T Consensus        88 ~~~~~~~D~ailvVda~~g~~~-~~~~~l~~~~~---~~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~  163 (188)
T PF00009_consen   88 IRGLRQADIAILVVDANDGIQP-QTEEHLKILRE---LGIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVP  163 (188)
T ss_dssp             HHHHTTSSEEEEEEETTTBSTH-HHHHHHHHHHH---TT-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEE
T ss_pred             cceecccccceeeeeccccccc-ccccccccccc---cccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccce
Confidence            8889999999999999876432 22333333333   4688999999999862110 0111122 333333      257


Q ss_pred             EEEeccCCCCCHHHHHHHHHHHHH
Q 040835          135 FMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       135 ~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++.+||.+|.|++++++.+.+.+.
T Consensus       164 vi~~Sa~~g~gi~~Ll~~l~~~~P  187 (188)
T PF00009_consen  164 VIPISALTGDGIDELLEALVELLP  187 (188)
T ss_dssp             EEEEBTTTTBTHHHHHHHHHHHS-
T ss_pred             EEEEecCCCCCHHHHHHHHHHhCc
Confidence            999999999999999999887653

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 ....

>PRK05433 GTP-binding protein LepA; Provisional

Probab=99.82  E-value=4.2e-19  Score=147.90  Aligned_cols=153  Identities=21%  Similarity=0.251  Sum_probs=108.9

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCC-----CC------ccccceeeEEEEEEE-----CCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSL-----DS------KATIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~-----~~------~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      ++|+.++|||||+++|+...  +..     ..      ....+.++....+.+     ++..+.+.+|||||+..|...+
T Consensus        12 IiGhvd~GKTTL~~rLl~~tg~i~~~~~~~~~lD~~~~ErerGiTi~~~~v~~~~~~~dg~~~~lnLiDTPGh~dF~~~v   91 (600)
T PRK05433         12 IIAHIDHGKSTLADRLIELTGTLSEREMKAQVLDSMDLERERGITIKAQAVRLNYKAKDGETYILNLIDTPGHVDFSYEV   91 (600)
T ss_pred             EECCCCCCHHHHHHHHHHhcCCCcccccccccccCchHHhhcCCcccccEEEEEEEccCCCcEEEEEEECCCcHHHHHHH
Confidence            58999999999999998631  110     00      112244444333333     3447889999999999999989


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe---EEEec
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC---FMETS  139 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~S  139 (206)
                      ..++..+|++|+|+|++++........|.....    .++|+++++||+|+....  ......++....++.   ++.+|
T Consensus        92 ~~sl~~aD~aILVVDas~gv~~qt~~~~~~~~~----~~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~iS  165 (600)
T PRK05433         92 SRSLAACEGALLVVDASQGVEAQTLANVYLALE----NDLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASDAVLVS  165 (600)
T ss_pred             HHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcceEEEEe
Confidence            999999999999999998755554445543321    468999999999985311  122233444445554   89999


Q ss_pred             cCCCCCHHHHHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~~i~~  159 (206)
                      |+++.|++++++++.+.+..
T Consensus       166 AktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        166 AKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             cCCCCCHHHHHHHHHHhCcc
Confidence            99999999999999887643

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.82  E-value=3.8e-19  Score=151.52  Aligned_cols=149  Identities=23%  Similarity=0.173  Sum_probs=101.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh--------hhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------YRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++....... .+.+.+...........+..+.+|||||.+.        +......++..+|++
T Consensus       280 IvG~~nvGKSSL~n~l~~~~~~iv~-~~pGvT~d~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~aD~i  358 (712)
T PRK09518        280 IVGRPNVGKSTLVNRILGRREAVVE-DTPGVTRDRVSYDAEWAGTDFKLVDTGGWEADVEGIDSAIASQAQIAVSLADAV  358 (712)
T ss_pred             EECCCCCCHHHHHHHHhCCCceeec-CCCCeeEEEEEEEEEECCEEEEEEeCCCcCCCCccHHHHHHHHHHHHHHhCCEE
Confidence            5899999999999999987653222 2234444444443334456789999999653        344455678999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|.++..... ...|...+..   .++|+++|+||+|+...    ......+. ..+. ..+++||+++.|++++|+
T Consensus       359 L~VvDa~~~~~~~-d~~i~~~Lr~---~~~pvIlV~NK~D~~~~----~~~~~~~~-~lg~~~~~~iSA~~g~GI~eLl~  429 (712)
T PRK09518        359 VFVVDGQVGLTST-DERIVRMLRR---AGKPVVLAVNKIDDQAS----EYDAAEFW-KLGLGEPYPISAMHGRGVGDLLD  429 (712)
T ss_pred             EEEEECCCCCCHH-HHHHHHHHHh---cCCCEEEEEECcccccc----hhhHHHHH-HcCCCCeEEEECCCCCCchHHHH
Confidence            9999998643211 1234444443   47999999999998531    11222222 2233 367899999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      ++++.+..
T Consensus       430 ~i~~~l~~  437 (712)
T PRK09518        430 EALDSLKV  437 (712)
T ss_pred             HHHHhccc
Confidence            99988754

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=99.82  E-value=8.3e-19  Score=145.21  Aligned_cols=152  Identities=17%  Similarity=0.156  Sum_probs=99.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC----------------CeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------------HKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|++++|||||+++|.+..+.......++.+.....+..+                .....+.+|||||++.|..++..
T Consensus         9 IiG~~d~GKTSLln~l~~~~v~~~e~ggiTq~iG~~~v~~~~~~~~~~~~~~~~~v~~~~~~l~~iDTpG~e~f~~l~~~   88 (590)
T TIGR00491         9 VLGHVDHGKTTLLDKIRGSAVAKREAGGITQHIGATEIPMDVIEGICGDLLKKFKIRLKIPGLLFIDTPGHEAFTNLRKR   88 (590)
T ss_pred             EECCCCCCHHHHHHHHhccccccccCCceecccCeeEeeeccccccccccccccccccccCcEEEEECCCcHhHHHHHHH
Confidence            58999999999999999987754322211111111111111                00123889999999999999999


Q ss_pred             HhcCCcEEEEEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----CC--------HHH------
Q 040835           65 YYRGAVGAMLVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA----VP--------TED------  123 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----~~--------~~~------  123 (206)
                      +++.+|++++|+|+++   +.+++.+..    +..   .++|+++++||+|+.....    ..        ...      
T Consensus        89 ~~~~aD~~IlVvD~~~g~~~qt~e~i~~----l~~---~~vpiIVv~NK~Dl~~~~~~~~~~~f~e~sak~~~~v~~~~~  161 (590)
T TIGR00491        89 GGALADLAILIVDINEGFKPQTQEALNI----LRM---YKTPFVVAANKIDRIPGWRSHEGRPFMESFSKQEIQVQQNLD  161 (590)
T ss_pred             HHhhCCEEEEEEECCcCCCHhHHHHHHH----HHH---cCCCEEEEEECCCccchhhhccCchHHHHHHhhhHHHHHHHH
Confidence            9999999999999987   344433322    222   3689999999999853110    00        000      


Q ss_pred             ------HHHHHH------------Hc--CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          124 ------AKEFAE------------KE--GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       124 ------~~~~~~------------~~--~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                            ...+..            .+  .++++++||++|+|+++++.++.....+
T Consensus       162 ~~~~~lv~~l~~~G~~~e~~~~i~~~~~~v~iVpVSA~tGeGideLl~~l~~l~~~  217 (590)
T TIGR00491       162 TKVYNLVIKLHEEGFEAERFDRVTDFTKTVAIIPISAITGEGIPELLTMLAGLAQQ  217 (590)
T ss_pred             HHHHHHHHHHHhcCccHHhhhhhhhcCCCceEEEeecCCCCChhHHHHHHHHHHHH
Confidence                  001111            11  3579999999999999999988755433

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.

>PRK00093 GTP-binding protein Der; Reviewed

Probab=99.82  E-value=2.8e-19  Score=145.16  Aligned_cols=152  Identities=23%  Similarity=0.221  Sum_probs=100.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----------hhhh-hHhHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----------YRAV-TSAYYRGA   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~-~~~~~~~~   69 (206)
                      |+|.+|+|||||+|+|++......... .+++.......+...+..+.+|||||...          +... ...+++.+
T Consensus       178 ivG~~n~GKStlin~ll~~~~~~~~~~-~gtt~~~~~~~~~~~~~~~~lvDT~G~~~~~~~~~~~e~~~~~~~~~~~~~a  256 (435)
T PRK00093        178 IIGRPNVGKSSLINALLGEERVIVSDI-AGTTRDSIDTPFERDGQKYTLIDTAGIRRKGKVTEGVEKYSVIRTLKAIERA  256 (435)
T ss_pred             EECCCCCCHHHHHHHHhCCCceeecCC-CCceEEEEEEEEEECCeeEEEEECCCCCCCcchhhHHHHHHHHHHHHHHHHC
Confidence            589999999999999998764332221 13444443333333456689999999532          2211 23467899


Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH-HHHHH----cCCeEEEeccCCCC
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAK-EFAEK----EGLCFMETSALEST  144 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~-~~~~~----~~~~~~~~Sa~~~~  144 (206)
                      |++|+|+|++++.+..... +...+..   .++|+++++||+|+.....  ..+.. .+...    ..++++++||+++.
T Consensus       257 d~~ilViD~~~~~~~~~~~-i~~~~~~---~~~~~ivv~NK~Dl~~~~~--~~~~~~~~~~~l~~~~~~~i~~~SA~~~~  330 (435)
T PRK00093        257 DVVLLVIDATEGITEQDLR-IAGLALE---AGRALVIVVNKWDLVDEKT--MEEFKKELRRRLPFLDYAPIVFISALTGQ  330 (435)
T ss_pred             CEEEEEEeCCCCCCHHHHH-HHHHHHH---cCCcEEEEEECccCCCHHH--HHHHHHHHHHhcccccCCCEEEEeCCCCC
Confidence            9999999999876654433 2233332   3689999999999863111  11221 11111    24789999999999


Q ss_pred             CHHHHHHHHHHHHHH
Q 040835          145 NVELAFLTVLTEIYR  159 (206)
Q Consensus       145 ~v~~~~~~l~~~i~~  159 (206)
                      |++++++.+.+....
T Consensus       331 gv~~l~~~i~~~~~~  345 (435)
T PRK00093        331 GVDKLLEAIDEAYEN  345 (435)
T ss_pred             CHHHHHHHHHHHHHH
Confidence            999999998876543

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=99.82  E-value=7e-19  Score=149.77  Aligned_cols=148  Identities=16%  Similarity=0.164  Sum_probs=110.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh----------hHhHh--cC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV----------TSAYY--RG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~----------~~~~~--~~   68 (206)
                      ++|++|+|||||+|+|++........  .|.+.+.+...+...+..+.+||+||...+...          ...++  ..
T Consensus         8 LvG~pNvGKSTLfN~Ltg~~~~vgn~--pGvTve~k~g~~~~~~~~i~lvDtPG~ysl~~~~~~~s~~E~i~~~~l~~~~   85 (772)
T PRK09554          8 LIGNPNSGKTTLFNQLTGARQRVGNW--AGVTVERKEGQFSTTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGD   85 (772)
T ss_pred             EECCCCCCHHHHHHHHhCCCCccCCC--CCceEeeEEEEEEcCceEEEEEECCCccccccccccccHHHHHHHHHHhccC
Confidence            58999999999999999876643333  356666666666667788999999998655321          22333  48


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      +|++++|+|.++.+..   ..+...+.+   .++|+++++||+|+.+.+.+ ..+...+.+..|++++++|+.+++|+++
T Consensus        86 aD~vI~VvDat~ler~---l~l~~ql~e---~giPvIvVlNK~Dl~~~~~i-~id~~~L~~~LG~pVvpiSA~~g~GIde  158 (772)
T PRK09554         86 ADLLINVVDASNLERN---LYLTLQLLE---LGIPCIVALNMLDIAEKQNI-RIDIDALSARLGCPVIPLVSTRGRGIEA  158 (772)
T ss_pred             CCEEEEEecCCcchhh---HHHHHHHHH---cCCCEEEEEEchhhhhccCc-HHHHHHHHHHhCCCEEEEEeecCCCHHH
Confidence            9999999999986532   223334433   46999999999998654443 3556788888999999999999999999


Q ss_pred             HHHHHHHHH
Q 040835          149 AFLTVLTEI  157 (206)
Q Consensus       149 ~~~~l~~~i  157 (206)
                      +++.+.+..
T Consensus       159 L~~~I~~~~  167 (772)
T PRK09554        159 LKLAIDRHQ  167 (772)
T ss_pred             HHHHHHHhh
Confidence            998887654

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.81  E-value=1.6e-19  Score=141.48  Aligned_cols=148  Identities=22%  Similarity=0.163  Sum_probs=106.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh---------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER---------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d~   71 (206)
                      ++|.||||||||+|+|++.......+.+ |.|.....-...+.+..|.++||+|.+.         ........+..||+
T Consensus         8 IVGRPNVGKSTLFNRL~g~r~AIV~D~p-GvTRDr~y~~~~~~~~~f~lIDTgGl~~~~~~~l~~~i~~Qa~~Ai~eADv   86 (444)
T COG1160           8 IVGRPNVGKSTLFNRLTGRRIAIVSDTP-GVTRDRIYGDAEWLGREFILIDTGGLDDGDEDELQELIREQALIAIEEADV   86 (444)
T ss_pred             EECCCCCcHHHHHHHHhCCeeeEeecCC-CCccCCccceeEEcCceEEEEECCCCCcCCchHHHHHHHHHHHHHHHhCCE
Confidence            5899999999999999999887666544 5666655555556667799999999653         23345567889999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~  150 (206)
                      +|||+|....-+-.+ ......++.   .++|+++|+||+|-..    ..+...++.. +|. .++.+||.+|.|+.+++
T Consensus        87 ilfvVD~~~Git~~D-~~ia~~Lr~---~~kpviLvvNK~D~~~----~e~~~~efys-lG~g~~~~ISA~Hg~Gi~dLl  157 (444)
T COG1160          87 ILFVVDGREGITPAD-EEIAKILRR---SKKPVILVVNKIDNLK----AEELAYEFYS-LGFGEPVPISAEHGRGIGDLL  157 (444)
T ss_pred             EEEEEeCCCCCCHHH-HHHHHHHHh---cCCCEEEEEEcccCch----hhhhHHHHHh-cCCCCceEeehhhccCHHHHH
Confidence            999999986433221 112222332   4699999999999642    2233333333 444 68999999999999999


Q ss_pred             HHHHHHHH
Q 040835          151 LTVLTEIY  158 (206)
Q Consensus       151 ~~l~~~i~  158 (206)
                      +.++..+.
T Consensus       158 d~v~~~l~  165 (444)
T COG1160         158 DAVLELLP  165 (444)
T ss_pred             HHHHhhcC
Confidence            99998863

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=99.81  E-value=1.3e-18  Score=148.35  Aligned_cols=151  Identities=19%  Similarity=0.150  Sum_probs=100.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCch----------hhhhh-hHhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----------RYRAV-TSAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~-~~~~~~~   68 (206)
                      |+|.+|||||||+|+|++..... ...+..+.+.....+.+++  ..+.+|||||..          .+..+ ....++.
T Consensus       455 ivG~~nvGKSSLin~l~~~~~~~v~~~~gtT~d~~~~~~~~~~--~~~~liDTaG~~~~~~~~~~~e~~~~~r~~~~i~~  532 (712)
T PRK09518        455 LVGRPNVGKSSLLNQLTHEERAVVNDLAGTTRDPVDEIVEIDG--EDWLFIDTAGIKRRQHKLTGAEYYSSLRTQAAIER  532 (712)
T ss_pred             EECCCCCCHHHHHHHHhCccccccCCCCCCCcCcceeEEEECC--CEEEEEECCCcccCcccchhHHHHHHHHHHHHhhc
Confidence            58999999999999999987532 2222223333333344444  456799999953          22222 2345789


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-H----cCCeEEEeccCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-K----EGLCFMETSALES  143 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~----~~~~~~~~Sa~~~  143 (206)
                      +|++++|+|++++.+......+ ..+..   .++|+++|+||+|+.....  .+....... .    ...+++.+||+++
T Consensus       533 advvilViDat~~~s~~~~~i~-~~~~~---~~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg  606 (712)
T PRK09518        533 SELALFLFDASQPISEQDLKVM-SMAVD---AGRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTG  606 (712)
T ss_pred             CCEEEEEEECCCCCCHHHHHHH-HHHHH---cCCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCC
Confidence            9999999999988776655433 33332   4689999999999864211  122222222 1    1356899999999


Q ss_pred             CCHHHHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTEIYR  159 (206)
Q Consensus       144 ~~v~~~~~~l~~~i~~  159 (206)
                      .|++++|+.+.+.+.+
T Consensus       607 ~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        607 WHTNRLAPAMQEALES  622 (712)
T ss_pred             CCHHHHHHHHHHHHHH
Confidence            9999999999887764

>KOG0072 consensus GTP-binding ADP-ribosylation factor-like protein ARL1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.79  E-value=6.1e-20  Score=121.73  Aligned_cols=152  Identities=22%  Similarity=0.322  Sum_probs=110.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.-|+||||++.++--... ....|+++++...    +..++.++++||.+|+-..+..|+-|+.+.|++|||+|.+|
T Consensus        23 ilgldGaGkttIlyrlqvgev-vttkPtigfnve~----v~yKNLk~~vwdLggqtSirPyWRcYy~dt~avIyVVDssd   97 (182)
T KOG0072|consen   23 ILGLDGAGKTTILYRLQVGEV-VTTKPTIGFNVET----VPYKNLKFQVWDLGGQTSIRPYWRCYYADTDAVIYVVDSSD   97 (182)
T ss_pred             EeeccCCCeeEEEEEcccCcc-cccCCCCCcCccc----cccccccceeeEccCcccccHHHHHHhcccceEEEEEeccc
Confidence            357778888887776665554 3345666666554    44578999999999999999999999999999999999999


Q ss_pred             hhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-----HHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE-----FAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++.+..... ++..+.+..-....+++++||+|.....  ...++..     -.+..-+.+|++||.+++|++.+.+|+.
T Consensus        98 ~dris~a~~el~~mL~E~eLq~a~llv~anKqD~~~~~--t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~  175 (182)
T KOG0072|consen   98 RDRISIAGVELYSMLQEEELQHAKLLVFANKQDYSGAL--TRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQ  175 (182)
T ss_pred             hhhhhhhHHHHHHHhccHhhcCceEEEEeccccchhhh--hHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHH
Confidence            887765544 3333433333457789999999986411  2222111     1122236799999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+..
T Consensus       176 ~~l~~  180 (182)
T KOG0072|consen  176 RPLKS  180 (182)
T ss_pred             HHHhc
Confidence            87654

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=99.79  E-value=1.7e-18  Score=136.21  Aligned_cols=149  Identities=20%  Similarity=0.191  Sum_probs=110.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh--------hHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV--------TSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~--------~~~~~~~~d~~   72 (206)
                      ++|.||||||||+|.|++.+.....+-. |+|.......++-.++.+.++||+|.++..+.        ....+..||.+
T Consensus       222 IiG~PNvGKSSLLNaL~~~d~AIVTdI~-GTTRDviee~i~i~G~pv~l~DTAGiRet~d~VE~iGIeRs~~~i~~ADlv  300 (454)
T COG0486         222 IIGRPNVGKSSLLNALLGRDRAIVTDIA-GTTRDVIEEDINLNGIPVRLVDTAGIRETDDVVERIGIERAKKAIEEADLV  300 (454)
T ss_pred             EECCCCCcHHHHHHHHhcCCceEecCCC-CCccceEEEEEEECCEEEEEEecCCcccCccHHHHHHHHHHHHHHHhCCEE
Confidence            5899999999999999999887776655 77788787777777899999999997654332        23457899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      ++|+|.+.+.+-.+.. .+.    ....++|+++|.||.|+.......     ......+.+++.+|+++++|++.+.+.
T Consensus       301 L~v~D~~~~~~~~d~~-~~~----~~~~~~~~i~v~NK~DL~~~~~~~-----~~~~~~~~~~i~iSa~t~~Gl~~L~~~  370 (454)
T COG0486         301 LFVLDASQPLDKEDLA-LIE----LLPKKKPIIVVLNKADLVSKIELE-----SEKLANGDAIISISAKTGEGLDALREA  370 (454)
T ss_pred             EEEEeCCCCCchhhHH-HHH----hcccCCCEEEEEechhcccccccc-----hhhccCCCceEEEEecCccCHHHHHHH
Confidence            9999999852222111 111    233679999999999997533311     112222457999999999999999988


Q ss_pred             HHHHHHHH
Q 040835          153 VLTEIYRI  160 (206)
Q Consensus       153 l~~~i~~~  160 (206)
                      +.+.+...
T Consensus       371 i~~~~~~~  378 (454)
T COG0486         371 IKQLFGKG  378 (454)
T ss_pred             HHHHHhhc
Confidence            88777665

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=99.79  E-value=1.1e-18  Score=128.32  Aligned_cols=146  Identities=26%  Similarity=0.199  Sum_probs=94.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc-----------------------------cccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK-----------------------------ATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      |+|.+|+|||||+++|+...-.....                             ...+++.......+...+..+.+||
T Consensus         4 iiG~~~~GKStL~~~Ll~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~liD   83 (208)
T cd04166           4 TCGSVDDGKSTLIGRLLYDSKSIFEDQLAALESKSCGTGGEPLDLALLVDGLQAEREQGITIDVAYRYFSTPKRKFIIAD   83 (208)
T ss_pred             EEECCCCCHHHHHHHHHHHcCCCCHHHHHHHHHHHHhcCCCCcceeeeccCChhhhcCCcCeecceeEEecCCceEEEEE
Confidence            58999999999999998643221100                             0023444444445555667899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----CHHHHHHH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV----PTEDAKEF  127 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~----~~~~~~~~  127 (206)
                      |||++.|.......+..+|++|+|+|++++..-.. ......+...  ...++++++||+|+......    ...++..+
T Consensus        84 TpG~~~~~~~~~~~~~~ad~~llVvD~~~~~~~~~-~~~~~~~~~~--~~~~iIvviNK~D~~~~~~~~~~~i~~~~~~~  160 (208)
T cd04166          84 TPGHEQYTRNMVTGASTADLAILLVDARKGVLEQT-RRHSYILSLL--GIRHVVVAVNKMDLVDYSEEVFEEIVADYLAF  160 (208)
T ss_pred             CCcHHHHHHHHHHhhhhCCEEEEEEECCCCccHhH-HHHHHHHHHc--CCCcEEEEEEchhcccCCHHHHHHHHHHHHHH
Confidence            99998887666777899999999999987532111 1111222221  12457889999998642111    12334455


Q ss_pred             HHHcCC---eEEEeccCCCCCHHHH
Q 040835          128 AEKEGL---CFMETSALESTNVELA  149 (206)
Q Consensus       128 ~~~~~~---~~~~~Sa~~~~~v~~~  149 (206)
                      ....+.   +++.+||+++.|+.+.
T Consensus       161 ~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         161 AAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             HHHcCCCCceEEEEeCCCCCCCccC
Confidence            555653   5899999999998753

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.

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=99.79  E-value=3.2e-18  Score=121.25  Aligned_cols=147  Identities=18%  Similarity=0.217  Sum_probs=95.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch----------hhhhhhHhHhc---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----------RYRAVTSAYYR---   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~~---   67 (206)
                      ++|.+|+|||||++.|.+........++.+.+........+.   .+.+|||||..          .+......++.   
T Consensus         4 l~G~~g~GKTtL~~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~~~D~~g~~~~~~~~~~~~~~~~~~~~~~~~~~   80 (170)
T cd01876           4 FAGRSNVGKSSLINALTNRKKLARTSKTPGKTQLINFFNVND---KFRLVDLPGYGYAKVSKEVKEKWGKLIEEYLENRE   80 (170)
T ss_pred             EEcCCCCCHHHHHHHHhcCCceeeecCCCCcceeEEEEEccC---eEEEecCCCccccccCHHHHHHHHHHHHHHHHhCh
Confidence            589999999999999996655555555555555443333332   78999999942          23444444554   


Q ss_pred             CCcEEEEEeeCCChhhH--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHH--HcCCeEEEeccC
Q 040835           68 GAVGAMLVYDITKRQSF--DNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAE--KEGLCFMETSAL  141 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~--~~~~~~~~~Sa~  141 (206)
                      ..+++++++|..+..+.  ..+..|+..      .+.|+++++||+|+......  .........+  ....+++++|++
T Consensus        81 ~~~~~~~v~d~~~~~~~~~~~~~~~l~~------~~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~  154 (170)
T cd01876          81 NLKGVVLLIDSRHGPTEIDLEMLDWLEE------LGIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSL  154 (170)
T ss_pred             hhhEEEEEEEcCcCCCHhHHHHHHHHHH------cCCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecC
Confidence            45788899998765321  223334332      24899999999998532211  1122222222  234579999999


Q ss_pred             CCCCHHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLTE  156 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~  156 (206)
                      ++.++.++++++.+.
T Consensus       155 ~~~~~~~l~~~l~~~  169 (170)
T cd01876         155 KGQGIDELRALIEKW  169 (170)
T ss_pred             CCCCHHHHHHHHHHh
Confidence            999999999998765

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.

>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=99.79  E-value=1.4e-17  Score=124.07  Aligned_cols=148  Identities=24%  Similarity=0.199  Sum_probs=97.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------hhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------AVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i   73 (206)
                      ++|++|+|||||+++|.+........+..+.+.....+.+  .+..+++||+||.....       .....+++++|+++
T Consensus         5 lvG~~~~GKStLl~~Ltg~~~~v~~~~~tT~~~~~g~~~~--~~~~i~l~DtpG~~~~~~~~~~~~~~~l~~~~~ad~il   82 (233)
T cd01896           5 LVGFPSVGKSTLLSKLTNTKSEVAAYEFTTLTCVPGVLEY--KGAKIQLLDLPGIIEGAADGKGRGRQVIAVARTADLIL   82 (233)
T ss_pred             EECCCCCCHHHHHHHHHCCCccccCCCCccccceEEEEEE--CCeEEEEEECCCcccccccchhHHHHHHHhhccCCEEE
Confidence            5899999999999999987643322222122222333333  34678999999974322       23345789999999


Q ss_pred             EEeeCCChh-hHHHHHHHHHHH-----------------------------------------Hhc--------------
Q 040835           74 LVYDITKRQ-SFDNVARWLEEL-----------------------------------------RGH--------------   97 (206)
Q Consensus        74 ~v~d~~~~~-s~~~~~~~~~~~-----------------------------------------~~~--------------   97 (206)
                      +|+|+++++ ....+...+..+                                         .++              
T Consensus        83 ~V~D~t~~~~~~~~~~~~l~~~gi~l~~~~~~v~~~~~~~ggi~~~~~~~~~~~~~~~v~~~l~~~~i~~~~v~~~~~~~  162 (233)
T cd01896          83 MVLDATKPEGHREILERELEGVGIRLNKRPPNITIKKKKKGGINITSTVPLTKLDEKTIKAILREYKIHNADVLIREDIT  162 (233)
T ss_pred             EEecCCcchhHHHHHHHHHHHcCceecCCCCeEEEEEEecCCEEEeccCCCCCCCHHHHHHHHHHhCeeeEEEEEccCCC
Confidence            999998765 333332222111                                         000              


Q ss_pred             --------C--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           98 --------A--DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        98 --------~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                              .  ..-+|+++|+||+|+.     ..++...++..  ..++++||+++.|++++|+.+.+.+
T Consensus       163 ~~~~~~~~~~~~~y~p~iiV~NK~Dl~-----~~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         163 VDDLIDVIEGNRVYIPCLYVYNKIDLI-----SIEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             HHHHHHHHhCCceEeeEEEEEECccCC-----CHHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence                    0  0236899999999985     34455555443  4689999999999999999888754

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.

>KOG4423 consensus GTP-binding protein-like, RAS superfamily [Signal transduction mechanisms]

Probab=99.78  E-value=1.1e-20  Score=130.53  Aligned_cols=163  Identities=34%  Similarity=0.576  Sum_probs=137.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|..|+|||+++.+++...++..+..+++..+..+....+. .-+.+++||..|+++|..+.+.|++.+.+.++|||++
T Consensus        30 Vig~~~vgkts~i~ryv~~nfs~~yRAtIgvdfalkVl~wdd~t~vRlqLwdIagQerfg~mtrVyykea~~~~iVfdvt  109 (229)
T KOG4423|consen   30 VIGDLGVGKTSSIKRYVHQNFSYHYRATIGVDFALKVLQWDDKTIVRLQLWDIAGQERFGNMTRVYYKEAHGAFIVFDVT  109 (229)
T ss_pred             eeeeccccchhHHHHHHHHHHHHHHHHHHhHHHHHHHhccChHHHHHHHHhcchhhhhhcceEEEEecCCcceEEEEEcc
Confidence            689999999999999999999999999988887766554433 3467899999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCC-HHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETLRAVP-TEDAKEFAEKEGL-CFMETSALESTNVELAFLTV  153 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~~~~~-~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      +.-+|+....|.+.+....    +..+|+++.+||||........ ...+..+.+++|. ..+++|++.+.+++|+-..+
T Consensus       110 ~s~tfe~~skwkqdldsk~qLpng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~l  189 (229)
T KOG4423|consen  110 RSLTFEPVSKWKQDLDSKLQLPNGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQREL  189 (229)
T ss_pred             ccccccHHHHHHHhccCcccCCCCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHH
Confidence            9999999999998876433    3567899999999987533222 4667788888886 49999999999999999999


Q ss_pred             HHHHHHHhhh
Q 040835          154 LTEIYRIVSK  163 (206)
Q Consensus       154 ~~~i~~~~~~  163 (206)
                      +++++..-.+
T Consensus       190 Ve~~lvnd~q  199 (229)
T KOG4423|consen  190 VEKILVNDEQ  199 (229)
T ss_pred             HHHHHhhccC
Confidence            9998876433

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=99.78  E-value=3.2e-18  Score=142.27  Aligned_cols=154  Identities=16%  Similarity=0.208  Sum_probs=111.2

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCC------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDS------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      |+|+.++|||||+++|+..  .+....            ....+.++......+.+.+..+.+|||||+..|......++
T Consensus         6 IiGHvd~GKTTLv~~LL~~sg~~~~~~~v~~~~~D~~~~ErerGiTI~~~~~~v~~~~~kinlIDTPGh~DF~~ev~~~l   85 (594)
T TIGR01394         6 IIAHVDHGKTTLVDALLKQSGTFRANEAVAERVMDSNDLERERGITILAKNTAIRYNGTKINIVDTPGHADFGGEVERVL   85 (594)
T ss_pred             EEcCCCCCHHHHHHHHHHhcCCCcccccceeecccCchHHHhCCccEEeeeEEEEECCEEEEEEECCCHHHHHHHHHHHH
Confidence            5899999999999999863  221111            11235666666666777788999999999999998899999


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHH-------HcCCeEEEe
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV-PTEDAKEFAE-------KEGLCFMET  138 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~-------~~~~~~~~~  138 (206)
                      +.+|++++|+|+.+.. ......|+..+..   .++|+++++||+|+...+.. ...++..+..       ...++++.+
T Consensus        86 ~~aD~alLVVDa~~G~-~~qT~~~l~~a~~---~~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~  161 (594)
T TIGR01394        86 GMVDGVLLLVDASEGP-MPQTRFVLKKALE---LGLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYA  161 (594)
T ss_pred             HhCCEEEEEEeCCCCC-cHHHHHHHHHHHH---CCCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEec
Confidence            9999999999998743 3344555555544   46899999999998542211 1233444442       235689999


Q ss_pred             ccCCCC----------CHHHHHHHHHHHHH
Q 040835          139 SALEST----------NVELAFLTVLTEIY  158 (206)
Q Consensus       139 Sa~~~~----------~v~~~~~~l~~~i~  158 (206)
                      ||+++.          |+..+|+.+++.+.
T Consensus       162 SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       162 SGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             hhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            999996          78888888887654

This bacterial (and Arabidopsis) protein, termed TypA or BipA, a GTP-binding protein, is phosphorylated on a tyrosine residue under some cellular conditions. Mutants show altered regulation of some pathways, but the precise function is unknown.

>PRK10218 GTP-binding protein; Provisional

Probab=99.78  E-value=9.2e-18  Score=139.46  Aligned_cols=154  Identities=15%  Similarity=0.180  Sum_probs=109.7

Q ss_pred             CccCCCCCHHHHHHHHhc--CCCCCCC------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFAR--DEFSLDS------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~--~~~~~~~------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      |+|+.++|||||+++|+.  +.+....            ....+.++......+.+.+..+.+|||||+..|...+..++
T Consensus        10 IiGh~d~GKTTLv~~Ll~~~g~~~~~~~~~~~v~D~~~~E~erGiTi~~~~~~i~~~~~~inliDTPG~~df~~~v~~~l   89 (607)
T PRK10218         10 IIAHVDHGKTTLVDKLLQQSGTFDSRAETQERVMDSNDLEKERGITILAKNTAIKWNDYRINIVDTPGHADFGGEVERVM   89 (607)
T ss_pred             EECCCCCcHHHHHHHHHHhcCCcccccccceeeeccccccccCceEEEEEEEEEecCCEEEEEEECCCcchhHHHHHHHH
Confidence            589999999999999997  3332211            23456777777777778889999999999999999999999


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHHH-------cCCeEEEe
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEFAEK-------EGLCFMET  138 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~-------~~~~~~~~  138 (206)
                      +.+|++|+|+|+++.... ..+.++..+..   .++|.++++||+|+...+. ...+++..+...       ..++++.+
T Consensus        90 ~~aDg~ILVVDa~~G~~~-qt~~~l~~a~~---~gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~  165 (607)
T PRK10218         90 SMVDSVLLVVDAFDGPMP-QTRFVTKKAFA---YGLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYA  165 (607)
T ss_pred             HhCCEEEEEEecccCccH-HHHHHHHHHHH---cCCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEe
Confidence            999999999999875322 22233333332   4688999999999853221 112334444322       34679999


Q ss_pred             ccCCCC----------CHHHHHHHHHHHHH
Q 040835          139 SALEST----------NVELAFLTVLTEIY  158 (206)
Q Consensus       139 Sa~~~~----------~v~~~~~~l~~~i~  158 (206)
                      ||.+|.          ++..+++.+++.+.
T Consensus       166 SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        166 SALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             EhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            999998          47777776666553

>KOG0074 consensus GTP-binding ADP-ribosylation factor-like protein ARL3 [General function prediction only]

Probab=99.78  E-value=1.6e-18  Score=114.71  Aligned_cols=146  Identities=25%  Similarity=0.323  Sum_probs=109.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..++|||||+..|...+.. ...||.|++..  .+..+ ..+++.+||.+|+...+..|..|+.+.|++|||+|.+|
T Consensus        22 llGldnAGKTT~LKqL~sED~~-hltpT~GFn~k--~v~~~-g~f~LnvwDiGGqr~IRpyWsNYyenvd~lIyVIDS~D   97 (185)
T KOG0074|consen   22 LLGLDNAGKTTFLKQLKSEDPR-HLTPTNGFNTK--KVEYD-GTFHLNVWDIGGQRGIRPYWSNYYENVDGLIYVIDSTD   97 (185)
T ss_pred             EEecCCCcchhHHHHHccCChh-hccccCCcceE--EEeec-CcEEEEEEecCCccccchhhhhhhhccceEEEEEeCCc
Confidence            3688999999999999887764 34566565544  33333 45889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--------CCeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--------GLCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--------~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ...|+.+..-+.++.... -..+|+++.+||.|+....     ..+..+.+.        -..+-++|+.+++|+.+-.+
T Consensus        98 ~krfeE~~~el~ELleeeKl~~vpvlIfankQdlltaa-----~~eeia~klnl~~lrdRswhIq~csals~eg~~dg~~  172 (185)
T KOG0074|consen   98 EKRFEEISEELVELLEEEKLAEVPVLIFANKQDLLTAA-----KVEEIALKLNLAGLRDRSWHIQECSALSLEGSTDGSD  172 (185)
T ss_pred             hHhHHHHHHHHHHHhhhhhhhccceeehhhhhHHHhhc-----chHHHHHhcchhhhhhceEEeeeCccccccCccCcch
Confidence            888888766555554333 3579999999999985311     122222222        24588999999999988877


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      |+..
T Consensus       173 wv~s  176 (185)
T KOG0074|consen  173 WVQS  176 (185)
T ss_pred             hhhc
Confidence            7753

>PRK04004 translation initiation factor IF-2; Validated

Probab=99.78  E-value=1.9e-17  Score=137.67  Aligned_cols=150  Identities=17%  Similarity=0.172  Sum_probs=96.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc----ccceeeEEEEEEE--CCeE-----E-----EEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA----TIGVEFQTKTLVI--HHKN-----V-----KAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~----~~~~~~~~~~~~~--~~~~-----~-----~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|++++|||||+++|.+..+......    +.+.+........  .+..     .     .+.+|||||++.|..++..
T Consensus        11 i~Gh~~~GKTSLl~~l~~~~v~~~~~g~itq~ig~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~iDTPG~e~f~~~~~~   90 (586)
T PRK04004         11 VLGHVDHGKTTLLDKIRGTAVAAKEAGGITQHIGATEVPIDVIEKIAGPLKKPLPIKLKIPGLLFIDTPGHEAFTNLRKR   90 (586)
T ss_pred             EECCCCCCHHHHHHHHhCcccccCCCCceEEeeceeeccccccccccceeccccccccccCCEEEEECCChHHHHHHHHH
Confidence            589999999999999987655333222    2222111110000  0111     1     2689999999999998888


Q ss_pred             HhcCCcEEEEEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----CH--------H-------
Q 040835           65 YYRGAVGAMLVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV----PT--------E-------  122 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~----~~--------~-------  122 (206)
                      .+..+|++|+|+|+++   +.++..+..    +..   .++|+++++||+|+......    ..        .       
T Consensus        91 ~~~~aD~~IlVvDa~~g~~~qt~e~i~~----~~~---~~vpiIvviNK~D~~~~~~~~~~~~~~e~~~~~~~~v~~~f~  163 (586)
T PRK04004         91 GGALADIAILVVDINEGFQPQTIEAINI----LKR---RKTPFVVAANKIDRIPGWKSTEDAPFLESIEKQSQRVQQELE  163 (586)
T ss_pred             hHhhCCEEEEEEECCCCCCHhHHHHHHH----HHH---cCCCEEEEEECcCCchhhhhhcCchHHHHHhhhhHHHHHHHH
Confidence            8999999999999987   444444332    222   46899999999998421100    00        0       


Q ss_pred             ----HHHHHHHHc---------------CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          123 ----DAKEFAEKE---------------GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       123 ----~~~~~~~~~---------------~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                          ++.......               .++++++||.+++|+++++..+....
T Consensus       164 ~~l~ev~~~L~~~g~~~e~~~~~~~~~~~v~ivpiSA~tGeGi~dLl~~i~~~~  217 (586)
T PRK04004        164 EKLYELIGQLSELGFSADRFDRVKDFTKTVAIVPVSAKTGEGIPDLLMVLAGLA  217 (586)
T ss_pred             HHHHHHHHHHHhcCCChhhhhhhhccCCCceEeeccCCCCCChHHHHHHHHHHH
Confidence                011111111               25789999999999999998876544

>cd04168 TetM_like Tet(M)-like subfamily

Probab=99.78  E-value=1.6e-17  Score=124.09  Aligned_cols=110  Identities=18%  Similarity=0.207  Sum_probs=79.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC-------------C---ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD-------------S---KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~-------------~---~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|..|+|||||+++|+...-...             +   ....+.++......+.+.+..+.+|||||+..|...+..
T Consensus         4 i~G~~~~GKTtL~~~ll~~~g~i~~~g~v~~~~~~~D~~~~e~~rg~ti~~~~~~~~~~~~~i~liDTPG~~~f~~~~~~   83 (237)
T cd04168           4 ILAHVDAGKTTLTESLLYTSGAIRKLGSVDKGTTRTDTMELERQRGITIFSAVASFQWEDTKVNLIDTPGHMDFIAEVER   83 (237)
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCccccccccCCcccCCCchhHhhCCCceeeeeEEEEECCEEEEEEeCCCccchHHHHHH
Confidence            589999999999999986421100             0   111233444445555667788999999999999888899


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      +++.+|++++|+|.++.... ....++..+..   .++|+++++||+|+.
T Consensus        84 ~l~~aD~~IlVvd~~~g~~~-~~~~~~~~~~~---~~~P~iivvNK~D~~  129 (237)
T cd04168          84 SLSVLDGAILVISAVEGVQA-QTRILWRLLRK---LNIPTIIFVNKIDRA  129 (237)
T ss_pred             HHHHhCeEEEEEeCCCCCCH-HHHHHHHHHHH---cCCCEEEEEECcccc
Confidence            99999999999999876432 23344444433   368999999999985

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=99.77  E-value=2.1e-18  Score=139.46  Aligned_cols=148  Identities=20%  Similarity=0.167  Sum_probs=97.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------------------------ccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------------------------KATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|++++|||||+++|+...-....                             ....|++.......+......+.+||
T Consensus        11 iiGh~d~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~Er~rG~T~d~~~~~~~~~~~~i~liD   90 (425)
T PRK12317         11 VIGHVDHGKSTLVGRLLYETGAIDEHIIEELREEAKEKGKESFKFAWVMDRLKEERERGVTIDLAHKKFETDKYYFTIVD   90 (425)
T ss_pred             EECCCCCChHHHHHHHHHHcCCcCHHHHHHHHHHHHhcCCcccchhhhhccCHhHhhcCccceeeeEEEecCCeEEEEEE
Confidence            5899999999999999853221100                             01235555555566666778899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----CCHHHHHH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRA----VPTEDAKE  126 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----~~~~~~~~  126 (206)
                      |||++.|.......+..+|++|+|+|+++...+... ..++..+....  ..|+++++||+|+.....    ...+++..
T Consensus        91 tpG~~~~~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~~~i~~  168 (425)
T PRK12317         91 CPGHRDFVKNMITGASQADAAVLVVAADDAGGVMPQTREHVFLARTLG--INQLIVAINKMDAVNYDEKRYEEVKEEVSK  168 (425)
T ss_pred             CCCcccchhhHhhchhcCCEEEEEEEcccCCCCCcchHHHHHHHHHcC--CCeEEEEEEccccccccHHHHHHHHHHHHH
Confidence            999988866555667899999999999873122111 22222222221  246999999999864111    11234555


Q ss_pred             HHHHcC-----CeEEEeccCCCCCHHHHH
Q 040835          127 FAEKEG-----LCFMETSALESTNVELAF  150 (206)
Q Consensus       127 ~~~~~~-----~~~~~~Sa~~~~~v~~~~  150 (206)
                      +....+     ++++++||++|+|+++..
T Consensus       169 ~l~~~g~~~~~~~ii~iSA~~g~gi~~~~  197 (425)
T PRK12317        169 LLKMVGYKPDDIPFIPVSAFEGDNVVKKS  197 (425)
T ss_pred             HHHhhCCCcCcceEEEeecccCCCccccc
Confidence            555555     469999999999998754

>COG2229 Predicted GTPase [General function prediction only]

Probab=99.77  E-value=2.8e-17  Score=113.95  Aligned_cols=148  Identities=24%  Similarity=0.419  Sum_probs=110.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--------Cc----cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--------SK----ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--------~~----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   68 (206)
                      |.|+.++||||+++++........        +.    .|+.+++..  ..++ .+..++++|||||++|..+|..++++
T Consensus        15 v~G~~~agKtTfv~~~s~k~~v~t~~~~~~~s~k~kr~tTva~D~g~--~~~~-~~~~v~LfgtPGq~RF~fm~~~l~~g   91 (187)
T COG2229          15 VIGPVGAGKTTFVRALSDKPLVITEADASSVSGKGKRPTTVAMDFGS--IELD-EDTGVHLFGTPGQERFKFMWEILSRG   91 (187)
T ss_pred             EEcccccchhhHHHHhhccccceeeccccccccccccceeEeecccc--eEEc-CcceEEEecCCCcHHHHHHHHHHhCC
Confidence            579999999999999998764111        11    122222222  2222 23678999999999999999999999


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCH
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNV  146 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v  146 (206)
                      ++++|+++|.+.+..+ +....+..+....  .+|++|+.||.|+..  ..+.++++++....  .+++++.++.++++.
T Consensus        92 a~gaivlVDss~~~~~-~a~~ii~f~~~~~--~ip~vVa~NK~DL~~--a~ppe~i~e~l~~~~~~~~vi~~~a~e~~~~  166 (187)
T COG2229          92 AVGAIVLVDSSRPITF-HAEEIIDFLTSRN--PIPVVVAINKQDLFD--ALPPEKIREALKLELLSVPVIEIDATEGEGA  166 (187)
T ss_pred             cceEEEEEecCCCcch-HHHHHHHHHhhcc--CCCEEEEeeccccCC--CCCHHHHHHHHHhccCCCceeeeecccchhH
Confidence            9999999999998887 4555555554432  299999999999974  44666776666655  789999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          147 ELAFLTVLTE  156 (206)
Q Consensus       147 ~~~~~~l~~~  156 (206)
                      .+.+..+...
T Consensus       167 ~~~L~~ll~~  176 (187)
T COG2229         167 RDQLDVLLLK  176 (187)
T ss_pred             HHHHHHHHhh
Confidence            9888777654

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=99.77  E-value=3.5e-18  Score=138.16  Aligned_cols=148  Identities=17%  Similarity=0.139  Sum_probs=99.3

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCC---------------------------CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLD---------------------------SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~---------------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|+.++|||||+++|+..  .+...                           .....+.+.......+...+..+.+||
T Consensus        12 i~Ghvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~rg~Tid~~~~~~~~~~~~i~iiD   91 (426)
T TIGR00483        12 FIGHVDHGKSTTVGHLLYKCGAIDEQTIEKFEKEAQEKGKASFEFAWVMDRLKEERERGVTIDVAHWKFETDKYEVTIVD   91 (426)
T ss_pred             EEeccCCcHHHHHHHHHHHhCCcCHHHHHHHHhHHHhcCCcccchhhhhccCHHHhhcCceEEEEEEEEccCCeEEEEEE
Confidence            5899999999999999862  11100                           001124455555555666678899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----CCHHHHH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDN--VARWLEELRGHADKNIIIMLVGNKSDLETLRA----VPTEDAK  125 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----~~~~~~~  125 (206)
                      |||++.|.......+..+|++|+|+|++++++...  ...++. +.... ...|+++++||+|+.....    ....++.
T Consensus        92 tpGh~~f~~~~~~~~~~aD~~ilVvDa~~~~~~~~~~t~~~~~-~~~~~-~~~~iIVviNK~Dl~~~~~~~~~~~~~ei~  169 (426)
T TIGR00483        92 CPGHRDFIKNMITGASQADAAVLVVAVGDGEFEVQPQTREHAF-LARTL-GINQLIVAINKMDSVNYDEEEFEAIKKEVS  169 (426)
T ss_pred             CCCHHHHHHHHHhhhhhCCEEEEEEECCCCCcccCCchHHHHH-HHHHc-CCCeEEEEEEChhccCccHHHHHHHHHHHH
Confidence            99999887766667889999999999998743211  111111 22222 1357999999999853111    1134555


Q ss_pred             HHHHHcC-----CeEEEeccCCCCCHHHHH
Q 040835          126 EFAEKEG-----LCFMETSALESTNVELAF  150 (206)
Q Consensus       126 ~~~~~~~-----~~~~~~Sa~~~~~v~~~~  150 (206)
                      .+++..+     ++++++||+++.|+.+.+
T Consensus       170 ~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~  199 (426)
T TIGR00483       170 NLIKKVGYNPDTVPFIPISAWNGDNVIKKS  199 (426)
T ss_pred             HHHHHcCCCcccceEEEeeccccccccccc
Confidence            6666655     579999999999998754

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=99.77  E-value=2.1e-17  Score=137.99  Aligned_cols=152  Identities=16%  Similarity=0.115  Sum_probs=100.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC---CCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDE---FSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   76 (206)
                      ++|..++|||||+++|++..   +..+...  ++++......+. ..+..+.+|||||++.|.......+..+|++++|+
T Consensus         5 ~~GhvdhGKTtLi~aLtg~~~dr~~eE~~r--GiTI~l~~~~~~~~~g~~i~~IDtPGhe~fi~~m~~g~~~~D~~lLVV   82 (614)
T PRK10512          5 TAGHVDHGKTTLLQAITGVNADRLPEEKKR--GMTIDLGYAYWPQPDGRVLGFIDVPGHEKFLSNMLAGVGGIDHALLVV   82 (614)
T ss_pred             EECCCCCCHHHHHHHHhCCCCccchhcccC--CceEEeeeEEEecCCCcEEEEEECCCHHHHHHHHHHHhhcCCEEEEEE
Confidence            47999999999999999743   2222222  333333222221 12345899999999999877777889999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC--HHHHHHHHHHcC---CeEEEeccCCCCCHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVP--TEDAKEFAEKEG---LCFMETSALESTNVELAF  150 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~---~~~~~~Sa~~~~~v~~~~  150 (206)
                      |+++... ....+.+..+..   .++| ++||+||+|+.+.....  .+++..+....+   .+++++||++++|+++++
T Consensus        83 da~eg~~-~qT~ehl~il~~---lgi~~iIVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~  158 (614)
T PRK10512         83 ACDDGVM-AQTREHLAILQL---TGNPMLTVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALR  158 (614)
T ss_pred             ECCCCCc-HHHHHHHHHHHH---cCCCeEEEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHH
Confidence            9987421 111222222222   2355 57999999986422211  234455555444   689999999999999999


Q ss_pred             HHHHHHHH
Q 040835          151 LTVLTEIY  158 (206)
Q Consensus       151 ~~l~~~i~  158 (206)
                      +.|.+...
T Consensus       159 ~~L~~~~~  166 (614)
T PRK10512        159 EHLLQLPE  166 (614)
T ss_pred             HHHHHhhc
Confidence            99876543

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=99.76  E-value=1.6e-17  Score=112.63  Aligned_cols=132  Identities=25%  Similarity=0.260  Sum_probs=93.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc----hhhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----ERYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~~i~v~   76 (206)
                      |+|+.|+|||||+++|.+....  +..|....+            .=.++||||-    ..|.........+||.++++.
T Consensus         6 liG~~g~GKTTL~q~L~~~~~~--~~KTq~i~~------------~~~~IDTPGEyiE~~~~y~aLi~ta~dad~V~ll~   71 (143)
T PF10662_consen    6 LIGPSGSGKTTLAQALNGEEIR--YKKTQAIEY------------YDNTIDTPGEYIENPRFYHALIVTAQDADVVLLLQ   71 (143)
T ss_pred             EECCCCCCHHHHHHHHcCCCCC--cCccceeEe------------cccEEECChhheeCHHHHHHHHHHHhhCCEEEEEe
Confidence            5899999999999999986652  222211111            1145899993    344555556667999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHHHHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVL  154 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      |++++.+.-.     ..+...  .+.|++-|+||+|+.. .....+..+++.+..|+. +|++|+.+++|++++.++|-
T Consensus        72 dat~~~~~~p-----P~fa~~--f~~pvIGVITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L~  142 (143)
T PF10662_consen   72 DATEPRSVFP-----PGFASM--FNKPVIGVITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYLE  142 (143)
T ss_pred             cCCCCCccCC-----chhhcc--cCCCEEEEEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHHh
Confidence            9998643210     011111  3589999999999974 233566777888888874 89999999999999998763

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

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=99.76  E-value=9e-18  Score=134.75  Aligned_cols=112  Identities=22%  Similarity=0.177  Sum_probs=78.5

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PT  121 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~  121 (206)
                      ...+.+||+||++.|...+......+|++++|+|++++.......+.+..+....  ..|+++++||+|+......  ..
T Consensus        79 ~~~i~liDtPGh~~f~~~~~~g~~~aD~aIlVVDa~~g~~~~qt~e~l~~l~~~g--i~~iIVvvNK~Dl~~~~~~~~~~  156 (406)
T TIGR03680        79 LRRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTKEHLMALEIIG--IKNIVIVQNKIDLVSKEKALENY  156 (406)
T ss_pred             ccEEEEEECCCHHHHHHHHHHHHHHCCEEEEEEECCCCccccchHHHHHHHHHcC--CCeEEEEEEccccCCHHHHHHHH
Confidence            3678999999999998888888889999999999996431112222222232221  2568999999998642211  12


Q ss_pred             HHHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          122 EDAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       122 ~~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +++..+....   +++++++||++++|+++++++|...+
T Consensus       157 ~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       157 EEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             HHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            3344444433   57899999999999999999988654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>cd01884 EF_Tu EF-Tu subfamily

Probab=99.76  E-value=3.1e-17  Score=118.94  Aligned_cols=143  Identities=20%  Similarity=0.176  Sum_probs=95.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC------CC--------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFS------LD--------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~------~~--------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|+.....      ..        .....+.+.......+...+..+.++||||+..|.......+
T Consensus         7 iiGh~~~GKTTL~~~Ll~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~~~~~~~~~~   86 (195)
T cd01884           7 TIGHVDHGKTTLTAAITKVLAKKGGAKFKKYDEIDKAPEEKARGITINTAHVEYETANRHYAHVDCPGHADYIKNMITGA   86 (195)
T ss_pred             EECCCCCCHHHHHHHHHHHHHhcccccccccccccCChhhhhcCccEEeeeeEecCCCeEEEEEECcCHHHHHHHHHHHh
Confidence            5899999999999999864110      00        011234555555556666677889999999998877777888


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++++|+|+.....- .....+..+..   .++| +++++||+|+......   ...++..+....+     ++++.
T Consensus        87 ~~~D~~ilVvda~~g~~~-~~~~~~~~~~~---~~~~~iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iip  162 (195)
T cd01884          87 AQMDGAILVVSATDGPMP-QTREHLLLARQ---VGVPYIVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVR  162 (195)
T ss_pred             hhCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCcEEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEE
Confidence            999999999999864321 22223333333   3466 7789999998532221   1234555555443     67999


Q ss_pred             eccCCCCCHH
Q 040835          138 TSALESTNVE  147 (206)
Q Consensus       138 ~Sa~~~~~v~  147 (206)
                      +||++|.|+.
T Consensus       163 iSa~~g~n~~  172 (195)
T cd01884         163 GSALKALEGD  172 (195)
T ss_pred             eeCccccCCC
Confidence            9999998853

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.

>COG1160 Predicted GTPases [General function prediction only]

Probab=99.76  E-value=2.5e-17  Score=129.33  Aligned_cols=155  Identities=24%  Similarity=0.208  Sum_probs=110.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----------hhhh-hHhHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----------YRAV-TSAYYRGA   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----------~~~~-~~~~~~~~   69 (206)
                      |+|.||+|||||+|+|++......+... |++.......+......+.++||+|...          |... ....+..+
T Consensus       183 iiGrPNvGKSsLiN~ilgeeR~Iv~~~a-GTTRD~I~~~~e~~~~~~~liDTAGiRrk~ki~e~~E~~Sv~rt~~aI~~a  261 (444)
T COG1160         183 IIGRPNVGKSSLINAILGEERVIVSDIA-GTTRDSIDIEFERDGRKYVLIDTAGIRRKGKITESVEKYSVARTLKAIERA  261 (444)
T ss_pred             EEeCCCCCchHHHHHhccCceEEecCCC-CccccceeeeEEECCeEEEEEECCCCCcccccccceEEEeehhhHhHHhhc
Confidence            5899999999999999998886665444 7777777777777778899999999543          2111 23457789


Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCC
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALEST  144 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~  144 (206)
                      |.+++|+|++.+-+-.+. +....+.+   .+.++++++||.|+...+....++.+.....     ..++++.+||+++.
T Consensus       262 ~vvllviDa~~~~~~qD~-~ia~~i~~---~g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~  337 (444)
T COG1160         262 DVVLLVIDATEGISEQDL-RIAGLIEE---AGRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQ  337 (444)
T ss_pred             CEEEEEEECCCCchHHHH-HHHHHHHH---cCCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCC
Confidence            999999999987543332 23333333   4689999999999865433333333222222     24689999999999


Q ss_pred             CHHHHHHHHHHHHHHH
Q 040835          145 NVELAFLTVLTEIYRI  160 (206)
Q Consensus       145 ~v~~~~~~l~~~i~~~  160 (206)
                      ++.++|+.+.......
T Consensus       338 ~i~~l~~~i~~~~~~~  353 (444)
T COG1160         338 GLDKLFEAIKEIYECA  353 (444)
T ss_pred             ChHHHHHHHHHHHHHh
Confidence            9999999887654433

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=99.74  E-value=1e-17  Score=124.01  Aligned_cols=145  Identities=20%  Similarity=0.176  Sum_probs=92.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC---------------------------C--CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL---------------------------D--SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~---------------------------~--~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|+.++|||||+.+|+...-..                           .  .....+++.......+......+.+||
T Consensus         4 i~Gh~~~GKttL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~d~~~~~~~~~~~~i~liD   83 (219)
T cd01883           4 VIGHVDAGKSTTTGHLLYLLGGVDKRTIEKYEKEAKEMGKGSFKYAWVLDTLKEERERGVTIDVGLAKFETEKYRFTILD   83 (219)
T ss_pred             EecCCCCChHHHHHHHHHHhcCcCHHHHHHHHHHHHhcCCcchhHHhhhcCCHHHhhCccCeecceEEEeeCCeEEEEEE
Confidence            58999999999999997421100                           0  011124444444555556678899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhh---H---HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC--CCCC---
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQS---F---DNVARWLEELRGHADKNIIIMLVGNKSDLETL--RAVP---  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~--~~~~---  120 (206)
                      |||+..|...+...+..+|++|+|+|+++...   +   .............  ...|+++++||+|+...  ....   
T Consensus        84 tpG~~~~~~~~~~~~~~~d~~i~VvDa~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~iiivvNK~Dl~~~~~~~~~~~~  161 (219)
T cd01883          84 APGHRDFVPNMITGASQADVAVLVVDARKGEFEAGFEKGGQTREHALLARTL--GVKQLIVAVNKMDDVTVNWSEERYDE  161 (219)
T ss_pred             CCChHHHHHHHHHHhhhCCEEEEEEECCCCccccccccccchHHHHHHHHHc--CCCeEEEEEEccccccccccHHHHHH
Confidence            99998887777777889999999999987421   0   1112221222221  23689999999998631  1111   


Q ss_pred             -HHHHHHHHHHcC-----CeEEEeccCCCCCHH
Q 040835          121 -TEDAKEFAEKEG-----LCFMETSALESTNVE  147 (206)
Q Consensus       121 -~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~  147 (206)
                       .+++..+....+     ++++.+||++|+|++
T Consensus       162 i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         162 IKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             HHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence             122333344443     569999999999987

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

>cd04167 Snu114p Snu114p subfamily

Probab=99.74  E-value=2.6e-17  Score=121.41  Aligned_cols=110  Identities=23%  Similarity=0.301  Sum_probs=77.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------------ccccceeeEEEEEEE-----CCeEEEEEEEeCCCchhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------------KATIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERY   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------------~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~   58 (206)
                      |+|+.|+|||||+++|+........                 ....+.++......+     ++..+.+.+|||||+..|
T Consensus         5 iiG~~~~GKTtL~~~l~~~~~~~~~~~~~~~~~~~~~d~~~~e~~~giti~~~~~~~~~~~~~~~~~~i~iiDtpG~~~f   84 (213)
T cd04167           5 IAGHLHHGKTSLLDMLIEQTHDLTPSGKDGWKPLRYTDIRKDEQERGISIKSSPISLVLPDSKGKSYLFNIIDTPGHVNF   84 (213)
T ss_pred             EEcCCCCCHHHHHHHHHHhcCCCcccccccCCceeECCCCHHHHHcCccccccceeEEEEcCCCCEEEEEEEECCCCcch
Confidence            5899999999999999975443220                 011122322222222     245688999999999999


Q ss_pred             hhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           59 RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        59 ~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ......++..+|++|+|+|+++..+... ..++.....   .+.|+++++||+|+.
T Consensus        85 ~~~~~~~~~~aD~~llVvD~~~~~~~~~-~~~~~~~~~---~~~p~iiviNK~D~~  136 (213)
T cd04167          85 MDEVAAALRLSDGVVLVVDVVEGVTSNT-ERLIRHAIL---EGLPIVLVINKIDRL  136 (213)
T ss_pred             HHHHHHHHHhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECcccC
Confidence            8888889999999999999987655432 333333322   358999999999974

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.

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=99.74  E-value=4.8e-17  Score=133.13  Aligned_cols=148  Identities=19%  Similarity=0.175  Sum_probs=111.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh------hhhhHhHh--cCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY------RAVTSAYY--RGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------~~~~~~~~--~~~d~~   72 (206)
                      ++|+||||||||+|+|++........|  |.|.+.++..+.....++.++|.||....      +...++++  ...|++
T Consensus         8 lvGNPNvGKTtlFN~LTG~~q~VgNwp--GvTVEkkeg~~~~~~~~i~ivDLPG~YSL~~~S~DE~Var~~ll~~~~D~i   85 (653)
T COG0370           8 LVGNPNVGKTTLFNALTGANQKVGNWP--GVTVEKKEGKLKYKGHEIEIVDLPGTYSLTAYSEDEKVARDFLLEGKPDLI   85 (653)
T ss_pred             EecCCCccHHHHHHHHhccCceecCCC--CeeEEEEEEEEEecCceEEEEeCCCcCCCCCCCchHHHHHHHHhcCCCCEE
Confidence            589999999999999999887766666  46777777767666777999999994322      23344444  367999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |-|+|+++-+.-  + .+..++.+   .+.|++++.|++|....+. ..-+.+++.+..|+|+++++|++++|++++...
T Consensus        86 vnVvDAtnLeRn--L-yltlQLlE---~g~p~ilaLNm~D~A~~~G-i~ID~~~L~~~LGvPVv~tvA~~g~G~~~l~~~  158 (653)
T COG0370          86 VNVVDATNLERN--L-YLTLQLLE---LGIPMILALNMIDEAKKRG-IRIDIEKLSKLLGVPVVPTVAKRGEGLEELKRA  158 (653)
T ss_pred             EEEcccchHHHH--H-HHHHHHHH---cCCCeEEEeccHhhHHhcC-CcccHHHHHHHhCCCEEEEEeecCCCHHHHHHH
Confidence            999999986421  1 12222333   4789999999999876333 345678888999999999999999999999998


Q ss_pred             HHHHH
Q 040835          153 VLTEI  157 (206)
Q Consensus       153 l~~~i  157 (206)
                      +++..
T Consensus       159 i~~~~  163 (653)
T COG0370         159 IIELA  163 (653)
T ss_pred             HHHhc
Confidence            87643

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=99.74  E-value=3.7e-17  Score=131.19  Aligned_cols=111  Identities=23%  Similarity=0.188  Sum_probs=74.8

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~  122 (206)
                      ..+.+|||||++.|..........+|++++|+|++++.........+..+...  ...|+++++||+|+......  ..+
T Consensus        85 ~~i~liDtPG~~~f~~~~~~~~~~~D~~llVVDa~~~~~~~~t~~~l~~l~~~--~i~~iiVVlNK~Dl~~~~~~~~~~~  162 (411)
T PRK04000         85 RRVSFVDAPGHETLMATMLSGAALMDGAILVIAANEPCPQPQTKEHLMALDII--GIKNIVIVQNKIDLVSKERALENYE  162 (411)
T ss_pred             cEEEEEECCCHHHHHHHHHHHHhhCCEEEEEEECCCCCCChhHHHHHHHHHHc--CCCcEEEEEEeeccccchhHHHHHH
Confidence            57899999999988766666667789999999999642111111111222222  12468999999998643221  123


Q ss_pred             HHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          123 DAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       123 ~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++..+....   +++++++||++++|++++++.|...+
T Consensus       163 ~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        163 QIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             HHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            344444332   47899999999999999999988765

>COG1084 Predicted GTPase [General function prediction only]

Probab=99.73  E-value=1.6e-16  Score=119.81  Aligned_cols=154  Identities=19%  Similarity=0.173  Sum_probs=103.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc-----hhhhhh----hHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ-----ERYRAV----TSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-----~~~~~~----~~~~~~~~d~   71 (206)
                      |.|.||||||||+++++.........|.+  |.....-.++.....++++||||.     ++.+..    ...+-.-.++
T Consensus       173 VaG~PNVGKSSlv~~lT~AkpEvA~YPFT--TK~i~vGhfe~~~~R~QvIDTPGlLDRPl~ErN~IE~qAi~AL~hl~~~  250 (346)
T COG1084         173 VAGYPNVGKSSLVRKLTTAKPEVAPYPFT--TKGIHVGHFERGYLRIQVIDTPGLLDRPLEERNEIERQAILALRHLAGV  250 (346)
T ss_pred             EecCCCCcHHHHHHHHhcCCCccCCCCcc--ccceeEeeeecCCceEEEecCCcccCCChHHhcHHHHHHHHHHHHhcCe
Confidence            57999999999999999987766655552  333333344556678999999993     112111    2233346788


Q ss_pred             EEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHH
Q 040835           72 AMLVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVEL  148 (206)
Q Consensus        72 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~  148 (206)
                      ++|++|++...  +.+....++..+....  +.|+++|.||+|......+  +++.......+ .....+++..+.+++.
T Consensus       251 IlF~~D~Se~cgy~lE~Q~~L~~eIk~~f--~~p~v~V~nK~D~~~~e~~--~~~~~~~~~~~~~~~~~~~~~~~~~~d~  326 (346)
T COG1084         251 ILFLFDPSETCGYSLEEQISLLEEIKELF--KAPIVVVINKIDIADEEKL--EEIEASVLEEGGEEPLKISATKGCGLDK  326 (346)
T ss_pred             EEEEEcCccccCCCHHHHHHHHHHHHHhc--CCCeEEEEecccccchhHH--HHHHHHHHhhccccccceeeeehhhHHH
Confidence            99999998654  5677777888887765  3899999999998743332  23333333333 3467778888888887


Q ss_pred             HHHHHHHHHHHH
Q 040835          149 AFLTVLTEIYRI  160 (206)
Q Consensus       149 ~~~~l~~~i~~~  160 (206)
                      +-..+.....+.
T Consensus       327 ~~~~v~~~a~~~  338 (346)
T COG1084         327 LREEVRKTALEP  338 (346)
T ss_pred             HHHHHHHHhhch
Confidence            777766664443

>COG2262 HflX GTPases [General function prediction only]

Probab=99.72  E-value=3.9e-16  Score=121.03  Aligned_cols=162  Identities=18%  Similarity=0.163  Sum_probs=114.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch---------hhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE---------RYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~   71 (206)
                      ++|.+|+|||||+|+|++........-..+.+.....+.+.+ +..+.+-||.|.-         .|.+ +......+|+
T Consensus       197 LvGYTNAGKSTL~N~LT~~~~~~~d~LFATLdpttR~~~l~~-g~~vlLtDTVGFI~~LP~~LV~AFks-TLEE~~~aDl  274 (411)
T COG2262         197 LVGYTNAGKSTLFNALTGADVYVADQLFATLDPTTRRIELGD-GRKVLLTDTVGFIRDLPHPLVEAFKS-TLEEVKEADL  274 (411)
T ss_pred             EEeeccccHHHHHHHHhccCeeccccccccccCceeEEEeCC-CceEEEecCccCcccCChHHHHHHHH-HHHHhhcCCE
Confidence            589999999999999998766544433334444455555554 4678899999942         3333 2334567999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++.|+|++++.....+......+....-...|++++.||+|+..+..    ....+..... ..+.+||++++|++.+..
T Consensus       275 llhVVDaSdp~~~~~~~~v~~vL~el~~~~~p~i~v~NKiD~~~~~~----~~~~~~~~~~-~~v~iSA~~~~gl~~L~~  349 (411)
T COG2262         275 LLHVVDASDPEILEKLEAVEDVLAEIGADEIPIILVLNKIDLLEDEE----ILAELERGSP-NPVFISAKTGEGLDLLRE  349 (411)
T ss_pred             EEEEeecCChhHHHHHHHHHHHHHHcCCCCCCEEEEEecccccCchh----hhhhhhhcCC-CeEEEEeccCcCHHHHHH
Confidence            99999999997777777776777766556699999999999764222    1122222222 488899999999999999


Q ss_pred             HHHHHHHHHhhhhhcccC
Q 040835          152 TVLTEIYRIVSKKALTAN  169 (206)
Q Consensus       152 ~l~~~i~~~~~~~~~~~~  169 (206)
                      .|.+.+......-....+
T Consensus       350 ~i~~~l~~~~~~~~l~lp  367 (411)
T COG2262         350 RIIELLSGLRTEVTLELP  367 (411)
T ss_pred             HHHHHhhhcccceEEEcC
Confidence            999888866655444433

>COG0218 Predicted GTPase [General function prediction only]

Probab=99.72  E-value=3.2e-16  Score=111.03  Aligned_cols=151  Identities=18%  Similarity=0.200  Sum_probs=101.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC----------chhhhhhhHhHhc---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG----------QERYRAVTSAYYR---   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~---   67 (206)
                      ++|..|||||||+|+|++.....-...|.|.|.....+.+++.   +.++|.||          .+.+..+...|+.   
T Consensus        29 F~GRSNVGKSSlIN~l~~~k~LArtSktPGrTq~iNff~~~~~---~~lVDlPGYGyAkv~k~~~e~w~~~i~~YL~~R~  105 (200)
T COG0218          29 FAGRSNVGKSSLINALTNQKNLARTSKTPGRTQLINFFEVDDE---LRLVDLPGYGYAKVPKEVKEKWKKLIEEYLEKRA  105 (200)
T ss_pred             EEccCcccHHHHHHHHhCCcceeecCCCCCccceeEEEEecCc---EEEEeCCCcccccCCHHHHHHHHHHHHHHHhhch
Confidence            5899999999999999997743333344466666666655443   78999999          3456666666665   


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc----CCe--EEEeccC
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE----GLC--FMETSAL  141 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~----~~~--~~~~Sa~  141 (206)
                      +-.++++++|+.......+ .++++.+..   .++|++|++||+|.....+.. ..+...++..    ...  ++.+|+.
T Consensus       106 ~L~~vvlliD~r~~~~~~D-~em~~~l~~---~~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~~~~~~~~~~~ss~  180 (200)
T COG0218         106 NLKGVVLLIDARHPPKDLD-REMIEFLLE---LGIPVIVVLTKADKLKKSERN-KQLNKVAEELKKPPPDDQWVVLFSSL  180 (200)
T ss_pred             hheEEEEEEECCCCCcHHH-HHHHHHHHH---cCCCeEEEEEccccCChhHHH-HHHHHHHHHhcCCCCccceEEEEecc
Confidence            3567888999876543222 233333443   479999999999986533222 1123333322    222  7788999


Q ss_pred             CCCCHHHHHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i~~  159 (206)
                      ++.|++++...|.+.+..
T Consensus       181 ~k~Gi~~l~~~i~~~~~~  198 (200)
T COG0218         181 KKKGIDELKAKILEWLKE  198 (200)
T ss_pred             cccCHHHHHHHHHHHhhc
Confidence            999999999988877643

>KOG1489 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=99.71  E-value=2.8e-16  Score=117.74  Aligned_cols=151  Identities=18%  Similarity=0.154  Sum_probs=103.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----h---hHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----V---TSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~---~~~~~~~~d~~i   73 (206)
                      ++|.||+|||||+++|....-.....+.++..-..-.+++++. ..+.+-|+||..+-..    +   ....+..++.++
T Consensus       201 LVG~PNAGKSTLL~als~AKpkVa~YaFTTL~P~iG~v~yddf-~q~tVADiPGiI~GAh~nkGlG~~FLrHiER~~~l~  279 (366)
T KOG1489|consen  201 LVGFPNAGKSTLLNALSRAKPKVAHYAFTTLRPHIGTVNYDDF-SQITVADIPGIIEGAHMNKGLGYKFLRHIERCKGLL  279 (366)
T ss_pred             eecCCCCcHHHHHHHhhccCCcccccceeeeccccceeecccc-ceeEeccCccccccccccCcccHHHHHHHHhhceEE
Confidence            5899999999999999986554333333222222233444332 3389999999533211    1   223467899999


Q ss_pred             EEeeCCCh---hhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHH
Q 040835           74 LVYDITKR---QSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVE  147 (206)
Q Consensus        74 ~v~d~~~~---~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~  147 (206)
                      ||+|++..   ..++.+..+..++..+.  -...|.+||+||+|+.+   .....+.++++...-+ ++++||+.++++.
T Consensus       280 fVvD~s~~~~~~p~~~~~lL~~ELe~yek~L~~rp~liVaNKiD~~e---ae~~~l~~L~~~lq~~~V~pvsA~~~egl~  356 (366)
T KOG1489|consen  280 FVVDLSGKQLRNPWQQLQLLIEELELYEKGLADRPALIVANKIDLPE---AEKNLLSSLAKRLQNPHVVPVSAKSGEGLE  356 (366)
T ss_pred             EEEECCCcccCCHHHHHHHHHHHHHHHhhhhccCceEEEEeccCchh---HHHHHHHHHHHHcCCCcEEEeeeccccchH
Confidence            99999988   77777776666665443  26789999999999842   1222246677766544 9999999999999


Q ss_pred             HHHHHHHH
Q 040835          148 LAFLTVLT  155 (206)
Q Consensus       148 ~~~~~l~~  155 (206)
                      ++++.+.+
T Consensus       357 ~ll~~lr~  364 (366)
T KOG1489|consen  357 ELLNGLRE  364 (366)
T ss_pred             HHHHHHhh
Confidence            98887654

>cd04165 GTPBP1_like GTPBP1-like

Probab=99.71  E-value=3.7e-16  Score=115.66  Aligned_cols=150  Identities=20%  Similarity=0.216  Sum_probs=92.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc-----------------------cceeeEEEE-------------EEECCeE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT-----------------------IGVEFQTKT-------------LVIHHKN   44 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~-----------------------~~~~~~~~~-------------~~~~~~~   44 (206)
                      ++|+.++|||||+++|..+.+.......                       .+++.....             -.+....
T Consensus         4 ~~G~~~~GKttl~~~~~~~~~~~~~~~~~~~~~~~~~E~~~g~t~~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~   83 (224)
T cd04165           4 VVGNVDAGKSTLLGVLTQGELDNGRGKARLNLFRHKHEVESGRTSSVSNEILGFDSDGEVVNYPDNHLSESDIEICEKSS   83 (224)
T ss_pred             EECCCCCCHHHHHHHHHhCCcCCCCCeEEeehhhhhhhhhcCchhhhhhhhcccCCCCceecCCCCccccccceeeeeCC
Confidence            5899999999999999976554321100                       011100000             0011224


Q ss_pred             EEEEEEeCCCchhhhhhhHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--  120 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--  120 (206)
                      ..+.++||||++.|.......+.  .+|++++|+|+..... .....++..+..   .++|+++++||+|+.......  
T Consensus        84 ~~i~liDtpG~~~~~~~~~~~~~~~~~D~~llVvda~~g~~-~~d~~~l~~l~~---~~ip~ivvvNK~D~~~~~~~~~~  159 (224)
T cd04165          84 KLVTFIDLAGHERYLKTTLFGLTGYAPDYAMLVVAANAGII-GMTKEHLGLALA---LNIPVFVVVTKIDLAPANILQET  159 (224)
T ss_pred             cEEEEEECCCcHHHHHHHHHhhcccCCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEECccccCHHHHHHH
Confidence            56899999999988665554443  6899999999876543 222334444433   358999999999985322111  


Q ss_pred             HHHHHHHHH--------------------------HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835          121 TEDAKEFAE--------------------------KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus       121 ~~~~~~~~~--------------------------~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++..+..                          ...+++|.+|+.+|+|+++++..|.
T Consensus       160 ~~~l~~~L~~~g~~~~p~~~~~~~~~~~~~~~~~~~~~~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         160 LKDLKRILKVPGVRKLPVPVKSDDDVVLAASNFSSERIVPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             HHHHHHHhcCCCccccceeeecccceeehhhcCCccccCcEEEeeCCCccCHHHHHHHHH
Confidence            112222222                          0124899999999999998887664

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

>cd04169 RF3 RF3 subfamily

Probab=99.71  E-value=5.7e-16  Score=117.56  Aligned_cols=111  Identities=20%  Similarity=0.236  Sum_probs=78.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc--------------------cccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK--------------------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+|++|+|||||+++|+...-.....                    ...+.++......+.+.+..+.+|||||+..|..
T Consensus         7 ivGh~~~GKTTL~e~ll~~~g~i~~~g~v~~~~~~~~t~~D~~~~e~~rg~si~~~~~~~~~~~~~i~liDTPG~~df~~   86 (267)
T cd04169           7 IISHPDAGKTTLTEKLLLFGGAIREAGAVKARKSRKHATSDWMEIEKQRGISVTSSVMQFEYRDCVINLLDTPGHEDFSE   86 (267)
T ss_pred             EEcCCCCCHHHHHHHHHHhcCCcccCceecccccCCCccCCCcHHHHhCCCCeEEEEEEEeeCCEEEEEEECCCchHHHH
Confidence            58999999999999998531111100                    0013444555556677789999999999998887


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      .....++.+|++|+|+|+++.... ....++.....   .++|+++++||+|+..
T Consensus        87 ~~~~~l~~aD~~IlVvda~~g~~~-~~~~i~~~~~~---~~~P~iivvNK~D~~~  137 (267)
T cd04169          87 DTYRTLTAVDSAVMVIDAAKGVEP-QTRKLFEVCRL---RGIPIITFINKLDREG  137 (267)
T ss_pred             HHHHHHHHCCEEEEEEECCCCccH-HHHHHHHHHHh---cCCCEEEEEECCccCC
Confidence            777888999999999999875322 22233333322   4689999999999854

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.

>PRK12736 elongation factor Tu; Reviewed

Probab=99.70  E-value=3.8e-16  Score=124.92  Aligned_cols=140  Identities=18%  Similarity=0.151  Sum_probs=92.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC--------------CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL--------------DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|+.++|||||+++|++.....              ......+.+.......+......+.+|||||+++|.......+
T Consensus        17 i~Ghvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~T~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~   96 (394)
T PRK12736         17 TIGHVDHGKTTLTAAITKVLAERGLNQAKDYDSIDAAPEEKERGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGA   96 (394)
T ss_pred             EEccCCCcHHHHHHHHHhhhhhhccccccchhhhcCCHHHHhcCccEEEEeeEecCCCcEEEEEECCCHHHHHHHHHHHH
Confidence            58999999999999998631100              0011235555555555655667889999999998877666667


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVP---TEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~---~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++++|+|+++...- .....+..+..   .++| +++++||+|+.......   .+++..+....+     ++++.
T Consensus        97 ~~~d~~llVvd~~~g~~~-~t~~~~~~~~~---~g~~~~IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~  172 (394)
T PRK12736         97 AQMDGAILVVAATDGPMP-QTREHILLARQ---VGVPYLVVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIR  172 (394)
T ss_pred             hhCCEEEEEEECCCCCch-hHHHHHHHHHH---cCCCEEEEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEE
Confidence            889999999999864221 12222233333   3577 67899999986322211   234555555554     57999


Q ss_pred             eccCCCC
Q 040835          138 TSALEST  144 (206)
Q Consensus       138 ~Sa~~~~  144 (206)
                      +||+++.
T Consensus       173 vSa~~g~  179 (394)
T PRK12736        173 GSALKAL  179 (394)
T ss_pred             eeccccc
Confidence            9999983

>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=99.70  E-value=7.2e-17  Score=119.05  Aligned_cols=159  Identities=18%  Similarity=0.256  Sum_probs=97.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhh-----hhHhHhcCCcEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRA-----VTSAYYRGAVGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~   74 (206)
                      ++|+.+|||||+.+.++.+..+.+. ...+.|.......+ ....+.+.+||+||+..+..     .....+++++++||
T Consensus         4 LmG~~~SGKTSi~~vIF~~~~p~dT-~~L~~T~~ve~~~v~~~~~~~l~iwD~pGq~~~~~~~~~~~~~~if~~v~~LIy   82 (232)
T PF04670_consen    4 LMGPRRSGKTSIRSVIFHKYSPRDT-LRLEPTIDVEKSHVRFLSFLPLNIWDCPGQDDFMENYFNSQREEIFSNVGVLIY   82 (232)
T ss_dssp             EEESTTSSHHHHHHHHHS---GGGG-GG-----SEEEEEEECTTSCEEEEEEE-SSCSTTHTTHTCCHHHHHCTESEEEE
T ss_pred             EEcCCCCChhhHHHHHHcCCCchhc-cccCCcCCceEEEEecCCCcEEEEEEcCCccccccccccccHHHHHhccCEEEE
Confidence            5899999999999998886553333 22233332222223 23457899999999865433     45778999999999


Q ss_pred             EeeCCChhhHHHHHHH---HHHHHhcCCCCCcEEEEEeCCCCCcCCC--C----CHHHHHHHHHHcC---CeEEEeccCC
Q 040835           75 VYDITKRQSFDNVARW---LEELRGHADKNIIIMLVGNKSDLETLRA--V----PTEDAKEFAEKEG---LCFMETSALE  142 (206)
Q Consensus        75 v~d~~~~~s~~~~~~~---~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~----~~~~~~~~~~~~~---~~~~~~Sa~~  142 (206)
                      |+|+.+.+-.+.+..+   +..+.+. +++..+.|+++|+|+..+..  .    ..+.+.+.+...+   +.++.||..+
T Consensus        83 V~D~qs~~~~~~l~~~~~~i~~l~~~-sp~~~v~vfiHK~D~l~~~~r~~~~~~~~~~i~~~~~~~~~~~~~~~~TSI~D  161 (232)
T PF04670_consen   83 VFDAQSDDYDEDLAYLSDCIEALRQY-SPNIKVFVFIHKMDLLSEDEREEIFRDIQQRIRDELEDLGIEDITFFLTSIWD  161 (232)
T ss_dssp             EEETT-STCHHHHHHHHHHHHHHHHH-STT-EEEEEEE-CCCS-HHHHHHHHHHHHHHHHHHHHHTT-TSEEEEEE-TTS
T ss_pred             EEEcccccHHHHHHHHHHHHHHHHHh-CCCCeEEEEEeecccCCHHHHHHHHHHHHHHHHHHhhhccccceEEEeccCcC
Confidence            9999954433444443   3333333 47899999999999853111  0    1122333444455   7899999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhh
Q 040835          143 STNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~~~~~  162 (206)
                      . .+-++|..+++.+..+.+
T Consensus       162 ~-Sly~A~S~Ivq~LiP~~~  180 (232)
T PF04670_consen  162 E-SLYEAWSKIVQKLIPNLS  180 (232)
T ss_dssp             T-HHHHHHHHHHHTTSTTHC
T ss_pred             c-HHHHHHHHHHHHHcccHH
Confidence            5 788999999988765543

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.

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.70  E-value=4.4e-16  Score=124.30  Aligned_cols=151  Identities=17%  Similarity=0.190  Sum_probs=112.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      +||+-.-|||||+.++....+.......++-.+..+.+..+. ....+.++||||++.|..++..-..-+|++|+|++++
T Consensus        10 imGHVDHGKTtLLD~IR~t~Va~~EaGGITQhIGA~~v~~~~~~~~~itFiDTPGHeAFt~mRaRGa~vtDIaILVVa~d   89 (509)
T COG0532          10 IMGHVDHGKTTLLDKIRKTNVAAGEAGGITQHIGAYQVPLDVIKIPGITFIDTPGHEAFTAMRARGASVTDIAILVVAAD   89 (509)
T ss_pred             EeCcccCCccchhhhHhcCccccccCCceeeEeeeEEEEeccCCCceEEEEcCCcHHHHHHHHhcCCccccEEEEEEEcc
Confidence            589999999999999999888766655555556666666542 3457899999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC---------CeEEEeccCCCCCHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG---------LCFMETSALESTNVELAF  150 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~~v~~~~  150 (206)
                      |.--    .+....+......++|++|++||+|...   .+......-..++|         ..++.+||++|+|+++++
T Consensus        90 DGv~----pQTiEAI~hak~a~vP~iVAiNKiDk~~---~np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL  162 (509)
T COG0532          90 DGVM----PQTIEAINHAKAAGVPIVVAINKIDKPE---ANPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELL  162 (509)
T ss_pred             CCcc----hhHHHHHHHHHHCCCCEEEEEecccCCC---CCHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHH
Confidence            8521    1222223333346899999999999862   23333333333333         358999999999999999


Q ss_pred             HHHHHHHH
Q 040835          151 LTVLTEIY  158 (206)
Q Consensus       151 ~~l~~~i~  158 (206)
                      ..++-...
T Consensus       163 ~~ill~ae  170 (509)
T COG0532         163 ELILLLAE  170 (509)
T ss_pred             HHHHHHHH
Confidence            88775443

>PRK12735 elongation factor Tu; Reviewed

Probab=99.69  E-value=6.8e-16  Score=123.57  Aligned_cols=141  Identities=18%  Similarity=0.165  Sum_probs=92.7

Q ss_pred             CccCCCCCHHHHHHHHhcC-------CCC-----C--CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARD-------EFS-----L--DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~-------~~~-----~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|.+++|||||+++|++.       .+.     +  ......+.+.......+...+..+.++||||++.|.......+
T Consensus        17 iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rGiT~~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~~~   96 (396)
T PRK12735         17 TIGHVDHGKTTLTAAITKVLAKKGGGEAKAYDQIDNAPEEKARGITINTSHVEYETANRHYAHVDCPGHADYVKNMITGA   96 (396)
T ss_pred             EECcCCCCHHHHHHHHHHhhhhcCCcccchhhhccCChhHHhcCceEEEeeeEEcCCCcEEEEEECCCHHHHHHHHHhhh
Confidence            5899999999999999862       100     0  0011234555555555555667889999999998877677778


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++++|+|+.+... ....+.+..+..   .++|.+ +++||+|+......   ...++..+...++     +++++
T Consensus        97 ~~aD~~llVvda~~g~~-~qt~e~l~~~~~---~gi~~iivvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~  172 (396)
T PRK12735         97 AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIR  172 (396)
T ss_pred             ccCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEe
Confidence            89999999999987432 122233333332   357755 57999998642221   1224555665553     67999


Q ss_pred             eccCCCCC
Q 040835          138 TSALESTN  145 (206)
Q Consensus       138 ~Sa~~~~~  145 (206)
                      +|+.++.+
T Consensus       173 ~Sa~~g~n  180 (396)
T PRK12735        173 GSALKALE  180 (396)
T ss_pred             cchhcccc
Confidence            99999853

>KOG1423 consensus Ras-like GTPase ERA [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=99.69  E-value=4.3e-16  Score=116.18  Aligned_cols=153  Identities=20%  Similarity=0.189  Sum_probs=99.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch------hh------hhhhHhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE------RY------RAVTSAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~------~~------~~~~~~~~~~   68 (206)
                      |+|+||+|||||.|.+.+..+.+.+..+.+++.. ....+......+.++||||.-      .+      .......+..
T Consensus        77 vIG~PNvGKStLtN~mig~kv~~vS~K~~TTr~~-ilgi~ts~eTQlvf~DTPGlvs~~~~r~~~l~~s~lq~~~~a~q~  155 (379)
T KOG1423|consen   77 VIGAPNVGKSTLTNQMIGQKVSAVSRKVHTTRHR-ILGIITSGETQLVFYDTPGLVSKKMHRRHHLMMSVLQNPRDAAQN  155 (379)
T ss_pred             EEcCCCcchhhhhhHhhCCccccccccccceeee-eeEEEecCceEEEEecCCcccccchhhhHHHHHHhhhCHHHHHhh
Confidence            5899999999999999999998888766444333 333344456789999999921      11      1123445678


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC-------------CCC--HHHHH-HHHH---
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR-------------AVP--TEDAK-EFAE---  129 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-------------~~~--~~~~~-~~~~---  129 (206)
                      ||.+++++|+++....-. .+.+..+..+  ...|-+++.||.|.....             .+.  ..++. ++..   
T Consensus       156 AD~vvVv~Das~tr~~l~-p~vl~~l~~y--s~ips~lvmnkid~~k~k~~Ll~l~~~Lt~g~l~~~kl~v~~~f~~~p~  232 (379)
T KOG1423|consen  156 ADCVVVVVDASATRTPLH-PRVLHMLEEY--SKIPSILVMNKIDKLKQKRLLLNLKDLLTNGELAKLKLEVQEKFTDVPS  232 (379)
T ss_pred             CCEEEEEEeccCCcCccC-hHHHHHHHHH--hcCCceeeccchhcchhhhHHhhhHHhccccccchhhhhHHHHhccCCc
Confidence            999999999996332111 1223333333  368899999999974311             111  11111 1111   


Q ss_pred             ------HcCC----eEEEeccCCCCCHHHHHHHHHHHH
Q 040835          130 ------KEGL----CFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       130 ------~~~~----~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                            ..|.    .+|.+||+.|+||+++-++|....
T Consensus       233 ~~~~~~~~gwshfe~vF~vSaL~G~GikdlkqyLmsqa  270 (379)
T KOG1423|consen  233 DEKWRTICGWSHFERVFMVSALYGEGIKDLKQYLMSQA  270 (379)
T ss_pred             ccccccccCcccceeEEEEecccccCHHHHHHHHHhcC
Confidence                  1122    389999999999999999887654

>TIGR00485 EF-Tu translation elongation factor TU

Probab=99.68  E-value=7.2e-16  Score=123.47  Aligned_cols=140  Identities=18%  Similarity=0.139  Sum_probs=92.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCC------C------C--CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEF------S------L--DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~------~------~--~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|++...      .      .  ......+.+.....+.++..+..+.+|||||++.|........
T Consensus        17 i~Ghvd~GKStL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rG~Ti~~~~~~~~~~~~~~~liDtpGh~~f~~~~~~~~   96 (394)
T TIGR00485        17 TIGHVDHGKTTLTAAITTVLAKEGGAAARAYDQIDNAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGA   96 (394)
T ss_pred             EEeecCCCHHHHHHHHHhhHHHhhcccccccccccCCHHHHhcCcceeeEEEEEcCCCEEEEEEECCchHHHHHHHHHHH
Confidence            589999999999999984200      0      0  0011135556666666666677899999999998876666667


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCC---HHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVP---TEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~~~~~---~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++++|+|+.+..... ..+.+..+..   .++|.+ +++||+|+.......   .+++..+...++     ++++.
T Consensus        97 ~~~D~~ilVvda~~g~~~q-t~e~l~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~  172 (394)
T TIGR00485        97 AQMDGAILVVSATDGPMPQ-TREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIR  172 (394)
T ss_pred             hhCCEEEEEEECCCCCcHH-HHHHHHHHHH---cCCCEEEEEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEE
Confidence            7889999999998742211 1222233332   256755 689999986422211   234666666664     68999


Q ss_pred             eccCCCC
Q 040835          138 TSALEST  144 (206)
Q Consensus       138 ~Sa~~~~  144 (206)
                      +|+.++.
T Consensus       173 vSa~~g~  179 (394)
T TIGR00485       173 GSALKAL  179 (394)
T ss_pred             Ccccccc
Confidence            9999875

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.

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.67  E-value=1.7e-16  Score=127.13  Aligned_cols=157  Identities=25%  Similarity=0.300  Sum_probs=116.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|+|||||+-.|+...+.+..++-..  .......+....+...|+|++..+.-.......++.||+++++|+.++
T Consensus        14 liGD~G~GKtSLImSL~~eef~~~VP~rl~--~i~IPadvtPe~vpt~ivD~ss~~~~~~~l~~EirkA~vi~lvyavd~   91 (625)
T KOG1707|consen   14 LIGDEGVGKTSLIMSLLEEEFVDAVPRRLP--RILIPADVTPENVPTSIVDTSSDSDDRLCLRKEIRKADVICLVYAVDD   91 (625)
T ss_pred             EECCCCccHHHHHHHHHhhhccccccccCC--ccccCCccCcCcCceEEEecccccchhHHHHHHHhhcCEEEEEEecCC
Confidence            589999999999999999988766544311  111112222345668999998766666666788899999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHcC-C-eEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNV-ARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTED-AKEFAEKEG-L-CFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~~-~-~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +++++.+ ..|+..++...+  .++|+|+|+||.|.......+.+. +..+..++. + ..++|||++-.++.++|+...
T Consensus        92 ~~T~D~ist~WLPlir~~~~~~~~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaq  171 (625)
T KOG1707|consen   92 ESTVDRISTKWLPLIRQLFGDYHETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQ  171 (625)
T ss_pred             hHHhhhhhhhhhhhhhcccCCCccCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhh
Confidence            9999988 459999988763  679999999999986433332222 344433332 2 379999999999999999887


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.++.
T Consensus       172 KaVih  176 (625)
T KOG1707|consen  172 KAVIH  176 (625)
T ss_pred             heeec
Confidence            76643

>KOG0077 consensus Vesicle coat complex COPII, GTPase subunit SAR1 [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.67  E-value=2.2e-16  Score=107.40  Aligned_cols=149  Identities=16%  Similarity=0.206  Sum_probs=111.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|..|+|||||++.|.+... ....||...+.+.    +...++.++.+|.+|+..-...|..++..+|++++.+|+-|
T Consensus        25 FlGLDNAGKTTLLHMLKdDrl-~qhvPTlHPTSE~----l~Ig~m~ftt~DLGGH~qArr~wkdyf~~v~~iv~lvda~d   99 (193)
T KOG0077|consen   25 FLGLDNAGKTTLLHMLKDDRL-GQHVPTLHPTSEE----LSIGGMTFTTFDLGGHLQARRVWKDYFPQVDAIVYLVDAYD   99 (193)
T ss_pred             EEeecCCchhhHHHHHccccc-cccCCCcCCChHH----heecCceEEEEccccHHHHHHHHHHHHhhhceeEeeeehhh
Confidence            479999999999999887655 4455554444443    33456889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH---HcC--------------CeEEEeccCC
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE---KEG--------------LCFMETSALE  142 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~---~~~--------------~~~~~~Sa~~  142 (206)
                      .+.+...+.-++.+.... -.++|+++.+||+|...  ..++++.+....   ..+              +.+|.||+..
T Consensus       100 ~er~~es~~eld~ll~~e~la~vp~lilgnKId~p~--a~se~~l~~~l~l~~~t~~~~~v~~~~~~~rp~evfmcsi~~  177 (193)
T KOG0077|consen  100 QERFAESKKELDALLSDESLATVPFLILGNKIDIPY--AASEDELRFHLGLSNFTTGKGKVNLTDSNVRPLEVFMCSIVR  177 (193)
T ss_pred             HHHhHHHHHHHHHHHhHHHHhcCcceeecccccCCC--cccHHHHHHHHHHHHHhcccccccccCCCCCeEEEEEEEEEc
Confidence            998888777666654333 25799999999999864  234444332221   111              2478899999


Q ss_pred             CCCHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTE  156 (206)
Q Consensus       143 ~~~v~~~~~~l~~~  156 (206)
                      +.+.-+.|.|+-+.
T Consensus       178 ~~gy~e~fkwl~qy  191 (193)
T KOG0077|consen  178 KMGYGEGFKWLSQY  191 (193)
T ss_pred             cCccceeeeehhhh
Confidence            98888888887654

>CHL00071 tufA elongation factor Tu

Probab=99.66  E-value=2.3e-15  Score=121.08  Aligned_cols=142  Identities=18%  Similarity=0.147  Sum_probs=94.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|.+++|||||+++|++..-...              .....+++.......+...+..+.++||||+..|.......+
T Consensus        17 i~Gh~d~GKSTL~~~Ll~~~~~~~~~~~~~~~~~d~~~~e~~rg~T~~~~~~~~~~~~~~~~~iDtPGh~~~~~~~~~~~   96 (409)
T CHL00071         17 TIGHVDHGKTTLTAAITMTLAAKGGAKAKKYDEIDSAPEEKARGITINTAHVEYETENRHYAHVDCPGHADYVKNMITGA   96 (409)
T ss_pred             EECCCCCCHHHHHHHHHHHhCccccccccccccccCChhhhcCCEeEEccEEEEccCCeEEEEEECCChHHHHHHHHHHH
Confidence            589999999999999997421100              011134555554555555667789999999988877777778


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++++|+|+..... ......+..+..   .++| +++++||+|+......   ...++..+....+     ++++.
T Consensus        97 ~~~D~~ilVvda~~g~~-~qt~~~~~~~~~---~g~~~iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~  172 (409)
T CHL00071         97 AQMDGAILVVSAADGPM-PQTKEHILLAKQ---VGVPNIVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVS  172 (409)
T ss_pred             HhCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEE
Confidence            89999999999986432 222233333332   3578 7789999998642221   1134555555544     67999


Q ss_pred             eccCCCCCH
Q 040835          138 TSALESTNV  146 (206)
Q Consensus       138 ~Sa~~~~~v  146 (206)
                      +|+.++.++
T Consensus       173 ~Sa~~g~n~  181 (409)
T CHL00071        173 GSALLALEA  181 (409)
T ss_pred             cchhhcccc
Confidence            999998754

>cd04170 EF-G_bact Elongation factor G (EF-G) subfamily

Probab=99.66  E-value=2.9e-15  Score=114.29  Aligned_cols=144  Identities=21%  Similarity=0.185  Sum_probs=90.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc-----c-----------cceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA-----T-----------IGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~-----~-----------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|.+|+|||||+++|+...-......     +           .+.+.......+.+....+.+|||||+..|...+..
T Consensus         4 ivG~~gsGKStL~~~Ll~~~g~~~~~g~v~~g~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~~f~~~~~~   83 (268)
T cd04170           4 LVGHSGSGKTTLAEALLYATGAIDRLGSVEDGTTVSDYDPEEIKRKMSISTSVAPLEWKGHKINLIDTPGYADFVGETRA   83 (268)
T ss_pred             EECCCCCCHHHHHHHHHHhcCCCccCCeecCCcccCCCCHHHHhhcccccceeEEEEECCEEEEEEECcCHHHHHHHHHH
Confidence            589999999999999985322111000     0           012222223334445678999999999888888888


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEe--ccCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMET--SALE  142 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~--Sa~~  142 (206)
                      ++..+|++++|+|+++.........| ..+..   .++|.++++||+|+...  ...+....+....+.+++.+  ...+
T Consensus        84 ~l~~aD~~i~Vvd~~~g~~~~~~~~~-~~~~~---~~~p~iivvNK~D~~~~--~~~~~~~~l~~~~~~~~~~~~ip~~~  157 (268)
T cd04170          84 ALRAADAALVVVSAQSGVEVGTEKLW-EFADE---AGIPRIIFINKMDRERA--DFDKTLAALQEAFGRPVVPLQLPIGE  157 (268)
T ss_pred             HHHHCCEEEEEEeCCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCccCCC--CHHHHHHHHHHHhCCCeEEEEecccC
Confidence            99999999999999876544333333 22222   46899999999998642  11233444444456554433  4455


Q ss_pred             CCCHHHHH
Q 040835          143 STNVELAF  150 (206)
Q Consensus       143 ~~~v~~~~  150 (206)
                      +.++..+.
T Consensus       158 ~~~~~~~v  165 (268)
T cd04170         158 GDDFKGVV  165 (268)
T ss_pred             CCceeEEE
Confidence            55544333

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

>cd01850 CDC_Septin CDC/Septin

Probab=99.66  E-value=1.9e-15  Score=115.26  Aligned_cols=138  Identities=15%  Similarity=0.131  Sum_probs=87.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC----------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD----------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----------   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------   60 (206)
                      |+|.+|+|||||+|+|++..+...          ..++.+.......+..++..+.+.+|||||......          
T Consensus         9 vvG~sg~GKSTliN~L~~~~~~~~~~~~~~~~~~~~~T~~i~~~~~~i~~~g~~~~l~iiDTpGfgd~~~~~~~~~~i~~   88 (276)
T cd01850           9 VVGESGLGKSTFINTLFNTKLIPSDYPPDPAEEHIDKTVEIKSSKAEIEENGVKLKLTVIDTPGFGDNINNSDCWKPIVD   88 (276)
T ss_pred             EEcCCCCCHHHHHHHHHcCCCccccCCCCccccccCCceEEEEEEEEEEECCEEEEEEEEecCCccccccchhhHHHHHH
Confidence            589999999999999999877544          233434444445555567778999999999422110          


Q ss_pred             ----------------hhHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC--CCC
Q 040835           61 ----------------VTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR--AVP  120 (206)
Q Consensus        61 ----------------~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~--~~~  120 (206)
                                      .+...+.  .+|+++++++.+...--..-...+..+.    ..+|+++|+||+|+....  ...
T Consensus        89 yi~~q~~~~l~~e~~~~r~~~~~d~rvh~~ly~i~~~~~~l~~~D~~~lk~l~----~~v~vi~VinK~D~l~~~e~~~~  164 (276)
T cd01850          89 YIDDQFDQYLREESRIKRNPRIPDTRVHACLYFIEPTGHGLKPLDIEFMKRLS----KRVNIIPVIAKADTLTPEELKEF  164 (276)
T ss_pred             HHHHHHHHHHHHHhhhcccccCCCCceEEEEEEEeCCCCCCCHHHHHHHHHHh----ccCCEEEEEECCCcCCHHHHHHH
Confidence                            0101222  4678888888765221111122233332    258999999999985422  223


Q ss_pred             HHHHHHHHHHcCCeEEEeccCC
Q 040835          121 TEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                      ...+.+.+..+++++|......
T Consensus       165 k~~i~~~l~~~~i~~~~~~~~~  186 (276)
T cd01850         165 KQRIMEDIEEHNIKIYKFPEDE  186 (276)
T ss_pred             HHHHHHHHHHcCCceECCCCCc
Confidence            4556677778899998776543

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.

>PRK00741 prfC peptide chain release factor 3; Provisional

Probab=99.66  E-value=3.8e-15  Score=122.53  Aligned_cols=110  Identities=18%  Similarity=0.231  Sum_probs=76.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--------------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--------------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+|++++|||||+++|+...-...                    .....+.++......+.+.+..+.+|||||+..|..
T Consensus        15 IiGh~daGKTTL~e~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rgiSi~~~~~~~~~~~~~inliDTPG~~df~~   94 (526)
T PRK00741         15 IISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGRHATSDWMEMEKQRGISVTSSVMQFPYRDCLINLLDTPGHEDFSE   94 (526)
T ss_pred             EECCCCCCHHHHHHHHHHhCCCccccceeeccccCccccCCCcHHHHhhCCceeeeeEEEEECCEEEEEEECCCchhhHH
Confidence            589999999999999974111000                    001123344444455566678899999999999888


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ....+++.+|++|+|+|+++.... ....++.....   .++|+++++||+|+.
T Consensus        95 ~~~~~l~~aD~aIlVvDa~~gv~~-~t~~l~~~~~~---~~iPiiv~iNK~D~~  144 (526)
T PRK00741         95 DTYRTLTAVDSALMVIDAAKGVEP-QTRKLMEVCRL---RDTPIFTFINKLDRD  144 (526)
T ss_pred             HHHHHHHHCCEEEEEEecCCCCCH-HHHHHHHHHHh---cCCCEEEEEECCccc
Confidence            778889999999999999875322 22333333322   479999999999974

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

Probab=99.66  E-value=1.2e-15  Score=115.91  Aligned_cols=111  Identities=18%  Similarity=0.176  Sum_probs=78.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC----------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD----------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|.+|+|||||+++|+...-...                .....+.++......+.+.+..+.+|||||+..+...+..
T Consensus         4 ivGh~~~GKTtL~~~Ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~df~~~~~~   83 (270)
T cd01886           4 IIAHIDAGKTTTTERILYYTGRIHKIGEVHGGGATMDFMEQERERGITIQSAATTCFWKDHRINIIDTPGHVDFTIEVER   83 (270)
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCCcccccccCCccccCCCccccCCCcCeeccEEEEEECCEEEEEEECCCcHHHHHHHHH
Confidence            589999999999999974211000                0011244555555555566788999999999988888899


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      .++.+|++|+|+|+.+...-.. ...+..+..   .++|+++++||+|+.+
T Consensus        84 ~l~~aD~ailVVDa~~g~~~~t-~~~~~~~~~---~~~p~ivviNK~D~~~  130 (270)
T cd01886          84 SLRVLDGAVAVFDAVAGVEPQT-ETVWRQADR---YNVPRIAFVNKMDRTG  130 (270)
T ss_pred             HHHHcCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCEEEEEECCCCCC
Confidence            9999999999999987542222 222233332   4689999999999863

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

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=99.66  E-value=4.7e-15  Score=108.09  Aligned_cols=154  Identities=13%  Similarity=0.143  Sum_probs=91.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccce---eeEEEEEEECCeEEEEEEEeCCCchhhhhhh-----HhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGV---EFQTKTLVIHHKNVKAQIWDTAGQERYRAVT-----SAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~-----~~~~~~~d~~   72 (206)
                      |+|.+|+|||||+|+|++.........+.+.   +.....+.. .....+.+||+||........     ...+..+|++
T Consensus         6 i~G~~g~GKSSLin~L~g~~~~~~~~~~~~~~~~t~~~~~~~~-~~~~~l~l~DtpG~~~~~~~~~~~l~~~~~~~~d~~   84 (197)
T cd04104           6 VTGESGAGKSSFINALRGVGHEEEGAAPTGVVETTMKRTPYPH-PKFPNVTLWDLPGIGSTAFPPDDYLEEMKFSEYDFF   84 (197)
T ss_pred             EECCCCCCHHHHHHHHhccCCCCCCccccCccccccCceeeec-CCCCCceEEeCCCCCcccCCHHHHHHHhCccCcCEE
Confidence            5899999999999999986654332222221   111111111 112468999999975322222     2226778988


Q ss_pred             EEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-----------CCHHHHHHHHH----HcC---C
Q 040835           73 MLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRA-----------VPTEDAKEFAE----KEG---L  133 (206)
Q Consensus        73 i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-----------~~~~~~~~~~~----~~~---~  133 (206)
                      +++.+..    +... ..|+..+...   +.|+++|+||+|+.....           ...+++++.+.    ..+   -
T Consensus        85 l~v~~~~----~~~~d~~~~~~l~~~---~~~~ilV~nK~D~~~~~~~~~~~~~~~~~~~l~~i~~~~~~~~~~~~~~~p  157 (197)
T cd04104          85 IIISSTR----FSSNDVKLAKAIQCM---GKKFYFVRTKVDRDLSNEQRSKPRSFNREQVLQEIRDNCLENLQEAGVSEP  157 (197)
T ss_pred             EEEeCCC----CCHHHHHHHHHHHHh---CCCEEEEEecccchhhhhhccccccccHHHHHHHHHHHHHHHHHHcCCCCC
Confidence            8875422    2222 3455555543   589999999999832111           01112222222    222   2


Q ss_pred             eEEEeccC--CCCCHHHHHHHHHHHHHHHhh
Q 040835          134 CFMETSAL--ESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       134 ~~~~~Sa~--~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      ++|.+|+.  .+.|+..+.+.++..+.++..
T Consensus       158 ~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~  188 (197)
T cd04104         158 PVFLVSNFDPSDYDFPKLRETLLKDLPAHKR  188 (197)
T ss_pred             CEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence            58999998  568999999999888876543

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

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=99.65  E-value=3.8e-15  Score=112.93  Aligned_cols=160  Identities=16%  Similarity=0.078  Sum_probs=103.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----h---hHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----V---TSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~---~~~~~~~~d~~i   73 (206)
                      ++|.|++|||||++++..-.......|.++..-..-.+.+ .....|.+-|+||..+-..    +   -...+..+.+++
T Consensus       164 LVG~PNaGKSTlls~vS~AkPKIadYpFTTL~PnLGvV~~-~~~~sfv~ADIPGLIEGAs~G~GLG~~FLrHIERt~vL~  242 (369)
T COG0536         164 LVGLPNAGKSTLLSAVSAAKPKIADYPFTTLVPNLGVVRV-DGGESFVVADIPGLIEGASEGVGLGLRFLRHIERTRVLL  242 (369)
T ss_pred             cccCCCCcHHHHHHHHhhcCCcccCCccccccCcccEEEe-cCCCcEEEecCcccccccccCCCccHHHHHHHHhhheeE
Confidence            6899999999999999986655444444333333333333 3446689999999533211    1   223456788999


Q ss_pred             EEeeCCChh---hHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEE-eccCCCCCHH
Q 040835           74 LVYDITKRQ---SFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFME-TSALESTNVE  147 (206)
Q Consensus        74 ~v~d~~~~~---s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~-~Sa~~~~~v~  147 (206)
                      +|+|++..+   ..++......++..+.  -.++|.+||+||+|+....+........+....+...+. +|+.+++|++
T Consensus       243 hviD~s~~~~~dp~~~~~~i~~EL~~Y~~~L~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~ISa~t~~g~~  322 (369)
T COG0536         243 HVIDLSPIDGRDPIEDYQTIRNELEKYSPKLAEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYLISALTREGLD  322 (369)
T ss_pred             EEEecCcccCCCHHHHHHHHHHHHHHhhHHhccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCcceeeehhcccCHH
Confidence            999998543   3444444444444432  257999999999996542232223333444444443222 9999999999


Q ss_pred             HHHHHHHHHHHHHh
Q 040835          148 LAFLTVLTEIYRIV  161 (206)
Q Consensus       148 ~~~~~l~~~i~~~~  161 (206)
                      ++...+.+.+.+..
T Consensus       323 ~L~~~~~~~l~~~~  336 (369)
T COG0536         323 ELLRALAELLEETK  336 (369)
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999988877765

>cd01899 Ygr210 Ygr210 subfamily

Probab=99.65  E-value=9.1e-15  Score=113.17  Aligned_cols=79  Identities=18%  Similarity=0.227  Sum_probs=52.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccc--eeeEEEEEE-------------------ECC-eEEEEEEEeCCCc---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIG--VEFQTKTLV-------------------IHH-KNVKAQIWDTAGQ---   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~--~~~~~~~~~-------------------~~~-~~~~~~i~D~~G~---   55 (206)
                      ++|.|+||||||+++|++........|..+  .+.....+.                   .++ ..+.+.+||+||.   
T Consensus         3 ivG~pnvGKStLfn~lt~~~~~~~~~pftT~~p~~g~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~v~i~l~D~aGlv~g   82 (318)
T cd01899           3 LVGKPNAGKSTFFNAATLADVEIANYPFTTIDPNVGVGYVRVECPCKELGVSCNPRYGKCIDGKRYVPVELIDVAGLVPG   82 (318)
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCccccceeEEEEEecCCCchhhhhhhcccccccccCcCcceEEEEECCCCCCC
Confidence            589999999999999999875432222211  111111110                   112 3478999999997   


Q ss_pred             -hhhhhhhHh---HhcCCcEEEEEeeCC
Q 040835           56 -ERYRAVTSA---YYRGAVGAMLVYDIT   79 (206)
Q Consensus        56 -~~~~~~~~~---~~~~~d~~i~v~d~~   79 (206)
                       +.+..+.+.   .++.+|++++|+|+.
T Consensus        83 a~~~~glg~~fL~~ir~aD~ii~Vvd~~  110 (318)
T cd01899          83 AHEGKGLGNKFLDDLRDADALIHVVDAS  110 (318)
T ss_pred             ccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence             444444444   489999999999997

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.

>cd01885 EF2 EF2 (for archaea and eukarya)

Probab=99.65  E-value=2.5e-15  Score=110.88  Aligned_cols=110  Identities=18%  Similarity=0.219  Sum_probs=74.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc--------------cccceeeEEE--EEEEC--------CeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK--------------ATIGVEFQTK--TLVIH--------HKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~--------------~~~~~~~~~~--~~~~~--------~~~~~~~i~D~~G~~   56 (206)
                      ++|..++|||||+++|+...-.....              ...+.++...  ...+.        +....+.+|||||+.
T Consensus         5 iiGhvd~GKTTL~d~Ll~~~g~i~~~~~g~~~~~D~~~~E~~RgiTi~~~~~~~~~~~~~~~~~~~~~~~i~iiDTPG~~   84 (222)
T cd01885           5 IIAHVDHGKTTLSDSLLASAGIISEKLAGKARYMDSREDEQERGITMKSSAISLYFEYEEEDKADGNEYLINLIDSPGHV   84 (222)
T ss_pred             EECCCCCCHHHHHHHHHHHcCCCccccCCceeeccCCHHHHHhccccccceEEEEEecCcccccCCCceEEEEECCCCcc
Confidence            58999999999999998642111000              0011222221  22222        336889999999999


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .|......+++.+|++++|+|+.++........+ .....   .++|+++++||+|+.
T Consensus        85 ~f~~~~~~~l~~aD~~ilVvD~~~g~~~~t~~~l-~~~~~---~~~p~ilviNKiD~~  138 (222)
T cd01885          85 DFSSEVTAALRLCDGALVVVDAVEGVCVQTETVL-RQALK---ERVKPVLVINKIDRL  138 (222)
T ss_pred             ccHHHHHHHHHhcCeeEEEEECCCCCCHHHHHHH-HHHHH---cCCCEEEEEECCCcc
Confidence            9999999999999999999999987554432222 22222   358999999999974

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

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=99.64  E-value=3.6e-15  Score=121.64  Aligned_cols=146  Identities=24%  Similarity=0.175  Sum_probs=91.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC------------c-------------------cccceeeEEEEEEECCeEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS------------K-------------------ATIGVEFQTKTLVIHHKNVKAQI   49 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~------------~-------------------~~~~~~~~~~~~~~~~~~~~~~i   49 (206)
                      ++|..++|||||+++|+...-....            .                   ..-+.++......+......+.+
T Consensus        32 iiGhvdaGKSTL~~~LL~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~a~~~D~~~eEr~rgiTid~~~~~~~~~~~~i~~  111 (474)
T PRK05124         32 TCGSVDDGKSTLIGRLLHDTKQIYEDQLASLHNDSKRHGTQGEKLDLALLVDGLQAEREQGITIDVAYRYFSTEKRKFII  111 (474)
T ss_pred             EECCCCCChHHHHHHHHHhcCCCcHHHHHHHHHHHHhcCCCccccchhhhccCChHHhhcCCCeEeeEEEeccCCcEEEE
Confidence            5899999999999999864321111            0                   00123344444445555678999


Q ss_pred             EeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH----HH
Q 040835           50 WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED----AK  125 (206)
Q Consensus        50 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~----~~  125 (206)
                      |||||++.|.......+..+|++++|+|+.....-.. .+....+....  ..|+++++||+|+.........+    +.
T Consensus       112 iDTPGh~~f~~~~~~~l~~aD~allVVDa~~G~~~qt-~~~~~l~~~lg--~~~iIvvvNKiD~~~~~~~~~~~i~~~l~  188 (474)
T PRK05124        112 ADTPGHEQYTRNMATGASTCDLAILLIDARKGVLDQT-RRHSFIATLLG--IKHLVVAVNKMDLVDYSEEVFERIREDYL  188 (474)
T ss_pred             EECCCcHHHHHHHHHHHhhCCEEEEEEECCCCccccc-hHHHHHHHHhC--CCceEEEEEeeccccchhHHHHHHHHHHH
Confidence            9999998886655556799999999999976432111 11111122211  24789999999986422211222    22


Q ss_pred             HHHHHc----CCeEEEeccCCCCCHHHH
Q 040835          126 EFAEKE----GLCFMETSALESTNVELA  149 (206)
Q Consensus       126 ~~~~~~----~~~~~~~Sa~~~~~v~~~  149 (206)
                      .+....    .++++.+||++++|++++
T Consensus       189 ~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        189 TFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             HHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            333333    367999999999999865

>COG3596 Predicted GTPase [General function prediction only]

Probab=99.64  E-value=1.4e-15  Score=112.24  Aligned_cols=156  Identities=15%  Similarity=0.153  Sum_probs=104.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-------hhhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------YRAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~~i   73 (206)
                      ++|.+|+|||||+|+|+.+...+......+.+....... ......+.+||+||.++       +......++...|.++
T Consensus        44 i~G~TG~GKSSliNALF~~~~~~v~~vg~~t~~~~~~~~-~~~~~~l~lwDtPG~gdg~~~D~~~r~~~~d~l~~~DLvL  122 (296)
T COG3596          44 LMGATGAGKSSLINALFQGEVKEVSKVGVGTDITTRLRL-SYDGENLVLWDTPGLGDGKDKDAEHRQLYRDYLPKLDLVL  122 (296)
T ss_pred             EecCCCCcHHHHHHHHHhccCceeeecccCCCchhhHHh-hccccceEEecCCCcccchhhhHHHHHHHHHHhhhccEEE
Confidence            589999999999999997666555533333333222111 12235689999999543       7777889999999999


Q ss_pred             EEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC-------CCCHHHHH-----------HHHHHcCCeE
Q 040835           74 LVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR-------AVPTEDAK-----------EFAEKEGLCF  135 (206)
Q Consensus        74 ~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~-------~~~~~~~~-----------~~~~~~~~~~  135 (206)
                      ++++..|+.---+.+.|.+.+...  ...++++++|.+|...+-       ......++           ++++. -.|+
T Consensus       123 ~l~~~~draL~~d~~f~~dVi~~~--~~~~~i~~VtQ~D~a~p~~~W~~~~~~p~~a~~qfi~~k~~~~~~~~q~-V~pV  199 (296)
T COG3596         123 WLIKADDRALGTDEDFLRDVIILG--LDKRVLFVVTQADRAEPGREWDSAGHQPSPAIKQFIEEKAEALGRLFQE-VKPV  199 (296)
T ss_pred             EeccCCCccccCCHHHHHHHHHhc--cCceeEEEEehhhhhccccccccccCCCCHHHHHHHHHHHHHHHHHHhh-cCCe
Confidence            999999876433334444444332  348999999999975320       01111111           11221 2368


Q ss_pred             EEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          136 METSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       136 ~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +..+...++|++++...++..+...
T Consensus       200 ~~~~~r~~wgl~~l~~ali~~lp~e  224 (296)
T COG3596         200 VAVSGRLPWGLKELVRALITALPVE  224 (296)
T ss_pred             EEeccccCccHHHHHHHHHHhCccc
Confidence            8888999999999999999887643

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=99.63  E-value=5.9e-15  Score=118.53  Aligned_cols=145  Identities=25%  Similarity=0.204  Sum_probs=92.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-------------------------------ccccceeeEEEEEEECCeEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-------------------------------KATIGVEFQTKTLVIHHKNVKAQI   49 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~i   49 (206)
                      ++|+.++|||||+++|+...-....                               ...-+.+.......+...+..+.+
T Consensus         5 ~vGhvd~GKSTL~~~ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~D~~~eE~~rgiTid~~~~~~~~~~~~~~l   84 (406)
T TIGR02034         5 TCGSVDDGKSTLIGRLLHDTKQIYEDQLAALERDSKKHGTQGGEIDLALLVDGLQAEREQGITIDVAYRYFSTDKRKFIV   84 (406)
T ss_pred             EECCCCCCchhhhHHHHHHcCCcCHHHHHHHHHHHHhhCCCcCceeeeeeccCChHHhcCCcCeEeeeEEEccCCeEEEE
Confidence            5899999999999999753211110                               001233344444455556678999


Q ss_pred             EeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH----HHHH
Q 040835           50 WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT----EDAK  125 (206)
Q Consensus        50 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~----~~~~  125 (206)
                      |||||++.|.......+..+|++|+|+|+.....-.. .+.+..+....  ..++++++||+|+........    ++..
T Consensus        85 iDtPGh~~f~~~~~~~~~~aD~allVVda~~G~~~qt-~~~~~~~~~~~--~~~iivviNK~D~~~~~~~~~~~i~~~~~  161 (406)
T TIGR02034        85 ADTPGHEQYTRNMATGASTADLAVLLVDARKGVLEQT-RRHSYIASLLG--IRHVVLAVNKMDLVDYDEEVFENIKKDYL  161 (406)
T ss_pred             EeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCCcccc-HHHHHHHHHcC--CCcEEEEEEecccccchHHHHHHHHHHHH
Confidence            9999999987666677899999999999986532111 11111222221  246889999999864221111    2233


Q ss_pred             HHHHHcC---CeEEEeccCCCCCHHH
Q 040835          126 EFAEKEG---LCFMETSALESTNVEL  148 (206)
Q Consensus       126 ~~~~~~~---~~~~~~Sa~~~~~v~~  148 (206)
                      .+....+   ++++++||++|+|+++
T Consensus       162 ~~~~~~~~~~~~iipiSA~~g~ni~~  187 (406)
T TIGR02034       162 AFAEQLGFRDVTFIPLSALKGDNVVS  187 (406)
T ss_pred             HHHHHcCCCCccEEEeecccCCCCcc
Confidence            3334444   4699999999999885

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).

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=99.63  E-value=8e-15  Score=110.39  Aligned_cols=148  Identities=21%  Similarity=0.192  Sum_probs=102.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------hhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------AVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i   73 (206)
                      ++|.|++|||||+++|++........+.  +|.....-++...+..+++.|+||.-.-.       .......++||++|
T Consensus        68 lVGfPsvGKStLL~~LTnt~seva~y~F--TTl~~VPG~l~Y~ga~IQild~Pgii~gas~g~grG~~vlsv~R~ADlIi  145 (365)
T COG1163          68 LVGFPSVGKSTLLNKLTNTKSEVADYPF--TTLEPVPGMLEYKGAQIQLLDLPGIIEGASSGRGRGRQVLSVARNADLII  145 (365)
T ss_pred             EEcCCCccHHHHHHHHhCCCccccccCc--eecccccceEeecCceEEEEcCcccccCcccCCCCcceeeeeeccCCEEE
Confidence            5899999999999999998776555554  34444444555667889999999853321       22445678999999


Q ss_pred             EEeeCCChhh-HHHHHHHHHHHHhc-------------------------------------------------------
Q 040835           74 LVYDITKRQS-FDNVARWLEELRGH-------------------------------------------------------   97 (206)
Q Consensus        74 ~v~d~~~~~s-~~~~~~~~~~~~~~-------------------------------------------------------   97 (206)
                      +|+|+....+ .+.+.+.+....-.                                                       
T Consensus       146 iVld~~~~~~~~~~i~~ELe~~GIrlnk~~p~V~I~kk~~gGI~i~~t~~l~~~d~~~ir~iL~Ey~I~nA~V~Ir~dvT  225 (365)
T COG1163         146 IVLDVFEDPHHRDIIERELEDVGIRLNKRPPDVTIKKKESGGIRINGTGPLTHLDEDTVRAILREYRIHNADVLIREDVT  225 (365)
T ss_pred             EEEecCCChhHHHHHHHHHHhcCeEecCCCCceEEEEeccCCEEEecccccccCCHHHHHHHHHHhCcccceEEEecCCc
Confidence            9999986543 33333222211100                                                       


Q ss_pred             ---------C-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           98 ---------A-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        98 ---------~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                               . -.-+|.++|+||+|+..     .++...+.+..  ..+.+||..+.|++++.+.+.+.+
T Consensus       226 lDd~id~l~~nrvY~p~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         226 LDDLIDALEGNRVYKPALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             HHHHHHHHhhcceeeeeEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence                     0 01378899999999863     55556666554  688899999999998887776654

>PRK13351 elongation factor G; Reviewed

Probab=99.62  E-value=1.1e-14  Score=124.29  Aligned_cols=110  Identities=18%  Similarity=0.206  Sum_probs=79.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC--------C-----CCc---cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFS--------L-----DSK---ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~--------~-----~~~---~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|..++|||||+++|+...-.        .     ...   ...+.++......+.+....+.+|||||+.+|...+..
T Consensus        13 iiG~~~~GKTtL~~~ll~~~g~~~~~~~v~~~~~~~d~~~~e~~r~~ti~~~~~~~~~~~~~i~liDtPG~~df~~~~~~   92 (687)
T PRK13351         13 ILAHIDAGKTTLTERILFYTGKIHKMGEVEDGTTVTDWMPQEQERGITIESAATSCDWDNHRINLIDTPGHIDFTGEVER   92 (687)
T ss_pred             EECCCCCcchhHHHHHHHhcCCccccccccCCcccCCCCHHHHhcCCCcccceEEEEECCEEEEEEECCCcHHHHHHHHH
Confidence            5899999999999999853210        0     000   01233343334445566788999999999999888999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      +++.+|++|+|+|+++.........| ..+..   .++|+++++||+|+.
T Consensus        93 ~l~~aD~~ilVvd~~~~~~~~~~~~~-~~~~~---~~~p~iiviNK~D~~  138 (687)
T PRK13351         93 SLRVLDGAVVVFDAVTGVQPQTETVW-RQADR---YGIPRLIFINKMDRV  138 (687)
T ss_pred             HHHhCCEEEEEEeCCCCCCHHHHHHH-HHHHh---cCCCEEEEEECCCCC
Confidence            99999999999999987655444444 22322   468999999999975

>PLN00043 elongation factor 1-alpha; Provisional

Probab=99.62  E-value=1.5e-14  Score=117.18  Aligned_cols=143  Identities=17%  Similarity=0.192  Sum_probs=98.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC--------------------------C---CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL--------------------------D---SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~--------------------------~---~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|+.++|||||+.+|+...-..                          .   .....+.++......+......+.++|
T Consensus        12 i~Ghvd~GKSTL~g~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~a~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liD   91 (447)
T PLN00043         12 VIGHVDSGKSTTTGHLIYKLGGIDKRVIERFEKEAAEMNKRSFKYAWVLDKLKAERERGITIDIALWKFETTKYYCTVID   91 (447)
T ss_pred             EEecCCCCHHHHHHHHHHHhCCCcHHHHHHHhhhhhhhcccchhhhhhhcCCHhHHhcCceEEEEEEEecCCCEEEEEEE
Confidence            58999999999999987521100                          0   011124455555555666778899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhH-------HHHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCCCCC---
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSF-------DNVARWLEELRGHADKNI-IIMLVGNKSDLETLRAVP---  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~-------~~~~~~~~~~~~~~~~~~-p~ivv~nK~D~~~~~~~~---  120 (206)
                      +||+++|.......+..+|++|+|+|+++.. +       ...++.+.....   .++ ++++++||+|+.. ...+   
T Consensus        92 tPGh~df~~~~~~g~~~aD~aIlVVda~~G~-~e~g~~~~~qT~eh~~~~~~---~gi~~iIV~vNKmD~~~-~~~~~~~  166 (447)
T PLN00043         92 APGHRDFIKNMITGTSQADCAVLIIDSTTGG-FEAGISKDGQTREHALLAFT---LGVKQMICCCNKMDATT-PKYSKAR  166 (447)
T ss_pred             CCCHHHHHHHHHhhhhhccEEEEEEEcccCc-eecccCCCchHHHHHHHHHH---cCCCcEEEEEEcccCCc-hhhhHHH
Confidence            9999999988888999999999999998731 2       122332222222   356 4788999999752 1111   


Q ss_pred             ----HHHHHHHHHHcC-----CeEEEeccCCCCCHHH
Q 040835          121 ----TEDAKEFAEKEG-----LCFMETSALESTNVEL  148 (206)
Q Consensus       121 ----~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~  148 (206)
                          .+++..++...|     ++++++|+++|+|+.+
T Consensus       167 ~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        167 YDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             HHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence                345666666665     5799999999999854

>PRK00049 elongation factor Tu; Reviewed

Probab=99.61  E-value=1.7e-14  Score=115.45  Aligned_cols=140  Identities=17%  Similarity=0.149  Sum_probs=92.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC------C--------CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFS------L--------DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~------~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|+.....      .        ......+.+.......+...+..+.++||||+..|.......+
T Consensus        17 iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~d~~~~E~~rg~Ti~~~~~~~~~~~~~i~~iDtPG~~~f~~~~~~~~   96 (396)
T PRK00049         17 TIGHVDHGKTTLTAAITKVLAKKGGAEAKAYDQIDKAPEEKARGITINTAHVEYETEKRHYAHVDCPGHADYVKNMITGA   96 (396)
T ss_pred             EEeECCCCHHHHHHHHHHhhhhccCCcccchhhccCChHHHhcCeEEeeeEEEEcCCCeEEEEEECCCHHHHHHHHHhhh
Confidence            5899999999999999973110      0        0011235555555555555567889999999988877777778


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCC---CHHHHHHHHHHc-----CCeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV---PTEDAKEFAEKE-----GLCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~~~~---~~~~~~~~~~~~-----~~~~~~  137 (206)
                      ..+|++++|+|+.++.. .....++..+..   .++|.+ +++||+|+......   ...++..+....     +++++.
T Consensus        97 ~~aD~~llVVDa~~g~~-~qt~~~~~~~~~---~g~p~iiVvvNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~~~iv~  172 (396)
T PRK00049         97 AQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIR  172 (396)
T ss_pred             ccCCEEEEEEECCCCCc-hHHHHHHHHHHH---cCCCEEEEEEeecCCcchHHHHHHHHHHHHHHHHhcCCCccCCcEEE
Confidence            99999999999986432 222333333333   357875 68999998642221   112344444443     367999


Q ss_pred             eccCCCC
Q 040835          138 TSALEST  144 (206)
Q Consensus       138 ~Sa~~~~  144 (206)
                      +|++++.
T Consensus       173 iSa~~g~  179 (396)
T PRK00049        173 GSALKAL  179 (396)
T ss_pred             eeccccc
Confidence            9999875

>PLN03126 Elongation factor Tu; Provisional

Probab=99.61  E-value=1.1e-14  Score=118.45  Aligned_cols=142  Identities=17%  Similarity=0.127  Sum_probs=94.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC------CC--------CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEF------SL--------DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~------~~--------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|+....      ..        ......+.+.......+...+..+.+||+||++.|.......+
T Consensus        86 iiGhvd~GKSTLi~~Ll~~~~~i~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~liDtPGh~~f~~~~~~g~  165 (478)
T PLN03126         86 TIGHVDHGKTTLTAALTMALASMGGSAPKKYDEIDAAPEERARGITINTATVEYETENRHYAHVDCPGHADYVKNMITGA  165 (478)
T ss_pred             EECCCCCCHHHHHHHHHHhhhhhccccccccccccCChhHHhCCeeEEEEEEEEecCCcEEEEEECCCHHHHHHHHHHHH
Confidence            589999999999999995211      00        0112234555555555555667889999999999887777778


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHc-----CCeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKE-----GLCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~-----~~~~~~  137 (206)
                      ..+|++++|+|+.+.... ..++++..+..   .++| +++++||+|+......   ..+++..+....     .++++.
T Consensus       166 ~~aD~ailVVda~~G~~~-qt~e~~~~~~~---~gi~~iIvvvNK~Dl~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~vp  241 (478)
T PLN03126        166 AQMDGAILVVSGADGPMP-QTKEHILLAKQ---VGVPNMVVFLNKQDQVDDEELLELVELEVRELLSSYEFPGDDIPIIS  241 (478)
T ss_pred             hhCCEEEEEEECCCCCcH-HHHHHHHHHHH---cCCCeEEEEEecccccCHHHHHHHHHHHHHHHHHhcCCCcCcceEEE
Confidence            899999999999865322 22333333333   3577 7889999998642211   112445555554     467999


Q ss_pred             eccCCCCCH
Q 040835          138 TSALESTNV  146 (206)
Q Consensus       138 ~Sa~~~~~v  146 (206)
                      +|+.++.++
T Consensus       242 ~Sa~~g~n~  250 (478)
T PLN03126        242 GSALLALEA  250 (478)
T ss_pred             EEccccccc
Confidence            999988543

>KOG0462 consensus Elongation factor-type GTP-binding protein [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=8.8e-15  Score=116.71  Aligned_cols=151  Identities=21%  Similarity=0.225  Sum_probs=106.2

Q ss_pred             CCCCHHHHHHHHhcCCCCCCC-------------ccccceeeEEEEEEE---CCeEEEEEEEeCCCchhhhhhhHhHhcC
Q 040835            5 SAVGKSQLLARFARDEFSLDS-------------KATIGVEFQTKTLVI---HHKNVKAQIWDTAGQERYRAVTSAYYRG   68 (206)
Q Consensus         5 ~~~GKTtLl~~l~~~~~~~~~-------------~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~   68 (206)
                      -.=|||||..+|+...-....             ..--|+++...+..+   ++..+.++++||||+-+|.......+..
T Consensus        69 VDHGKSTLaDrLLe~tg~i~~~~~q~q~LDkl~vERERGITIkaQtasify~~~~~ylLNLIDTPGHvDFs~EVsRslaa  148 (650)
T KOG0462|consen   69 VDHGKSTLADRLLELTGTIDNNIGQEQVLDKLQVERERGITIKAQTASIFYKDGQSYLLNLIDTPGHVDFSGEVSRSLAA  148 (650)
T ss_pred             ecCCcchHHHHHHHHhCCCCCCCchhhhhhhhhhhhhcCcEEEeeeeEEEEEcCCceEEEeecCCCcccccceehehhhh
Confidence            346999999999863110000             111245555444433   3455899999999999999888888999


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHHHcCCeEEEeccCCCCCHH
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEFAEKEGLCFMETSALESTNVE  147 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  147 (206)
                      +|++|+|+|++..........++..+.    .+.-+|.|+||+|+...+. .-..++.+++.....+++.+||++|.|+.
T Consensus       149 c~G~lLvVDA~qGvqAQT~anf~lAfe----~~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~  224 (650)
T KOG0462|consen  149 CDGALLVVDASQGVQAQTVANFYLAFE----AGLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVE  224 (650)
T ss_pred             cCceEEEEEcCcCchHHHHHHHHHHHH----cCCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHH
Confidence            999999999998766555555555554    3677999999999953211 11233334444445579999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          148 LAFLTVLTEIYR  159 (206)
Q Consensus       148 ~~~~~l~~~i~~  159 (206)
                      ++|..+++++..
T Consensus       225 ~lL~AII~rVPp  236 (650)
T KOG0462|consen  225 ELLEAIIRRVPP  236 (650)
T ss_pred             HHHHHHHhhCCC
Confidence            999999987743

>KOG1145 consensus Mitochondrial translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.61  E-value=2.2e-14  Score=114.51  Aligned_cols=148  Identities=20%  Similarity=0.224  Sum_probs=109.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |||.-.=|||||+..|.+..+.......++-.+....+.++ ....+.+.||||+..|..++..-...+|++++|+.+.|
T Consensus       158 iMGHVDHGKTTLLD~lRks~VAA~E~GGITQhIGAF~V~~p-~G~~iTFLDTPGHaAF~aMRaRGA~vtDIvVLVVAadD  236 (683)
T KOG1145|consen  158 IMGHVDHGKTTLLDALRKSSVAAGEAGGITQHIGAFTVTLP-SGKSITFLDTPGHAAFSAMRARGANVTDIVVLVVAADD  236 (683)
T ss_pred             EeecccCChhhHHHHHhhCceehhhcCCccceeceEEEecC-CCCEEEEecCCcHHHHHHHHhccCccccEEEEEEEccC
Confidence            58999999999999999988765554444444555555555 34778999999999999999999999999999999988


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC---------CeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG---------LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~---------~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .-    ..+.+..+......++|++|.+||+|.+   ..+.+....-...+|         ..++++||++|+|++.+-+
T Consensus       237 GV----mpQT~EaIkhAk~A~VpiVvAinKiDkp---~a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~e  309 (683)
T KOG1145|consen  237 GV----MPQTLEAIKHAKSANVPIVVAINKIDKP---GANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEE  309 (683)
T ss_pred             Cc----cHhHHHHHHHHHhcCCCEEEEEeccCCC---CCCHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHH
Confidence            52    1223333444445689999999999974   334444443333333         4689999999999998887


Q ss_pred             HHHHH
Q 040835          152 TVLTE  156 (206)
Q Consensus       152 ~l~~~  156 (206)
                      .++-.
T Consensus       310 aill~  314 (683)
T KOG1145|consen  310 AILLL  314 (683)
T ss_pred             HHHHH
Confidence            66543

>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=99.60  E-value=9.7e-15  Score=97.47  Aligned_cols=103  Identities=21%  Similarity=0.175  Sum_probs=64.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchh---------hhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQER---------YRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d   70 (206)
                      |+|.+|+|||||+|+|++......+ .+..+.......+.+++  ..+.++||||...         ........+..+|
T Consensus         4 iiG~~~~GKSTlin~l~~~~~~~~~~~~~~T~~~~~~~~~~~~--~~~~~vDtpG~~~~~~~~~~~~~~~~~~~~~~~~d   81 (116)
T PF01926_consen    4 IIGRPNVGKSTLINALTGKKLAKVSNIPGTTRDPVYGQFEYNN--KKFILVDTPGINDGESQDNDGKEIRKFLEQISKSD   81 (116)
T ss_dssp             EEESTTSSHHHHHHHHHTSTSSEESSSTTSSSSEEEEEEEETT--EEEEEEESSSCSSSSHHHHHHHHHHHHHHHHCTES
T ss_pred             EECCCCCCHHHHHHHHhccccccccccccceeeeeeeeeeece--eeEEEEeCCCCcccchhhHHHHHHHHHHHHHHHCC
Confidence            5899999999999999986432222 22212222223334444  4457999999532         1112333448999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ++++|+|.+++.. +....++..+.    .+.|+++|+||
T Consensus        82 ~ii~vv~~~~~~~-~~~~~~~~~l~----~~~~~i~v~NK  116 (116)
T PF01926_consen   82 LIIYVVDASNPIT-EDDKNILRELK----NKKPIILVLNK  116 (116)
T ss_dssp             EEEEEEETTSHSH-HHHHHHHHHHH----TTSEEEEEEES
T ss_pred             EEEEEEECCCCCC-HHHHHHHHHHh----cCCCEEEEEcC
Confidence            9999999877322 22334444442    47999999998

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 ....

>cd01852 AIG1 AIG1 (avrRpt2-induced gene 1)

Probab=99.60  E-value=4.3e-14  Score=102.98  Aligned_cols=157  Identities=15%  Similarity=0.088  Sum_probs=90.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------h-h---hHhHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------A-V---TSAYYRGA   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~-~---~~~~~~~~   69 (206)
                      ++|.+|+|||||+|+|++...........+.+...........+..+.++||||.....       . +   ......+.
T Consensus         5 lvG~~g~GKSsl~N~ilg~~~~~~~~~~~~~T~~~~~~~~~~~~~~i~viDTPG~~d~~~~~~~~~~~i~~~~~~~~~g~   84 (196)
T cd01852           5 LVGKTGAGKSATGNTILGREVFESKLSASSVTKTCQKESAVWDGRRVNVIDTPGLFDTSVSPEQLSKEIVRCLSLSAPGP   84 (196)
T ss_pred             EECCCCCCHHHHHHHhhCCCccccccCCCCcccccceeeEEECCeEEEEEECcCCCCccCChHHHHHHHHHHHHhcCCCC
Confidence            58999999999999999976543332111222222222222244678999999954321       1 1   11224678


Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCC------CHHHHHHHHHHcCCeEEEeccC
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAV------PTEDAKEFAEKEGLCFMETSAL  141 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~------~~~~~~~~~~~~~~~~~~~Sa~  141 (206)
                      |++|+|+++.+ .+.. ....+..+....+  .-.++++++|+.|......+      .......+.+..+-.++..+..
T Consensus        85 ~~illVi~~~~-~t~~-d~~~l~~l~~~fg~~~~~~~ivv~T~~d~l~~~~~~~~~~~~~~~l~~l~~~c~~r~~~f~~~  162 (196)
T cd01852          85 HAFLLVVPLGR-FTEE-EEQAVETLQELFGEKVLDHTIVLFTRGDDLEGGTLEDYLENSCEALKRLLEKCGGRYVAFNNK  162 (196)
T ss_pred             EEEEEEEECCC-cCHH-HHHHHHHHHHHhChHhHhcEEEEEECccccCCCcHHHHHHhccHHHHHHHHHhCCeEEEEeCC
Confidence            99999999876 2221 2223333333222  22578899999996532211      1244566666666666555543


Q ss_pred             -----CCCCHHHHHHHHHHHHHH
Q 040835          142 -----ESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       142 -----~~~~v~~~~~~l~~~i~~  159 (206)
                           .+.++.+++..+.+.+..
T Consensus       163 ~~~~~~~~q~~~Ll~~i~~~~~~  185 (196)
T cd01852         163 AKGEEQEQQVKELLAKVESMVKE  185 (196)
T ss_pred             CCcchhHHHHHHHHHHHHHHHHh
Confidence                 455667666666665554

This represents Arabidoposis protein AIG1 that appears to be involved in plant resistance to bacteria. The Arabidopsis disease resistance gene RPS2 is involved in recognition of bacterial pathogens carrying the avirulence gene avrRpt2. AIG1 exhibits RPS2- and avrRpt1-dependent induction early after infection with Pseudomonas syringae carrying avrRpt2. This subfamily also includes IAN-4 protein, which has GTP-binding activity and shares sequence homology with a novel family of putative GTP-binding proteins: the immuno-associated nucleotide (IAN) family. The evolutionary conservation of the IAN family provides a unique example of a plant pathogen response gene conserved in animals. The IAN/IMAP subfamily has been proposed to regulate apoptosis in vertebrates and angiosperm plants, particularly in relation to cancer, diabetes, and infections. The human IAN genes were renamed GIMAP (GTPase of the immunity associated proteins).

>KOG1191 consensus Mitochondrial GTPase [Translation, ribosomal structure and biogenesis]

Probab=99.60  E-value=6.3e-15  Score=116.32  Aligned_cols=160  Identities=26%  Similarity=0.263  Sum_probs=109.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-h--------hhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-A--------VTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~--------~~~~~~~~~d~   71 (206)
                      ++|+||||||||+|.|...+....++.. |+|.......++..++++.+.||+|..+-. .        .....+..+|+
T Consensus       273 IvGrPNvGKSSLlNaL~~~drsIVSpv~-GTTRDaiea~v~~~G~~v~L~DTAGiRe~~~~~iE~~gI~rA~k~~~~adv  351 (531)
T KOG1191|consen  273 IVGRPNVGKSSLLNALSREDRSIVSPVP-GTTRDAIEAQVTVNGVPVRLSDTAGIREESNDGIEALGIERARKRIERADV  351 (531)
T ss_pred             EEcCCCCCHHHHHHHHhcCCceEeCCCC-CcchhhheeEeecCCeEEEEEeccccccccCChhHHHhHHHHHHHHhhcCE
Confidence            5899999999999999999987776554 788888888888888999999999976511 1        12345678999


Q ss_pred             EEEEeeCCC--hhhHHHHHHHHHHHHhcC------CCCCcEEEEEeCCCCCcC-CCCCHHHHHHHHHHcC---Ce-EEEe
Q 040835           72 AMLVYDITK--RQSFDNVARWLEELRGHA------DKNIIIMLVGNKSDLETL-RAVPTEDAKEFAEKEG---LC-FMET  138 (206)
Q Consensus        72 ~i~v~d~~~--~~s~~~~~~~~~~~~~~~------~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~---~~-~~~~  138 (206)
                      +++|+|+..  -++-..+.+.+.......      ....|++++.||.|+... ++....... +....+   .+ ..++
T Consensus       352 i~~vvda~~~~t~sd~~i~~~l~~~~~g~~~~~~~~~~~~~i~~~nk~D~~s~~~~~~~~~~~-~~~~~~~~~~~i~~~v  430 (531)
T KOG1191|consen  352 ILLVVDAEESDTESDLKIARILETEGVGLVVIVNKMEKQRIILVANKSDLVSKIPEMTKIPVV-YPSAEGRSVFPIVVEV  430 (531)
T ss_pred             EEEEecccccccccchHHHHHHHHhccceEEEeccccccceEEEechhhccCccccccCCcee-ccccccCcccceEEEe
Confidence            999999943  222223333443333222      134789999999998643 222221111 122122   33 4459


Q ss_pred             ccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          139 SALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       139 Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      |+.+++|+..+...+...+.....
T Consensus       431 s~~tkeg~~~L~~all~~~~~~~~  454 (531)
T KOG1191|consen  431 SCTTKEGCERLSTALLNIVERLVV  454 (531)
T ss_pred             eechhhhHHHHHHHHHHHHHHhhc
Confidence            999999999999988888776643

>PLN03127 Elongation factor Tu; Provisional

Probab=99.59  E-value=4.4e-14  Score=114.36  Aligned_cols=152  Identities=16%  Similarity=0.131  Sum_probs=93.4

Q ss_pred             CccCCCCCHHHHHHHHhcC------CCCCC--------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARD------EFSLD--------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~------~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|.+.      .....        .....++++......+...+..+.++||||+..|.......+
T Consensus        66 iiGhvd~GKSTL~~~L~~~~~~~g~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~~iDtPGh~~f~~~~~~g~  145 (447)
T PLN03127         66 TIGHVDHGKTTLTAAITKVLAEEGKAKAVAFDEIDKAPEEKARGITIATAHVEYETAKRHYAHVDCPGHADYVKNMITGA  145 (447)
T ss_pred             EECcCCCCHHHHHHHHHhHHHHhhcccceeeccccCChhHhhcCceeeeeEEEEcCCCeEEEEEECCCccchHHHHHHHH
Confidence            5899999999999999732      11000        011134556655666666667899999999988876666666


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC---HHHHHHHHHHc-----CCeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVP---TEDAKEFAEKE-----GLCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~---~~~~~~~~~~~-----~~~~~~  137 (206)
                      ..+|++++|+|+++... ....+.+..+..   .++| +++++||+|+.......   ..++..+....     .++++.
T Consensus       146 ~~aD~allVVda~~g~~-~qt~e~l~~~~~---~gip~iIvviNKiDlv~~~~~~~~i~~~i~~~l~~~~~~~~~vpiip  221 (447)
T PLN03127        146 AQMDGGILVVSAPDGPM-PQTKEHILLARQ---VGVPSLVVFLNKVDVVDDEELLELVEMELRELLSFYKFPGDEIPIIR  221 (447)
T ss_pred             hhCCEEEEEEECCCCCc-hhHHHHHHHHHH---cCCCeEEEEEEeeccCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEE
Confidence            78999999999986532 122233333333   3578 57889999986422211   11233333332     357888


Q ss_pred             eccC---CCCC-------HHHHHHHHHHH
Q 040835          138 TSAL---ESTN-------VELAFLTVLTE  156 (206)
Q Consensus       138 ~Sa~---~~~~-------v~~~~~~l~~~  156 (206)
                      +|+.   ++.|       +.++++.+.+.
T Consensus       222 ~Sa~sa~~g~n~~~~~~~i~~Ll~~l~~~  250 (447)
T PLN03127        222 GSALSALQGTNDEIGKNAILKLMDAVDEY  250 (447)
T ss_pred             eccceeecCCCcccccchHHHHHHHHHHh
Confidence            8875   4444       44555554443

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=99.58  E-value=2.9e-14  Score=115.48  Aligned_cols=145  Identities=16%  Similarity=0.133  Sum_probs=95.1

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCC---------------------------CCccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSL---------------------------DSKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~---------------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|+.++|||||+.+|+...  ...                           ......+.+.......+......+.|+|
T Consensus        12 i~Ghvd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~s~~~a~~~D~~~~Er~rGiTid~~~~~~~~~~~~i~lID   91 (446)
T PTZ00141         12 VIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAEMGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYYFTIID   91 (446)
T ss_pred             EEecCCCCHHHHHHHHHHHcCCcChHHHHHHhhHHHhhCCcchhhhhhhcCChHHHhcCEeEEeeeEEEccCCeEEEEEE
Confidence            58999999999999998621  100                           0001124555555555667778899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhh---H---HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCc--CCCCC--
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQS---F---DNVARWLEELRGHADKNII-IMLVGNKSDLET--LRAVP--  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~--~~~~~--  120 (206)
                      |||+.+|.......+..+|++|+|+|++...-   +   ...++.+..+..   .++| +++++||+|...  ..+..  
T Consensus        92 tPGh~~f~~~~~~g~~~aD~ailVVda~~G~~e~~~~~~~qT~eh~~~~~~---~gi~~iiv~vNKmD~~~~~~~~~~~~  168 (446)
T PTZ00141         92 APGHRDFIKNMITGTSQADVAILVVASTAGEFEAGISKDGQTREHALLAFT---LGVKQMIVCINKMDDKTVNYSQERYD  168 (446)
T ss_pred             CCChHHHHHHHHHhhhhcCEEEEEEEcCCCceecccCCCccHHHHHHHHHH---cCCCeEEEEEEccccccchhhHHHHH
Confidence            99999998888888899999999999986520   1   122222222332   3566 679999999532  11111  


Q ss_pred             --HHHHHHHHHHcC-----CeEEEeccCCCCCHHH
Q 040835          121 --TEDAKEFAEKEG-----LCFMETSALESTNVEL  148 (206)
Q Consensus       121 --~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~  148 (206)
                        .+++..+....+     ++++.+|+.+|+|+.+
T Consensus       169 ~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        169 EIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             HHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence              233444444433     5799999999999864

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=99.58  E-value=2.6e-14  Score=120.81  Aligned_cols=145  Identities=24%  Similarity=0.190  Sum_probs=91.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc------------c-------------------ccceeeEEEEEEECCeEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK------------A-------------------TIGVEFQTKTLVIHHKNVKAQI   49 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~------------~-------------------~~~~~~~~~~~~~~~~~~~~~i   49 (206)
                      ++|.+++|||||+++|+...-.....            .                   .-+.++......+...+..+.+
T Consensus        29 iiGh~~~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~tr~~~~~~~~~d~~~~E~~rg~Tid~~~~~~~~~~~~~~l  108 (632)
T PRK05506         29 TCGSVDDGKSTLIGRLLYDSKMIFEDQLAALERDSKKVGTQGDEIDLALLVDGLAAEREQGITIDVAYRYFATPKRKFIV  108 (632)
T ss_pred             EECCCCCChHHHHHHHHHHhCCcCHHHHHHHHHHHHhcCCCCCcceeeeeccCCHHHHhCCcCceeeeeEEccCCceEEE
Confidence            58999999999999999743221100            0                   0123333333344455667899


Q ss_pred             EeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH----HHHH
Q 040835           50 WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT----EDAK  125 (206)
Q Consensus        50 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~----~~~~  125 (206)
                      +||||++.|.......+..+|++++|+|+.....-. ....+..+....  ..+++|++||+|+........    .++.
T Consensus       109 iDtPG~~~f~~~~~~~~~~aD~~llVvda~~g~~~~-t~e~~~~~~~~~--~~~iivvvNK~D~~~~~~~~~~~i~~~i~  185 (632)
T PRK05506        109 ADTPGHEQYTRNMVTGASTADLAIILVDARKGVLTQ-TRRHSFIASLLG--IRHVVLAVNKMDLVDYDQEVFDEIVADYR  185 (632)
T ss_pred             EECCChHHHHHHHHHHHHhCCEEEEEEECCCCcccc-CHHHHHHHHHhC--CCeEEEEEEecccccchhHHHHHHHHHHH
Confidence            999999988666666788999999999997643211 111111222221  257889999999863111111    2233


Q ss_pred             HHHHHcC---CeEEEeccCCCCCHHH
Q 040835          126 EFAEKEG---LCFMETSALESTNVEL  148 (206)
Q Consensus       126 ~~~~~~~---~~~~~~Sa~~~~~v~~  148 (206)
                      .+....+   ++++.+||+++.|+++
T Consensus       186 ~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        186 AFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             HHHHHcCCCCccEEEEecccCCCccc
Confidence            3344544   4699999999999874

>KOG1490 consensus GTP-binding protein CRFG/NOG1 (ODN superfamily) [General function prediction only]

Probab=99.57  E-value=1.7e-14  Score=114.07  Aligned_cols=169  Identities=15%  Similarity=0.141  Sum_probs=119.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-----hhh----hhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-----YRA----VTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-----~~~----~~~~~~~~~d~   71 (206)
                      |+|.|+||||||+|.+..........+.  ++.....-.++.....++++||||.-.     ...    ......+---+
T Consensus       173 lcG~PNVGKSSf~~~vtradvevqpYaF--TTksL~vGH~dykYlrwQViDTPGILD~plEdrN~IEmqsITALAHLraa  250 (620)
T KOG1490|consen  173 VCGYPNVGKSSFNNKVTRADDEVQPYAF--TTKLLLVGHLDYKYLRWQVIDTPGILDRPEEDRNIIEMQIITALAHLRSA  250 (620)
T ss_pred             EecCCCCCcHhhcccccccccccCCccc--ccchhhhhhhhhheeeeeecCCccccCcchhhhhHHHHHHHHHHHHhhhh
Confidence            6899999999999999987776555444  233333334456677889999999421     111    11222333456


Q ss_pred             EEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH---HHHHHHHcCCeEEEeccCCCCCH
Q 040835           72 AMLVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED---AKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus        72 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~---~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                      |+|++|++...  +......++..+..+. .+.|+|+|+||+|......++.+.   +..+....+++++++|..+.+||
T Consensus       251 VLYfmDLSe~CGySva~QvkLfhsIKpLF-aNK~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegV  329 (620)
T KOG1490|consen  251 VLYFMDLSEMCGYSVAAQVKLYHSIKPLF-ANKVTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGV  329 (620)
T ss_pred             heeeeechhhhCCCHHHHHHHHHHhHHHh-cCCceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhce
Confidence            88888988644  5566666777776655 689999999999997666665543   33444455689999999999999


Q ss_pred             HHHHHHHHHHHHHHhhhhhcccCCCC
Q 040835          147 ELAFLTVLTEIYRIVSKKALTANDES  172 (206)
Q Consensus       147 ~~~~~~l~~~i~~~~~~~~~~~~~~~  172 (206)
                      .++.....+.++.++-..++.++...
T Consensus       330 m~Vrt~ACe~LLa~RVE~Klks~~~~  355 (620)
T KOG1490|consen  330 MDVRTTACEALLAARVEQKLKSESRV  355 (620)
T ss_pred             eeHHHHHHHHHHHHHHHHHhhhhhhh
Confidence            99999999999888877766654433

>PRK12740 elongation factor G; Reviewed

Probab=99.57  E-value=9.9e-14  Score=118.24  Aligned_cols=109  Identities=17%  Similarity=0.205  Sum_probs=76.5

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCCC----------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhH
Q 040835            2 IGDSAVGKSQLLARFARDEFSLDS----------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAY   65 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   65 (206)
                      +|++++|||||+++|+...-....                ....+.++......+.+.+..+.+|||||+..+...+...
T Consensus         1 ig~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~d~~~~e~~rgiTi~~~~~~~~~~~~~i~liDtPG~~~~~~~~~~~   80 (668)
T PRK12740          1 VGHSGAGKTTLTEAILFYTGAIHRIGEVEDGTTTMDFMPEERERGISITSAATTCEWKGHKINLIDTPGHVDFTGEVERA   80 (668)
T ss_pred             CCCCCCcHHHHHHHHHHhcCCCccCccccCCcccCCCChHHHhcCCCeeeceEEEEECCEEEEEEECCCcHHHHHHHHHH
Confidence            699999999999999653211000                0012334444444455567889999999999888888888


Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      +..+|++++|+|+++.........| ..+..   .++|+++++||+|+.
T Consensus        81 l~~aD~vllvvd~~~~~~~~~~~~~-~~~~~---~~~p~iiv~NK~D~~  125 (668)
T PRK12740         81 LRVLDGAVVVVCAVGGVEPQTETVW-RQAEK---YGVPRIIFVNKMDRA  125 (668)
T ss_pred             HHHhCeEEEEEeCCCCcCHHHHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            9999999999999886554433333 22222   468999999999974

>PRK12739 elongation factor G; Reviewed

Probab=99.56  E-value=9.9e-14  Score=118.29  Aligned_cols=110  Identities=15%  Similarity=0.127  Sum_probs=77.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-----CC-----------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-----DS-----------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-----~~-----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+++|||||+++|+...-..     ..           ....+++.......+.+.+..+.+|||||+..|...+..
T Consensus        13 iiGh~~~GKsTL~~~ll~~~g~~~~~~~v~~~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~i~liDTPG~~~f~~e~~~   92 (691)
T PRK12739         13 IMAHIDAGKTTTTERILYYTGKSHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKGHRINIIDTPGHVDFTIEVER   92 (691)
T ss_pred             EECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCChhHhhcCCCccceeEEEEECCEEEEEEcCCCHHHHHHHHHH
Confidence            58999999999999997521100     00           011234444444555556788999999999888888888


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .++.+|++|+|+|+.+....... ..+..+..   .++|+++++||+|+.
T Consensus        93 al~~~D~~ilVvDa~~g~~~qt~-~i~~~~~~---~~~p~iv~iNK~D~~  138 (691)
T PRK12739         93 SLRVLDGAVAVFDAVSGVEPQSE-TVWRQADK---YGVPRIVFVNKMDRI  138 (691)
T ss_pred             HHHHhCeEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECCCCC
Confidence            99999999999999876433222 22222332   468999999999985

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=99.56  E-value=9.4e-14  Score=109.38  Aligned_cols=146  Identities=21%  Similarity=0.250  Sum_probs=104.5

Q ss_pred             CCCCHHHHHHHHhcCCC---------------CCCCccccceeeEEEEEEE-----CCeEEEEEEEeCCCchhhhhhhHh
Q 040835            5 SAVGKSQLLARFARDEF---------------SLDSKATIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         5 ~~~GKTtLl~~l~~~~~---------------~~~~~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      -.=|||||..+|+...-               ..+...  |.++....+.+     ++..+.++++||||+-.|.-....
T Consensus        18 IDHGKSTLaDRlle~t~~~~~Rem~~Q~LDsMdiERER--GITIKaq~v~l~Yk~~~g~~Y~lnlIDTPGHVDFsYEVSR   95 (603)
T COG0481          18 IDHGKSTLADRLLELTGGLSEREMRAQVLDSMDIERER--GITIKAQAVRLNYKAKDGETYVLNLIDTPGHVDFSYEVSR   95 (603)
T ss_pred             ecCCcchHHHHHHHHhcCcChHHHHHHhhhhhhhHhhc--CceEEeeEEEEEEEeCCCCEEEEEEcCCCCccceEEEehh
Confidence            34699999999986311               111222  33443333322     456799999999999998877778


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH-HHHHHHcCCe---EEEecc
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA-KEFAEKEGLC---FMETSA  140 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~~~~---~~~~Sa  140 (206)
                      .+..|.++++|+|++..-....+.+.+..+..    +.-++-|+||+|+..   .+.+.. .++..-.|++   .+.+||
T Consensus        96 SLAACEGalLvVDAsQGveAQTlAN~YlAle~----~LeIiPViNKIDLP~---Adpervk~eIe~~iGid~~dav~~SA  168 (603)
T COG0481          96 SLAACEGALLVVDASQGVEAQTLANVYLALEN----NLEIIPVLNKIDLPA---ADPERVKQEIEDIIGIDASDAVLVSA  168 (603)
T ss_pred             hHhhCCCcEEEEECccchHHHHHHHHHHHHHc----CcEEEEeeecccCCC---CCHHHHHHHHHHHhCCCcchheeEec
Confidence            88899999999999987666666666666553    577899999999963   223333 3333445664   788999


Q ss_pred             CCCCCHHHHHHHHHHHHHH
Q 040835          141 LESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       141 ~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++|.||+++++.+++.+..
T Consensus       169 KtG~gI~~iLe~Iv~~iP~  187 (603)
T COG0481         169 KTGIGIEDVLEAIVEKIPP  187 (603)
T ss_pred             ccCCCHHHHHHHHHhhCCC
Confidence            9999999999999987643

>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=99.56  E-value=8e-15  Score=103.85  Aligned_cols=110  Identities=24%  Similarity=0.375  Sum_probs=67.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHh---HhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVTSA---YYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~---~~~~~d~~i~v~   76 (206)
                      ++|+.|+|||+|+.+|..+...+..... ..+.   ...+ ......+.++|+||+.+.+.....   +...+.++|||+
T Consensus         8 L~Gps~SGKTaLf~~L~~~~~~~T~tS~-e~n~---~~~~~~~~~~~~~lvD~PGH~rlr~~~~~~~~~~~~~k~IIfvv   83 (181)
T PF09439_consen    8 LVGPSGSGKTALFSQLVNGKTVPTVTSM-ENNI---AYNVNNSKGKKLRLVDIPGHPRLRSKLLDELKYLSNAKGIIFVV   83 (181)
T ss_dssp             EE-STTSSHHHHHHHHHHSS---B---S-SEEE---ECCGSSTCGTCECEEEETT-HCCCHHHHHHHHHHGGEEEEEEEE
T ss_pred             EEcCCCCCHHHHHHHHhcCCcCCeeccc-cCCc---eEEeecCCCCEEEEEECCCcHHHHHHHHHhhhchhhCCEEEEEE
Confidence            5899999999999999998554333222 1111   1111 224567899999999887664444   478899999999


Q ss_pred             eCCC-hhhHHHHHHHH-HHHHhc--CCCCCcEEEEEeCCCCC
Q 040835           77 DITK-RQSFDNVARWL-EELRGH--ADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        77 d~~~-~~s~~~~~~~~-~~~~~~--~~~~~p~ivv~nK~D~~  114 (206)
                      |.+. ...+..+.+++ ..+...  ....+|++|+.||.|+.
T Consensus        84 DSs~~~~~~~~~Ae~Ly~iL~~~~~~~~~~piLIacNK~Dl~  125 (181)
T PF09439_consen   84 DSSTDQKELRDVAEYLYDILSDTEVQKNKPPILIACNKQDLF  125 (181)
T ss_dssp             ETTTHHHHHHHHHHHHHHHHHHHHCCTT--EEEEEEE-TTST
T ss_pred             eCccchhhHHHHHHHHHHHHHhhhhccCCCCEEEEEeCcccc
Confidence            9974 33455544433 333221  24679999999999985

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=99.55  E-value=3.8e-13  Score=117.15  Aligned_cols=144  Identities=18%  Similarity=0.178  Sum_probs=96.0

Q ss_pred             CCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeE-----------E-----EEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            7 VGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN-----------V-----KAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         7 ~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~-----------~-----~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      ++||||+.+|.+..+.......++-.+....+..+...           .     .+.+|||||++.|..+....+..+|
T Consensus       472 ~~KTtLLD~iR~t~v~~~EaGGITQ~IGa~~v~~~~~~~~~~~~~~~~~~~~~~p~i~fiDTPGhe~F~~lr~~g~~~aD  551 (1049)
T PRK14845        472 VHNTTLLDKIRKTRVAKKEAGGITQHIGATEIPIDVIKKICGPLLKLLKAEIKIPGLLFIDTPGHEAFTSLRKRGGSLAD  551 (1049)
T ss_pred             cccccHHHHHhCCCcccccCCCceeccceEEEEecccccccccccccccccCCcCcEEEEECCCcHHHHHHHHhhcccCC
Confidence            67999999999988865544443444444444433110           1     2799999999999888888889999


Q ss_pred             EEEEEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC----------------HHHHH----HH
Q 040835           71 GAMLVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP----------------TEDAK----EF  127 (206)
Q Consensus        71 ~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~----------------~~~~~----~~  127 (206)
                      ++++|+|+++   +.+++.+.    .+..   .++|+++++||+|+.......                .++..    .+
T Consensus       552 ivlLVVDa~~Gi~~qT~e~I~----~lk~---~~iPiIVViNKiDL~~~~~~~~~~~~~~~~~~q~~~~~~el~~~l~~v  624 (1049)
T PRK14845        552 LAVLVVDINEGFKPQTIEAIN----ILRQ---YKTPFVVAANKIDLIPGWNISEDEPFLLNFNEQDQHALTELEIKLYEL  624 (1049)
T ss_pred             EEEEEEECcccCCHhHHHHHH----HHHH---cCCCEEEEEECCCCccccccccchhhhhhhhhhHHHHHHHHHHHHHHH
Confidence            9999999987   33333332    2222   368999999999985322110                01110    01


Q ss_pred             ---HHH-------------c--CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          128 ---AEK-------------E--GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       128 ---~~~-------------~--~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                         ..+             +  .++++++||++|+|+++++.++....
T Consensus       625 ~~~L~~~G~~~e~~~~~~d~~~~v~iVpVSA~tGeGId~Ll~~l~~l~  672 (1049)
T PRK14845        625 IGKLYELGFDADRFDRVQDFTRTVAIVPVSAKTGEGIPELLMMVAGLA  672 (1049)
T ss_pred             hhHHHhcCcchhhhhhhhhcCCCceEEEEEcCCCCCHHHHHHHHHHhh
Confidence               011             1  35799999999999999998776543

>TIGR00503 prfC peptide chain release factor 3

Probab=99.55  E-value=1.1e-13  Score=114.02  Aligned_cols=110  Identities=17%  Similarity=0.244  Sum_probs=77.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--------------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--------------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+|.+++|||||+++|+...-...                    .....+.++......+++.+..+.+|||||+..|..
T Consensus        16 iiGh~~aGKTTL~e~Ll~~~g~i~~~g~v~~~g~~~~t~~D~~~~E~~rgisi~~~~~~~~~~~~~inliDTPG~~df~~   95 (527)
T TIGR00503        16 IISHPDAGKTTITEKVLLYGGAIQTAGAVKGRGSQRHAKSDWMEMEKQRGISITTSVMQFPYRDCLVNLLDTPGHEDFSE   95 (527)
T ss_pred             EEcCCCCCHHHHHHHHHHhCCCccccceeccccccccccCCCCHHHHhcCCcEEEEEEEEeeCCeEEEEEECCChhhHHH
Confidence            589999999999999864211000                    001124445555566667788999999999998887


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .....++.+|++|+|+|+++... .....++.....   .++|+++++||+|+.
T Consensus        96 ~~~~~l~~aD~aIlVvDa~~gv~-~~t~~l~~~~~~---~~~PiivviNKiD~~  145 (527)
T TIGR00503        96 DTYRTLTAVDNCLMVIDAAKGVE-TRTRKLMEVTRL---RDTPIFTFMNKLDRD  145 (527)
T ss_pred             HHHHHHHhCCEEEEEEECCCCCC-HHHHHHHHHHHh---cCCCEEEEEECcccc
Confidence            77778899999999999987421 122333333322   468999999999985

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.

>PRK09866 hypothetical protein; Provisional

Probab=99.54  E-value=6.9e-13  Score=108.99  Aligned_cols=108  Identities=13%  Similarity=0.134  Sum_probs=72.5

Q ss_pred             EEEEEeCCCchh-----hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC
Q 040835           46 KAQIWDTAGQER-----YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP  120 (206)
Q Consensus        46 ~~~i~D~~G~~~-----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~  120 (206)
                      .+.++||||...     ........+..+|+++||+|.+...+..+ ...+..+.... .+.|+++|+||+|+.......
T Consensus       231 QIIFVDTPGIhk~~~~~L~k~M~eqL~eADvVLFVVDat~~~s~~D-eeIlk~Lkk~~-K~~PVILVVNKIDl~dreedd  308 (741)
T PRK09866        231 QLTLLDTPGPNEAGQPHLQKMLNQQLARASAVLAVLDYTQLKSISD-EEVREAILAVG-QSVPLYVLVNKFDQQDRNSDD  308 (741)
T ss_pred             CEEEEECCCCCCccchHHHHHHHHHHhhCCEEEEEEeCCCCCChhH-HHHHHHHHhcC-CCCCEEEEEEcccCCCcccch
Confidence            467899999643     23334457899999999999987433222 22333343322 236999999999985433323


Q ss_pred             HHHHHHHHHH----cC---CeEEEeccCCCCCHHHHHHHHHH
Q 040835          121 TEDAKEFAEK----EG---LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus       121 ~~~~~~~~~~----~~---~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      .+.+..+...    .+   ..+|.+||+.+.|++++++.+..
T Consensus       309 kE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        309 ADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             HHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            4555555332    22   25999999999999999998887

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=99.54  E-value=1e-13  Score=112.15  Aligned_cols=111  Identities=16%  Similarity=0.137  Sum_probs=74.8

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~  122 (206)
                      ..+.++|+||++.|.......+..+|++++|+|+.+........+.+..+....  -.++++++||+|+......  ..+
T Consensus       117 ~~i~~IDtPGH~~fi~~m~~g~~~~D~alLVVda~~g~~~~qT~ehl~i~~~lg--i~~iIVvlNKiDlv~~~~~~~~~~  194 (460)
T PTZ00327        117 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAANESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLVKEAQAQDQYE  194 (460)
T ss_pred             ceEeeeeCCCHHHHHHHHHHHHhhCCEEEEEEECCCCccchhhHHHHHHHHHcC--CCcEEEEEecccccCHHHHHHHHH
Confidence            368899999999988777777889999999999987421112222222222221  2468999999998632211  122


Q ss_pred             HHHHHHHH---cCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          123 DAKEFAEK---EGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       123 ~~~~~~~~---~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++..+...   .+.+++.+||+++.|++.+++.|.+.+
T Consensus       195 ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        195 EIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             HHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            33333332   257899999999999998888887644

>TIGR00484 EF-G translation elongation factor EF-G

Probab=99.53  E-value=1.4e-13  Score=117.49  Aligned_cols=111  Identities=16%  Similarity=0.165  Sum_probs=79.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-----CCc-----------cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-----DSK-----------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-----~~~-----------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+++|||||+++|+...-..     ...           ...+++.......+.+.+..+.+|||||+..+...+..
T Consensus        15 iiG~~~~GKsTL~~~ll~~~g~~~~~~~~~~g~~~~D~~~~e~~rgiti~~~~~~~~~~~~~i~liDTPG~~~~~~~~~~   94 (689)
T TIGR00484        15 ISAHIDAGKTTTTERILFYTGRIHKIGEVHDGAATMDWMEQEKERGITITSAATTVFWKGHRINIIDTPGHVDFTVEVER   94 (689)
T ss_pred             EECCCCCCHHHHHHHHHHhCCCccccccccCCccccCCCHHHHhcCCCEecceEEEEECCeEEEEEECCCCcchhHHHHH
Confidence            58999999999999997421111     000           01244555555555566788999999999888878888


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      .++.+|++|+|+|+.+.........| ..+..   .++|+++++||+|+..
T Consensus        95 ~l~~~D~~ilVvda~~g~~~~~~~~~-~~~~~---~~~p~ivviNK~D~~~  141 (689)
T TIGR00484        95 SLRVLDGAVAVLDAVGGVQPQSETVW-RQANR---YEVPRIAFVNKMDKTG  141 (689)
T ss_pred             HHHHhCEEEEEEeCCCCCChhHHHHH-HHHHH---cCCCEEEEEECCCCCC
Confidence            99999999999999876544332222 22332   4689999999999864

After peptide bond formation, this elongation factor of bacteria and organelles catalyzes the translocation of the tRNA-mRNA complex, with its attached nascent polypeptide chain, from the A-site to the P-site of the ribosome. Every completed bacterial genome has at least one copy, but some species have additional EF-G-like proteins. The closest homolog to canonical (e.g. E. coli) EF-G in the spirochetes clusters as if it is derived from mitochondrial forms, while a more distant second copy is also present. Synechocystis PCC6803 has a few proteins more closely related to EF-G than to any other characterized protein. Two of these resemble E. coli EF-G more closely than does the best match from the spirochetes; it may be that both function as authentic EF-G.

>PRK00007 elongation factor G; Reviewed

Probab=99.51  E-value=5.8e-13  Score=113.62  Aligned_cols=110  Identities=16%  Similarity=0.190  Sum_probs=76.4

Q ss_pred             CccCCCCCHHHHHHHHhcC--CC-CC--CC-----------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARD--EF-SL--DS-----------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~-~~--~~-----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+++|||||+++|+..  .. ..  ..           ....++++......+.+.+..+.++||||+..|......
T Consensus        15 iiG~~~~GKsTL~~~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~rg~ti~~~~~~~~~~~~~~~liDTPG~~~f~~ev~~   94 (693)
T PRK00007         15 IMAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTCFWKDHRINIIDTPGHVDFTIEVER   94 (693)
T ss_pred             EECCCCCCHHHHHHHHHHhcCCccccccccCCcccCCCCHHHHhCCCCEeccEEEEEECCeEEEEEeCCCcHHHHHHHHH
Confidence            5899999999999999741  11 00  00           012244555555555566788999999999888777777


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .++.+|++|+|+|+...........| ..+..   .++|.++++||+|+.
T Consensus        95 al~~~D~~vlVvda~~g~~~qt~~~~-~~~~~---~~~p~iv~vNK~D~~  140 (693)
T PRK00007         95 SLRVLDGAVAVFDAVGGVEPQSETVW-RQADK---YKVPRIAFVNKMDRT  140 (693)
T ss_pred             HHHHcCEEEEEEECCCCcchhhHHHH-HHHHH---cCCCEEEEEECCCCC
Confidence            88999999999998866433332222 22333   468899999999974

>PRK09602 translation-associated GTPase; Reviewed

Probab=99.51  E-value=9.7e-13  Score=104.88  Aligned_cols=79  Identities=19%  Similarity=0.278  Sum_probs=51.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccc--eeeEEEEEE-------------------EC-CeEEEEEEEeCCCc---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIG--VEFQTKTLV-------------------IH-HKNVKAQIWDTAGQ---   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~--~~~~~~~~~-------------------~~-~~~~~~~i~D~~G~---   55 (206)
                      ++|.||||||||+|+|++..+.....+..+  .+.....+.                   .+ .....+.+||+||.   
T Consensus         6 ivG~pnvGKSTlfn~Lt~~~~~~~~y~f~t~~p~~g~~~v~~~~~~~r~~~~~~~~~~~~~~~~~~~~i~i~D~aGl~~g   85 (396)
T PRK09602          6 LVGKPNVGKSTFFNAATLADVEIANYPFTTIDPNVGVAYVRVECPCKELGVKCNPRNGKCIDGTRFIPVELIDVAGLVPG   85 (396)
T ss_pred             EECCCCCCHHHHHHHHhCCcccccCCCCcceeeeeeeeeeccCCchhhhhhhhccccccccCCcceeeEEEEEcCCcCCC
Confidence            589999999999999998876542222211  111111110                   11 23467899999994   


Q ss_pred             -hhhhhhhHhH---hcCCcEEEEEeeCC
Q 040835           56 -ERYRAVTSAY---YRGAVGAMLVYDIT   79 (206)
Q Consensus        56 -~~~~~~~~~~---~~~~d~~i~v~d~~   79 (206)
                       +....+...+   ++.+|++++|+|..
T Consensus        86 a~~g~glg~~fL~~ir~ad~ll~Vvd~~  113 (396)
T PRK09602         86 AHEGRGLGNQFLDDLRQADALIHVVDAS  113 (396)
T ss_pred             ccchhhHHHHHHHHHHHCCEEEEEEeCC
Confidence             2233344444   88999999999996

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=99.46  E-value=3.3e-13  Score=87.90  Aligned_cols=133  Identities=20%  Similarity=0.175  Sum_probs=92.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc----hhhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----ERYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----~~~~~~~~~~~~~~d~~i~v~   76 (206)
                      ++|..|+|||||.++|.+......  .|...       .+...    ..+||||.    ..+.........++|++++|-
T Consensus         6 ~vG~~gcGKTtL~q~L~G~~~lyk--KTQAv-------e~~d~----~~IDTPGEy~~~~~~Y~aL~tt~~dadvi~~v~   72 (148)
T COG4917           6 FVGQVGCGKTTLFQSLYGNDTLYK--KTQAV-------EFNDK----GDIDTPGEYFEHPRWYHALITTLQDADVIIYVH   72 (148)
T ss_pred             EecccccCchhHHHHhhcchhhhc--cccee-------eccCc----cccCCchhhhhhhHHHHHHHHHhhccceeeeee
Confidence            589999999999999998766332  22111       11111    25699993    344444556678999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      .++++++.-.     ..+...  -..|+|-+++|.|+..  ..+.+..+.+..+.|. ++|++|+.++.|+++++..|..
T Consensus        73 ~and~~s~f~-----p~f~~~--~~k~vIgvVTK~DLae--d~dI~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917          73 AANDPESRFP-----PGFLDI--GVKKVIGVVTKADLAE--DADISLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             cccCccccCC-----cccccc--cccceEEEEecccccc--hHhHHHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            9998864211     111111  2456899999999975  2344567788888886 5999999999999999988753

>COG5256 TEF1 Translation elongation factor EF-1alpha (GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.46  E-value=4.8e-13  Score=104.03  Aligned_cols=148  Identities=20%  Similarity=0.220  Sum_probs=97.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-----------------C------------CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-----------------D------------SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-----------------~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      |+|+..+|||||+-+|+...-..                 .            ...--|.++......+....+.+.|+|
T Consensus        12 ~iGHVD~GKSTl~GrLly~~G~id~~tmeK~~~ea~~~gK~sf~fawvlD~tkeERerGvTi~~~~~~fet~k~~~tIiD   91 (428)
T COG5256          12 FIGHVDAGKSTLVGRLLYDLGEIDKRTMEKLEKEAKELGKESFKFAWVLDKTKEERERGVTIDVAHSKFETDKYNFTIID   91 (428)
T ss_pred             EEcCCCCCchhhhhhhHHHhCCCCHHHHHHHHHHHHhcCCCceEEEEEecCChhHHhcceEEEEEEEEeecCCceEEEee
Confidence            58999999999999998631100                 0            011135566666666666677899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hH--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH---
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SF--DNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED---  123 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~--~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~---  123 (206)
                      +||++.|-.....-..+||++|+|+|..+.+   .|  ....+.+..+.+..+ -..++|++||+|...-++-..++   
T Consensus        92 aPGHrdFvknmItGasqAD~aVLVV~a~~~efE~g~~~~gQtrEH~~La~tlG-i~~lIVavNKMD~v~wde~rf~ei~~  170 (428)
T COG5256          92 APGHRDFVKNMITGASQADVAVLVVDARDGEFEAGFGVGGQTREHAFLARTLG-IKQLIVAVNKMDLVSWDEERFEEIVS  170 (428)
T ss_pred             CCchHHHHHHhhcchhhccEEEEEEECCCCccccccccCCchhHHHHHHHhcC-CceEEEEEEcccccccCHHHHHHHHH
Confidence            9999999888888889999999999998763   11  111122222222222 24588999999986522222222   


Q ss_pred             -HHHHHHHcC-----CeEEEeccCCCCCHHHH
Q 040835          124 -AKEFAEKEG-----LCFMETSALESTNVELA  149 (206)
Q Consensus       124 -~~~~~~~~~-----~~~~~~Sa~~~~~v~~~  149 (206)
                       +..+.+..|     ++|+.+|+..|.|+.+.
T Consensus       171 ~v~~l~k~~G~~~~~v~FIPiSg~~G~Nl~~~  202 (428)
T COG5256         171 EVSKLLKMVGYNPKDVPFIPISGFKGDNLTKK  202 (428)
T ss_pred             HHHHHHHHcCCCccCCeEEecccccCCccccc
Confidence             233444444     46999999999997653

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=99.44  E-value=5e-13  Score=100.34  Aligned_cols=96  Identities=19%  Similarity=0.192  Sum_probs=77.8

Q ss_pred             hhhhhhhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040835           56 ERYRAVTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC  134 (206)
Q Consensus        56 ~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  134 (206)
                      +++..+.+.++.++|.+++|+|++++. ++..+.+|+..+..   .++|+++|+||+|+...+....+....+ ...+++
T Consensus        24 eR~~~L~r~~~~n~D~viiV~d~~~p~~s~~~l~r~l~~~~~---~~i~~vIV~NK~DL~~~~~~~~~~~~~~-~~~g~~   99 (245)
T TIGR00157        24 ERKNELTRPIVANIDQIVIVSSAVLPELSLNQLDRFLVVAEA---QNIEPIIVLNKIDLLDDEDMEKEQLDIY-RNIGYQ   99 (245)
T ss_pred             cccceEECcccccCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECcccCCCHHHHHHHHHHH-HHCCCe
Confidence            567777888999999999999999887 89999999876654   4799999999999965444333334433 457899


Q ss_pred             EEEeccCCCCCHHHHHHHHHH
Q 040835          135 FMETSALESTNVELAFLTVLT  155 (206)
Q Consensus       135 ~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ++++||+++.|++++|..+..
T Consensus       100 v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157       100 VLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             EEEEecCCchhHHHHHhhhcC
Confidence            999999999999999988753

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG3905 consensus Dynein light intermediate chain [Cell motility]

Probab=99.41  E-value=1.1e-11  Score=93.65  Aligned_cols=156  Identities=18%  Similarity=0.345  Sum_probs=110.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe--EEEEEEEeCCCchhhhhhhHhHhcCC----cEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK--NVKAQIWDTAGQERYRAVTSAYYRGA----VGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~----d~~i~   74 (206)
                      |+|..|+|||||+.+|-+..-   ..+..+..+-...+.-+.+  -..+.+|-..|.-.+..+....+...    -+||+
T Consensus        57 vlGdn~sGKtsLi~klqg~e~---~KkgsgLeY~yl~V~de~RDd~tr~~VWiLDGd~~h~~LLk~al~ats~aetlvil  133 (473)
T KOG3905|consen   57 VLGDNGSGKTSLISKLQGSET---VKKGSGLEYLYLHVHDEDRDDLTRCNVWILDGDLYHKGLLKFALPATSLAETLVIL  133 (473)
T ss_pred             EEccCCCchhHHHHHhhcccc---cCCCCCcceEEEecccccchhhhhcceEEecCchhhhhHHhhcccccCccceEEEE
Confidence            589999999999999988652   3333345554444433222  24577898888777666665555433    36888


Q ss_pred             EeeCCChhh-HHHHHHHHHHHHhc--------------------------------------------------------
Q 040835           75 VYDITKRQS-FDNVARWLEELRGH--------------------------------------------------------   97 (206)
Q Consensus        75 v~d~~~~~s-~~~~~~~~~~~~~~--------------------------------------------------------   97 (206)
                      +.|++++.. ++.+..|...+.+.                                                        
T Consensus       134 tasms~Pw~~lesLqkWa~Vl~ehidkl~i~~ee~ka~rqk~~k~wQeYvep~e~~pgsp~~r~t~~~~~~de~~llPL~  213 (473)
T KOG3905|consen  134 TASMSNPWTLLESLQKWASVLREHIDKLKIPPEEMKAGRQKLEKDWQEYVEPGEDQPGSPQRRTTVVGSSADEHVLLPLG  213 (473)
T ss_pred             EEecCCcHHHHHHHHHHHHHHHHHHHhccCCHHHHHHHHHHHHHHHHHhcCccccCCCCcccccccccCccccccccccC
Confidence            999999854 46667777655433                                                        


Q ss_pred             -----CCCCCcEEEEEeCCCCC----cCCCCC-------HHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           98 -----ADKNIIIMLVGNKSDLE----TLRAVP-------TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        98 -----~~~~~p~ivv~nK~D~~----~~~~~~-------~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                           .+.++|++||.+|+|..    .+.+..       ...++.||-.+|..+|.+|++...|++-+..+|+++++-
T Consensus       214 ~dtLt~NlGi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG  291 (473)
T KOG3905|consen  214 QDTLTHNLGIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYG  291 (473)
T ss_pred             CcchhhcCCCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcC
Confidence                 23568999999999972    222221       133688888999999999999999999999999988753

>PF03029 ATP_bind_1: Conserved hypothetical ATP binding protein; InterPro: IPR004130 Members of this family are found in a range of archaea and eukaryotes and have hypothesised ATP binding activity

Probab=99.41  E-value=3.7e-13  Score=100.37  Aligned_cols=111  Identities=18%  Similarity=0.113  Sum_probs=58.8

Q ss_pred             EEEEEeCCCchhhhhhhHhHh--------cCCcEEEEEeeCCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040835           46 KAQIWDTAGQERYRAVTSAYY--------RGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKSDLETL  116 (206)
Q Consensus        46 ~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  116 (206)
                      .+.|+|||||.++...+....        ...-++++++|..-..+ ...+..++..+.-....+.|.+.|+||+|+...
T Consensus        92 ~y~l~DtPGQiElf~~~~~~~~i~~~L~~~~~~~~v~LvD~~~~~~~~~f~s~~L~s~s~~~~~~lP~vnvlsK~Dl~~~  171 (238)
T PF03029_consen   92 DYLLFDTPGQIELFTHSDSGRKIVERLQKNGRLVVVFLVDSSFCSDPSKFVSSLLLSLSIMLRLELPHVNVLSKIDLLSK  171 (238)
T ss_dssp             SEEEEE--SSHHHHHHSHHHHHHHHTSSS----EEEEEE-GGG-SSHHHHHHHHHHHHHHHHHHTSEEEEEE--GGGS-H
T ss_pred             cEEEEeCCCCEEEEEechhHHHHHHHHhhhcceEEEEEEecccccChhhHHHHHHHHHHHHhhCCCCEEEeeeccCcccc
Confidence            689999999988766554433        34557888888763322 223333333333222357999999999998641


Q ss_pred             CCCC--------------------HHHHHHHHHH---cC-C-eEEEeccCCCCCHHHHHHHHHHHH
Q 040835          117 RAVP--------------------TEDAKEFAEK---EG-L-CFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       117 ~~~~--------------------~~~~~~~~~~---~~-~-~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      . ..                    ....++++.-   .+ . .++.+|+.+++++.+++..+-+.+
T Consensus       172 ~-~~~~l~~~~d~~~l~~~~~~~~~~l~~~i~~~l~~~~~~~~f~pls~~~~~~~~~L~~~id~a~  236 (238)
T PF03029_consen  172 Y-LEFILEWFEDPDSLEDLLESDYKKLNEEIAELLDDFGLVIRFIPLSSKDGEGMEELLAAIDKAN  236 (238)
T ss_dssp             H-HHHHHHHHHSHHHHHHHHHT-HHHHHHHHHHHCCCCSSS---EE-BTTTTTTHHHHHHHHHHHH
T ss_pred             h-hHHHHHHhcChHHHHHHHHHHHHHHHHHHHHHHhhcCCCceEEEEECCChHHHHHHHHHHHHHh
Confidence            1 00                    0001111221   22 3 699999999999999988876543

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>TIGR00490 aEF-2 translation elongation factor aEF-2

Probab=99.39  E-value=1.4e-12  Score=111.70  Aligned_cols=110  Identities=16%  Similarity=0.135  Sum_probs=74.0

Q ss_pred             CccCCCCCHHHHHHHHhcC---------------CCCCC---CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARD---------------EFSLD---SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~---------------~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      |+|+.++|||||+++|+..               .+.+.   ...|+...........++.++.+.+|||||+..|....
T Consensus        24 ivGh~~~GKTTL~~~ll~~~g~i~~~~~~~~~~~d~~~~e~~rg~Ti~~~~~~~~~~~~~~~~~i~liDTPG~~~f~~~~  103 (720)
T TIGR00490        24 IVAHIDHGKTTLSDNLLAGAGMISEELAGQQLYLDFDEQEQERGITINAANVSMVHEYEGNEYLINLIDTPGHVDFGGDV  103 (720)
T ss_pred             EEEeCCCCHHHHHHHHHHHcCCCchhcCCceeecCCCHHHHhhcchhhcccceeEEeecCCceEEEEEeCCCccccHHHH
Confidence            5899999999999999752               11111   01111111111222356778899999999999888888


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ...++.+|++|+|+|+.+.........|.. ..   ..+.|.++++||+|..
T Consensus       104 ~~al~~aD~~llVvda~~g~~~~t~~~~~~-~~---~~~~p~ivviNKiD~~  151 (720)
T TIGR00490       104 TRAMRAVDGAIVVVCAVEGVMPQTETVLRQ-AL---KENVKPVLFINKVDRL  151 (720)
T ss_pred             HHHHHhcCEEEEEEecCCCCCccHHHHHHH-HH---HcCCCEEEEEEChhcc
Confidence            889999999999999987432222222221 22   2357888999999974

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.

>PRK13768 GTPase; Provisional

Probab=99.39  E-value=2.4e-12  Score=97.17  Aligned_cols=109  Identities=17%  Similarity=0.135  Sum_probs=68.9

Q ss_pred             EEEEEeCCCchhh---hhhhHhHhc---C--CcEEEEEeeCCChhhHHHH-H-HHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           46 KAQIWDTAGQERY---RAVTSAYYR---G--AVGAMLVYDITKRQSFDNV-A-RWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        46 ~~~i~D~~G~~~~---~~~~~~~~~---~--~d~~i~v~d~~~~~s~~~~-~-~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      .+.+||+||+.+.   ...+..+++   .  .+++++++|.......... . .|+...... ..++|+++|+||+|+..
T Consensus        98 ~~~~~d~~g~~~~~~~~~~~~~~~~~l~~~~~~~ii~liD~~~~~~~~d~~~~~~l~~~~~~-~~~~~~i~v~nK~D~~~  176 (253)
T PRK13768         98 DYVLVDTPGQMELFAFRESGRKLVERLSGSSKSVVVFLIDAVLAKTPSDFVSLLLLALSVQL-RLGLPQIPVLNKADLLS  176 (253)
T ss_pred             CEEEEeCCcHHHHHhhhHHHHHHHHHHHhcCCeEEEEEechHHhCCHHHHHHHHHHHHHHHH-HcCCCEEEEEEhHhhcC
Confidence            5899999997653   333333322   2  8999999999654432222 1 222211111 24799999999999864


Q ss_pred             CCCCCHHHHH----------------------------HHHHHcC--CeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          116 LRAVPTEDAK----------------------------EFAEKEG--LCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       116 ~~~~~~~~~~----------------------------~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ..+.  +...                            +..+..+  .+++++|+++++|++++++++.+.+
T Consensus       177 ~~~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~~~~~i~~~~~~~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        177 EEEL--ERILKWLEDPEYLLEELKLEKGLQGLLSLELLRALEETGLPVRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             chhH--HHHHHHHhCHHHHHHHHhcccchHHHHHHHHHHHHHHHCCCCcEEEEECCCCcCHHHHHHHHHHHc
Confidence            3221  1111                            1122334  5789999999999999999998765

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=99.38  E-value=5.1e-12  Score=96.41  Aligned_cols=144  Identities=25%  Similarity=0.212  Sum_probs=99.3

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCC-------------------------------CccccceeeEEEEEEECCeEEEEEEE
Q 040835            2 IGDSAVGKSQLLARFARDEFSLD-------------------------------SKATIGVEFQTKTLVIHHKNVKAQIW   50 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~i~   50 (206)
                      +|.-.=|||||+-+|+...-...                               ...-.|+++....-.+.....+|.|-
T Consensus        12 cGSVDDGKSTLIGRLL~Dtk~i~eDQla~l~~dS~~~~t~g~~~D~ALLvDGL~AEREQGITIDVAYRyFsT~KRkFIiA   91 (431)
T COG2895          12 CGSVDDGKSTLIGRLLYDTKAIYEDQLASLERDSKRKGTQGEKIDLALLVDGLEAEREQGITIDVAYRYFSTEKRKFIIA   91 (431)
T ss_pred             eccccCcchhhhhhhhhcchhhhHHHHHHHhcccccccCCCCccchhhhhhhhHHHHhcCceEEEEeeecccccceEEEe
Confidence            68888899999999997411000                               01114566666555566677889999


Q ss_pred             eCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH----HHH
Q 040835           51 DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED----AKE  126 (206)
Q Consensus        51 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~----~~~  126 (206)
                      ||||++.|....-.-..-||++|+++|+...  +-...+.+..+..+.+ -..+++.+||+|+.+..+-..++    -..
T Consensus        92 DTPGHeQYTRNMaTGASTadlAIlLVDAR~G--vl~QTrRHs~I~sLLG-IrhvvvAVNKmDLvdy~e~~F~~I~~dy~~  168 (431)
T COG2895          92 DTPGHEQYTRNMATGASTADLAILLVDARKG--VLEQTRRHSFIASLLG-IRHVVVAVNKMDLVDYSEEVFEAIVADYLA  168 (431)
T ss_pred             cCCcHHHHhhhhhcccccccEEEEEEecchh--hHHHhHHHHHHHHHhC-CcEEEEEEeeecccccCHHHHHHHHHHHHH
Confidence            9999999987666667789999999999532  3333334444444432 25689999999997644433333    345


Q ss_pred             HHHHcCC---eEEEeccCCCCCHHH
Q 040835          127 FAEKEGL---CFMETSALESTNVEL  148 (206)
Q Consensus       127 ~~~~~~~---~~~~~Sa~~~~~v~~  148 (206)
                      ++.++++   .++++||+.|.||..
T Consensus       169 fa~~L~~~~~~~IPiSAl~GDNV~~  193 (431)
T COG2895         169 FAAQLGLKDVRFIPISALLGDNVVS  193 (431)
T ss_pred             HHHHcCCCcceEEechhccCCcccc
Confidence            6677765   489999999998753

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

Probab=99.37  E-value=1e-11  Score=93.22  Aligned_cols=113  Identities=13%  Similarity=0.107  Sum_probs=64.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh--h--------hhHhHhc--C
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR--A--------VTSAYYR--G   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~--~--------~~~~~~~--~   68 (206)
                      |+|.+|||||||+|+|++.......... +.+..............+.+|||||.....  .        ....++.  .
T Consensus        36 lvG~tGvGKSSliNaLlg~~~~~v~~~~-~~T~~~~~~~~~~~g~~i~vIDTPGl~~~~~~~~~~~~~~~~I~~~l~~~~  114 (249)
T cd01853          36 VLGKTGVGKSSTINSIFGERKAATSAFQ-SETLRVREVSGTVDGFKLNIIDTPGLLESVMDQRVNRKILSSIKRYLKKKT  114 (249)
T ss_pred             EECCCCCcHHHHHHHHhCCCCcccCCCC-CceEEEEEEEEEECCeEEEEEECCCcCcchhhHHHHHHHHHHHHHHHhccC
Confidence            6899999999999999998764332211 112222222222334678999999965331  0        0122332  5


Q ss_pred             CcEEEEEeeCCChh-hHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCc
Q 040835           69 AVGAMLVYDITKRQ-SFDNVARWLEELRGHAD--KNIIIMLVGNKSDLET  115 (206)
Q Consensus        69 ~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~  115 (206)
                      .|++++|..++... ... ....+..+....+  .-.++++|.||+|...
T Consensus       115 idvIL~V~rlD~~r~~~~-d~~llk~I~e~fG~~i~~~~ivV~T~~d~~~  163 (249)
T cd01853         115 PDVVLYVDRLDMYRRDYL-DLPLLRAITDSFGPSIWRNAIVVLTHAASSP  163 (249)
T ss_pred             CCEEEEEEcCCCCCCCHH-HHHHHHHHHHHhChhhHhCEEEEEeCCccCC
Confidence            78888887665422 111 1223333333222  1256999999999853

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.

>TIGR00101 ureG urease accessory protein UreG

Probab=99.36  E-value=1.5e-11  Score=89.59  Aligned_cols=102  Identities=14%  Similarity=0.060  Sum_probs=64.8

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      ..+.++++.|..........   .+|.+|.|+|+.+.+....  .+...+      ...-++++||+|+.+......+..
T Consensus        92 ~D~iiIEt~G~~l~~~~~~~---l~~~~i~vvD~~~~~~~~~--~~~~qi------~~ad~~~~~k~d~~~~~~~~~~~~  160 (199)
T TIGR00101        92 LEMVFIESGGDNLSATFSPE---LADLTIFVIDVAAGDKIPR--KGGPGI------TRSDLLVINKIDLAPMVGADLGVM  160 (199)
T ss_pred             CCEEEEECCCCCcccccchh---hhCcEEEEEEcchhhhhhh--hhHhHh------hhccEEEEEhhhccccccccHHHH
Confidence            45667888884222222221   2677999999987655321  111111      122389999999974223334444


Q ss_pred             HHHHHH--cCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          125 KEFAEK--EGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       125 ~~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .+..+.  .+.++|++|+++|+|++++|+++.+++
T Consensus       161 ~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       161 ERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             HHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            445444  367899999999999999999998664

This model represents UreG, a GTP hydrolase that acts in the assembly of the nickel metallocenter of urease. It is found only in urease-positive species, although some urease-positive species (e.g. Bacillus subtilis) lack this protein. A similar protein, hypB, is an accessory protein for expression of hydrogenase, which also uses nickel.

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=99.36  E-value=3.4e-11  Score=97.51  Aligned_cols=157  Identities=24%  Similarity=0.387  Sum_probs=108.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC--eEEEEEEEeCCCchhhhhhhHhHhcCC----cEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH--KNVKAQIWDTAGQERYRAVTSAYYRGA----VGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~i~D~~G~~~~~~~~~~~~~~~----d~~i~   74 (206)
                      |+|..++|||||+.+|.+..   ...++.+..+....+.-+.  ....+.+|-..|...+..+....+...    -++|+
T Consensus        30 vlG~~~~GKttli~~L~~~e---~~~~~~aLeYty~~v~d~~~dd~~rl~vw~L~g~~~~~~LLk~~lt~~~l~~t~vvI  106 (472)
T PF05783_consen   30 VLGDKGSGKTTLIARLQGIE---DPKKGLALEYTYLDVKDEDRDDLARLNVWELDGDPSHSDLLKFALTPENLPNTLVVI  106 (472)
T ss_pred             EEeCCCCchHHHHHHhhccC---CCCCCcccceEEEeeccCcCCcCceeeEEEcCCCcchHhHhcccCCcccccceEEEE
Confidence            68999999999999987643   3445556666555543322  234689999988766776665555432    36888


Q ss_pred             EeeCCChhhH-HHHHHHHHHHHhc--------------------------------------------------------
Q 040835           75 VYDITKRQSF-DNVARWLEELRGH--------------------------------------------------------   97 (206)
Q Consensus        75 v~d~~~~~s~-~~~~~~~~~~~~~--------------------------------------------------------   97 (206)
                      |+|.+.+..+ +.+..|+..++.+                                                        
T Consensus       107 vlDlS~PW~~~esL~~W~~vl~~~i~~L~~~~e~~~e~~~kl~~~~q~Y~ep~~~~~~~s~~~~~~~~~~~~~~~~~lpl  186 (472)
T PF05783_consen  107 VLDLSKPWNIMESLEKWLSVLREHIEKLKSDPEEREELRQKLERQWQEYVEPGDSSDSGSPNRRSPSSSSSDDESVLLPL  186 (472)
T ss_pred             EecCCChHHHHHHHHHHHHHHHHHHHHhhccHHHHHHHHHHHHHHHHHhhhccccccccCcccccccccccccccccCCC
Confidence            9999997654 4455555443322                                                        


Q ss_pred             ------CCCCCcEEEEEeCCCCC----cCCCC-------CHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           98 ------ADKNIIIMLVGNKSDLE----TLRAV-------PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        98 ------~~~~~p~ivv~nK~D~~----~~~~~-------~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                            .+.++|++||.+|+|..    .+...       ..+-++.++-.+|+.+|.||++...+++-+...|.+.++..
T Consensus       187 ~~g~l~~nlGipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~  266 (472)
T PF05783_consen  187 GEGVLTENLGIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGF  266 (472)
T ss_pred             CCcccccccCcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccC
Confidence                  01248999999999962    21111       12347888889999999999999999999898988877654

The light intermediate chains (LICs) of cytoplasmic dynein consist of multiple isoforms, which undergo post-translational modification to produce a large number of species. DLIC1 is known to be involved in assembly, organisation, and function of centrosomes and mitotic spindles when bound to pericentrin [, ]. DLIC2 is a subunit of cytoplasmic dynein 2 that may play a role in maintaining Golgi organisation by binding cytoplasmic dynein 2 to its Golgi-associated cargo [].

>KOG1144 consensus Translation initiation factor 5B (eIF-5B) [Translation, ribosomal structure and biogenesis]

Probab=99.36  E-value=6e-12  Score=103.85  Aligned_cols=159  Identities=19%  Similarity=0.196  Sum_probs=107.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC----------------CeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------------HKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.-.+|||-|+..+.+..+.......++-.+....+...                ..---+.++||||++.|..++..
T Consensus       480 ilGHVDTGKTKlld~ir~tNVqegeaggitqqIgAt~fp~~ni~e~tk~~~~~~K~~~kvPg~lvIdtpghEsFtnlRsr  559 (1064)
T KOG1144|consen  480 ILGHVDTGKTKLLDKIRGTNVQEGEAGGITQQIGATYFPAENIREKTKELKKDAKKRLKVPGLLVIDTPGHESFTNLRSR  559 (1064)
T ss_pred             EeecccccchHHHHHhhccccccccccceeeeccccccchHHHHHHHHHHHhhhhhhcCCCeeEEecCCCchhhhhhhhc
Confidence            58999999999999999987765544433333322222221                01112688999999999999999


Q ss_pred             HhcCCcEEEEEeeCCCh---hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----CH----------------
Q 040835           65 YYRGAVGAMLVYDITKR---QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV----PT----------------  121 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~----~~----------------  121 (206)
                      ....||++|+|+|+..+   .+++.+       .-+...+.|+||.+||+|..-.+..    ..                
T Consensus       560 gsslC~~aIlvvdImhGlepqtiESi-------~lLR~rktpFivALNKiDRLYgwk~~p~~~i~~~lkkQ~k~v~~EF~  632 (1064)
T KOG1144|consen  560 GSSLCDLAILVVDIMHGLEPQTIESI-------NLLRMRKTPFIVALNKIDRLYGWKSCPNAPIVEALKKQKKDVQNEFK  632 (1064)
T ss_pred             cccccceEEEEeehhccCCcchhHHH-------HHHHhcCCCeEEeehhhhhhcccccCCCchHHHHHHHhhHHHHHHHH
Confidence            99999999999999864   233222       2222357999999999996321100    00                


Q ss_pred             ----HHHHHHHHH-cC-------------CeEEEeccCCCCCHHHHHHHHHHHHHHHhhhhhc
Q 040835          122 ----EDAKEFAEK-EG-------------LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL  166 (206)
Q Consensus       122 ----~~~~~~~~~-~~-------------~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~~~  166 (206)
                          ..+-+|+.+ ++             +.+++|||.+|+||.+++.+|++.....+..+..
T Consensus       633 ~R~~~ii~efaEQgLN~~LyykNk~~~~~vsiVPTSA~sGeGipdLl~llv~ltQk~m~~kl~  695 (1064)
T KOG1144|consen  633 ERLNNIIVEFAEQGLNAELYYKNKEMGETVSIVPTSAISGEGIPDLLLLLVQLTQKTMVEKLA  695 (1064)
T ss_pred             HHHHHHHHHHHHcccchhheeecccccceEEeeecccccCCCcHHHHHHHHHHHHHHHHHHHh
Confidence                001122221 01             2478899999999999999999998888776654

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=99.36  E-value=1.2e-11  Score=96.06  Aligned_cols=106  Identities=12%  Similarity=0.068  Sum_probs=68.2

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PT  121 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~  121 (206)
                      .+.+.|+||+|...-..   .....+|.++++.++...+.+..++.   .+..     ..-++|+||+|+......  ..
T Consensus       148 g~d~viieT~Gv~qs~~---~i~~~aD~vlvv~~p~~gd~iq~~k~---gi~E-----~aDIiVVNKaDl~~~~~a~~~~  216 (332)
T PRK09435        148 GYDVILVETVGVGQSET---AVAGMVDFFLLLQLPGAGDELQGIKK---GIME-----LADLIVINKADGDNKTAARRAA  216 (332)
T ss_pred             CCCEEEEECCCCccchh---HHHHhCCEEEEEecCCchHHHHHHHh---hhhh-----hhheEEeehhcccchhHHHHHH
Confidence            46789999999763322   25677999999987655544443332   1111     223899999998642211  11


Q ss_pred             HHHHHHHHH-------cCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          122 EDAKEFAEK-------EGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       122 ~~~~~~~~~-------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++......       +..+++.+|++++.|++++++.+.+++...
T Consensus       217 ~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~~~l  262 (332)
T PRK09435        217 AEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHRAAL  262 (332)
T ss_pred             HHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            222222221       235799999999999999999999876543

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

Probab=99.36  E-value=1.6e-11  Score=93.73  Aligned_cols=118  Identities=11%  Similarity=0.074  Sum_probs=65.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc-cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh-------hHhHh--cCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK-ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV-------TSAYY--RGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~--~~~d   70 (206)
                      |+|.+|+|||||+|+|++........ .+.+.+........  .+..+.+|||||.......       ...++  ...|
T Consensus        43 lvGktGVGKSSliNsIlG~~v~~vs~f~s~t~~~~~~~~~~--~G~~l~VIDTPGL~d~~~~~e~~~~~ik~~l~~~g~D  120 (313)
T TIGR00991        43 VMGKGGVGKSSTVNSIIGERIATVSAFQSEGLRPMMVSRTR--AGFTLNIIDTPGLIEGGYINDQAVNIIKRFLLGKTID  120 (313)
T ss_pred             EECCCCCCHHHHHHHHhCCCcccccCCCCcceeEEEEEEEE--CCeEEEEEECCCCCchHHHHHHHHHHHHHHhhcCCCC
Confidence            58999999999999999976533221 11122222222222  3577999999996543211       11112  2689


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCC
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVP  120 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~  120 (206)
                      +++||..++...........+..+....+  .-.+++|++|+.|...+...+
T Consensus       121 vVLyV~rLD~~R~~~~DkqlLk~Iqe~FG~~iw~~~IVVfTh~d~~~pd~~~  172 (313)
T TIGR00991       121 VLLYVDRLDAYRVDTLDGQVIRAITDSFGKDIWRKSLVVLTHAQFSPPDGLE  172 (313)
T ss_pred             EEEEEeccCcccCCHHHHHHHHHHHHHhhhhhhccEEEEEECCccCCCCCCC
Confidence            99999665432111111223333332221  235689999999976433333

>PTZ00258 GTP-binding protein; Provisional

Probab=99.36  E-value=2.2e-11  Score=96.39  Aligned_cols=79  Identities=16%  Similarity=0.196  Sum_probs=51.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchh-------h
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQER-------Y   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-------~   58 (206)
                      ++|.||||||||+|+|.+........|..+.......+.+...               ...+.++|+||...       .
T Consensus        26 IVG~PNvGKSTLfnaLt~~~~~v~n~pftTi~p~~g~v~~~d~r~~~l~~~~~~~~~~~aqi~lvDtpGLv~ga~~g~gL  105 (390)
T PTZ00258         26 IVGLPNVGKSTTFNALCKQQVPAENFPFCTIDPNTARVNVPDERFDWLCKHFKPKSIVPAQLDITDIAGLVKGASEGEGL  105 (390)
T ss_pred             EECCCCCChHHHHHHHhcCcccccCCCCCcccceEEEEecccchhhHHHHHcCCcccCCCCeEEEECCCcCcCCcchhHH
Confidence            5899999999999999887764443343232222223333221               23489999999532       1


Q ss_pred             hhhhHhHhcCCcEEEEEeeCC
Q 040835           59 RAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        59 ~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      .......++.+|++++|+|..
T Consensus       106 g~~fL~~Ir~aD~il~VVd~f  126 (390)
T PTZ00258        106 GNAFLSHIRAVDGIYHVVRAF  126 (390)
T ss_pred             HHHHHHHHHHCCEEEEEEeCC
Confidence            112234567899999999973

>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=99.35  E-value=1e-11  Score=91.54  Aligned_cols=156  Identities=19%  Similarity=0.147  Sum_probs=84.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc--ccceeeEEEEEEECCeEEEEEEEeCCCchhh-------hhhh----HhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA--TIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-------RAVT----SAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~----~~~~~   67 (206)
                      |+|.+|+||||++|.+++.........  .............++  ..+.++||||....       ....    ....+
T Consensus         5 llG~tGsGKSs~~N~ilg~~~f~~~~~~~~~t~~~~~~~~~~~g--~~v~VIDTPGl~d~~~~~~~~~~~i~~~l~~~~~   82 (212)
T PF04548_consen    5 LLGKTGSGKSSLGNSILGKEVFKSGSSAKSVTQECQKYSGEVDG--RQVTVIDTPGLFDSDGSDEEIIREIKRCLSLCSP   82 (212)
T ss_dssp             EECSTTSSHHHHHHHHHTSS-SS--TTTSS--SS-EEEEEEETT--EEEEEEE--SSEETTEEHHHHHHHHHHHHHHTTT
T ss_pred             EECCCCCCHHHHHHHHhcccceeeccccCCcccccceeeeeecc--eEEEEEeCCCCCCCcccHHHHHHHHHHHHHhccC
Confidence            589999999999999999877544321  112233333334444  66899999993211       1111    12245


Q ss_pred             CCcEEEEEeeCCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-------HHHHHHHHHHcCCeEEEe
Q 040835           68 GAVGAMLVYDITKRQSFDN--VARWLEELRGHADKNIIIMLVGNKSDLETLRAVP-------TEDAKEFAEKEGLCFMET  138 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~-------~~~~~~~~~~~~~~~~~~  138 (206)
                      +.+++|+|+... +-+...  .-.++..+.... .-..++|+.|..|...+..+.       ...+..+.+..+-.++..
T Consensus        83 g~ha~llVi~~~-r~t~~~~~~l~~l~~~FG~~-~~k~~ivvfT~~d~~~~~~~~~~l~~~~~~~l~~li~~c~~R~~~f  160 (212)
T PF04548_consen   83 GPHAFLLVIPLG-RFTEEDREVLELLQEIFGEE-IWKHTIVVFTHADELEDDSLEDYLKKESNEALQELIEKCGGRYHVF  160 (212)
T ss_dssp             -ESEEEEEEETT-B-SHHHHHHHHHHHHHHCGG-GGGGEEEEEEEGGGGTTTTHHHHHHHHHHHHHHHHHHHTTTCEEEC
T ss_pred             CCeEEEEEEecC-cchHHHHHHHHHHHHHccHH-HHhHhhHHhhhccccccccHHHHHhccCchhHhHHhhhcCCEEEEE
Confidence            789999999988 322211  122222222111 224588888888865433311       123556667777778877


Q ss_pred             ccC------CCCCHHHHHHHHHHHHHHH
Q 040835          139 SAL------ESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       139 Sa~------~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+      +...+.+++..+-+++.+.
T Consensus       161 ~n~~~~~~~~~~qv~~Ll~~ie~mv~~n  188 (212)
T PF04548_consen  161 NNKTKDKEKDESQVSELLEKIEEMVQEN  188 (212)
T ss_dssp             CTTHHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             eccccchhhhHHHHHHHHHHHHHHHHHc
Confidence            766      2234566666655555544

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 ....

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=99.33  E-value=9.7e-12  Score=91.32  Aligned_cols=56  Identities=18%  Similarity=0.044  Sum_probs=41.6

Q ss_pred             CCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          101 NIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       101 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ..|.++++||+|+.........+.....++.  ..+++++|++++.|++++|+++.+.
T Consensus       148 ~~a~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       148 KEADLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             hhCCEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            4678999999999643222333444444444  3789999999999999999999874

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>KOG0090 consensus Signal recognition particle receptor, beta subunit (small G protein superfamily) [Intracellular trafficking, secretion, and vesicular transport]

Probab=99.32  E-value=3.3e-11  Score=85.91  Aligned_cols=109  Identities=19%  Similarity=0.263  Sum_probs=74.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhc---CCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYR---GAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---~~d~~i~v~d   77 (206)
                      ++|+.++|||+|+-.|..+.+.......     .............++++|.||+.+.+.-..++++   .+-+++||+|
T Consensus        43 l~Gl~dSGKT~LF~qL~~gs~~~TvtSi-----epn~a~~r~gs~~~~LVD~PGH~rlR~kl~e~~~~~~~akaiVFVVD  117 (238)
T KOG0090|consen   43 LVGLSDSGKTSLFTQLITGSHRGTVTSI-----EPNEATYRLGSENVTLVDLPGHSRLRRKLLEYLKHNYSAKAIVFVVD  117 (238)
T ss_pred             EEecCCCCceeeeeehhcCCccCeeeee-----ccceeeEeecCcceEEEeCCCcHHHHHHHHHHccccccceeEEEEEe
Confidence            5799999999999999887554333221     1122222222334899999999998887777777   7999999999


Q ss_pred             CCC-hhhHHHHHH-HHHHHHhc--CCCCCcEEEEEeCCCCC
Q 040835           78 ITK-RQSFDNVAR-WLEELRGH--ADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        78 ~~~-~~s~~~~~~-~~~~~~~~--~~~~~p~ivv~nK~D~~  114 (206)
                      ..- .....++.+ +++.+...  +...+|++++-||.|+.
T Consensus       118 Sa~f~k~vrdvaefLydil~~~~~~~~~~~vLIaCNKqDl~  158 (238)
T KOG0090|consen  118 SATFLKNVRDVAEFLYDILLDSRVKKNKPPVLIACNKQDLF  158 (238)
T ss_pred             ccccchhhHHHHHHHHHHHHhhccccCCCCEEEEecchhhh
Confidence            753 223444444 33444333  34678999999999984

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=99.31  E-value=2.9e-11  Score=81.28  Aligned_cols=110  Identities=32%  Similarity=0.346  Sum_probs=77.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc-cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK-ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ++|..|+|||+|+.++....+...+. ++.+                           +......+.+.++.+++|++.+
T Consensus         5 ~~G~~gvGKt~l~~~~~~~~~~~~~~~~t~~---------------------------~~~~~~~~~~s~~~~~~v~~~~   57 (124)
T smart00010        5 GIGDSGVGKVGKSARFVQFPFDYVPTVFTIG---------------------------IDVYDPTSYESFDVVLQCWRVD   57 (124)
T ss_pred             EECCCChhHHHHHHHHhcCCccccCceehhh---------------------------hhhccccccCCCCEEEEEEEcc
Confidence            58999999999999998777754443 3322                           2223345667889999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVE  147 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  147 (206)
                      +..+++.+  |...+....+...|.++++||.|+.....+..++..        .++++|++++.|+.
T Consensus        58 ~~~s~~~~--~~~~i~~~~k~dl~~~~~~nk~dl~~~~~~~~~~~~--------~~~~~s~~~~~~~~  115 (124)
T smart00010       58 DRDSADNK--NVPEVLVGNKSDLPILVGGNRDVLEEERQVATEEGL--------EFAETSAKTPEEGE  115 (124)
T ss_pred             CHHHHHHH--hHHHHHhcCCCCCcEEEEeechhhHhhCcCCHHHHH--------HHHHHhCCCcchhh
Confidence            99888655  776666554566889999999998433333333333        34567889998874

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

>PRK09601 GTP-binding protein YchF; Reviewed

Probab=99.29  E-value=1.9e-10  Score=90.17  Aligned_cols=79  Identities=16%  Similarity=0.137  Sum_probs=50.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchh-------h
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQER-------Y   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-------~   58 (206)
                      ++|.||||||||+|+|++........|..+.......+.+...               ...+.++|+||...       .
T Consensus         7 IVG~PNvGKSTLfnaLt~~~~~v~nypftTi~p~~G~~~v~d~r~~~l~~~~~p~~~~~a~i~lvD~pGL~~~a~~g~gl   86 (364)
T PRK09601          7 IVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGVVPVPDPRLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGL   86 (364)
T ss_pred             EECCCCCCHHHHHHHHhCCCCeecccccccccceEEEEEeccccchhhHHhcCCccccCceEEEEECCCCCCCCChHHHH
Confidence            5899999999999999998754333333222222223333221               13589999999532       1


Q ss_pred             hhhhHhHhcCCcEEEEEeeCC
Q 040835           59 RAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        59 ~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      .......++.+|++++|+|..
T Consensus        87 g~~fL~~i~~aD~li~VVd~f  107 (364)
T PRK09601         87 GNQFLANIREVDAIVHVVRCF  107 (364)
T ss_pred             HHHHHHHHHhCCEEEEEEeCC
Confidence            112233467899999999974

>KOG1707 consensus Predicted Ras related/Rac-GTP binding protein [Defense mechanisms]

Probab=99.28  E-value=7.4e-11  Score=95.30  Aligned_cols=153  Identities=20%  Similarity=0.259  Sum_probs=108.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+.++|||.|++.|+++.+......+....+....+...+....+.+-|.+-. ....+...- ..+|+++++||.++
T Consensus       430 V~G~k~~GKs~lL~sflgr~~~~~~~~~~~~~~avn~v~~~g~~k~LiL~ei~~~-~~~~l~~ke-~~cDv~~~~YDsS~  507 (625)
T KOG1707|consen  430 VVGPKNCGKSALLQSFLGRSMSDNNTGTTKPRYAVNSVEVKGQQKYLILREIGED-DQDFLTSKE-AACDVACLVYDSSN  507 (625)
T ss_pred             EEcCCcCchHHHHHHHhccccccccccCCCCceeeeeeeeccccceEEEeecCcc-ccccccCcc-ceeeeEEEecccCC
Confidence            5899999999999999999888766555555555555555566666777777643 222222222 67999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHHHcCCe-EEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++......+......  ...|+++|++|+|+....+ ...+. .+++.+++++ .+..|....-. .++|..|..+..
T Consensus       508 p~sf~~~a~v~~~~~~~--~~~Pc~~va~K~dlDe~~Q~~~iqp-de~~~~~~i~~P~~~S~~~~~s-~~lf~kL~~~A~  583 (625)
T KOG1707|consen  508 PRSFEYLAEVYNKYFDL--YKIPCLMVATKADLDEVPQRYSIQP-DEFCRQLGLPPPIHISSKTLSS-NELFIKLATMAQ  583 (625)
T ss_pred             chHHHHHHHHHHHhhhc--cCCceEEEeeccccchhhhccCCCh-HHHHHhcCCCCCeeeccCCCCC-chHHHHHHHhhh
Confidence            99998887766554433  6799999999999965443 23333 8899999885 45556664333 788888887654


Q ss_pred             H
Q 040835          159 R  159 (206)
Q Consensus       159 ~  159 (206)
                      -
T Consensus       584 ~  584 (625)
T KOG1707|consen  584 Y  584 (625)
T ss_pred             C
Confidence            3

>PRK07560 elongation factor EF-2; Reviewed

Probab=99.27  E-value=5.1e-11  Score=102.43  Aligned_cols=110  Identities=16%  Similarity=0.166  Sum_probs=72.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc-----------c---ccceeeEEEEE----EECCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK-----------A---TIGVEFQTKTL----VIHHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~-----------~---~~~~~~~~~~~----~~~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      |+|+.++|||||+++|+...-.....           +   --++++....+    ..++.+..+.++||||+..|....
T Consensus        25 iigh~d~GKTTL~e~ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~i~liDtPG~~df~~~~  104 (731)
T PRK07560         25 IIAHIDHGKTTLSDNLLAGAGMISEELAGEQLALDFDEEEQARGITIKAANVSMVHEYEGKEYLINLIDTPGHVDFGGDV  104 (731)
T ss_pred             EEEeCCCCHHHHHHHHHHHcCCcchhhcCcceecCccHHHHHhhhhhhccceEEEEEecCCcEEEEEEcCCCccChHHHH
Confidence            58999999999999998632111100           0   00122222211    123346788999999999988888


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ...++.+|++|+|+|+...........|.. ...   .+.|.++++||+|..
T Consensus       105 ~~~l~~~D~avlVvda~~g~~~~t~~~~~~-~~~---~~~~~iv~iNK~D~~  152 (731)
T PRK07560        105 TRAMRAVDGAIVVVDAVEGVMPQTETVLRQ-ALR---ERVKPVLFINKVDRL  152 (731)
T ss_pred             HHHHHhcCEEEEEEECCCCCCccHHHHHHH-HHH---cCCCeEEEEECchhh
Confidence            888999999999999987543322233332 222   246789999999974

>PTZ00416 elongation factor 2; Provisional

Probab=99.27  E-value=2.1e-11  Score=105.90  Aligned_cols=110  Identities=19%  Similarity=0.214  Sum_probs=72.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc--------------cccceeeEEEEEEECC----------eEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK--------------ATIGVEFQTKTLVIHH----------KNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~--------------~~~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~   56 (206)
                      |+|+.++|||||+++|+...-.....              .--+.++....+.+.+          ....+.++||||+.
T Consensus        24 iiGh~d~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~i~liDtPG~~  103 (836)
T PTZ00416         24 VIAHVDHGKSTLTDSLVCKAGIISSKNAGDARFTDTRADEQERGITIKSTGISLYYEHDLEDGDDKQPFLINLIDSPGHV  103 (836)
T ss_pred             EECCCCCCHHHHHHHHHHhcCCcccccCCceeecccchhhHhhcceeeccceEEEeecccccccCCCceEEEEEcCCCHH
Confidence            58999999999999998632111000              0011222211112222          25678999999999


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .|.......++.+|++|+|+|+.+.-......-| ..+..   .++|+++++||+|+.
T Consensus       104 ~f~~~~~~al~~~D~ailVvda~~g~~~~t~~~~-~~~~~---~~~p~iv~iNK~D~~  157 (836)
T PTZ00416        104 DFSSEVTAALRVTDGALVVVDCVEGVCVQTETVL-RQALQ---ERIRPVLFINKVDRA  157 (836)
T ss_pred             hHHHHHHHHHhcCCeEEEEEECCCCcCccHHHHH-HHHHH---cCCCEEEEEEChhhh
Confidence            9888888889999999999999875433322223 22222   358999999999985

>PLN00116 translation elongation factor EF-2 subunit; Provisional

Probab=99.26  E-value=3.7e-11  Score=104.55  Aligned_cols=110  Identities=18%  Similarity=0.201  Sum_probs=74.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------cc---ccceeeEEEEEEECC----------------eEEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------KA---TIGVEFQTKTLVIHH----------------KNVKAQIW   50 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------~~---~~~~~~~~~~~~~~~----------------~~~~~~i~   50 (206)
                      |+|+.++|||||+++|+...-....           .+   ..+.++....+.+.+                .+..+.++
T Consensus        24 iiGhvd~GKTTL~~~Ll~~~g~i~~~~~g~~~~~D~~~~E~~rgiti~~~~~~~~~~~~~~~~~~~~~~~~~~~~~inli  103 (843)
T PLN00116         24 VIAHVDHGKSTLTDSLVAAAGIIAQEVAGDVRMTDTRADEAERGITIKSTGISLYYEMTDESLKDFKGERDGNEYLINLI  103 (843)
T ss_pred             EEcCCCCCHHHHHHHHHHhcCCcccccCCceeeccCcHHHHHhCCceecceeEEEeecccccccccccccCCCceEEEEE
Confidence            5899999999999999864311000           00   012222222222211                25678999


Q ss_pred             eCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           51 DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        51 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ||||+.+|.......++.+|++|+|+|+.++-.......|... .   ..++|+++++||+|..
T Consensus       104 DtPGh~dF~~e~~~al~~~D~ailVvda~~Gv~~~t~~~~~~~-~---~~~~p~i~~iNK~D~~  163 (843)
T PLN00116        104 DSPGHVDFSSEVTAALRITDGALVVVDCIEGVCVQTETVLRQA-L---GERIRPVLTVNKMDRC  163 (843)
T ss_pred             CCCCHHHHHHHHHHHHhhcCEEEEEEECCCCCcccHHHHHHHH-H---HCCCCEEEEEECCccc
Confidence            9999999988888889999999999999876443333333332 2   2468999999999985

>COG1217 TypA Predicted membrane GTPase involved in stress response [Signal transduction mechanisms]

Probab=99.26  E-value=7e-11  Score=93.27  Aligned_cols=150  Identities=16%  Similarity=0.180  Sum_probs=102.7

Q ss_pred             CCCCHHHHHHHHhcCCC--CCC------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            5 SAVGKSQLLARFARDEF--SLD------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         5 ~~~GKTtLl~~l~~~~~--~~~------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      -.=|||||+..|+.+.-  ...            ...--|+++-.+...+.+.+..+.|+||||+..|.......+.-+|
T Consensus        14 VDHGKTTLVD~LLkQSGtf~~~e~v~ERvMDSnDlEkERGITILaKnTav~~~~~~INIvDTPGHADFGGEVERvl~MVD   93 (603)
T COG1217          14 VDHGKTTLVDALLKQSGTFREREEVAERVMDSNDLEKERGITILAKNTAVNYNGTRINIVDTPGHADFGGEVERVLSMVD   93 (603)
T ss_pred             ecCCcchHHHHHHhhccccccccchhhhhcCccchhhhcCcEEEeccceeecCCeEEEEecCCCcCCccchhhhhhhhcc
Confidence            34699999999997421  111            1122467787788788888899999999999999998999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHHHHH-------cCCeEEEeccCC
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEFAEK-------EGLCFMETSALE  142 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~~~~-------~~~~~~~~Sa~~  142 (206)
                      .+++++|+.+.. ....+..+....   ..+.+.|||+||+|....+. .-.++...+.-.       ++.|++..|++.
T Consensus        94 gvlLlVDA~EGp-MPQTrFVlkKAl---~~gL~PIVVvNKiDrp~Arp~~Vvd~vfDLf~~L~A~deQLdFPivYAS~~~  169 (603)
T COG1217          94 GVLLLVDASEGP-MPQTRFVLKKAL---ALGLKPIVVINKIDRPDARPDEVVDEVFDLFVELGATDEQLDFPIVYASARN  169 (603)
T ss_pred             eEEEEEEcccCC-CCchhhhHHHHH---HcCCCcEEEEeCCCCCCCCHHHHHHHHHHHHHHhCCChhhCCCcEEEeeccC
Confidence            999999998753 122233222222   24677789999999854222 122344445444       346888888877


Q ss_pred             CC----------CHHHHHHHHHHHHH
Q 040835          143 ST----------NVELAFLTVLTEIY  158 (206)
Q Consensus       143 ~~----------~v~~~~~~l~~~i~  158 (206)
                      |.          ++.-+|+.|++++.
T Consensus       170 G~a~~~~~~~~~~m~pLfe~I~~hvp  195 (603)
T COG1217         170 GTASLDPEDEADDMAPLFETILDHVP  195 (603)
T ss_pred             ceeccCccccccchhHHHHHHHHhCC
Confidence            64          46667776666553

>cd01882 BMS1 Bms1

Probab=99.26  E-value=1.5e-10  Score=86.07  Aligned_cols=132  Identities=16%  Similarity=0.163  Sum_probs=77.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|+|||||++.|.+...........+ ++   .+ .......+.++||||..  . ......+.+|++++++|.+.
T Consensus        44 ivG~~~~GKstl~~~l~~~~~~~~~~~~~g-~i---~i-~~~~~~~i~~vDtPg~~--~-~~l~~ak~aDvVllviDa~~  115 (225)
T cd01882          44 VVGPPGVGKTTLIKSLVKNYTKQNISDIKG-PI---TV-VTGKKRRLTFIECPNDI--N-AMIDIAKVADLVLLLIDASF  115 (225)
T ss_pred             EECCCCCCHHHHHHHHHhhcccCccccccc-cE---EE-EecCCceEEEEeCCchH--H-HHHHHHHhcCEEEEEEecCc
Confidence            589999999999999987522111111111 11   11 11245678999999864  2 22345688999999999976


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCCCCcCCCCC---HHHHHH-HHHH--cCCeEEEeccCCCC
Q 040835           81 RQSFDNVARWLEELRGHADKNIII-MLVGNKSDLETLRAVP---TEDAKE-FAEK--EGLCFMETSALEST  144 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~-ivv~nK~D~~~~~~~~---~~~~~~-~~~~--~~~~~~~~Sa~~~~  144 (206)
                      ...... ..++..+..   .+.|. ++|+||+|+.......   ..++.. +..+  .+.+++.+||+++-
T Consensus       116 ~~~~~~-~~i~~~l~~---~g~p~vi~VvnK~D~~~~~~~~~~~~~~l~~~~~~~~~~~~ki~~iSa~~~~  182 (225)
T cd01882         116 GFEMET-FEFLNILQV---HGFPRVMGVLTHLDLFKKNKTLRKTKKRLKHRFWTEVYQGAKLFYLSGIVHG  182 (225)
T ss_pred             CCCHHH-HHHHHHHHH---cCCCeEEEEEeccccCCcHHHHHHHHHHHHHHHHHhhCCCCcEEEEeeccCC
Confidence            443222 223333332   35674 4599999985322111   111222 2222  24689999999873

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.

>PF00350 Dynamin_N: Dynamin family; InterPro: IPR001401 Membrane transport between compartments in eukaryotic cells requires proteins that allow the budding and scission of nascent cargo vesicles from one compartment and their targeting and fusion with another

Probab=99.25  E-value=1.3e-10  Score=82.42  Aligned_cols=62  Identities=19%  Similarity=0.186  Sum_probs=44.3

Q ss_pred             EEEEeCCCchh----hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           47 AQIWDTAGQER----YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        47 ~~i~D~~G~~~----~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      +.|+||||...    ....+..+++.+|++|+|.+++...+-.....+.......   ...+++|.||.
T Consensus       103 ~~lvDtPG~~~~~~~~~~~~~~~~~~~d~vi~V~~~~~~~~~~~~~~l~~~~~~~---~~~~i~V~nk~  168 (168)
T PF00350_consen  103 LTLVDTPGLNSTNSEHTEITEEYLPKADVVIFVVDANQDLTESDMEFLKQMLDPD---KSRTIFVLNKA  168 (168)
T ss_dssp             EEEEEEEEBHSSHTTTSHHHHHHHSTTEEEEEEEETTSTGGGHHHHHHHHHHTTT---CSSEEEEEE-G
T ss_pred             eEEEeCCccccchhhhHHHHHHhhccCCEEEEEeccCcccchHHHHHHHHHhcCC---CCeEEEEEcCC
Confidence            78999999643    3466788889999999999999865545555555554443   34488888884

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 ....

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=99.24  E-value=3.2e-11  Score=85.23  Aligned_cols=78  Identities=17%  Similarity=0.066  Sum_probs=56.7

Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNVE  147 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~  147 (206)
                      .-|+|+|++..+...         ++ ......-=++|+||.|+.+....+.+.+.+.+++.  +.+++++|.++|+|++
T Consensus       120 ~~v~VidvteGe~~P---------~K~gP~i~~aDllVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~  190 (202)
T COG0378         120 LRVVVIDVTEGEDIP---------RKGGPGIFKADLLVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLD  190 (202)
T ss_pred             eEEEEEECCCCCCCc---------ccCCCceeEeeEEEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHH
Confidence            678888888654211         00 00001124789999999877777788888888876  4789999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          148 LAFLTVLTEI  157 (206)
Q Consensus       148 ~~~~~l~~~i  157 (206)
                      +++.++....
T Consensus       191 ~~~~~i~~~~  200 (202)
T COG0378         191 EWLRFIEPQA  200 (202)
T ss_pred             HHHHHHHhhc
Confidence            9998887543

>TIGR02836 spore_IV_A stage IV sporulation protein A

Probab=99.24  E-value=2.4e-10  Score=89.88  Aligned_cols=137  Identities=18%  Similarity=0.211  Sum_probs=82.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc--------------cccc---eeeEEE-------EEEE-CCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK--------------ATIG---VEFQTK-------TLVI-HHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~--------------~~~~---~~~~~~-------~~~~-~~~~~~~~i~D~~G~   55 (206)
                      |+|+.++|||||+++|.+..+.|...              ...|   +|...+       .+.. ++...++.++||+|.
T Consensus        22 vvGpvrtGKSTfIn~fm~q~VlP~i~~~~~k~Ra~DELpqs~~GktItTTePkfvP~kAvEI~~~~~~~~~VrlIDcvG~  101 (492)
T TIGR02836        22 VVGPVRTGKSTFIKKFMELLVLPNISNEYDKERAQDELPQSAAGKTIMTTEPKFVPNEAVEININEGTKFKVRLVDCVGY  101 (492)
T ss_pred             EEcCCCCChHHHHHHHHhhhccccccchhHHhHHHhccCcCCCCCCcccCCCccccCcceEEeccCCCcccEEEEECCCc
Confidence            68999999999999999982222111              1112   222222       2222 345578899999983


Q ss_pred             hh--------hhh---------------------hhHhHhc-CCcEEEEEe-eCC----ChhhH-HHHHHHHHHHHhcCC
Q 040835           56 ER--------YRA---------------------VTSAYYR-GAVGAMLVY-DIT----KRQSF-DNVARWLEELRGHAD   99 (206)
Q Consensus        56 ~~--------~~~---------------------~~~~~~~-~~d~~i~v~-d~~----~~~s~-~~~~~~~~~~~~~~~   99 (206)
                      ..        ...                     -++..+. .+|+.|+|. |.+    .++.+ +.-.+++..+..   
T Consensus       102 ~v~GalG~~r~~k~RmV~TPW~d~~IPF~~AAeiGT~kVI~dhstIgivVtTDgsi~dI~Re~y~~aEe~~i~eLk~---  178 (492)
T TIGR02836       102 TVKGALGYMEEDKPRMVSTPWYDYEIPFEEAAEIGTRKVIQEHSTIGVVVTTDGTITDIPREDYVEAEERVIEELKE---  178 (492)
T ss_pred             ccCCCccceeccccccccCCcccccCchhhhhhhhHHHHHHhcCcEEEEEEcCCCccccccccchHHHHHHHHHHHh---
Confidence            21        010                     0344555 899988888 653    11223 333556666665   


Q ss_pred             CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCC
Q 040835          100 KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus       100 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                      .++|+++++|+.|-....  ..+....+..+++++++.+|+..
T Consensus       179 ~~kPfiivlN~~dp~~~e--t~~l~~~l~eky~vpvl~v~c~~  219 (492)
T TIGR02836       179 LNKPFIILLNSTHPYHPE--TEALRQELEEKYDVPVLAMDVES  219 (492)
T ss_pred             cCCCEEEEEECcCCCCch--hHHHHHHHHHHhCCceEEEEHHH
Confidence            579999999999942211  33344566677888877776543

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=99.24  E-value=1.1e-10  Score=86.40  Aligned_cols=118  Identities=14%  Similarity=0.083  Sum_probs=70.5

Q ss_pred             EEEEEEeCCCchhh------hhhhHhHh--cCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           45 VKAQIWDTAGQERY------RAVTSAYY--RGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        45 ~~~~i~D~~G~~~~------~~~~~~~~--~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      ..+.++||||+.+.      ...+...+  ...-+++|++|..... ....+..++-....+....+|++++.||+|+..
T Consensus       116 ~~~~liDTPGQIE~FtWSAsGsIIte~lass~ptvv~YvvDt~rs~~p~tFMSNMlYAcSilyktklp~ivvfNK~Dv~d  195 (366)
T KOG1532|consen  116 FDYVLIDTPGQIEAFTWSASGSIITETLASSFPTVVVYVVDTPRSTSPTTFMSNMLYACSILYKTKLPFIVVFNKTDVSD  195 (366)
T ss_pred             cCEEEEcCCCceEEEEecCCccchHhhHhhcCCeEEEEEecCCcCCCchhHHHHHHHHHHHHHhccCCeEEEEecccccc
Confidence            45789999997542      11222222  2345677788764322 223344554444444557899999999999853


Q ss_pred             CCCC-----CHHHHHHHHH-------------------H--cCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          116 LRAV-----PTEDAKEFAE-------------------K--EGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       116 ~~~~-----~~~~~~~~~~-------------------~--~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      ..-.     +.+...+...                   +  .++..+-+|+.+|.|.+++|..+.+.+.+...
T Consensus       196 ~~fa~eWm~DfE~FqeAl~~~~~~y~s~l~~SmSL~leeFY~~lrtv~VSs~tG~G~ddf~~av~~~vdEy~~  268 (366)
T KOG1532|consen  196 SEFALEWMTDFEAFQEALNEAESSYMSNLTRSMSLMLEEFYRSLRTVGVSSVTGEGFDDFFTAVDESVDEYEE  268 (366)
T ss_pred             cHHHHHHHHHHHHHHHHHHhhccchhHHhhhhHHHHHHHHHhhCceEEEecccCCcHHHHHHHHHHHHHHHHH
Confidence            1100     0111111111                   0  14578889999999999999999888766533

>cd01900 YchF YchF subfamily

Probab=99.22  E-value=2.6e-10  Score=86.57  Aligned_cols=79  Identities=15%  Similarity=0.130  Sum_probs=50.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchhh----hhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQERY----RAV   61 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~----~~~   61 (206)
                      ++|.|+||||||+|+|++........|..+.......+.+...               ...+.++|+||...-    ..+
T Consensus         3 ivG~PN~GKSTLfn~Lt~~~~~~~n~pftTi~p~~g~v~v~d~r~~~l~~~~~~~k~~~~~i~lvD~pGl~~~a~~~~gl   82 (274)
T cd01900           3 IVGLPNVGKSTLFNALTKAGAEAANYPFCTIEPNVGIVPVPDERLDKLAEIVKPKKIVPATIEFVDIAGLVKGASKGEGL   82 (274)
T ss_pred             EeCCCCCcHHHHHHHHhCCCCccccccccchhceeeeEEeccchhhhHHHHhCCceeeeeEEEEEECCCcCCCCchhhHH
Confidence            6899999999999999998774433333232333333333322               235899999994321    112


Q ss_pred             ---hHhHhcCCcEEEEEeeCC
Q 040835           62 ---TSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        62 ---~~~~~~~~d~~i~v~d~~   79 (206)
                         ....++.+|++++|+|..
T Consensus        83 g~~fL~~i~~~D~li~VV~~f  103 (274)
T cd01900          83 GNKFLSHIREVDAIAHVVRCF  103 (274)
T ss_pred             HHHHHHHHHhCCEEEEEEeCc
Confidence               223467899999999863

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.

>KOG3886 consensus GTP-binding protein [Signal transduction mechanisms]

Probab=99.19  E-value=5.3e-11  Score=85.92  Aligned_cols=142  Identities=18%  Similarity=0.261  Sum_probs=89.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh-----hhHhHhcCCcEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA-----VTSAYYRGAVGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-----~~~~~~~~~d~~i~   74 (206)
                      ++|..|+|||++-..++.+... +...++.++++....+.+- .++.+.+||++|++.+-.     .....+++++++|+
T Consensus         9 LMGrsGsGKsSmrsiiF~ny~a~D~~rlg~tidveHsh~Rfl-Gnl~LnlwDcGgqe~fmen~~~~q~d~iF~nV~vli~   87 (295)
T KOG3886|consen    9 LMGRSGSGKSSMRSIIFANYIARDTRRLGATIDVEHSHVRFL-GNLVLNLWDCGGQEEFMENYLSSQEDNIFRNVQVLIY   87 (295)
T ss_pred             EeccCCCCccccchhhhhhhhhhhhhccCCcceeeehhhhhh-hhheeehhccCCcHHHHHHHHhhcchhhheeheeeee
Confidence            5899999999987776654432 2223332334444444333 347899999999985422     34567899999999


Q ss_pred             EeeCCChhhHHHHHHHH---HHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHH----HHHHHHHcCCeEEEeccCCCC
Q 040835           75 VYDITKRQSFDNVARWL---EELRGHADKNIIIMLVGNKSDLETLRA--VPTED----AKEFAEKEGLCFMETSALEST  144 (206)
Q Consensus        75 v~d~~~~~s~~~~~~~~---~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~----~~~~~~~~~~~~~~~Sa~~~~  144 (206)
                      |+|+...+-..++..+-   ..+.+.. +...+.+.++|+|+.....  ...++    .+.+....++.+|.+|..+..
T Consensus        88 vFDves~e~~~D~~~yqk~Le~ll~~S-P~AkiF~l~hKmDLv~~d~r~~if~~r~~~l~~~s~~~~~~~f~TsiwDet  165 (295)
T KOG3886|consen   88 VFDVESREMEKDFHYYQKCLEALLQNS-PEAKIFCLLHKMDLVQEDARELIFQRRKEDLRRLSRPLECKCFPTSIWDET  165 (295)
T ss_pred             eeeccchhhhhhHHHHHHHHHHHHhcC-CcceEEEEEeechhcccchHHHHHHHHHHHHHHhcccccccccccchhhHH
Confidence            99998876444444333   3333333 5677889999999954222  12222    233333345678888877654

>TIGR00750 lao LAO/AO transport system ATPase

Probab=99.17  E-value=1.9e-10  Score=89.06  Aligned_cols=104  Identities=18%  Similarity=0.062  Sum_probs=64.5

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--  121 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--  121 (206)
                      .+.+.|+||+|.....   ...+..+|.++++......   +.+......+     ..+|.++++||+|+........  
T Consensus       126 g~D~viidT~G~~~~e---~~i~~~aD~i~vv~~~~~~---~el~~~~~~l-----~~~~~ivv~NK~Dl~~~~~~~~~~  194 (300)
T TIGR00750       126 GYDVIIVETVGVGQSE---VDIANMADTFVVVTIPGTG---DDLQGIKAGL-----MEIADIYVVNKADGEGATNVTIAR  194 (300)
T ss_pred             CCCEEEEeCCCCchhh---hHHHHhhceEEEEecCCcc---HHHHHHHHHH-----hhhccEEEEEcccccchhHHHHHH
Confidence            4678999999854222   2356778888887554433   3333332222     2477899999999864221110  


Q ss_pred             H----HHHHHHH---HcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          122 E----DAKEFAE---KEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       122 ~----~~~~~~~---~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      .    ....+..   .+..+++.+|++++.|++++++++.+...
T Consensus       195 ~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~~~  238 (300)
T TIGR00750       195 LMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEHKT  238 (300)
T ss_pred             HHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHHHH
Confidence            0    0011111   12346999999999999999999988744

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.

>cd00066 G-alpha G protein alpha subunit

Probab=99.14  E-value=1.9e-09  Score=84.14  Aligned_cols=120  Identities=21%  Similarity=0.231  Sum_probs=86.3

Q ss_pred             CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCCh----------hhHHHHHHHHHHHHhcC-CCCCcEEEEEeC
Q 040835           42 HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKR----------QSFDNVARWLEELRGHA-DKNIIIMLVGNK  110 (206)
Q Consensus        42 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK  110 (206)
                      ..+..+.+||++|+...+..|..++.+++++|+|+|+++.          ..+......+..+.... -.++|+++++||
T Consensus       158 ~~~~~~~~~DvgGq~~~R~kW~~~f~~v~~iifvv~lsd~d~~~~e~~~~nrl~esl~~f~~i~~~~~~~~~pill~~NK  237 (317)
T cd00066         158 IKNLKFRMFDVGGQRSERKKWIHCFEDVTAIIFVVALSEYDQVLFEDESTNRMQESLNLFDSICNSRWFANTSIILFLNK  237 (317)
T ss_pred             ecceEEEEECCCCCcccchhHHHHhCCCCEEEEEEEchhcccccccCCcchHHHHHHHHHHHHHhCccccCCCEEEEccC
Confidence            3468899999999999999999999999999999999874          23333333333333322 257999999999


Q ss_pred             CCCCc----------------CCCCCHHHHHHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          111 SDLET----------------LRAVPTEDAKEFAEK----------EGLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       111 ~D~~~----------------~~~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                      .|+..                ...-+.+.+..+...          ..+..+.++|.+..++..+|..+.+.|+...
T Consensus       238 ~D~f~~ki~~~~l~~~fp~y~g~~~~~~~~~~~i~~~F~~~~~~~~~~~~~~~t~a~Dt~~i~~vf~~v~~~i~~~~  314 (317)
T cd00066         238 KDLFEEKIKKSPLTDYFPDYTGPPNDYEEAAKFIRKKFLDLNRNPNKEIYPHFTCATDTENIRFVFDAVKDIILQNN  314 (317)
T ss_pred             hHHHHHhhcCCCccccCCCCCCCCCCHHHHHHHHHHHHHHhhcCCCCeEEEEeccccchHHHHHHHHHHHHHHHHHH
Confidence            99621                001234444444332          1244678899999999999999999988764

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.

>COG4108 PrfC Peptide chain release factor RF-3 [Translation, ribosomal structure and biogenesis]

Probab=99.14  E-value=5.2e-10  Score=87.84  Aligned_cols=126  Identities=21%  Similarity=0.257  Sum_probs=85.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC--------------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS--------------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+-.|.+|||||-++|+--.-....                    ...-|+.+....+.++..+..+.+.||||++.|..
T Consensus        17 IISHPDAGKTTlTEkLLlfGgaIq~AG~Vk~rk~~~~a~SDWM~iEkqRGISVtsSVMqF~Y~~~~iNLLDTPGHeDFSE   96 (528)
T COG4108          17 IISHPDAGKTTLTEKLLLFGGAIQEAGTVKGRKSGKHAKSDWMEIEKQRGISVTSSVMQFDYADCLVNLLDTPGHEDFSE   96 (528)
T ss_pred             EEecCCCCcccHHHHHHHhcchhhhcceeeeccCCcccccHHHHHHHhcCceEEeeEEEeccCCeEEeccCCCCccccch
Confidence            4568999999999998742110000                    01134555555666677788899999999999999


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL  133 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  133 (206)
                      -+...+..+|.++.|+|+...  ++.. ..++.. .++  .+.|++-++||+|....  -+.+.+.++.+.+++
T Consensus        97 DTYRtLtAvDsAvMVIDaAKG--iE~qT~KLfeV-crl--R~iPI~TFiNKlDR~~r--dP~ELLdEiE~~L~i  163 (528)
T COG4108          97 DTYRTLTAVDSAVMVIDAAKG--IEPQTLKLFEV-CRL--RDIPIFTFINKLDREGR--DPLELLDEIEEELGI  163 (528)
T ss_pred             hHHHHHHhhheeeEEEecccC--ccHHHHHHHHH-Hhh--cCCceEEEeeccccccC--ChHHHHHHHHHHhCc
Confidence            999999999999999999754  2222 223332 333  47999999999997542  234445555555444

>COG0480 FusA Translation elongation factors (GTPases) [Translation, ribosomal structure and biogenesis]

Probab=99.13  E-value=2.9e-10  Score=96.04  Aligned_cols=110  Identities=17%  Similarity=0.221  Sum_probs=83.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC----------------ccccceeeEEEEEEECCe-EEEEEEEeCCCchhhhhhhH
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS----------------KATIGVEFQTKTLVIHHK-NVKAQIWDTAGQERYRAVTS   63 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~~~~   63 (206)
                      ++|+-.+|||||..+|+...-....                ...-|+++.....++.+. +..++++||||+-+|.....
T Consensus        15 I~aHidaGKTTltE~lL~~tG~i~k~G~v~~g~~~~D~~e~EqeRGITI~saa~s~~~~~~~~iNlIDTPGHVDFt~EV~   94 (697)
T COG0480          15 IVAHIDAGKTTLTERILFYTGIISKIGEVHDGAATMDWMEQEQERGITITSAATTLFWKGDYRINLIDTPGHVDFTIEVE   94 (697)
T ss_pred             EEeccCCChHHHHHHHHHHcCCcCCCccccCCCccCCCcHHHHhcCCEEeeeeeEEEEcCceEEEEeCCCCccccHHHHH
Confidence            4788899999999999853111110                011356666666677777 49999999999999999999


Q ss_pred             hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           64 AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        64 ~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ..++..|++++|+|+...-.......|.+...    .++|.++++||+|..
T Consensus        95 rslrvlDgavvVvdaveGV~~QTEtv~rqa~~----~~vp~i~fiNKmDR~  141 (697)
T COG0480          95 RSLRVLDGAVVVVDAVEGVEPQTETVWRQADK----YGVPRILFVNKMDRL  141 (697)
T ss_pred             HHHHhhcceEEEEECCCCeeecHHHHHHHHhh----cCCCeEEEEECcccc
Confidence            99999999999999987654444455644433    479999999999974

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

Probab=99.13  E-value=4.1e-10  Score=86.09  Aligned_cols=135  Identities=16%  Similarity=0.212  Sum_probs=69.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC----------ccccceeeEEEEEEECCeEEEEEEEeCCCchh-------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS----------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------------   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------------   57 (206)
                      |+|..|+|||||+|.|++.......          ..+.........+.-++..+.+.++||||...             
T Consensus         9 VvG~sG~GKTTFIntL~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~l~LtiiDTpGfGd~i~n~~~~~~I~~   88 (281)
T PF00735_consen    9 VVGESGLGKTTFINTLFNSDIISEDSSIPPPSASISRTLEIEERTVELEENGVKLNLTIIDTPGFGDNIDNSDCWEPIVD   88 (281)
T ss_dssp             EEECTTSSHHHHHHHHHTSS---------S------SCEEEEEEEEEEEETCEEEEEEEEEEC-CSSSSTHCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhcccccccccccccccccccccceeeEEEEeccCCcceEEEEEeCCCccccccchhhhHHHHH
Confidence            6899999999999999997654442          12222333333444467788999999999211             


Q ss_pred             -----hhhhhHh---------HhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--C
Q 040835           58 -----YRAVTSA---------YYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--P  120 (206)
Q Consensus        58 -----~~~~~~~---------~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~  120 (206)
                           |......         .=..+|+++|+++++.+. .-.++ ..+..+.    ..+++|-|+.|.|.....++  -
T Consensus        89 yI~~qf~~~l~eE~~~~R~~~~D~RVH~cLYfI~pt~~~L~~~Di-~~mk~Ls----~~vNvIPvIaKaD~lt~~el~~~  163 (281)
T PF00735_consen   89 YIESQFDSYLEEESKINRPRIEDTRVHACLYFIPPTGHGLKPLDI-EFMKRLS----KRVNVIPVIAKADTLTPEELQAF  163 (281)
T ss_dssp             HHHHHHHHHHHHHTSSS-TTS----EEEEEEEE-TTSSSS-HHHH-HHHHHHT----TTSEEEEEESTGGGS-HHHHHHH
T ss_pred             HHHHHHHHHHHHhhcccccCcCCCCcceEEEEEcCCCccchHHHH-HHHHHhc----ccccEEeEEecccccCHHHHHHH
Confidence                 1110000         012568999999987532 11112 2333333    35788999999997531211  1


Q ss_pred             HHHHHHHHHHcCCeEEEecc
Q 040835          121 TEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      .+.+.......++.+|....
T Consensus       164 k~~i~~~l~~~~I~~f~f~~  183 (281)
T PF00735_consen  164 KQRIREDLEENNIKIFDFPE  183 (281)
T ss_dssp             HHHHHHHHHHTT--S-----
T ss_pred             HHHHHHHHHHcCceeecccc
Confidence            23344455567777665443

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.

>PF05049 IIGP: Interferon-inducible GTPase (IIGP); InterPro: IPR007743 Interferon-inducible GTPase (IIGP) is thought to play a role in in intracellular defence

Probab=99.12  E-value=3.2e-10  Score=88.94  Aligned_cols=154  Identities=13%  Similarity=0.127  Sum_probs=76.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccc--cceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh-----HhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKAT--IGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA-----YYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~--~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----~~~~~d~~   72 (206)
                      |+|.+|+|||||+|+|.+-.-.. ...++  +.++.......... .-.+.+||.||..-.......     -+...|.+
T Consensus        40 V~G~sGsGKSSfINalrGl~~~d~~aA~tGv~etT~~~~~Y~~p~-~pnv~lWDlPG~gt~~f~~~~Yl~~~~~~~yD~f  118 (376)
T PF05049_consen   40 VTGESGSGKSSFINALRGLGHEDEGAAPTGVVETTMEPTPYPHPK-FPNVTLWDLPGIGTPNFPPEEYLKEVKFYRYDFF  118 (376)
T ss_dssp             EEESTTSSHHHHHHHHTT--TTSTTS--SSSHSCCTS-EEEE-SS--TTEEEEEE--GGGSS--HHHHHHHTTGGG-SEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCCCcCcCCCCCCcCCCCCeeCCCCC-CCCCeEEeCCCCCCCCCCHHHHHHHccccccCEE
Confidence            58999999999999998743322 22221  12233333333322 234899999995322222222     35678988


Q ss_pred             EEEeeCCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCC-------cCCCCCHH----HHHHHHHH----cCC---
Q 040835           73 MLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLE-------TLRAVPTE----DAKEFAEK----EGL---  133 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~-------~~~~~~~~----~~~~~~~~----~~~---  133 (206)
                      |++.+-.    |....- +...+..   .++|+++|-+|+|..       .++...++    ++++.+.+    .|+   
T Consensus       119 iii~s~r----f~~ndv~La~~i~~---~gK~fyfVRTKvD~Dl~~~~~~~p~~f~~e~~L~~IR~~c~~~L~k~gv~~P  191 (376)
T PF05049_consen  119 IIISSER----FTENDVQLAKEIQR---MGKKFYFVRTKVDSDLYNERRRKPRTFNEEKLLQEIRENCLENLQKAGVSEP  191 (376)
T ss_dssp             EEEESSS------HHHHHHHHHHHH---TT-EEEEEE--HHHHHHHHHCC-STT--HHTHHHHHHHHHHHHHHCTT-SS-
T ss_pred             EEEeCCC----CchhhHHHHHHHHH---cCCcEEEEEecccccHhhhhccCCcccCHHHHHHHHHHHHHHHHHHcCCCcC
Confidence            8776543    332222 2233444   368999999999961       12233332    33333332    243   


Q ss_pred             eEEEeccCCC--CCHHHHHHHHHHHHHHHhh
Q 040835          134 CFMETSALES--TNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       134 ~~~~~Sa~~~--~~v~~~~~~l~~~i~~~~~  162 (206)
                      ++|-+|..+-  .++..+.+.+.+.+..++.
T Consensus       192 ~VFLVS~~dl~~yDFp~L~~tL~~dLp~~Kr  222 (376)
T PF05049_consen  192 QVFLVSSFDLSKYDFPKLEETLEKDLPAHKR  222 (376)
T ss_dssp             -EEEB-TTTTTSTTHHHHHHHHHHHS-GGGH
T ss_pred             ceEEEeCCCcccCChHHHHHHHHHHhHHHHH
Confidence            5899998874  4577777777766655544

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.

>KOG0458 consensus Elongation factor 1 alpha [Translation, ribosomal structure and biogenesis]

Probab=99.12  E-value=2.2e-10  Score=92.65  Aligned_cols=147  Identities=23%  Similarity=0.258  Sum_probs=95.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC-----------------------------CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD-----------------------------SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      |+|...+|||||+.+|+..--.+.                             ...--|.+.......++.....+.|+|
T Consensus       182 v~GhVdaGKSTLmG~lLydLg~i~~~~m~kl~~es~~~Gk~Sf~yawiLDeT~eERerGvTm~v~~~~fes~~~~~tliD  261 (603)
T KOG0458|consen  182 VLGHVDAGKSTLMGHLLYDLGEISSRSMHKLERESKNLGKSSFAYAWILDETKEERERGVTMDVKTTWFESKSKIVTLID  261 (603)
T ss_pred             EEeccccchhhhhhHHHHHhcCccHHHHHHHHHHHHhcCCcceeeeEEeccchhhhhcceeEEeeeEEEecCceeEEEec
Confidence            579999999999999886211000                             011134555555666667778899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hHH---HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH-
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SFD---NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA-  124 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-  124 (206)
                      +||+..|-.....-...+|++|+|+|++-.+   .|+   ..++....++.+.  -..++|++||+|+..=.+-..+++ 
T Consensus       262 aPGhkdFi~nmi~g~sqaD~avLvvd~s~~~FE~gfd~~gQtrEha~llr~Lg--i~qlivaiNKmD~V~Wsq~RF~eIk  339 (603)
T KOG0458|consen  262 APGHKDFIPNMISGASQADVAVLVVDASTGEFESGFDPGGQTREHALLLRSLG--ISQLIVAINKMDLVSWSQDRFEEIK  339 (603)
T ss_pred             CCCccccchhhhccccccceEEEEEECCcchhhhccCCCCchHHHHHHHHHcC--cceEEEEeecccccCccHHHHHHHH
Confidence            9999888877777788999999999997532   121   1222222223322  356899999999864222233332 


Q ss_pred             ---HHHH-HHcC-----CeEEEeccCCCCCHHHH
Q 040835          125 ---KEFA-EKEG-----LCFMETSALESTNVELA  149 (206)
Q Consensus       125 ---~~~~-~~~~-----~~~~~~Sa~~~~~v~~~  149 (206)
                         ..+. +..|     +.|+.+|+..|+|+-..
T Consensus       340 ~~l~~fL~~~~gf~es~v~FIPiSGl~GeNL~k~  373 (603)
T KOG0458|consen  340 NKLSSFLKESCGFKESSVKFIPISGLSGENLIKI  373 (603)
T ss_pred             HHHHHHHHHhcCcccCCcceEecccccCCccccc
Confidence               2333 3333     46999999999986544

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=99.11  E-value=1.9e-10  Score=87.02  Aligned_cols=113  Identities=21%  Similarity=0.145  Sum_probs=81.5

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~  122 (206)
                      ..+.++|.||++-.......-..-.|++++|++++.+......++.+..+.-..  -..++++=||+|+.....  -+.+
T Consensus        86 R~VSfVDaPGHe~LMATMLsGAAlMDgAlLvIaANEpcPQPQT~EHl~AleIig--ik~iiIvQNKIDlV~~E~AlE~y~  163 (415)
T COG5257          86 RRVSFVDAPGHETLMATMLSGAALMDGALLVIAANEPCPQPQTREHLMALEIIG--IKNIIIVQNKIDLVSRERALENYE  163 (415)
T ss_pred             EEEEEeeCCchHHHHHHHhcchhhhcceEEEEecCCCCCCCchHHHHHHHhhhc--cceEEEEecccceecHHHHHHHHH
Confidence            457899999998765544444556799999999998766555555555554432  356899999999964222  1344


Q ss_pred             HHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          123 DAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       123 ~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++.+|.+..   +.|++.+||..+.|++.+++.+.+.+..
T Consensus       164 qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         164 QIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             HHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            555665543   5799999999999999999888877643

>COG0050 TufB GTPases - translation elongation factors [Translation, ribosomal structure and biogenesis]

Probab=99.11  E-value=5.5e-10  Score=83.55  Aligned_cols=182  Identities=17%  Similarity=0.183  Sum_probs=118.7

Q ss_pred             ccCCCCCHHHHHHHHhcCC----------C-----CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            2 IGDSAVGKSQLLARFARDE----------F-----SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~----------~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      +|.-.=|||||..+++.--          +     .++ ....|+++....+.++..+..+..+|+||+..|-.....-.
T Consensus        18 iGHvdHGKTTLtaAit~~la~~~~~~~~~y~~id~aPe-Ek~rGITIntahveyet~~rhyahVDcPGHaDYvKNMItgA   96 (394)
T COG0050          18 IGHVDHGKTTLTAAITTVLAKKGGAEAKAYDQIDNAPE-EKARGITINTAHVEYETANRHYAHVDCPGHADYVKNMITGA   96 (394)
T ss_pred             eccccCchhhHHHHHHHHHHhhccccccchhhhccCch-HhhcCceeccceeEEecCCceEEeccCCChHHHHHHHhhhH
Confidence            6888999999998877521          1     111 12246777777787777788899999999999877666666


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcCC-----eEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEGL-----CFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~~-----~~~~  137 (206)
                      .++|+.|+|++++|..-- ..++.+...+   +.++| +++++||+|+..++++   -..+++++...++.     |++.
T Consensus        97 aqmDgAILVVsA~dGpmP-qTrEHiLlar---qvGvp~ivvflnK~Dmvdd~ellelVemEvreLLs~y~f~gd~~Pii~  172 (394)
T COG0050          97 AQMDGAILVVAATDGPMP-QTREHILLAR---QVGVPYIVVFLNKVDMVDDEELLELVEMEVRELLSEYGFPGDDTPIIR  172 (394)
T ss_pred             HhcCccEEEEEcCCCCCC-cchhhhhhhh---hcCCcEEEEEEecccccCcHHHHHHHHHHHHHHHHHcCCCCCCcceee
Confidence            789999999999985421 1111111112   23564 7889999999764443   23567888888875     5777


Q ss_pred             eccCCC-CCHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCccccccccccCCC
Q 040835          138 TSALES-TNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIVVPGQ  191 (206)
Q Consensus       138 ~Sa~~~-~~v~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (206)
                      -|+... +|-.. +..-+..++...  -.....+++....++.+|-...+.++++
T Consensus       173 gSal~ale~~~~-~~~~i~eLm~av--d~yip~Per~~dkPflmpvEdvfsIsgr  224 (394)
T COG0050         173 GSALKALEGDAK-WEAKIEELMDAV--DSYIPTPERDIDKPFLMPVEDVFSISGR  224 (394)
T ss_pred             chhhhhhcCCcc-hHHHHHHHHHHH--HhcCCCCCCcccccccccceeeEEEcCc
Confidence            776653 33222 222222222222  3456678888888888887777766554

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=99.11  E-value=1.3e-09  Score=81.93  Aligned_cols=104  Identities=14%  Similarity=0.093  Sum_probs=66.7

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|++|.|--.-.   -....-+|.++++.-+.-.+.+..++.-+.++..        ++++||.|... .+....+.
T Consensus       144 ~DvIIVETVGvGQse---v~I~~~aDt~~~v~~pg~GD~~Q~iK~GimEiaD--------i~vINKaD~~~-A~~a~r~l  211 (323)
T COG1703         144 YDVIIVETVGVGQSE---VDIANMADTFLVVMIPGAGDDLQGIKAGIMEIAD--------IIVINKADRKG-AEKAAREL  211 (323)
T ss_pred             CCEEEEEecCCCcch---hHHhhhcceEEEEecCCCCcHHHHHHhhhhhhhh--------eeeEeccChhh-HHHHHHHH
Confidence            558889997732222   2345668999998877766666666654444433        78999999643 11111111


Q ss_pred             HH---HHH------HcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          125 KE---FAE------KEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       125 ~~---~~~------~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ..   +..      .|..+++.|||..++|++++++.+.++....
T Consensus       212 ~~al~~~~~~~~~~~W~ppv~~t~A~~g~Gi~~L~~ai~~h~~~~  256 (323)
T COG1703         212 RSALDLLREVWRENGWRPPVVTTSALEGEGIDELWDAIEDHRKFL  256 (323)
T ss_pred             HHHHHhhcccccccCCCCceeEeeeccCCCHHHHHHHHHHHHHHH
Confidence            11   111      1234799999999999999999988776544

>smart00275 G_alpha G protein alpha subunit

Probab=99.10  E-value=6.3e-09  Score=81.86  Aligned_cols=121  Identities=18%  Similarity=0.210  Sum_probs=85.7

Q ss_pred             CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCCh----------hhHHHHHHHHHHHHhcC-CCCCcEEEEEeC
Q 040835           42 HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKR----------QSFDNVARWLEELRGHA-DKNIIIMLVGNK  110 (206)
Q Consensus        42 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK  110 (206)
                      ..+..+.+||.+|+...+..|..++.+++++|||+|+++.          ..+......+..+.... -.++|+++++||
T Consensus       181 ~~~~~~~~~DvgGqr~~R~kW~~~f~~v~~IiFvvdlSd~d~~~~Ed~~~nrl~esl~~f~~l~~~~~~~~~piil~~NK  260 (342)
T smart00275      181 VKKLFFRMFDVGGQRSERKKWIHCFDNVTAIIFCVALSEYDQVLEEDESTNRMQESLNLFESICNSRWFANTSIILFLNK  260 (342)
T ss_pred             ECCeEEEEEecCCchhhhhhHHHHhCCCCEEEEEEECcccccchhccCcchHHHHHHHHHHHHHcCccccCCcEEEEEec
Confidence            3457789999999999999999999999999999999973          23444444444443322 257999999999


Q ss_pred             CCCCc--------------CC-CCCHHHHHHHHHH-----------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          111 SDLET--------------LR-AVPTEDAKEFAEK-----------EGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       111 ~D~~~--------------~~-~~~~~~~~~~~~~-----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      .|+..              .. ..+.+.+..+...           ..+..+.|+|.+..++..+|..+.+.|++...
T Consensus       261 ~D~~~~Kl~~~~l~~~fp~y~g~~~~~~~~~yi~~~F~~~~~~~~~r~~y~h~t~a~Dt~~~~~v~~~v~~~I~~~~l  338 (342)
T smart00275      261 IDLFEEKIKKVPLVDYFPDYKGPNDYEAAAKFIKQKFLRLNRNSSRKSIYHHFTCATDTRNIRVVFDAVKDIILQRNL  338 (342)
T ss_pred             HHhHHHHhCCCchhccCCCCCCCCCHHHHHHHHHHHHHHhccCCCCceEEEEEeeecccHHHHHHHHHHHHHHHHHHH
Confidence            99731              00 0133344433322           12346788999999999999999998887653

Subunit of G proteins that contains the guanine nucleotide binding site

>KOG0410 consensus Predicted GTP binding protein [General function prediction only]

Probab=99.10  E-value=2e-10  Score=86.88  Aligned_cols=175  Identities=18%  Similarity=0.136  Sum_probs=112.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch---------hhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE---------RYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~   71 (206)
                      |+|.+|+|||||+++|++....+...-.-+.+.......+.. ...+.+.||-|.-         .|.. +......+|+
T Consensus       183 vVGYTNaGKsTLikaLT~Aal~p~drLFATLDpT~h~a~Lps-g~~vlltDTvGFisdLP~~LvaAF~A-TLeeVaeadl  260 (410)
T KOG0410|consen  183 VVGYTNAGKSTLIKALTKAALYPNDRLFATLDPTLHSAHLPS-GNFVLLTDTVGFISDLPIQLVAAFQA-TLEEVAEADL  260 (410)
T ss_pred             EEeecCccHHHHHHHHHhhhcCccchhheeccchhhhccCCC-CcEEEEeechhhhhhCcHHHHHHHHH-HHHHHhhcce
Confidence            589999999999999997655444332222232233333333 3557888999832         2333 3334567999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc----EEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNII----IMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVE  147 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p----~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  147 (206)
                      ++.|.|++++..-......+..+....-...|    ++=|-||+|.... ...       .+.++  .+.+|+++|.|++
T Consensus       261 llHvvDiShP~ae~q~e~Vl~vL~~igv~~~pkl~~mieVdnkiD~e~~-~~e-------~E~n~--~v~isaltgdgl~  330 (410)
T KOG0410|consen  261 LLHVVDISHPNAEEQRETVLHVLNQIGVPSEPKLQNMIEVDNKIDYEED-EVE-------EEKNL--DVGISALTGDGLE  330 (410)
T ss_pred             EEEEeecCCccHHHHHHHHHHHHHhcCCCcHHHHhHHHhhccccccccc-cCc-------cccCC--ccccccccCccHH
Confidence            99999999987655545555555554322233    3456777876531 111       11222  4667999999999


Q ss_pred             HHHHHHHHHHHHHhhhhhcccCCCCCCCCCCccccccccc
Q 040835          148 LAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIV  187 (206)
Q Consensus       148 ~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  187 (206)
                      ++++.+-..+..............-...-.+|.+...-++
T Consensus       331 el~~a~~~kv~~~t~~~e~~Lr~d~gd~~~~wly~e~~vv  370 (410)
T KOG0410|consen  331 ELLKAEETKVASETTVDEDQLRNDDGDDADGWLYSEDEVV  370 (410)
T ss_pred             HHHHHHHHHhhhhheeeeEEeecCCCccchhheeecceEE
Confidence            9999998888887777777776666666667776664333

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=99.07  E-value=3.2e-10  Score=86.10  Aligned_cols=55  Identities=16%  Similarity=0.084  Sum_probs=40.2

Q ss_pred             CcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          102 IIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       102 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ..-++|+||+|+........+......+..  +++++.+|+++++|+++++.||...
T Consensus       231 ~ADIVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~~  287 (290)
T PRK10463        231 AASLMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLETQ  287 (290)
T ss_pred             cCcEEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHh
Confidence            556899999999642222344444444443  5789999999999999999999763

>smart00053 DYNc Dynamin, GTPase

Probab=99.05  E-value=3.4e-09  Score=79.00  Aligned_cols=68  Identities=12%  Similarity=0.097  Sum_probs=43.0

Q ss_pred             EEEEEEeCCCchh-------------hhhhhHhHhc-CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           45 VKAQIWDTAGQER-------------YRAVTSAYYR-GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        45 ~~~~i~D~~G~~~-------------~~~~~~~~~~-~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ..+.++|+||...             ...+...|++ ..+++++|+|+...-.-.....+...+..   .+.++++|+||
T Consensus       125 ~~ltLIDlPGl~~~~~~~~~~~~~~~i~~lv~~yi~~~~~IIL~Vvda~~d~~~~d~l~ia~~ld~---~~~rti~ViTK  201 (240)
T smart00053      125 LNLTLIDLPGITKVAVGDQPPDIEEQIKDMIKQFISKEECLILAVTPANVDLANSDALKLAKEVDP---QGERTIGVITK  201 (240)
T ss_pred             CceEEEeCCCccccccCCccHHHHHHHHHHHHHHHhCccCeEEEEEECCCCCCchhHHHHHHHHHH---cCCcEEEEEEC
Confidence            4578999999631             2334556777 45688889987653222222223233332   46899999999


Q ss_pred             CCCCc
Q 040835          111 SDLET  115 (206)
Q Consensus       111 ~D~~~  115 (206)
                      .|...
T Consensus       202 ~D~~~  206 (240)
T smart00053      202 LDLMD  206 (240)
T ss_pred             CCCCC
Confidence            99864

Large GTPases that mediate vesicle trafficking. Dynamin participates in the endocytic uptake of receptors, associated ligands, and plasma membrane following an exocytic event.

>PF03308 ArgK: ArgK protein; InterPro: IPR005129 Bacterial periplasmic transport systems require the function of a specific substrate-binding protein, located in the periplasm, and several cytoplasmic membrane transport components

Probab=99.04  E-value=3.6e-10  Score=83.69  Aligned_cols=102  Identities=18%  Similarity=0.113  Sum_probs=63.6

Q ss_pred             EEEEEEeCCC--chhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           45 VKAQIWDTAG--QERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        45 ~~~~i~D~~G--~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      +.+.|++|.|  +.+.     ....-+|.+++|+.+.-.+.+..++.-+.++.        =++|+||.|...... ...
T Consensus       122 ~D~IiiETVGvGQsE~-----~I~~~aD~~v~v~~Pg~GD~iQ~~KaGimEia--------Di~vVNKaD~~gA~~-~~~  187 (266)
T PF03308_consen  122 FDVIIIETVGVGQSEV-----DIADMADTVVLVLVPGLGDEIQAIKAGIMEIA--------DIFVVNKADRPGADR-TVR  187 (266)
T ss_dssp             -SEEEEEEESSSTHHH-----HHHTTSSEEEEEEESSTCCCCCTB-TTHHHH---------SEEEEE--SHHHHHH-HHH
T ss_pred             CCEEEEeCCCCCccHH-----HHHHhcCeEEEEecCCCccHHHHHhhhhhhhc--------cEEEEeCCChHHHHH-HHH
Confidence            5678899876  4433     35677999999999987666555554433332        378999999643111 122


Q ss_pred             HHHHHHHH-------cCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          123 DAKEFAEK-------EGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       123 ~~~~~~~~-------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+.....       |..+++.|||.++.|++++++.+.++-...
T Consensus       188 ~l~~~l~l~~~~~~~W~ppV~~tsA~~~~Gi~eL~~~i~~~~~~l  232 (266)
T PF03308_consen  188 DLRSMLHLLREREDGWRPPVLKTSALEGEGIDELWEAIDEHRDYL  232 (266)
T ss_dssp             HHHHHHHHCSTSCTSB--EEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhccccccCCCCCEEEEEeCCCCCHHHHHHHHHHHHHHH
Confidence            22222221       235899999999999999999988765433

In Escherichia coli, the arginine-ornithine transport system requires an arginine-ornithine-binding protein and the lysine-arginine-ornithine (LAO) transport system includes a LAO-binding protein. Both periplasmic proteins can be phosphorylated by a single kinase, ArgK [] resulting in reduced levels of transport activity of the periplasmic transport systems that include each of the binding proteins. The ArgK protein acts as an ATPase enzyme and as a kinase.; PDB: 3MD0_A 3P32_A 2QM7_A 2QM8_A 2WWW_D 2P67_A 3NXS_A.

>cd01855 YqeH YqeH

Probab=99.04  E-value=2.3e-09  Score=77.75  Aligned_cols=94  Identities=22%  Similarity=0.108  Sum_probs=66.0

Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEG  132 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~  132 (206)
                      +..++..+++.+|++++|+|+++...     .|...+.... .+.|+++|+||+|+... .........+.     ...+
T Consensus        24 ~~~~l~~~~~~ad~il~VvD~~~~~~-----~~~~~l~~~~-~~~~~ilV~NK~Dl~~~-~~~~~~~~~~~~~~~~~~~~   96 (190)
T cd01855          24 ILNLLSSISPKKALVVHVVDIFDFPG-----SLIPRLRLFG-GNNPVILVGNKIDLLPK-DKNLVRIKNWLRAKAAAGLG   96 (190)
T ss_pred             HHHHHHhcccCCcEEEEEEECccCCC-----ccchhHHHhc-CCCcEEEEEEchhcCCC-CCCHHHHHHHHHHHHHhhcC
Confidence            57788889999999999999987542     1222221111 46899999999998642 22333333333     2333


Q ss_pred             C---eEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          133 L---CFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       133 ~---~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +   .++.+||++++|+++++..+.+.+.
T Consensus        97 ~~~~~i~~vSA~~~~gi~eL~~~l~~~l~  125 (190)
T cd01855          97 LKPKDVILISAKKGWGVEELINAIKKLAK  125 (190)
T ss_pred             CCcccEEEEECCCCCCHHHHHHHHHHHhh
Confidence            3   5899999999999999999987764

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.

>KOG0461 consensus Selenocysteine-specific elongation factor [Translation, ribosomal structure and biogenesis]

Probab=99.02  E-value=7.9e-09  Score=79.12  Aligned_cols=154  Identities=16%  Similarity=0.166  Sum_probs=85.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC----CCCCc---cccceeeEEEEEEE-------CCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEF----SLDSK---ATIGVEFQTKTLVI-------HHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~----~~~~~---~~~~~~~~~~~~~~-------~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|.-.+|||||.++|..-..    .....   ..++.+..-..+.+       .+....+.++|+||+...-.....-.
T Consensus        12 iLGHvDSGKTtLarals~~~STaAFDk~pqS~eRgiTLDLGFS~~~v~~parLpq~e~lq~tlvDCPGHasLIRtiigga   91 (522)
T KOG0461|consen   12 ILGHVDSGKTTLARALSELGSTAAFDKHPQSTERGITLDLGFSTMTVLSPARLPQGEQLQFTLVDCPGHASLIRTIIGGA   91 (522)
T ss_pred             eEeeccCchHHHHHHHHhhccchhhccCCcccccceeEeecceeeecccccccCccccceeEEEeCCCcHHHHHHHHhhh
Confidence            578999999999999986322    11111   11111111111111       23456789999999865444344444


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHH-HHHH---HHc----CCeE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDA-KEFA---EKE----GLCF  135 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~-~~~~---~~~----~~~~  135 (206)
                      .-.|..++|+|+...-.-..++- .+..+  .   -...+||+||+|..++.+  -..+++ .+..   +..    +.|+
T Consensus        92 qiiDlm~lviDv~kG~QtQtAEcLiig~~--~---c~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI  166 (522)
T KOG0461|consen   92 QIIDLMILVIDVQKGKQTQTAECLIIGEL--L---CKKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPI  166 (522)
T ss_pred             heeeeeeEEEehhcccccccchhhhhhhh--h---ccceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCce
Confidence            55688999999975432222111 11111  1   134688899998754211  111111 1111   222    2689


Q ss_pred             EEeccCCC----CCHHHHHHHHHHHHHH
Q 040835          136 METSALES----TNVELAFLTVLTEIYR  159 (206)
Q Consensus       136 ~~~Sa~~~----~~v~~~~~~l~~~i~~  159 (206)
                      +++|+.+|    +++.++...+-..+++
T Consensus       167 ~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  167 VEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             eEEecCCCccchhHHHHHHHHHHHhhcC
Confidence            99999999    6666666665555543

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

Probab=99.01  E-value=5.6e-09  Score=86.69  Aligned_cols=113  Identities=14%  Similarity=0.131  Sum_probs=65.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceee-EEEEEEECCeEEEEEEEeCCCchhhh-------hh---hHhHhc--
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEF-QTKTLVIHHKNVKAQIWDTAGQERYR-------AV---TSAYYR--   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~---~~~~~~--   67 (206)
                      |+|.+|+|||||+|+|++...........+++. .......+  ...+.++||||.....       ..   ...++.  
T Consensus       123 LVGKTGVGKSSLINSILGekvf~vss~~~~TTr~~ei~~~id--G~~L~VIDTPGL~dt~~dq~~neeILk~Ik~~Lsk~  200 (763)
T TIGR00993       123 VLGKSGVGKSATINSIFGEVKFSTDAFGMGTTSVQEIEGLVQ--GVKIRVIDTPGLKSSASDQSKNEKILSSVKKFIKKN  200 (763)
T ss_pred             EECCCCCCHHHHHHHHhccccccccCCCCCceEEEEEEEEEC--CceEEEEECCCCCccccchHHHHHHHHHHHHHHhcC
Confidence            589999999999999999864333321112222 11122222  4678999999964321       11   122333  


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCC--CCcEEEEEeCCCCCc
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADK--NIIIMLVGNKSDLET  115 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~ivv~nK~D~~~  115 (206)
                      ..|++|+|..++..........++..+....+.  -..+||+.|+.|..+
T Consensus       201 gpDVVLlV~RLd~~~~D~eD~~aLr~Iq~lFG~~Iwk~tIVVFThgD~lp  250 (763)
T TIGR00993       201 PPDIVLYVDRLDMQTRDSNDLPLLRTITDVLGPSIWFNAIVTLTHAASAP  250 (763)
T ss_pred             CCCEEEEEEeCCCccccHHHHHHHHHHHHHhCHHhHcCEEEEEeCCccCC
Confidence            589999998775332211222344444443332  245899999999764

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.

>cd01859 MJ1464 MJ1464

Probab=99.01  E-value=1.1e-09  Score=76.93  Aligned_cols=96  Identities=17%  Similarity=0.109  Sum_probs=65.2

Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEE
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFME  137 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~  137 (206)
                      |..+.+.+++++|++|+|+|++++..... ..+...+..   .+.|+++++||+|+.....  ......+....+.+++.
T Consensus         2 ~~~~~~~i~~~aD~vl~V~D~~~~~~~~~-~~l~~~~~~---~~~p~iiv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~   75 (156)
T cd01859           2 WKRLVRRIIKESDVVLEVLDARDPELTRS-RKLERYVLE---LGKKLLIVLNKADLVPKEV--LEKWKSIKESEGIPVVY   75 (156)
T ss_pred             HHHHHHHHHhhCCEEEEEeeCCCCcccCC-HHHHHHHHh---CCCcEEEEEEhHHhCCHHH--HHHHHHHHHhCCCcEEE
Confidence            45567788889999999999987543221 122222221   3689999999999853111  11122333445678999


Q ss_pred             eccCCCCCHHHHHHHHHHHHHH
Q 040835          138 TSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       138 ~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +||+++.|++++++.+.+.+..
T Consensus        76 iSa~~~~gi~~L~~~l~~~~~~   97 (156)
T cd01859          76 VSAKERLGTKILRRTIKELAKI   97 (156)
T ss_pred             EEccccccHHHHHHHHHHHHhh
Confidence            9999999999999999877653

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.

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

Probab=99.00  E-value=7.5e-09  Score=79.92  Aligned_cols=157  Identities=13%  Similarity=0.183  Sum_probs=93.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC----------CccccceeeEEEEEEECCeEEEEEEEeCCCchhh------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD----------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY------------   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------------   58 (206)
                      ++|+.|+|||||+|.|++......          ..+++........+.-++..+.+.++||||.-.+            
T Consensus        28 ~~G~sG~GKttfiNtL~~~~l~~~~~~~~~~~~~~~~~~~i~~~~~~l~e~~~~~~l~vIDtpGfGD~idNs~~we~I~~  107 (373)
T COG5019          28 VVGESGLGKTTFINTLFGTSLVDETEIDDIRAEGTSPTLEIKITKAELEEDGFHLNLTVIDTPGFGDFIDNSKCWEPIVD  107 (373)
T ss_pred             EecCCCCchhHHHHhhhHhhccCCCCccCcccccCCcceEEEeeeeeeecCCeEEEEEEeccCCccccccccccHHHHHH
Confidence            589999999999999998743322          2344445555555555777888999999992211            


Q ss_pred             --hhhhHhHh--------------cCCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--
Q 040835           59 --RAVTSAYY--------------RGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAV--  119 (206)
Q Consensus        59 --~~~~~~~~--------------~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--  119 (206)
                        ......|+              ..+++++|.+.++.+. +..+ -..+..+..    .+-+|-|+.|.|.....++  
T Consensus       108 yI~~q~d~yl~~E~~~~R~~~~~D~RVH~cLYFI~Ptgh~-l~~~DIe~Mk~ls~----~vNlIPVI~KaD~lT~~El~~  182 (373)
T COG5019         108 YIDDQFDQYLDEEQKIKRNPKFKDTRVHACLYFIRPTGHG-LKPLDIEAMKRLSK----RVNLIPVIAKADTLTDDELAE  182 (373)
T ss_pred             HHHHHHHHHHHHhhccccccccccCceEEEEEEecCCCCC-CCHHHHHHHHHHhc----ccCeeeeeeccccCCHHHHHH
Confidence              11111121              2478999999987643 2222 223333333    4567788899997532222  


Q ss_pred             CHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhhhh
Q 040835          120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK  164 (206)
Q Consensus       120 ~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~  164 (206)
                      -.+.+++....+++++|.  -.+.+.-.+......+.+....+.-
T Consensus       183 ~K~~I~~~i~~~nI~vf~--pyd~e~~~~e~~e~~~~l~~~~PFA  225 (373)
T COG5019         183 FKERIREDLEQYNIPVFD--PYDPEDDEDESLEENQDLRSLIPFA  225 (373)
T ss_pred             HHHHHHHHHHHhCCceeC--CCCccccchhhHHHHHHHhhcCCeE
Confidence            234466677778999885  2555543333344444455544443

>COG0012 Predicted GTPase, probable translation factor [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=2.4e-08  Score=77.59  Aligned_cols=79  Identities=15%  Similarity=0.137  Sum_probs=50.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC----------------CeEEEEEEEeCCCch-------h
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------------HKNVKAQIWDTAGQE-------R   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~~-------~   57 (206)
                      ++|.||||||||.|+++.........|..+++-....+.+.                .....+.++|.+|.-       .
T Consensus         7 IVGlPNVGKSTlFnAlT~~~a~~aNYPF~TIePN~Giv~v~d~rl~~L~~~~~c~~k~~~~~ve~vDIAGLV~GAs~GeG   86 (372)
T COG0012           7 IVGLPNVGKSTLFNALTKAGAEIANYPFCTIEPNVGVVYVPDCRLDELAEIVKCPPKIRPAPVEFVDIAGLVKGASKGEG   86 (372)
T ss_pred             EecCCCCcHHHHHHHHHcCCccccCCCcccccCCeeEEecCchHHHHHHHhcCCCCcEEeeeeEEEEecccCCCcccCCC
Confidence            68999999999999999988654444442322222222221                123568899998832       1


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ....-..-++.+|+++.|++..
T Consensus        87 LGNkFL~~IRevdaI~hVVr~f  108 (372)
T COG0012          87 LGNKFLDNIREVDAIIHVVRCF  108 (372)
T ss_pred             cchHHHHhhhhcCeEEEEEEec
Confidence            2222334468899999999975

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.99  E-value=1.1e-08  Score=80.73  Aligned_cols=153  Identities=15%  Similarity=0.034  Sum_probs=101.4

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            2 IGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      +|.---|||||+.++.+..-..-. ...-|+++..........+..+.++|.||++++-.....-+...|.+++|++.++
T Consensus         6 ~GhidHgkT~L~~altg~~~d~l~EekKRG~TiDlg~~y~~~~d~~~~fIDvpgh~~~i~~miag~~~~d~alLvV~~de   85 (447)
T COG3276           6 AGHIDHGKTTLLKALTGGVTDRLPEEKKRGITIDLGFYYRKLEDGVMGFIDVPGHPDFISNLLAGLGGIDYALLVVAADE   85 (447)
T ss_pred             eeeeeccchhhhhhhcccccccchhhhhcCceEeeeeEeccCCCCceEEeeCCCcHHHHHHHHhhhcCCceEEEEEeCcc
Confidence            466778999999999986443221 1122455555555555556689999999999988777777889999999999975


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .-.... .+.+..+...  .....++++||+|..++. ...+...++....   ..++|.+|+.+++||+++.+.|.+..
T Consensus        86 Gl~~qt-gEhL~iLdll--gi~~giivltk~D~~d~~-r~e~~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276          86 GLMAQT-GEHLLILDLL--GIKNGIIVLTKADRVDEA-RIEQKIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             Ccchhh-HHHHHHHHhc--CCCceEEEEeccccccHH-HHHHHHHHHHhhcccccccccccccccCCCHHHHHHHHHHhh
Confidence            432111 1111112221  124468999999986522 1222233333332   45789999999999999999999877


Q ss_pred             H
Q 040835          158 Y  158 (206)
Q Consensus       158 ~  158 (206)
                      -
T Consensus       162 ~  162 (447)
T COG3276         162 E  162 (447)
T ss_pred             h
Confidence            3

>PRK12289 GTPase RsgA; Reviewed

Probab=98.96  E-value=3.5e-09  Score=83.26  Aligned_cols=91  Identities=15%  Similarity=0.141  Sum_probs=67.1

Q ss_pred             hhhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEe
Q 040835           60 AVTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMET  138 (206)
Q Consensus        60 ~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~  138 (206)
                      .+.+..+.++|.+++|+|+.++. ....+.+|+..+..   .++|+++|+||+|+.....  .+........+|++++.+
T Consensus        81 ~L~R~~~aNvD~vLlV~d~~~p~~~~~~LdR~L~~a~~---~~ip~ILVlNK~DLv~~~~--~~~~~~~~~~~g~~v~~i  155 (352)
T PRK12289         81 ELDRPPVANADQILLVFALAEPPLDPWQLSRFLVKAES---TGLEIVLCLNKADLVSPTE--QQQWQDRLQQWGYQPLFI  155 (352)
T ss_pred             ceechhhhcCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEchhcCChHH--HHHHHHHHHhcCCeEEEE
Confidence            34455688999999999998765 44456777765533   4689999999999863211  122233345678899999


Q ss_pred             ccCCCCCHHHHHHHHHH
Q 040835          139 SALESTNVELAFLTVLT  155 (206)
Q Consensus       139 Sa~~~~~v~~~~~~l~~  155 (206)
                      ||+++.|+++++..+..
T Consensus       156 SA~tg~GI~eL~~~L~~  172 (352)
T PRK12289        156 SVETGIGLEALLEQLRN  172 (352)
T ss_pred             EcCCCCCHHHHhhhhcc
Confidence            99999999999988864

>KOG0468 consensus U5 snRNP-specific protein [Translation, ribosomal structure and biogenesis]

Probab=98.94  E-value=4.9e-09  Score=86.24  Aligned_cols=109  Identities=27%  Similarity=0.317  Sum_probs=76.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc---------------cceeeEEE--EEE---ECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT---------------IGVEFQTK--TLV---IHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~---------------~~~~~~~~--~~~---~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      ++|+-+.|||+|+..|.....+.-...+               -+..+...  ++.   ..++.+-++++||||+-.|.+
T Consensus       133 l~GhLhhGKT~l~D~Lv~~tHp~~~~~~e~~lrytD~l~~E~eRg~sIK~~p~Tl~l~D~~~KS~l~nilDTPGHVnF~D  212 (971)
T KOG0468|consen  133 LVGHLHHGKTALMDLLVEQTHPDFSKNTEADLRYTDTLFYEQERGCSIKSTPVTLVLSDSKGKSYLMNILDTPGHVNFSD  212 (971)
T ss_pred             EeeccccChhHHHHhhceeccccccccccccccccccchhhHhcCceEeecceEEEEecCcCceeeeeeecCCCcccchH
Confidence            5799999999999999886553322111               11111111  111   135567789999999999999


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      .....++.+|++++++|+.+.-.+...+-....+    ..+.|+++|+||+|.
T Consensus       213 E~ta~l~~sDgvVlvvDv~EGVmlntEr~ikhai----q~~~~i~vviNKiDR  261 (971)
T KOG0468|consen  213 ETTASLRLSDGVVLVVDVAEGVMLNTERIIKHAI----QNRLPIVVVINKVDR  261 (971)
T ss_pred             HHHHHhhhcceEEEEEEcccCceeeHHHHHHHHH----hccCcEEEEEehhHH
Confidence            8999999999999999998876554333322222    357999999999996

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

Probab=98.93  E-value=1.3e-08  Score=79.09  Aligned_cols=156  Identities=14%  Similarity=0.182  Sum_probs=92.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC---------CccccceeeEEEEEEECCeEEEEEEEeCCCchh-------h------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD---------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------Y------   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~------   58 (206)
                      ++|..|.|||||+|.|+...+...         ...+.........+.-++..+.+.++||||.-.       |      
T Consensus        26 vvG~sGlGKsTfiNsLf~~~l~~~~~~~~~~~~~~~t~~i~~~~~~iee~g~~l~LtvidtPGfGD~vdns~~w~pi~~y  105 (366)
T KOG2655|consen   26 VVGESGLGKSTFINSLFLTDLSGNREVPGASERIKETVEIESTKVEIEENGVKLNLTVIDTPGFGDAVDNSNCWRPIVNY  105 (366)
T ss_pred             EecCCCccHHHHHHHHHhhhccCCcccCCcccCccccceeeeeeeeecCCCeEEeeEEeccCCCcccccccccchhhhHH
Confidence            589999999999999998755432         122333444444444467788899999999211       1      


Q ss_pred             -hhhhHh-----------Hhc--CCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CH
Q 040835           59 -RAVTSA-----------YYR--GAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PT  121 (206)
Q Consensus        59 -~~~~~~-----------~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~  121 (206)
                       ......           -+.  .+++++|.+.++.+. +..+ ...+..+.    ..+.+|-|+.|.|.....++  -.
T Consensus       106 i~~q~~~yl~~E~~~~R~~~~D~RVH~cLYFI~P~ghg-L~p~Di~~Mk~l~----~~vNiIPVI~KaD~lT~~El~~~K  180 (366)
T KOG2655|consen  106 IDSQFDQYLDEESRLNRSKIKDNRVHCCLYFISPTGHG-LKPLDIEFMKKLS----KKVNLIPVIAKADTLTKDELNQFK  180 (366)
T ss_pred             HHHHHHHHHhhhccCCcccccCCceEEEEEEeCCCCCC-CcHhhHHHHHHHh----ccccccceeeccccCCHHHHHHHH
Confidence             111111           122  678999999987542 1111 12222232    35667888889997532222  23


Q ss_pred             HHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhhhh
Q 040835          122 EDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK  164 (206)
Q Consensus       122 ~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~  164 (206)
                      ..+.+.+..+++++|....-..   ++.+....+.+....+.-
T Consensus       181 ~~I~~~i~~~nI~vf~fp~~~~---d~~~~~~~~~l~~~~PFA  220 (366)
T KOG2655|consen  181 KRIRQDIEEHNIKVFDFPTDES---DEELKEEEQDLKSSIPFA  220 (366)
T ss_pred             HHHHHHHHHcCcceecCCCCcc---hhhhHHHHHHHhhcCCeE
Confidence            4456666677888877665544   555555555555554443

>KOG3887 consensus Predicted small GTPase involved in nuclear protein import [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.93  E-value=8.6e-09  Score=75.24  Aligned_cols=160  Identities=19%  Similarity=0.207  Sum_probs=99.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh---hhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA---VTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~~i~v~d   77 (206)
                      ++|...+|||++....+....+-+.. ....+.....-.+.+.-+.+.+||.||+-.+..   -....++++.+.|+|+|
T Consensus        32 LMG~rRsGKsSI~KVVFhkMsPneTl-flESTski~~d~is~sfinf~v~dfPGQ~~~Fd~s~D~e~iF~~~gALifvID  110 (347)
T KOG3887|consen   32 LMGLRRSGKSSIQKVVFHKMSPNETL-FLESTSKITRDHISNSFINFQVWDFPGQMDFFDPSFDYEMIFRGVGALIFVID  110 (347)
T ss_pred             EEeecccCcchhhheeeeccCCCcee-EeeccCcccHhhhhhhhcceEEeecCCccccCCCccCHHHHHhccCeEEEEEe
Confidence            57999999999887666544322211 111111111112233457899999999865432   24567899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCC-CCCH------HHHHHHHHH----cCCeEEEeccCCCC
Q 040835           78 ITKRQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLR-AVPT------EDAKEFAEK----EGLCFMETSALEST  144 (206)
Q Consensus        78 ~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~-~~~~------~~~~~~~~~----~~~~~~~~Sa~~~~  144 (206)
                      +.+. -.+.+.++...+.+..  +++..+-|++.|.|...+. .+..      .....++..    ..+.++-||..+. 
T Consensus       111 aQdd-y~eala~L~~~v~raykvNp~in~EVfiHKvDGLsdd~kietqrdI~qr~~d~l~d~gle~v~vsf~LTSIyDH-  188 (347)
T KOG3887|consen  111 AQDD-YMEALARLHMTVERAYKVNPNINFEVFIHKVDGLSDDFKIETQRDIHQRTNDELADAGLEKVQVSFYLTSIYDH-  188 (347)
T ss_pred             chHH-HHHHHHHHHHHhhheeecCCCceEEEEEEeccCCchhhhhhhHHHHHHHhhHHHHhhhhccceEEEEEeeecch-
Confidence            9764 2455555655555443  4778899999999964311 1111      111122221    1245788888876 


Q ss_pred             CHHHHHHHHHHHHHHHhhh
Q 040835          145 NVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       145 ~v~~~~~~l~~~i~~~~~~  163 (206)
                      .+-+.|..+++.+..+.+.
T Consensus       189 SIfEAFSkvVQkLipqLpt  207 (347)
T KOG3887|consen  189 SIFEAFSKVVQKLIPQLPT  207 (347)
T ss_pred             HHHHHHHHHHHHHhhhchh
Confidence            4889999999988877663

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.93  E-value=5.4e-09  Score=80.45  Aligned_cols=88  Identities=15%  Similarity=0.017  Sum_probs=67.4

Q ss_pred             HhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccC
Q 040835           63 SAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSAL  141 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  141 (206)
                      ..++.++|.+++|+|+.++. ++..+.+|+..+..   .++|+++|+||+|+....  .......+....+++++.+|++
T Consensus        73 ~~i~anvD~vllV~d~~~p~~s~~~ldr~L~~~~~---~~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~  147 (287)
T cd01854          73 QVIAANVDQLVIVVSLNEPFFNPRLLDRYLVAAEA---AGIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAK  147 (287)
T ss_pred             eeEEEeCCEEEEEEEcCCCCCCHHHHHHHHHHHHH---cCCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECC
Confidence            34578999999999999887 77888888876654   368999999999996421  1112233344568899999999


Q ss_pred             CCCCHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLT  155 (206)
Q Consensus       142 ~~~~v~~~~~~l~~  155 (206)
                      ++.|+++++..+..
T Consensus       148 ~g~gi~~L~~~L~~  161 (287)
T cd01854         148 TGEGLDELREYLKG  161 (287)
T ss_pred             CCccHHHHHhhhcc
Confidence            99999998887653

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.

>KOG0705 consensus GTPase-activating protein Centaurin gamma (contains Ras-like GTPase, PH and ankyrin repeat domains) [Signal transduction mechanisms]

Probab=98.91  E-value=1.1e-08  Score=82.51  Aligned_cols=173  Identities=21%  Similarity=0.363  Sum_probs=125.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..++|||+|+.+++.+.+.....+- + ..+...+..++....+.+.|.+|..     ...|...+|++||||.+-+
T Consensus        35 ivg~~~sgktalvhr~ltgty~~~e~~e-~-~~~kkE~vv~gqs~lLlirdeg~~~-----~aQft~wvdavIfvf~~~d  107 (749)
T KOG0705|consen   35 IVGTSQSGKTALVHRYLTGTYTQDESPE-G-GRFKKEVVVDGQSHLLLIRDEGGHP-----DAQFCQWVDAVVFVFSVED  107 (749)
T ss_pred             eeecccCCceeeeeeeccceeccccCCc-C-ccceeeEEeeccceEeeeecccCCc-----hhhhhhhccceEEEEEecc
Confidence            6899999999999999998886665443 3 3445666677888889999998833     2456678999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE--TLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ..++..+..+...+..+.. ..+|+++++++.-..  ..+.....+.+.++.++ -..+|++.+..|.++...|+.+...
T Consensus       108 ~~s~q~v~~l~~~l~~~r~r~~i~l~lvgtqd~iS~~~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k  187 (749)
T KOG0705|consen  108 EQSFQAVQALAHEMSSYRNISDLPLILVGTQDHISAKRPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQK  187 (749)
T ss_pred             ccCHHHHHHHHhhcccccccccchHHhhcCcchhhcccccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHH
Confidence            9999988887777665442 457788877764432  23444555566666555 4679999999999999999999999


Q ss_pred             HHHHhhhhhcccC-CCCCCCCCCcc
Q 040835          157 IYRIVSKKALTAN-DESESGGSSSL  180 (206)
Q Consensus       157 i~~~~~~~~~~~~-~~~~~~~~~~~  180 (206)
                      +...+.+...... ....+..+++.
T Consensus       188 ~i~~~~~qq~~~~~~~s~~~s~~~s  212 (749)
T KOG0705|consen  188 IVQLRKYQQLPASSSKSLPESPSHS  212 (749)
T ss_pred             HHHHHhhhhcccccccccccCCccc
Confidence            8777665544333 33444444444

>PRK12288 GTPase RsgA; Reviewed

Probab=98.88  E-value=1.6e-08  Score=79.57  Aligned_cols=87  Identities=15%  Similarity=0.085  Sum_probs=66.5

Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHHHcCCeEEEeccCCCC
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV-PTEDAKEFAEKEGLCFMETSALEST  144 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~  144 (206)
                      ..++|.+++|++.+...++..+.+|+..+..   .++|.++|+||+|+...... ...+........+++++++||++++
T Consensus       118 aANvD~vlIV~s~~p~~s~~~Ldr~L~~a~~---~~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~  194 (347)
T PRK12288        118 AANIDQIVIVSAVLPELSLNIIDRYLVACET---LGIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGE  194 (347)
T ss_pred             EEEccEEEEEEeCCCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCc
Confidence            3569999999999887889999999875543   46899999999999642211 1122333445678899999999999


Q ss_pred             CHHHHHHHHHH
Q 040835          145 NVELAFLTVLT  155 (206)
Q Consensus       145 ~v~~~~~~l~~  155 (206)
                      |+++++..+..
T Consensus       195 GideL~~~L~~  205 (347)
T PRK12288        195 GLEELEAALTG  205 (347)
T ss_pred             CHHHHHHHHhh
Confidence            99999988864

>PRK00098 GTPase RsgA; Reviewed

Probab=98.86  E-value=9.7e-09  Score=79.48  Aligned_cols=85  Identities=19%  Similarity=0.110  Sum_probs=63.7

Q ss_pred             HhcCCcEEEEEeeCCChhhHH-HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFD-NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALES  143 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~  143 (206)
                      +..++|.+++|+|+.++.... .+.+|+..+..   .++|+++|+||+|+..... ...+........+++++.+||+++
T Consensus        77 iaaniD~vllV~d~~~p~~~~~~idr~L~~~~~---~~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g  152 (298)
T PRK00098         77 IAANVDQAVLVFAAKEPDFSTDLLDRFLVLAEA---NGIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEG  152 (298)
T ss_pred             eeecCCEEEEEEECCCCCCCHHHHHHHHHHHHH---CCCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCC
Confidence            358999999999998876443 44677766554   4689999999999953211 122344555667889999999999


Q ss_pred             CCHHHHHHHH
Q 040835          144 TNVELAFLTV  153 (206)
Q Consensus       144 ~~v~~~~~~l  153 (206)
                      .|+++++..+
T Consensus       153 ~gi~~L~~~l  162 (298)
T PRK00098        153 EGLDELKPLL  162 (298)
T ss_pred             ccHHHHHhhc
Confidence            9999998876

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.83  E-value=2.4e-08  Score=79.29  Aligned_cols=95  Identities=21%  Similarity=0.245  Sum_probs=69.3

Q ss_pred             chhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH----HHHH
Q 040835           55 QERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE----FAEK  130 (206)
Q Consensus        55 ~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~----~~~~  130 (206)
                      .+.|..+...+.+.++++++|+|+.+...     .|...+.+.. .+.|+++|+||+|+.+ +....+++..    ++.+
T Consensus        50 ~e~f~~~l~~~~~~~~~Il~VvD~~d~~~-----s~~~~l~~~~-~~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~  122 (360)
T TIGR03597        50 DDDFLNLLNSLGDSNALIVYVVDIFDFEG-----SLIPELKRFV-GGNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKE  122 (360)
T ss_pred             HHHHHHHHhhcccCCcEEEEEEECcCCCC-----CccHHHHHHh-CCCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHH
Confidence            56788888888899999999999976541     2333333332 2579999999999865 3333444443    4556


Q ss_pred             cCC---eEEEeccCCCCCHHHHHHHHHHH
Q 040835          131 EGL---CFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       131 ~~~---~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      .++   .++.+||+++.|+++++..+.+.
T Consensus       123 ~g~~~~~i~~vSAk~g~gv~eL~~~l~~~  151 (360)
T TIGR03597       123 LGLKPVDIILVSAKKGNGIDELLDKIKKA  151 (360)
T ss_pred             cCCCcCcEEEecCCCCCCHHHHHHHHHHH
Confidence            676   48999999999999999988654

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.

>KOG1954 consensus Endocytosis/signaling protein EHD1 [Signal transduction mechanisms; Intracellular trafficking, secretion, and vesicular transport]

Probab=98.77  E-value=6.6e-08  Score=74.79  Aligned_cols=112  Identities=19%  Similarity=0.230  Sum_probs=72.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe-------E-----------------------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK-------N-----------------------------   44 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-------~-----------------------------   44 (206)
                      ++|.-.+|||||++.|++..++........++..-..++....       .                             
T Consensus        63 l~GqyStGKTtfi~yLle~dypg~riGpEPTtd~Fi~vM~G~~e~~ipGnal~vd~~~pF~gL~~FG~aflnRf~csqmp  142 (532)
T KOG1954|consen   63 LVGQYSTGKTTFIRYLLEQDYPGLRIGPEPTTDRFIAVMHGDEEGSIPGNALVVDAKKPFRGLNKFGNAFLNRFMCSQLP  142 (532)
T ss_pred             EEeccccchhHHHHHHHhCCCCccccCCCCCcceeEEEEecCcccccCCceeeecCCCchhhhhhhHHHHHHHHHHhcCC
Confidence            5799999999999999999886443322222222232322111       0                             


Q ss_pred             ----EEEEEEeCCCch-----------hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEe
Q 040835           45 ----VKAQIWDTAGQE-----------RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGN  109 (206)
Q Consensus        45 ----~~~~i~D~~G~~-----------~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~n  109 (206)
                          ..+.|+||||.-           .|.....=+...+|.+|++||+..-+--++..+.+..+..   ..-.+-||+|
T Consensus       143 ~~vLe~vtiVdtPGILsgeKQrisR~ydF~~v~~WFaeR~D~IiLlfD~hKLDIsdEf~~vi~aLkG---~EdkiRVVLN  219 (532)
T KOG1954|consen  143 NQVLESVTIVDTPGILSGEKQRISRGYDFTGVLEWFAERVDRIILLFDAHKLDISDEFKRVIDALKG---HEDKIRVVLN  219 (532)
T ss_pred             hhhhhheeeeccCcccccchhcccccCChHHHHHHHHHhccEEEEEechhhccccHHHHHHHHHhhC---CcceeEEEec
Confidence                237899999931           2444556678899999999998654433445555555544   3455889999


Q ss_pred             CCCCCc
Q 040835          110 KSDLET  115 (206)
Q Consensus       110 K~D~~~  115 (206)
                      |.|...
T Consensus       220 KADqVd  225 (532)
T KOG1954|consen  220 KADQVD  225 (532)
T ss_pred             cccccC
Confidence            999764

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.75  E-value=1.6e-08  Score=69.75  Aligned_cols=51  Identities=25%  Similarity=0.309  Sum_probs=36.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.+|+|||||+|+|++........ ..+.+.....+.++.   .+.+|||||.
T Consensus        88 ~~G~~~vGKstlin~l~~~~~~~~~~-~~~~~~~~~~~~~~~---~~~i~DtpG~  138 (141)
T cd01857          88 LVGYPNVGKSSLINALVGKKKVSVSA-TPGKTKHFQTIFLTP---TITLCDCPGL  138 (141)
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeCC-CCCcccceEEEEeCC---CEEEEECCCc
Confidence            58999999999999999887653332 224455555555543   5799999995

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.

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

Probab=98.67  E-value=2.5e-07  Score=67.68  Aligned_cols=139  Identities=18%  Similarity=0.216  Sum_probs=75.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC---------CccccceeeEEEEEEECCeEEEEEEEeCCCchh--------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD---------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------------   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~---------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------------   57 (206)
                      |+|..|.|||||+|+|+.......         ...|..+......+.-++-...+.++||||.-+              
T Consensus        51 VVgqSglgkstlinTlf~s~v~~~s~~~~~~~p~pkT~eik~~thvieE~gVklkltviDTPGfGDqInN~ncWePI~ky  130 (336)
T KOG1547|consen   51 VVGQSGLGKSTLINTLFKSHVSDSSSSDNSAEPIPKTTEIKSITHVIEEKGVKLKLTVIDTPGFGDQINNDNCWEPIEKY  130 (336)
T ss_pred             EEecCCCCchhhHHHHHHHHHhhccCCCcccCcccceEEEEeeeeeeeecceEEEEEEecCCCcccccCccchhHHHHHH
Confidence            689999999999999987544331         112222222222334456678899999999211              


Q ss_pred             ----hhhh--------hHhHhc--CCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc--CCCCC
Q 040835           58 ----YRAV--------TSAYYR--GAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET--LRAVP  120 (206)
Q Consensus        58 ----~~~~--------~~~~~~--~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~--~~~~~  120 (206)
                          |...        +...+.  .++.++|.+.++.+. +..+ ..++..+.+.    +.++-|+-|.|-..  ++..-
T Consensus       131 IneQye~yL~eElni~R~kripDTRVHcclyFi~ptGhs-LrplDieflkrLt~v----vNvvPVIakaDtlTleEr~~F  205 (336)
T KOG1547|consen  131 INEQYEQYLREELNIAREKRIPDTRVHCCLYFIPPTGHS-LRPLDIEFLKRLTEV----VNVVPVIAKADTLTLEERSAF  205 (336)
T ss_pred             HHHHHHHHHHHHHhHHhhhcCCCceEEEEEEEeCCCCCc-cCcccHHHHHHHhhh----heeeeeEeecccccHHHHHHH
Confidence                1111        111122  357788888887543 2222 1233333332    34666777999531  12222


Q ss_pred             HHHHHHHHHHcCCeEEEeccCCCC
Q 040835          121 TEDAKEFAEKEGLCFMETSALEST  144 (206)
Q Consensus       121 ~~~~~~~~~~~~~~~~~~Sa~~~~  144 (206)
                      .+.+++-...+++.++.-.+.+..
T Consensus       206 kqrI~~el~~~~i~vYPq~~fded  229 (336)
T KOG1547|consen  206 KQRIRKELEKHGIDVYPQDSFDED  229 (336)
T ss_pred             HHHHHHHHHhcCcccccccccccc
Confidence            333444555677777766555543

>KOG0460 consensus Mitochondrial translation elongation factor Tu [Translation, ribosomal structure and biogenesis]

Probab=98.64  E-value=7.5e-07  Score=68.37  Aligned_cols=184  Identities=19%  Similarity=0.176  Sum_probs=114.8

Q ss_pred             ccCCCCCHHHHHHHHhcC----------CCCCC----CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhc
Q 040835            2 IGDSAVGKSQLLARFARD----------EFSLD----SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYR   67 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~----------~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~   67 (206)
                      +|.-.=|||||-.++..-          .+...    ....-|+++....+.+......+--.||||+.+|-.....-..
T Consensus        60 IGHVDHGKTTLTaAITkila~~g~A~~~kydeID~APEEkaRGITIn~aHveYeTa~RhYaH~DCPGHADYIKNMItGaa  139 (449)
T KOG0460|consen   60 IGHVDHGKTTLTAAITKILAEKGGAKFKKYDEIDKAPEEKARGITINAAHVEYETAKRHYAHTDCPGHADYIKNMITGAA  139 (449)
T ss_pred             cccccCCchhHHHHHHHHHHhccccccccHhhhhcChhhhhccceEeeeeeeeeccccccccCCCCchHHHHHHhhcCcc
Confidence            577788999999887751          11100    0122467777777777777788888999999988766655667


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC---CCHHHHHHHHHHcCC-----eEEEec
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA---VPTEDAKEFAEKEGL-----CFMETS  139 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~~-----~~~~~S  139 (206)
                      +.|+.|+|+.++|..- ...++.+...++..  -..++|++||.|+.++.+   +-+.+++++...+|+     |++.-|
T Consensus       140 qMDGaILVVaatDG~M-PQTrEHlLLArQVG--V~~ivvfiNKvD~V~d~e~leLVEmE~RElLse~gf~Gd~~PvI~GS  216 (449)
T KOG0460|consen  140 QMDGAILVVAATDGPM-PQTREHLLLARQVG--VKHIVVFINKVDLVDDPEMLELVEMEIRELLSEFGFDGDNTPVIRGS  216 (449)
T ss_pred             ccCceEEEEEcCCCCC-cchHHHHHHHHHcC--CceEEEEEecccccCCHHHHHHHHHHHHHHHHHcCCCCCCCCeeecc
Confidence            8899999999998642 22222222222221  144889999999975333   234567888888864     677766


Q ss_pred             cC---CCCCHHHHHHHHHHHHHHHhhhhhcccCCCCCCCCCCccccccccccCCC
Q 040835          140 AL---ESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSLLKATNIVVPGQ  191 (206)
Q Consensus       140 a~---~~~~v~~~~~~l~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  191 (206)
                      |+   .+.+-+ +=...+..+++..  -...+.+.+.-..++.+|-....+++++
T Consensus       217 AL~ALeg~~pe-ig~~aI~kLldav--Dsyip~P~R~~~~pFl~pie~vfsI~GR  268 (449)
T KOG0460|consen  217 ALCALEGRQPE-IGLEAIEKLLDAV--DSYIPTPERDLDKPFLLPIEDVFSIPGR  268 (449)
T ss_pred             hhhhhcCCCcc-ccHHHHHHHHHHH--hccCCCcccccCCCceeehhheeeecCC
Confidence            54   443211 1111222222221  2335667788888888887777777665

>KOG0082 consensus G-protein alpha subunit (small G protein superfamily) [Cell cycle control, cell division, chromosome partitioning; Signal transduction mechanisms]

Probab=98.64  E-value=9.8e-07  Score=68.77  Aligned_cols=126  Identities=20%  Similarity=0.237  Sum_probs=87.5

Q ss_pred             EECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhh-------HHHHHHHHHHHHhcC----CCCCcEEEE
Q 040835           39 VIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQS-------FDNVARWLEELRGHA----DKNIIIMLV  107 (206)
Q Consensus        39 ~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s-------~~~~~~~~~~~~~~~----~~~~p~ivv  107 (206)
                      .+......+.++|.+|+...+.-|...+.+++++|+|+++++.+.       ...+.+-+..+...+    -.+.+++++
T Consensus       189 ~F~~k~~~f~~~DvGGQRseRrKWihcFe~v~aviF~vslSeYdq~l~ED~~~NRM~eS~~LF~sI~n~~~F~~tsiiLF  268 (354)
T KOG0082|consen  189 EFTIKGLKFRMFDVGGQRSERKKWIHCFEDVTAVIFCVSLSEYDQVLEEDETTNRMHESLKLFESICNNKWFANTSIILF  268 (354)
T ss_pred             EEEeCCCceEEEeCCCcHHHhhhHHHhhcCCCEEEEEEehhhhhhhcccccchhHHHHHHHHHHHHhcCcccccCcEEEE
Confidence            344456889999999999999999999999999999999987432       122222222222222    257899999


Q ss_pred             EeCCCCCc--------------CC-CCCHHHHHHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          108 GNKSDLET--------------LR-AVPTEDAKEFAEK----------EGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       108 ~nK~D~~~--------------~~-~~~~~~~~~~~~~----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      +||.|+-.              -. .-..+++..+...          ..+.++.+.|.+..+|+.+|..+.+.+.....
T Consensus       269 LNK~DLFeEKi~~~~~~~~Fpdy~G~~~~~~a~~yI~~kF~~l~~~~~k~iy~h~T~AtDT~nv~~vf~av~d~Ii~~nl  348 (354)
T KOG0082|consen  269 LNKKDLFEEKIKKVPLTDCFPDYKGVNTYEEAAKYIRKKFEELNKNKDKKIYVHFTCATDTQNVQFVFDAVTDTIIQNNL  348 (354)
T ss_pred             eecHHHHHHHhccCchhhhCcCCCCCCChHHHHHHHHHHHHHHhcccCCcceEEEEeeccHHHHHHHHHHHHHHHHHHHH
Confidence            99999821              01 1233344333321          12446778999999999999999999988765


Q ss_pred             hh
Q 040835          163 KK  164 (206)
Q Consensus       163 ~~  164 (206)
                      +.
T Consensus       349 k~  350 (354)
T KOG0082|consen  349 KD  350 (354)
T ss_pred             HH
Confidence            54

>cd01858 NGP_1 NGP-1

Probab=98.58  E-value=2.2e-07  Score=65.26  Aligned_cols=89  Identities=12%  Similarity=0.035  Sum_probs=56.5

Q ss_pred             hHhcCCcEEEEEeeCCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccC
Q 040835           64 AYYRGAVGAMLVYDITKRQS--FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSAL  141 (206)
Q Consensus        64 ~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~  141 (206)
                      ..+..+|++++|+|+.++..  ...+..+   +... ..++|+++|+||+|+..... .......+.+.+...++.+||+
T Consensus         4 ~~l~~aD~il~VvD~~~p~~~~~~~i~~~---l~~~-~~~~p~ilVlNKiDl~~~~~-~~~~~~~~~~~~~~~~~~iSa~   78 (157)
T cd01858           4 KVIDSSDVVIQVLDARDPMGTRCKHVEEY---LKKE-KPHKHLIFVLNKCDLVPTWV-TARWVKILSKEYPTIAFHASIN   78 (157)
T ss_pred             HhhhhCCEEEEEEECCCCccccCHHHHHH---HHhc-cCCCCEEEEEEchhcCCHHH-HHHHHHHHhcCCcEEEEEeecc
Confidence            34678999999999988632  2223333   2222 24589999999999853211 1111222222222235779999


Q ss_pred             CCCCHHHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLTEI  157 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i  157 (206)
                      .+.|++++++.+.+.+
T Consensus        79 ~~~~~~~L~~~l~~~~   94 (157)
T cd01858          79 NPFGKGSLIQLLRQFS   94 (157)
T ss_pred             ccccHHHHHHHHHHHH
Confidence            9999999999887654

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.

>KOG1486 consensus GTP-binding protein DRG2 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.58  E-value=1.9e-06  Score=63.59  Aligned_cols=103  Identities=22%  Similarity=0.167  Sum_probs=65.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh-------hhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA-------VTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-------~~~~~~~~~d~~i   73 (206)
                      ++|.|.+|||||+..++............+.+.....+.+++  ..+++.|.||.-+-.+       ......+.+|+++
T Consensus        67 lIGfPSVGKStlLs~iT~T~SeaA~yeFTTLtcIpGvi~y~g--a~IQllDLPGIieGAsqgkGRGRQviavArtaDlil  144 (364)
T KOG1486|consen   67 LIGFPSVGKSTLLSKITSTHSEAASYEFTTLTCIPGVIHYNG--ANIQLLDLPGIIEGASQGKGRGRQVIAVARTADLIL  144 (364)
T ss_pred             EecCCCccHHHHHHHhhcchhhhhceeeeEEEeecceEEecC--ceEEEecCcccccccccCCCCCceEEEEeecccEEE
Confidence            579999999999999988665444333334444444555544  4578999999543322       2234567899999


Q ss_pred             EEeeCCChhhHH-HHHHHHHHHHhcCCCCCcEE
Q 040835           74 LVYDITKRQSFD-NVARWLEELRGHADKNIIIM  105 (206)
Q Consensus        74 ~v~d~~~~~s~~-~~~~~~~~~~~~~~~~~p~i  105 (206)
                      .|.|++..+... .+..-+..+....+...|-+
T Consensus       145 MvLDatk~e~qr~~le~ELe~vGiRLNk~~Pni  177 (364)
T KOG1486|consen  145 MVLDATKSEDQREILEKELEAVGIRLNKRKPNI  177 (364)
T ss_pred             EEecCCcchhHHHHHHHHHHHhceeccCCCCCe
Confidence            999999876544 33445555443333444533

>KOG0465 consensus Mitochondrial elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.57  E-value=3.3e-07  Score=75.06  Aligned_cols=105  Identities=20%  Similarity=0.206  Sum_probs=73.5

Q ss_pred             CCCCHHHHHHHHhcCCCCCC----------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcC
Q 040835            5 SAVGKSQLLARFARDEFSLD----------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG   68 (206)
Q Consensus         5 ~~~GKTtLl~~l~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   68 (206)
                      -.+|||||-++.+...-...                ....-|+++........|.+..+.|+||||+-.|.......++.
T Consensus        48 idsgKTT~tEr~Lyy~G~~~~i~ev~~~~a~md~m~~er~rgITiqSAAt~~~w~~~~iNiIDTPGHvDFT~EVeRALrV  127 (721)
T KOG0465|consen   48 IDAGKTTLTERMLYYTGRIKHIGEVRGGGATMDSMELERQRGITIQSAATYFTWRDYRINIIDTPGHVDFTFEVERALRV  127 (721)
T ss_pred             EecCCceeeheeeeecceeeeccccccCceeeehHHHHHhcCceeeeceeeeeeccceeEEecCCCceeEEEEehhhhhh
Confidence            35899999998775211000                01112445555555566778999999999999988878888899


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      -|++|++++...+-.-.....|.+.-    ..++|.+.++||+|.
T Consensus       128 lDGaVlvl~aV~GVqsQt~tV~rQ~~----ry~vP~i~FiNKmDR  168 (721)
T KOG0465|consen  128 LDGAVLVLDAVAGVESQTETVWRQMK----RYNVPRICFINKMDR  168 (721)
T ss_pred             ccCeEEEEEcccceehhhHHHHHHHH----hcCCCeEEEEehhhh
Confidence            99999999887654334444554432    247999999999996

>PRK10416 signal recognition particle-docking protein FtsY; Provisional

Probab=98.57  E-value=3.2e-07  Score=71.46  Aligned_cols=95  Identities=15%  Similarity=0.092  Sum_probs=57.7

Q ss_pred             EEEEEEEeCCCchhhhhh----hHhH--------hcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           44 NVKAQIWDTAGQERYRAV----TSAY--------YRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~----~~~~--------~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      .+.+.|+||||.......    ...+        -...+..++|+|++... .+..+..    +....   -+.-+|+||
T Consensus       196 ~~D~ViIDTaGr~~~~~~l~~eL~~~~~v~~~~~~~~p~~~~LVl~a~~g~~~~~~a~~----f~~~~---~~~giIlTK  268 (318)
T PRK10416        196 GIDVLIIDTAGRLHNKTNLMEELKKIKRVIKKADPDAPHEVLLVLDATTGQNALSQAKA----FHEAV---GLTGIILTK  268 (318)
T ss_pred             CCCEEEEeCCCCCcCCHHHHHHHHHHHHHHhhhcCCCCceEEEEEECCCChHHHHHHHH----HHhhC---CCCEEEEEC
Confidence            467899999995432111    1111        12467789999998543 2222222    22211   245688999


Q ss_pred             CCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835          111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus       111 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .|...    ..-.+.......++|+..++  +|++++++-.
T Consensus       269 lD~t~----~~G~~l~~~~~~~~Pi~~v~--~Gq~~~Dl~~  303 (318)
T PRK10416        269 LDGTA----KGGVVFAIADELGIPIKFIG--VGEGIDDLQP  303 (318)
T ss_pred             CCCCC----CccHHHHHHHHHCCCEEEEe--CCCChhhCcc
Confidence            99643    23345666777799998888  7788876644

>TIGR03348 VI_IcmF type VI secretion protein IcmF

Probab=98.55  E-value=1.1e-06  Score=79.67  Aligned_cols=109  Identities=23%  Similarity=0.256  Sum_probs=67.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC------ccccceeeEEEEEEECCeEEEEEEEeCCCch--------hhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQE--------RYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~   66 (206)
                      |+|++|+|||||++.- +-.++...      ....+.+.... ..   -.-+..++||+|..        .....|..++
T Consensus       116 viG~~gsGKtt~l~~s-gl~~pl~~~~~~~~~~~~~~t~~c~-ww---f~~~avliDtaG~y~~~~~~~~~~~~~W~~fL  190 (1169)
T TIGR03348       116 VIGPPGSGKTTLLQNS-GLKFPLAERLGAAALRGVGGTRNCD-WW---FTDEAVLIDTAGRYTTQDSDPEEDAAAWLGFL  190 (1169)
T ss_pred             EECCCCCchhHHHHhC-CCCCcCchhhccccccCCCCCcccc-eE---ecCCEEEEcCCCccccCCCcccccHHHHHHHH
Confidence            6899999999999874 44443221      01111111110 11   12345799999921        1222344333


Q ss_pred             ---------cCCcEEEEEeeCCCh-----h----hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           67 ---------RGAVGAMLVYDITKR-----Q----SFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        67 ---------~~~d~~i~v~d~~~~-----~----s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                               +..+++|+++|+.+-     +    ....++..+.++....+...|+.|++||+|+.
T Consensus       191 ~~L~k~R~r~plnGvil~vs~~~Ll~~~~~~~~~~a~~lR~rl~el~~~lg~~~PVYvv~Tk~Dll  256 (1169)
T TIGR03348       191 GLLRKHRRRQPLNGVVVTVSLADLLTADPAERKAHARAIRQRLQELREQLGARFPVYLVLTKADLL  256 (1169)
T ss_pred             HHHHHhCCCCCCCeEEEEEEHHHHhCCCHHHHHHHHHHHHHHHHHHHHHhCCCCCEEEEEecchhh
Confidence                     458999999998642     1    12345666677777777899999999999975

Members of this protein family are IcmF homologs and tend to be associated with type VI secretion systems.

>KOG0448 consensus Mitofusin 1 GTPase, involved in mitochondrila biogenesis [Posttranslational modification, protein turnover, chaperones]

Probab=98.54  E-value=1.9e-06  Score=71.57  Aligned_cols=91  Identities=14%  Similarity=0.161  Sum_probs=54.4

Q ss_pred             EEEEeCCCch---hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           47 AQIWDTAGQE---RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        47 ~~i~D~~G~~---~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                      +.++|.||.+   +...-...+...+|++|+|.++.+..+... +.++.....   .+..+.|+.||.|.......-.++
T Consensus       208 ivliDsPGld~~se~tswid~~cldaDVfVlV~NaEntlt~se-k~Ff~~vs~---~KpniFIlnnkwDasase~ec~e~  283 (749)
T KOG0448|consen  208 IVLIDSPGLDVDSELTSWIDSFCLDADVFVLVVNAENTLTLSE-KQFFHKVSE---EKPNIFILNNKWDASASEPECKED  283 (749)
T ss_pred             ceeccCCCCCCchhhhHHHHHHhhcCCeEEEEecCccHhHHHH-HHHHHHhhc---cCCcEEEEechhhhhcccHHHHHH
Confidence            5688999943   444445667789999999999987655433 333333332   234577778888986532222333


Q ss_pred             HHHHHHHcCC--------eEEEeccC
Q 040835          124 AKEFAEKEGL--------CFMETSAL  141 (206)
Q Consensus       124 ~~~~~~~~~~--------~~~~~Sa~  141 (206)
                      +......+..        .+|++|++
T Consensus       284 V~~Qi~eL~v~~~~eA~DrvfFVS~~  309 (749)
T KOG0448|consen  284 VLKQIHELSVVTEKEAADRVFFVSAK  309 (749)
T ss_pred             HHHHHHhcCcccHhhhcCeeEEEecc
Confidence            3333333321        37888865

>COG1618 Predicted nucleotide kinase [Nucleotide transport and metabolism]

Probab=98.54  E-value=6.2e-06  Score=56.95  Aligned_cols=139  Identities=16%  Similarity=0.142  Sum_probs=75.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCC-Cc---------------------h--
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTA-GQ---------------------E--   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~-G~---------------------~--   56 (206)
                      +.|+||||||||+.++.+.--...+..   ..+....+.-++...=|.|+|+. |.                     +  
T Consensus        10 ITG~PGvGKtTl~~ki~e~L~~~g~kv---gGf~t~EVR~gGkR~GF~Ivdl~tg~~~~la~~~~~~~rvGkY~V~v~~l   86 (179)
T COG1618          10 ITGRPGVGKTTLVLKIAEKLREKGYKV---GGFITPEVREGGKRIGFKIVDLATGEEGILARVGFSRPRVGKYGVNVEGL   86 (179)
T ss_pred             EeCCCCccHHHHHHHHHHHHHhcCcee---eeEEeeeeecCCeEeeeEEEEccCCceEEEEEcCCCCcccceEEeeHHHH
Confidence            469999999999999886433222221   13344455556666777787776 31                     0  


Q ss_pred             --hhhhhhHhHhcCCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC
Q 040835           57 --RYRAVTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL  133 (206)
Q Consensus        57 --~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~  133 (206)
                        ......+..+..||++  ++|---+  .+.. +.+...+........|++..+.+.+..+       -+..+....++
T Consensus        87 e~i~~~al~rA~~~aDvI--IIDEIGp--MElks~~f~~~ve~vl~~~kpliatlHrrsr~P-------~v~~ik~~~~v  155 (179)
T COG1618          87 EEIAIPALRRALEEADVI--IIDEIGP--MELKSKKFREAVEEVLKSGKPLIATLHRRSRHP-------LVQRIKKLGGV  155 (179)
T ss_pred             HHHhHHHHHHHhhcCCEE--EEecccc--hhhccHHHHHHHHHHhcCCCcEEEEEecccCCh-------HHHHhhhcCCE
Confidence              1112233445667844  4443222  1111 2344444444446788888887765321       12222232233


Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHH
Q 040835          134 CFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       134 ~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .+|    .+.+|-+.++..++..+
T Consensus       156 ~v~----lt~~NR~~i~~~Il~~L  175 (179)
T COG1618         156 YVF----LTPENRNRILNEILSVL  175 (179)
T ss_pred             EEE----EccchhhHHHHHHHHHh
Confidence            343    55666667777776554

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=98.54  E-value=5.1e-07  Score=63.24  Aligned_cols=85  Identities=15%  Similarity=0.009  Sum_probs=54.6

Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      |++++|+|+.++.+...  .++.. ......++|+++|+||+|+.....+ .+.+..+....+..++.+||+++.|++++
T Consensus         1 Dvvl~VvD~~~p~~~~~--~~i~~-~~~~~~~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L   76 (155)
T cd01849           1 DVILEVLDARDPLGTRS--PDIER-VLIKEKGKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKK   76 (155)
T ss_pred             CEEEEEEeccCCccccC--HHHHH-HHHhcCCCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhH
Confidence            78999999988754332  22221 1111246899999999998531110 01112233333567899999999999999


Q ss_pred             HHHHHHHHH
Q 040835          150 FLTVLTEIY  158 (206)
Q Consensus       150 ~~~l~~~i~  158 (206)
                      ++.+.+...
T Consensus        77 ~~~i~~~~~   85 (155)
T cd01849          77 ESAFTKQTN   85 (155)
T ss_pred             HHHHHHHhH
Confidence            998877643

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.

>KOG0464 consensus Elongation factor G [Translation, ribosomal structure and biogenesis]

Probab=98.52  E-value=1.4e-07  Score=74.20  Aligned_cols=126  Identities=18%  Similarity=0.198  Sum_probs=90.4

Q ss_pred             cCCCCCHHHHHHHHhcC--------CCCCCCc--------cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            3 GDSAVGKSQLLARFARD--------EFSLDSK--------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~--------~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ..-.+||||.-.+++.-        .+.....        ..-|+++....+.++|+...+.++||||+-.|.-.....+
T Consensus        44 ahidagktttterily~ag~~~s~g~vddgdtvtdfla~erergitiqsaav~fdwkg~rinlidtpghvdf~levercl  123 (753)
T KOG0464|consen   44 AHIDAGKTTTTERILYLAGAIHSAGDVDDGDTVTDFLAIERERGITIQSAAVNFDWKGHRINLIDTPGHVDFRLEVERCL  123 (753)
T ss_pred             EEecCCCchhHHHHHHHhhhhhcccccCCCchHHHHHHHHHhcCceeeeeeeecccccceEeeecCCCcceEEEEHHHHH
Confidence            34579999999998752        2221111        1146777778889999999999999999999988888999


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC  134 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~  134 (206)
                      +--|+++.|||.+-.-....+..|.+    ....++|-..++||+|.....  -...+...-++.++.
T Consensus       124 rvldgavav~dasagve~qtltvwrq----adk~~ip~~~finkmdk~~an--fe~avdsi~ekl~ak  185 (753)
T KOG0464|consen  124 RVLDGAVAVFDASAGVEAQTLTVWRQ----ADKFKIPAHCFINKMDKLAAN--FENAVDSIEEKLGAK  185 (753)
T ss_pred             HHhcCeEEEEeccCCcccceeeeehh----ccccCCchhhhhhhhhhhhhh--hhhHHHHHHHHhCCc
Confidence            99999999999986654445555643    334678999999999974211  123345555566654

>TIGR00064 ftsY signal recognition particle-docking protein FtsY

Probab=98.52  E-value=4.3e-07  Score=69.36  Aligned_cols=96  Identities=15%  Similarity=0.048  Sum_probs=58.5

Q ss_pred             EEEEEEEeCCCchhhhhhh----Hh---Hh-----cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           44 NVKAQIWDTAGQERYRAVT----SA---YY-----RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~----~~---~~-----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ++.+.|+||||........    ..   ..     ...|.+++|+|++...  +.+. ....+.+..   -+.-+|+||.
T Consensus       154 ~~D~ViIDT~G~~~~d~~~~~el~~~~~~~~~~~~~~~~~~~LVl~a~~~~--~~~~-~~~~f~~~~---~~~g~IlTKl  227 (272)
T TIGR00064       154 NIDVVLIDTAGRLQNKVNLMDELKKIKRVIKKVDKDAPDEVLLVLDATTGQ--NALE-QAKVFNEAV---GLTGIILTKL  227 (272)
T ss_pred             CCCEEEEeCCCCCcchHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCCH--HHHH-HHHHHHhhC---CCCEEEEEcc
Confidence            4678999999965332211    11   11     2378899999997542  2222 122222211   2457889999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      |...    ..-.+..+....++|+..++  +|++++++-.
T Consensus       228 De~~----~~G~~l~~~~~~~~Pi~~~~--~Gq~~~dl~~  261 (272)
T TIGR00064       228 DGTA----KGGIILSIAYELKLPIKFIG--VGEKIDDLAP  261 (272)
T ss_pred             CCCC----CccHHHHHHHHHCcCEEEEe--CCCChHhCcc
Confidence            9754    33345666667789988887  7777776644

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.

>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=98.50  E-value=9.2e-08  Score=66.71  Aligned_cols=56  Identities=21%  Similarity=0.286  Sum_probs=30.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|+.|||||||+|.|++......      ......++.....+.++..   ..|+||||...+.
T Consensus        40 l~G~SGvGKSSLiN~L~~~~~~~t~~is~~~~rGkHTTt~~~l~~l~~g---~~iIDTPGf~~~~  101 (161)
T PF03193_consen   40 LLGQSGVGKSSLINALLPEAKQKTGEISEKTGRGKHTTTHRELFPLPDG---GYIIDTPGFRSFG  101 (161)
T ss_dssp             EECSTTSSHHHHHHHHHTSS----S--------------SEEEEEETTS---EEEECSHHHHT--
T ss_pred             EECCCCCCHHHHHHHHHhhcchhhhhhhcccCCCcccCCCeeEEecCCC---cEEEECCCCCccc
Confidence            589999999999999998633221      1111122333333444332   3789999976654

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.

>COG5258 GTPBP1 GTPase [General function prediction only]

Probab=98.48  E-value=1.8e-06  Score=67.37  Aligned_cols=100  Identities=17%  Similarity=0.152  Sum_probs=63.9

Q ss_pred             EEEEEEeCCCchhhhhhhH--hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--
Q 040835           45 VKAQIWDTAGQERYRAVTS--AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--  120 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--  120 (206)
                      .-+.++|+.|++.|...+.  .+-...|..++++.+++..+- -.++.+-.+..   ...|++++++|+|+.++..+.  
T Consensus       201 klVsfVDtvGHEpwLrTtirGL~gqk~dYglLvVaAddG~~~-~tkEHLgi~~a---~~lPviVvvTK~D~~~ddr~~~v  276 (527)
T COG5258         201 KLVSFVDTVGHEPWLRTTIRGLLGQKVDYGLLVVAADDGVTK-MTKEHLGIALA---MELPVIVVVTKIDMVPDDRFQGV  276 (527)
T ss_pred             cEEEEEecCCccHHHHHHHHHHhccccceEEEEEEccCCcch-hhhHhhhhhhh---hcCCEEEEEEecccCcHHHHHHH
Confidence            3467999999999865433  345689999999999886542 11222221111   469999999999996422111  


Q ss_pred             HHHHHHHHH----------------------HcC---CeEEEeccCCCCCHHH
Q 040835          121 TEDAKEFAE----------------------KEG---LCFMETSALESTNVEL  148 (206)
Q Consensus       121 ~~~~~~~~~----------------------~~~---~~~~~~Sa~~~~~v~~  148 (206)
                      .+++..+.+                      +.+   +|+|.+|+.+++|++-
T Consensus       277 ~~ei~~~Lk~v~Rip~~vk~~~d~v~aa~a~k~~~~vvPi~~tSsVTg~Gldl  329 (527)
T COG5258         277 VEEISALLKRVGRIPLIVKDTDDVVLAAKAMKAGRGVVPIFYTSSVTGEGLDL  329 (527)
T ss_pred             HHHHHHHHHHhcccceeeeccchhHHhhhhhhcCCceEEEEEEecccCccHHH
Confidence            122222211                      122   4899999999999873

>cd01856 YlqF YlqF

Probab=98.48  E-value=6.5e-07  Score=63.77  Aligned_cols=94  Identities=17%  Similarity=0.036  Sum_probs=62.0

Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEE
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFM  136 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~  136 (206)
                      +........+.++|++++|+|+.++..... ..+...+     .++|+++|+||+|+.....  .....++.+..+..++
T Consensus         8 ~~~~~~~~~i~~aD~il~v~D~~~~~~~~~-~~i~~~~-----~~k~~ilVlNK~Dl~~~~~--~~~~~~~~~~~~~~vi   79 (171)
T cd01856           8 KALRQIKEKLKLVDLVIEVRDARIPLSSRN-PLLEKIL-----GNKPRIIVLNKADLADPKK--TKKWLKYFESKGEKVL   79 (171)
T ss_pred             HHHHHHHHHHhhCCEEEEEeeccCccCcCC-hhhHhHh-----cCCCEEEEEehhhcCChHH--HHHHHHHHHhcCCeEE
Confidence            344455677899999999999987543211 1121111     2478999999999853211  1112223333456789


Q ss_pred             EeccCCCCCHHHHHHHHHHHHH
Q 040835          137 ETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       137 ~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      .+|++++.|++++...+...+.
T Consensus        80 ~iSa~~~~gi~~L~~~l~~~l~  101 (171)
T cd01856          80 FVNAKSGKGVKKLLKAAKKLLK  101 (171)
T ss_pred             EEECCCcccHHHHHHHHHHHHH
Confidence            9999999999999999887764

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.

>PRK14974 cell division protein FtsY; Provisional

Probab=98.45  E-value=1e-06  Score=69.05  Aligned_cols=95  Identities=13%  Similarity=0.011  Sum_probs=57.7

Q ss_pred             EEEEEEeCCCchhhh----hhhHhHh--cCCcEEEEEeeCCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           45 VKAQIWDTAGQERYR----AVTSAYY--RGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~----~~~~~~~--~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ..+.++||+|.....    .....+.  -..|.+++|+|++.... ...+..    +....   .+--+|+||.|...  
T Consensus       223 ~DvVLIDTaGr~~~~~~lm~eL~~i~~~~~pd~~iLVl~a~~g~d~~~~a~~----f~~~~---~~~giIlTKlD~~~--  293 (336)
T PRK14974        223 IDVVLIDTAGRMHTDANLMDELKKIVRVTKPDLVIFVGDALAGNDAVEQARE----FNEAV---GIDGVILTKVDADA--  293 (336)
T ss_pred             CCEEEEECCCccCCcHHHHHHHHHHHHhhCCceEEEeeccccchhHHHHHHH----HHhcC---CCCEEEEeeecCCC--
Confidence            568999999964321    1112222  25788899999876432 222222    22211   23568899999754  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835          118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                        ..-.+..++...++|+..++  +|++++++...
T Consensus       294 --~~G~~ls~~~~~~~Pi~~i~--~Gq~v~Dl~~~  324 (336)
T PRK14974        294 --KGGAALSIAYVIGKPILFLG--VGQGYDDLIPF  324 (336)
T ss_pred             --CccHHHHHHHHHCcCEEEEe--CCCChhhcccC
Confidence              23344556666789988887  78888776543

>TIGR01425 SRP54_euk signal recognition particle protein SRP54

Probab=98.45  E-value=2.1e-06  Score=69.15  Aligned_cols=85  Identities=13%  Similarity=0.011  Sum_probs=47.2

Q ss_pred             EEEEEEEeCCCchhhhhh----hHhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRAV----TSAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~----~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      .+.+.|+||+|.......    ...+  ....+.+++|+|++-......   ....+...   --+.-+|+||.|...  
T Consensus       182 ~~DvViIDTaGr~~~d~~lm~El~~i~~~~~p~e~lLVlda~~Gq~a~~---~a~~F~~~---~~~~g~IlTKlD~~a--  253 (429)
T TIGR01425       182 NFDIIIVDTSGRHKQEDSLFEEMLQVAEAIQPDNIIFVMDGSIGQAAEA---QAKAFKDS---VDVGSVIITKLDGHA--  253 (429)
T ss_pred             CCCEEEEECCCCCcchHHHHHHHHHHhhhcCCcEEEEEeccccChhHHH---HHHHHHhc---cCCcEEEEECccCCC--
Confidence            467899999995432211    1111  224678999999875432221   22223221   135678899999753  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEe
Q 040835          118 AVPTEDAKEFAEKEGLCFMET  138 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~  138 (206)
                        ..-.+.......+.|+..+
T Consensus       254 --rgG~aLs~~~~t~~PI~fi  272 (429)
T TIGR01425       254 --KGGGALSAVAATKSPIIFI  272 (429)
T ss_pred             --CccHHhhhHHHHCCCeEEE
Confidence              2222344555556665444

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.

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.44  E-value=4e-07  Score=69.81  Aligned_cols=51  Identities=25%  Similarity=0.368  Sum_probs=36.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.||||||||+|+|.+......... .+.|.....+.+..   .+.++||||.
T Consensus       123 ~vG~~nvGKSslin~l~~~~~~~~~~~-~g~T~~~~~~~~~~---~~~l~DtPG~  173 (276)
T TIGR03596       123 IVGIPNVGKSTLINRLAGKKVAKVGNR-PGVTKGQQWIKLSD---GLELLDTPGI  173 (276)
T ss_pred             EECCCCCCHHHHHHHHhCCCccccCCC-CCeecceEEEEeCC---CEEEEECCCc
Confidence            589999999999999998765444322 24555554444432   4789999996

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.

>TIGR00092 GTP-binding protein YchF

Probab=98.43  E-value=8.7e-07  Score=69.84  Aligned_cols=79  Identities=18%  Similarity=0.032  Sum_probs=51.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCC-CCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchh-------
Q 040835            1 LIGDSAVGKSQLLARFARDEF-SLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQER-------   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-------   57 (206)
                      ++|.|++|||||++.|++... .....|..+.......+.+.+.               ...+.+.|.||...       
T Consensus         7 ivGlPn~GKSTlfnaLT~~~~~~~a~ypftTi~p~~g~v~v~d~r~d~L~~~~~~~~~~~a~i~~~DiaGlv~gAs~g~G   86 (368)
T TIGR00092         7 IVGLPNVGKSTLFAATTNLLGNEAANPPFTTIEPNAGVVNPSDPRLDLLAIYIKPEKVPPTTTEFVDIAGLVGGASKGEG   86 (368)
T ss_pred             EECCCCCChHHHHHHHhCCCccccCCCCCCCCCCceeEEEechhHHHHHHHHhCCcCcCCceEEEEeccccccchhcccC
Confidence            589999999999999999876 4333333222222233333221               24578999999532       


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      ........++.+|++++|++..
T Consensus        87 lgn~fL~~ir~~d~l~hVvr~f  108 (368)
T TIGR00092        87 LGNQFLANIREVDIIQHVVRCF  108 (368)
T ss_pred             cchHHHHHHHhCCEEEEEEeCC
Confidence            2223345678999999999974

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.

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=98.43  E-value=1e-06  Score=60.73  Aligned_cols=78  Identities=22%  Similarity=0.224  Sum_probs=52.7

Q ss_pred             hHhHhcCCcEEEEEeeCCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835           62 TSAYYRGAVGAMLVYDITKRQSFD--NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus        62 ~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      ....+..+|++++|+|+.++.+..  .+..|+...   . .++|+++++||+|+..+..  ..+..+..+..+..++.+|
T Consensus         5 ~~~~i~~aD~vl~ViD~~~p~~~~~~~l~~~l~~~---~-~~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iS   78 (141)
T cd01857           5 LWRVVERSDIVVQIVDARNPLLFRPPDLERYVKEV---D-PRKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFS   78 (141)
T ss_pred             HHHHHhhCCEEEEEEEccCCcccCCHHHHHHHHhc---c-CCCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEE
Confidence            345678899999999998875432  333443322   1 4689999999999853221  2233455556678899999


Q ss_pred             cCCCCC
Q 040835          140 ALESTN  145 (206)
Q Consensus       140 a~~~~~  145 (206)
                      |+++.+
T Consensus        79 a~~~~~   84 (141)
T cd01857          79 ALKENA   84 (141)
T ss_pred             ecCCCc
Confidence            998764

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.

>PRK13796 GTPase YqeH; Provisional

Probab=98.43  E-value=2.3e-06  Score=68.16  Aligned_cols=93  Identities=22%  Similarity=0.299  Sum_probs=61.2

Q ss_pred             hhhhhhhHhHhcCCc-EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH----HHH
Q 040835           56 ERYRAVTSAYYRGAV-GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF----AEK  130 (206)
Q Consensus        56 ~~~~~~~~~~~~~~d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~----~~~  130 (206)
                      +.|....... ...+ .+++|+|+.|..     ..|...+.+.. .+.|+++|+||+|+.. .....+++..+    ++.
T Consensus        57 ~~~~~~l~~i-~~~~~lIv~VVD~~D~~-----~s~~~~L~~~~-~~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~  128 (365)
T PRK13796         57 DDFLKLLNGI-GDSDALVVNVVDIFDFN-----GSWIPGLHRFV-GNNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKE  128 (365)
T ss_pred             HHHHHHHHhh-cccCcEEEEEEECccCC-----CchhHHHHHHh-CCCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHh
Confidence            3455544443 4445 899999998743     12333333332 2678999999999964 33333444333    455


Q ss_pred             cCC---eEEEeccCCCCCHHHHHHHHHHH
Q 040835          131 EGL---CFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       131 ~~~---~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      .++   .++.+||+++.|++++++.+.+.
T Consensus       129 ~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796        129 LGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             cCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            565   58999999999999999998654

>PRK12288 GTPase RsgA; Reviewed

Probab=98.42  E-value=3.1e-07  Score=72.37  Aligned_cols=56  Identities=20%  Similarity=0.315  Sum_probs=35.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc------ccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA------TIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|.+|||||||+|+|++.........      .-.+|.....+.++..   ..++||||...+.
T Consensus       210 ~vG~sgVGKSTLiN~Ll~~~~~~t~~is~~~~rGrHTT~~~~l~~l~~~---~~liDTPGir~~~  271 (347)
T PRK12288        210 FVGQSGVGKSSLINALLPEAEILVGDVSDNSGLGQHTTTAARLYHFPHG---GDLIDSPGVREFG  271 (347)
T ss_pred             EECCCCCCHHHHHHHhccccceeeccccCcCCCCcCceeeEEEEEecCC---CEEEECCCCCccc
Confidence            589999999999999998644322211      1122333333444332   2589999987755

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.41  E-value=6.7e-07  Score=68.97  Aligned_cols=51  Identities=27%  Similarity=0.385  Sum_probs=36.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.||||||||+|+|.+........ ..+.|.....+..+   ..+.++||||.
T Consensus       126 ~~G~pnvGKSsliN~l~~~~~~~~~~-~~g~T~~~~~~~~~---~~~~l~DtPGi  176 (287)
T PRK09563        126 IIGIPNVGKSTLINRLAGKKIAKTGN-RPGVTKAQQWIKLG---KGLELLDTPGI  176 (287)
T ss_pred             EECCCCCCHHHHHHHHhcCCccccCC-CCCeEEEEEEEEeC---CcEEEEECCCc
Confidence            58999999999999999976643332 23555555444443   24789999996

>COG1161 Predicted GTPases [General function prediction only]

Probab=98.41  E-value=3.6e-07  Score=71.46  Aligned_cols=51  Identities=24%  Similarity=0.351  Sum_probs=40.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.||||||||||+|.+......+..+ |.|.....+.++..   +.++||||.
T Consensus       137 vvG~PNVGKSslIN~L~~k~~~~~s~~P-G~Tk~~q~i~~~~~---i~LlDtPGi  187 (322)
T COG1161         137 VVGYPNVGKSTLINRLLGKKVAKTSNRP-GTTKGIQWIKLDDG---IYLLDTPGI  187 (322)
T ss_pred             EEcCCCCcHHHHHHHHhcccceeeCCCC-ceecceEEEEcCCC---eEEecCCCc
Confidence            5899999999999999998875444333 77777777776544   799999995

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=98.39  E-value=3e-06  Score=65.06  Aligned_cols=101  Identities=18%  Similarity=0.066  Sum_probs=65.3

Q ss_pred             CCch-hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc
Q 040835           53 AGQE-RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE  131 (206)
Q Consensus        53 ~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~  131 (206)
                      ||+- .........+..+|++++|+|+.++.+.... .+...+     .++|+++|+||+|+.+...  .....+.....
T Consensus         5 pgHm~k~~~~~~~~l~~aDvVl~V~Dar~p~~~~~~-~i~~~l-----~~kp~IiVlNK~DL~~~~~--~~~~~~~~~~~   76 (276)
T TIGR03596         5 PGHMAKARREIKEKLKLVDVVIEVLDARIPLSSRNP-MIDEIR-----GNKPRLIVLNKADLADPAV--TKQWLKYFEEK   76 (276)
T ss_pred             hHHHHHHHHHHHHHHhhCCEEEEEEeCCCCCCCCCh-hHHHHH-----CCCCEEEEEEccccCCHHH--HHHHHHHHHHc
Confidence            5542 2334456778899999999999876432211 111111     2579999999999853111  11112223334


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          132 GLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       132 ~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                      +.+++.+|++++.|++++.+.+.+.+....
T Consensus        77 ~~~vi~iSa~~~~gi~~L~~~i~~~~~~~~  106 (276)
T TIGR03596        77 GIKALAINAKKGKGVKKIIKAAKKLLKEKN  106 (276)
T ss_pred             CCeEEEEECCCcccHHHHHHHHHHHHHHhh
Confidence            667899999999999999998887765543

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.

>PRK01889 GTPase RsgA; Reviewed

Probab=98.39  E-value=1.4e-06  Score=69.12  Aligned_cols=83  Identities=16%  Similarity=0.172  Sum_probs=58.8

Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEeccCCCC
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-KEGLCFMETSALEST  144 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~  144 (206)
                      ..++|.+++|+++........+.+++..+..   .+++.++|+||+|+.++.   .+....+.. ..+++++.+|++++.
T Consensus       110 aANvD~vliV~s~~p~~~~~~ldr~L~~a~~---~~i~piIVLNK~DL~~~~---~~~~~~~~~~~~g~~Vi~vSa~~g~  183 (356)
T PRK01889        110 AANVDTVFIVCSLNHDFNLRRIERYLALAWE---SGAEPVIVLTKADLCEDA---EEKIAEVEALAPGVPVLAVSALDGE  183 (356)
T ss_pred             EEeCCEEEEEEecCCCCChhHHHHHHHHHHH---cCCCEEEEEEChhcCCCH---HHHHHHHHHhCCCCcEEEEECCCCc
Confidence            5789999999999754455566666666555   357788999999996521   111122221 347899999999999


Q ss_pred             CHHHHHHHHH
Q 040835          145 NVELAFLTVL  154 (206)
Q Consensus       145 ~v~~~~~~l~  154 (206)
                      |++++..++.
T Consensus       184 gl~~L~~~L~  193 (356)
T PRK01889        184 GLDVLAAWLS  193 (356)
T ss_pred             cHHHHHHHhh
Confidence            9999888763

>KOG2486 consensus Predicted GTPase [General function prediction only]

Probab=98.38  E-value=2.4e-07  Score=69.12  Aligned_cols=146  Identities=21%  Similarity=0.214  Sum_probs=83.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc-ccceeeEEEEEEECCeEEEEEEEeCCC----------chhhhhhhHhHhcC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKNVKAQIWDTAG----------QERYRAVTSAYYRG-   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~-   68 (206)
                      ++|..|+|||+|+|.++.......... ..+.+......   ..+..+.++|.||          ...+..+...|+.+ 
T Consensus       141 ~~g~SNVGKSSLln~~~r~k~~~~t~k~K~g~Tq~in~f---~v~~~~~~vDlPG~~~a~y~~~~~~d~~~~t~~Y~leR  217 (320)
T KOG2486|consen  141 FYGRSNVGKSSLLNDLVRVKNIADTSKSKNGKTQAINHF---HVGKSWYEVDLPGYGRAGYGFELPADWDKFTKSYLLER  217 (320)
T ss_pred             eecCCcccHHHHHhhhhhhhhhhhhcCCCCccceeeeee---eccceEEEEecCCcccccCCccCcchHhHhHHHHHHhh
Confidence            478999999999999988655433322 33333333222   2345688999999          22344445555432 


Q ss_pred             --CcEEEEEeeCCChhh-HH-HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-------CC----HHHHHHHHHHcCC
Q 040835           69 --AVGAMLVYDITKRQS-FD-NVARWLEELRGHADKNIIIMLVGNKSDLETLRA-------VP----TEDAKEFAEKEGL  133 (206)
Q Consensus        69 --~d~~i~v~d~~~~~s-~~-~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-------~~----~~~~~~~~~~~~~  133 (206)
                        ---+++++|++-+-. .+ ....|+   .   ..++|+.+|.||||......       ..    ......-......
T Consensus       218 ~nLv~~FLLvd~sv~i~~~D~~~i~~~---g---e~~VP~t~vfTK~DK~k~~~~~~kKp~~~i~~~f~~l~~~~f~~~~  291 (320)
T KOG2486|consen  218 ENLVRVFLLVDASVPIQPTDNPEIAWL---G---ENNVPMTSVFTKCDKQKKVKRTGKKPGLNIKINFQGLIRGVFLVDL  291 (320)
T ss_pred             hhhheeeeeeeccCCCCCCChHHHHHH---h---hcCCCeEEeeehhhhhhhccccccCccccceeehhhccccceeccC
Confidence              223556667654321 11 112232   2   25799999999999742110       00    1111111112234


Q ss_pred             eEEEeccCCCCCHHHHHHHHHH
Q 040835          134 CFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus       134 ~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      |++.+|+.++.|++.++..+.+
T Consensus       292 Pw~~~Ssvt~~Grd~Ll~~i~q  313 (320)
T KOG2486|consen  292 PWIYVSSVTSLGRDLLLLHIAQ  313 (320)
T ss_pred             CceeeecccccCceeeeeehhh
Confidence            6778999999999987765543

>cd01851 GBP Guanylate-binding protein (GBP), N-terminal domain

Probab=98.38  E-value=6e-06  Score=61.37  Aligned_cols=81  Identities=15%  Similarity=0.051  Sum_probs=48.0

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCCccccceeeEEEEEEEC---CeEEEEEEEeCCCchhh------hhhhHhHhcC-
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDSKATIGVEFQTKTLVIH---HKNVKAQIWDTAGQERY------RAVTSAYYRG-   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~i~D~~G~~~~------~~~~~~~~~~-   68 (206)
                      |+|++++|||+|+|.|++.  .+....... ..|...-.....   +....+.++||+|....      .......+.. 
T Consensus        12 v~G~~~sGKS~llN~l~~~~~~f~~~~~~~-~~T~gi~~~~~~~~~~~~~~v~~lDteG~~~~~~~~~~~~~~~~~l~~l   90 (224)
T cd01851          12 VFGPQSSGKSFLLNHLFGTLSGFDVMDTSQ-QTTKGIWMWSVPFKLGKEHAVLLLDTEGTDGRERGEFEDDARLFALATL   90 (224)
T ss_pred             EECCCCCCHHHHHHHHhCCCCCeEecCCCC-CCccceEEEeccccCCCcceEEEEecCCcCccccCchhhhhHHHHHHHH
Confidence            6899999999999999998  554332211 112211111111   23577999999995432      2222223333 


Q ss_pred             -CcEEEEEeeCCChh
Q 040835           69 -AVGAMLVYDITKRQ   82 (206)
Q Consensus        69 -~d~~i~v~d~~~~~   82 (206)
                       ++.+||..+....+
T Consensus        91 lss~~i~n~~~~~~~  105 (224)
T cd01851          91 LSSVLIYNSWETILG  105 (224)
T ss_pred             HhCEEEEeccCcccH
Confidence             78888887766433

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

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.35  E-value=5.3e-07  Score=68.64  Aligned_cols=56  Identities=25%  Similarity=0.273  Sum_probs=36.7

Q ss_pred             CccCCCCCHHHHHHHHhcC------CCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARD------EFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~------~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      ++|..|||||||+|+|...      .++......-.+|.....+.+++..   .|+||||...+.
T Consensus       169 l~GqSGVGKSSLiN~L~p~~~~~t~eIS~~~~rGkHTTt~~~l~~l~~gG---~iiDTPGf~~~~  230 (301)
T COG1162         169 LLGQSGVGKSTLINALLPELNQKTGEISEKLGRGRHTTTHVELFPLPGGG---WIIDTPGFRSLG  230 (301)
T ss_pred             EECCCCCcHHHHHHhhCchhhhhhhhhcccCCCCCCccceEEEEEcCCCC---EEEeCCCCCccC
Confidence            5899999999999999974      2222222223344444455554333   689999987654

>PRK12289 GTPase RsgA; Reviewed

Probab=98.34  E-value=6e-07  Score=70.80  Aligned_cols=56  Identities=23%  Similarity=0.228  Sum_probs=35.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc------cceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT------IGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|++|||||||+|+|++..........      -.+|.....+.++...   .++||||...+.
T Consensus       177 ~iG~SgVGKSSLIN~L~~~~~~~t~~vs~~~~rGrHTT~~~~l~~l~~g~---~liDTPG~~~~~  238 (352)
T PRK12289        177 VAGPSGVGKSSLINRLIPDVELRVGKVSGKLGRGRHTTRHVELFELPNGG---LLADTPGFNQPD  238 (352)
T ss_pred             EEeCCCCCHHHHHHHHcCccccccccccCCCCCCCCcCceeEEEECCCCc---EEEeCCCccccc
Confidence            6899999999999999976443222111      1133443444443322   699999986543

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.30  E-value=8.9e-07  Score=66.68  Aligned_cols=55  Identities=22%  Similarity=0.240  Sum_probs=34.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|++|||||||+|+|.+.......      ....++|.....+.+.+    ..++||||...+.
T Consensus       125 ~~G~sgvGKStLiN~L~~~~~~~t~~i~~~~~~G~hTT~~~~l~~l~~----~~liDtPG~~~~~  185 (245)
T TIGR00157       125 FAGQSGVGKSSLINALDPSVKQQVNDISSKLGLGKHTTTHVELFHFHG----GLIADTPGFNEFG  185 (245)
T ss_pred             EECCCCCCHHHHHHHHhhhhhccccceeccCCCCCCcCCceEEEEcCC----cEEEeCCCccccC
Confidence            5899999999999999986432211      11112333333344432    2799999986544

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG1491 consensus Predicted GTP-binding protein (ODN superfamily) [General function prediction only]

Probab=98.28  E-value=2.8e-06  Score=65.25  Aligned_cols=79  Identities=13%  Similarity=0.140  Sum_probs=53.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC---------------CeEEEEEEEeCCCchh----hhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH---------------HKNVKAQIWDTAGQER----YRAV   61 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~~~i~D~~G~~~----~~~~   61 (206)
                      +||.|+||||||+|.|+.....+...|..+++-....+.+.               .....+.++|++|.-.    -..+
T Consensus        25 IVGlPNvGKST~fnalT~~~a~~~NfPF~TIdPn~a~V~v~d~Rfd~l~~~Y~~~~~vpa~l~v~DIAGLvkGAs~G~GL  104 (391)
T KOG1491|consen   25 IVGLPNVGKSTFFNALTKSKAGAANFPFCTIDPNEARVEVPDSRFDLLCPIYGPKSKVPAFLTVYDIAGLVKGASAGEGL  104 (391)
T ss_pred             EeeCCCCchHHHHHHHhcCCCCccCCCcceeccccceeecCchHHHHHHHhcCCcceeeeeEEEEeecccccCcccCcCc
Confidence            68999999999999999988876666654444333333332               1235688999988322    1112


Q ss_pred             ---hHhHhcCCcEEEEEeeCC
Q 040835           62 ---TSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus        62 ---~~~~~~~~d~~i~v~d~~   79 (206)
                         -...++.+|+++-|++..
T Consensus       105 GN~FLs~iR~vDaifhVVr~f  125 (391)
T KOG1491|consen  105 GNKFLSHIRHVDAIFHVVRAF  125 (391)
T ss_pred             hHHHHHhhhhccceeEEEEec
Confidence               233467899999888764

>PRK14722 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.28  E-value=5e-06  Score=65.90  Aligned_cols=90  Identities=18%  Similarity=0.128  Sum_probs=50.9

Q ss_pred             EEEEEEEeCCCchhhhhhhH---hHhc---CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCC-----CCcEEEEEeCCC
Q 040835           44 NVKAQIWDTAGQERYRAVTS---AYYR---GAVGAMLVYDITKRQSFDNVARWLEELRGHADK-----NIIIMLVGNKSD  112 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~---~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~-----~~p~ivv~nK~D  112 (206)
                      +..+.++||+|.........   ..+.   ..+-.++|++++...  +.+...+..+......     .-+--+|+||.|
T Consensus       215 ~~DlVLIDTaG~~~~d~~l~e~La~L~~~~~~~~~lLVLsAts~~--~~l~evi~~f~~~~~~p~~~~~~~~~~I~TKlD  292 (374)
T PRK14722        215 NKHMVLIDTIGMSQRDRTVSDQIAMLHGADTPVQRLLLLNATSHG--DTLNEVVQAYRSAAGQPKAALPDLAGCILTKLD  292 (374)
T ss_pred             CCCEEEEcCCCCCcccHHHHHHHHHHhccCCCCeEEEEecCccCh--HHHHHHHHHHHHhhcccccccCCCCEEEEeccc
Confidence            45789999999654332211   1122   234568899987643  2222222223222100     013457889999


Q ss_pred             CCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          113 LETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       113 ~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      ...    ..-.+..+....++|+..++
T Consensus       293 Et~----~~G~~l~~~~~~~lPi~yvt  315 (374)
T PRK14722        293 EAS----NLGGVLDTVIRYKLPVHYVS  315 (374)
T ss_pred             cCC----CccHHHHHHHHHCcCeEEEe
Confidence            654    45567778888888876665

>KOG0466 consensus Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=98.28  E-value=3.8e-07  Score=68.99  Aligned_cols=114  Identities=16%  Similarity=0.092  Sum_probs=73.1

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~  122 (206)
                      .++.++|+||++-.......-..-.|++++++..+.........+.+..+..+.  =+.++++-||+|+..+.+..  .+
T Consensus       125 RHVSfVDCPGHDiLMaTMLnGaAvmDaalLlIA~NEsCPQPQTsEHLaaveiM~--LkhiiilQNKiDli~e~~A~eq~e  202 (466)
T KOG0466|consen  125 RHVSFVDCPGHDILMATMLNGAAVMDAALLLIAGNESCPQPQTSEHLAAVEIMK--LKHIIILQNKIDLIKESQALEQHE  202 (466)
T ss_pred             EEEEeccCCchHHHHHHHhcchHHhhhhhhhhhcCCCCCCCchhhHHHHHHHhh--hceEEEEechhhhhhHHHHHHHHH
Confidence            457789999998655443333445688888887765332222222222222211  25688999999996533322  23


Q ss_pred             HHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          123 DAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       123 ~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++..|.+..   +.|++.+||.-+.|++-+.+.++..+.-.
T Consensus       203 ~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPvP  243 (466)
T KOG0466|consen  203 QIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPVP  243 (466)
T ss_pred             HHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCCC
Confidence            345555543   57999999999999999999999887543

>cd03112 CobW_like The function of this protein family is unkown

Probab=98.27  E-value=5.8e-06  Score=58.06  Aligned_cols=63  Identities=16%  Similarity=0.104  Sum_probs=35.9

Q ss_pred             EEEEEEeCCCchhhhhhhHh--------HhcCCcEEEEEeeCCChhhH-HHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           45 VKAQIWDTAGQERYRAVTSA--------YYRGAVGAMLVYDITKRQSF-DNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~--------~~~~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      ....++|++|...-......        ..-..|.++.++|+.+-... .....+..++...      -++|+||+|+
T Consensus        87 ~d~I~IEt~G~~~p~~~~~~~~~~~~~~~~~~~d~vv~vvDa~~~~~~~~~~~~~~~Qi~~a------d~ivlnk~dl  158 (158)
T cd03112          87 FDRIVIETTGLADPGPVAQTFFMDEELAERYLLDGVITLVDAKHANQHLDQQTEAQSQIAFA------DRILLNKTDL  158 (158)
T ss_pred             CCEEEEECCCcCCHHHHHHHHhhchhhhcceeeccEEEEEEhhHhHHHhhccHHHHHHHHHC------CEEEEecccC
Confidence            45678999996432222221        22357889999998653321 1222333444332      2678999995

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.

>PF09547 Spore_IV_A: Stage IV sporulation protein A (spore_IV_A); InterPro: IPR014201 This entry is designated stage IV sporulation protein A

Probab=98.26  E-value=1.8e-05  Score=62.92  Aligned_cols=137  Identities=18%  Similarity=0.261  Sum_probs=76.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC--------------ccccc----------eeeEEEEEEE-CCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS--------------KATIG----------VEFQTKTLVI-HHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~--------------~~~~~----------~~~~~~~~~~-~~~~~~~~i~D~~G~   55 (206)
                      |+|+-.+|||||+.+|....+.|.-              ....|          ..-....+.+ ++..+.+.++||.|.
T Consensus        22 VVGPVRTGKSTFIKRFMel~VlPnI~d~~~reRa~DELPQS~aGktImTTEPKFiP~eAv~I~l~~~~~~kVRLiDCVGy  101 (492)
T PF09547_consen   22 VVGPVRTGKSTFIKRFMELLVLPNIEDEYERERARDELPQSGAGKTIMTTEPKFIPNEAVEITLDDGIKVKVRLIDCVGY  101 (492)
T ss_pred             eecCcccCchhHHHHHHHHhcCCCCCCHHHHHHhhhcCCcCCCCCceeccCCcccCCcceEEEecCCceEEEEEEeecce
Confidence            6899999999999999874222111              00011          1122233444 456788999999871


Q ss_pred             h-------------hh-hhhh---------------HhHhc--CCcEEEEEeeCC--C--hhhHHHH-HHHHHHHHhcCC
Q 040835           56 E-------------RY-RAVT---------------SAYYR--GAVGAMLVYDIT--K--RQSFDNV-ARWLEELRGHAD   99 (206)
Q Consensus        56 ~-------------~~-~~~~---------------~~~~~--~~d~~i~v~d~~--~--~~s~~~~-~~~~~~~~~~~~   99 (206)
                      -             ++ .+-|               +..+.  ..-++++.-|-+  +  ++.+..+ .+....+..   
T Consensus       102 ~V~gA~Gy~e~~~pRmV~TPWfd~eIPF~eAAeiGT~KVI~dHSTIGiVVTTDGSi~dipRe~Y~eAEervI~ELk~---  178 (492)
T PF09547_consen  102 MVEGALGYEEEEGPRMVKTPWFDEEIPFEEAAEIGTRKVITDHSTIGIVVTTDGSITDIPRENYVEAEERVIEELKE---  178 (492)
T ss_pred             eecCccccccCCCceeecCCCCCCCCCHHHHHhhcccceeccCCceeEEEecCCCccCCChHHHHHHHHHHHHHHHH---
Confidence            0             00 0001               11111  112333333332  1  4445444 334445544   


Q ss_pred             CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCC
Q 040835          100 KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus       100 ~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                      .++|+++++|-.+-..  .-..+...++..+++++++.+++..
T Consensus       179 igKPFvillNs~~P~s--~et~~L~~eL~ekY~vpVlpvnc~~  219 (492)
T PF09547_consen  179 IGKPFVILLNSTKPYS--EETQELAEELEEKYDVPVLPVNCEQ  219 (492)
T ss_pred             hCCCEEEEEeCCCCCC--HHHHHHHHHHHHHhCCcEEEeehHH
Confidence            5799999999887432  2234556777888898888777543

It acts in the mother cell compartment and plays a role in spore coat morphogenesis []. A comparative genome analysis of all sequenced genomes of Firmicutes shows that the proteins are strictly conserved among the sub-set of endospore-forming species.

>KOG0467 consensus Translation elongation factor 2/ribosome biogenesis protein RIA1 and related proteins [Translation, ribosomal structure and biogenesis]

Probab=98.25  E-value=2.7e-06  Score=71.40  Aligned_cols=105  Identities=19%  Similarity=0.256  Sum_probs=71.0

Q ss_pred             CCCCHHHHHHHHhcCCCCCC--------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            5 SAVGKSQLLARFARDEFSLD--------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         5 ~~~GKTtLl~~l~~~~~~~~--------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      -.=|||||...|....-...              ...+-|++.....+..-..++.+.++|+||+-+|........+-+|
T Consensus        18 vdhgktsladsl~asngvis~rlagkirfld~redeq~rgitmkss~is~~~~~~~~nlidspghvdf~sevssas~l~d   97 (887)
T KOG0467|consen   18 VDHGKTSLADSLVASNGVISSRLAGKIRFLDTREDEQTRGITMKSSAISLLHKDYLINLIDSPGHVDFSSEVSSASRLSD   97 (887)
T ss_pred             ecCCccchHHHHHhhccEechhhccceeeccccchhhhhceeeeccccccccCceEEEEecCCCccchhhhhhhhhhhcC
Confidence            34699999999986432111              1122345555555555556788999999999999999999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      ++++++|+..+-.........+.+.    .+...++|+||+|.
T Consensus        98 ~alvlvdvvegv~~qt~~vlrq~~~----~~~~~~lvinkidr  136 (887)
T KOG0467|consen   98 GALVLVDVVEGVCSQTYAVLRQAWI----EGLKPILVINKIDR  136 (887)
T ss_pred             CcEEEEeeccccchhHHHHHHHHHH----ccCceEEEEehhhh
Confidence            9999999986532222222222222    24557889999994

>COG1162 Predicted GTPases [General function prediction only]

Probab=98.25  E-value=8.8e-06  Score=62.11  Aligned_cols=92  Identities=16%  Similarity=0.077  Sum_probs=67.2

Q ss_pred             hhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      +.+.-..+.|-+++|+.+.+++ +...+.+++-....   .++..+|++||+|+..+......+.......+|++++.+|
T Consensus        72 L~Rp~v~n~d~~iiIvs~~~P~~~~~~ldR~Lv~ae~---~gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s  148 (301)
T COG1162          72 LIRPPVANNDQAIIVVSLVDPDFNTNLLDRYLVLAEA---GGIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVS  148 (301)
T ss_pred             eeCCcccccceEEEEEeccCCCCCHHHHHHHHHHHHH---cCCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEec
Confidence            3344455677788888888876 56666776665554   3566778899999976444333456777788899999999


Q ss_pred             cCCCCCHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLT  155 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~  155 (206)
                      ++++.++.++...+..
T Consensus       149 ~~~~~~~~~l~~~l~~  164 (301)
T COG1162         149 AKNGDGLEELAELLAG  164 (301)
T ss_pred             CcCcccHHHHHHHhcC
Confidence            9999999987776643

>PF00503 G-alpha: G-protein alpha subunit; InterPro: IPR001019 Guanine nucleotide binding proteins (G proteins) are membrane-associated, heterotrimeric proteins composed of three subunits: alpha (IPR001019 from INTERPRO), beta (IPR001632 from INTERPRO) and gamma (IPR001770 from INTERPRO) []

Probab=98.25  E-value=1e-05  Score=65.12  Aligned_cols=115  Identities=20%  Similarity=0.207  Sum_probs=78.2

Q ss_pred             eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh----------hHHHHHHHHHHHHhc-CCCCCcEEEEEeCC
Q 040835           43 KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ----------SFDNVARWLEELRGH-ADKNIIIMLVGNKS  111 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~  111 (206)
                      ....+.++|.+|+...+..|..++.+++++|||+++++..          .+.+...++..+... .-.+.|++|++||.
T Consensus       234 ~~~~~~~~DvGGqr~eRkKW~~~F~~v~~vif~vsls~ydq~~~ed~~~nrl~esl~lF~~i~~~~~~~~~~iil~lnK~  313 (389)
T PF00503_consen  234 GSRKFRLIDVGGQRSERKKWIHCFEDVTAVIFVVSLSEYDQTLYEDPNTNRLHESLNLFESICNNPWFKNTPIILFLNKI  313 (389)
T ss_dssp             TTEEEEEEEETSSGGGGGGGGGGGTTESEEEEEEEGGGGGSBESSSTTSBHHHHHHHHHHHHHTSGGGTTSEEEEEEE-H
T ss_pred             cccccceecCCCCchhhhhHHHHhccccEEEEeecccchhhhhcccchHHHHHHHHHHHHHHHhCcccccCceEEeeecH
Confidence            4578899999999999999999999999999999986522          122222333333222 22579999999999


Q ss_pred             CCC------cC------C------CCCHHHHHHHHHH------------cCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          112 DLE------TL------R------AVPTEDAKEFAEK------------EGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       112 D~~------~~------~------~~~~~~~~~~~~~------------~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      |+-      ..      .      .-+.+.+..+...            ..+.++.|+|.+..++..+|..+.+.|
T Consensus       314 D~f~~Kl~~~~~l~~~fp~y~g~~~~~~~~~~~~i~~~f~~~~~~~~~~~~~~~h~t~a~d~~~~~~v~~~v~~~i  389 (389)
T PF00503_consen  314 DLFEEKLKKGPKLSKYFPDYTGDRPNDVDSAIKFIKNKFLRLNRNNSPSRRIYVHFTCATDTENIRKVFNAVKDII  389 (389)
T ss_dssp             HHHHHHTTTSSCGGGTSTTGGSH-TSSHHHHHHHHHHHHHCTHSTTTTCS-EEEEEESTTSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHccCCCchHhhCCCCCCCcccCHHHHHHHHHHHHHHhccCCCCCcceEEEEeeecccHHHHHHHHHhcCcC
Confidence            962      10      0      1234455555442            112467899999999999999887754

G proteins and their receptors (GPCRs) form one of the most prevalent signalling systems in mammalian cells, regulating systems as diverse as sensory perception, cell growth and hormonal regulation []. At the cell surface, the binding of ligands such as hormones and neurotransmitters to a GPCR activates the receptor by causing a conformational change, which in turn activates the bound G protein on the intracellular-side of the membrane. The activated receptor promotes the exchange of bound GDP for GTP on the G protein alpha subunit. GTP binding changes the conformation of switch regions within the alpha subunit, which allows the bound trimeric G protein (inactive) to be released from the receptor, and to dissociate into active alpha subunit (GTP-bound) and beta/gamma dimer. The alpha subunit and the beta/gamma dimer go on to activate distinct downstream effectors, such as adenylyl cyclase, phosphodiesterases, phospholipase C, and ion channels. These effectors in turn regulate the intracellular concentrations of secondary messengers, such as cAMP, diacylglycerol, sodium or calcium cations, which ultimately lead to a physiological response, usually via the downstream regulation of gene transcription. The cycle is completed by the hydrolysis of alpha subunit-bound GTP to GDP, resulting in the re-association of the alpha and beta/gamma subunits and their binding to the receptor, which terminates the signal []. The length of the G protein signal is controlled by the duration of the GTP-bound alpha subunit, which can be regulated by RGS (regulator of G protein signalling) proteins (IPR000342 from INTERPRO) or by covalent modifications []. There are several isoforms of each subunit, many of which have splice variants, which together can make up hundreds of combinations of G proteins. The specific combination of subunits in heterotrimeric G proteins affects not only which receptor it can bind to, but also which downstream target is affected, providing the means to target specific physiological processes in response to specific external stimuli [, ]. G proteins carry lipid modifications on one or more of their subunits to target them to the plasma membrane and to contribute to protein interactions. This family consists of the G protein alpha subunit, which acts as a weak GTPase. G protein classes are defined based on the sequence and function of their alpha subunits, which in mammals fall into four main categories: G(S)alpha, G(Q)alpha, G(I)alpha and G(12)alpha; there are also fungal and plant classes of alpha subunits. The alpha subunit consists of two domains: a GTP-binding domain and a helical insertion domain (IPR011025 from INTERPRO). The GTP-binding domain is homologous to Ras-like small GTPases, and includes switch regions I and II, which change conformation during activation. The switch regions are loops of alpha-helices with conformations sensitive to guanine nucleotides. The helical insertion domain is inserted into the GTP-binding domain before switch region I and is unique to heterotrimeric G proteins. This helical insertion domain functions to sequester the guanine nucleotide at the interface with the GTP-binding domain and must be displaced to enable nucleotide dissociation.; GO: 0004871 signal transducer activity, 0019001 guanyl nucleotide binding, 0007186 G-protein coupled receptor protein signaling pathway; PDB: 3QI2_B 3QE0_A 2IK8_A 2OM2_A 2GTP_B 2XNS_B 3ONW_B 1KJY_A 2EBC_A 1Y3A_B ....

>cd03115 SRP The signal recognition particle (SRP) mediates the transport to or across the plasma membrane in bacteria and the endoplasmic reticulum in eukaryotes

Probab=98.23  E-value=1.2e-05  Score=57.31  Aligned_cols=84  Identities=18%  Similarity=0.069  Sum_probs=48.2

Q ss_pred             EEEEEEEeCCCchhh----hhhhHhHh--cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERY----RAVTSAYY--RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~----~~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ...+.++|++|...+    ......+.  ...+.+++|+|......   ...+...+....  + ..-+|.||.|...  
T Consensus        82 ~~d~viiDt~g~~~~~~~~l~~l~~l~~~~~~~~~~lVv~~~~~~~---~~~~~~~~~~~~--~-~~~viltk~D~~~--  153 (173)
T cd03115          82 NFDVVIVDTAGRLQIDENLMEELKKIKRVVKPDEVLLVVDAMTGQD---AVNQAKAFNEAL--G-ITGVILTKLDGDA--  153 (173)
T ss_pred             CCCEEEEECcccchhhHHHHHHHHHHHhhcCCCeEEEEEECCCChH---HHHHHHHHHhhC--C-CCEEEEECCcCCC--
Confidence            345788999996422    11112222  24899999999875432   222333333222  2 3567789999753  


Q ss_pred             CCCHHHHHHHHHHcCCeEEE
Q 040835          118 AVPTEDAKEFAEKEGLCFME  137 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~  137 (206)
                        ....+...+...++|+..
T Consensus       154 --~~g~~~~~~~~~~~p~~~  171 (173)
T cd03115         154 --RGGAALSIRAVTGKPIKF  171 (173)
T ss_pred             --CcchhhhhHHHHCcCeEe
Confidence              333344577777777643

SRP recognizes N-terminal sighnal sequences of newly synthesized polypeptides at the ribosome. The SRP-polypeptide complex is then targeted to the membrane by an interaction between SRP and its cognated receptor (SR). In mammals, SRP consists of six protein subunits and a 7SL RNA. One of these subunits is a 54 kd protein (SRP54), which is a GTP-binding protein that interacts with the signal sequence when it emerges from the ribosome. SRP54 is a multidomain protein that consists of an N-terminal domain, followed by a central G (GTPase) domain and a C-terminal M domain.

>COG5192 BMS1 GTP-binding protein required for 40S ribosome biogenesis [Translation, ribosomal structure and biogenesis]

Probab=98.22  E-value=1.4e-05  Score=65.44  Aligned_cols=130  Identities=18%  Similarity=0.156  Sum_probs=74.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|+||+|||||++.|.............| .   .+ .+.+....+.+.++|..  ... .....+-+|++++++|.+-
T Consensus        74 vvGPpGtGKsTLirSlVrr~tk~ti~~i~G-P---iT-vvsgK~RRiTflEcp~D--l~~-miDvaKIaDLVlLlIdgnf  145 (1077)
T COG5192          74 VVGPPGTGKSTLIRSLVRRFTKQTIDEIRG-P---IT-VVSGKTRRITFLECPSD--LHQ-MIDVAKIADLVLLLIDGNF  145 (1077)
T ss_pred             eecCCCCChhHHHHHHHHHHHHhhhhccCC-c---eE-EeecceeEEEEEeChHH--HHH-HHhHHHhhheeEEEecccc
Confidence            689999999999999876432211111111 1   11 13467788999999932  221 2344567999999999875


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCCHHHHH----HHHHH-c-CCeEEEeccCC
Q 040835           81 RQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVPTEDAK----EFAEK-E-GLCFMETSALE  142 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~~~~~~----~~~~~-~-~~~~~~~Sa~~  142 (206)
                      .--.+.+. ++..+..   .+.| ++-|++..|+-.........-.    .+..+ + |+.+|.+|...
T Consensus       146 GfEMETmE-FLnil~~---HGmPrvlgV~ThlDlfk~~stLr~~KKrlkhRfWtEiyqGaKlFylsgV~  210 (1077)
T COG5192         146 GFEMETME-FLNILIS---HGMPRVLGVVTHLDLFKNPSTLRSIKKRLKHRFWTEIYQGAKLFYLSGVE  210 (1077)
T ss_pred             CceehHHH-HHHHHhh---cCCCceEEEEeecccccChHHHHHHHHHHhhhHHHHHcCCceEEEecccc
Confidence            43222222 3333333   3455 6678999998542221111111    22222 2 67888887543

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=98.22  E-value=1.4e-05  Score=61.65  Aligned_cols=101  Identities=19%  Similarity=0.151  Sum_probs=65.6

Q ss_pred             CCCch-hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040835           52 TAGQE-RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK  130 (206)
Q Consensus        52 ~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  130 (206)
                      .||+- .-.......+..+|++++|+|+.++.+...  .++..+.    .++|+++|+||+|+.+...  .+....+...
T Consensus         7 fpgHm~k~~~~l~~~l~~aDvIL~VvDar~p~~~~~--~~l~~~~----~~kp~iiVlNK~DL~~~~~--~~~~~~~~~~   78 (287)
T PRK09563          7 FPGHMAKARREIKENLKLVDVVIEVLDARIPLSSEN--PMIDKII----GNKPRLLILNKSDLADPEV--TKKWIEYFEE   78 (287)
T ss_pred             cHHHHHHHHHHHHHHhhhCCEEEEEEECCCCCCCCC--hhHHHHh----CCCCEEEEEEchhcCCHHH--HHHHHHHHHH
Confidence            46653 223345667889999999999977643221  1111111    1589999999999853111  1122222334


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          131 EGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       131 ~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .+.+++.+|++++.|++++...+...+...
T Consensus        79 ~~~~vi~vSa~~~~gi~~L~~~l~~~l~~~  108 (287)
T PRK09563         79 QGIKALAINAKKGQGVKKILKAAKKLLKEK  108 (287)
T ss_pred             cCCeEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            467789999999999999999888776544

>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=98.20  E-value=1e-05  Score=58.87  Aligned_cols=84  Identities=19%  Similarity=0.108  Sum_probs=49.8

Q ss_pred             EEEEEEeCCCchhhhhh----hHhHh--cCCcEEEEEeeCCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           45 VKAQIWDTAGQERYRAV----TSAYY--RGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~----~~~~~--~~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ..+.++||+|.......    ...++  ...+-+++|++++.... +..+..++..+       -+--+|+||.|...  
T Consensus        84 ~D~vlIDT~Gr~~~d~~~~~el~~~~~~~~~~~~~LVlsa~~~~~~~~~~~~~~~~~-------~~~~lIlTKlDet~--  154 (196)
T PF00448_consen   84 YDLVLIDTAGRSPRDEELLEELKKLLEALNPDEVHLVLSATMGQEDLEQALAFYEAF-------GIDGLILTKLDETA--  154 (196)
T ss_dssp             SSEEEEEE-SSSSTHHHHHHHHHHHHHHHSSSEEEEEEEGGGGGHHHHHHHHHHHHS-------STCEEEEESTTSSS--
T ss_pred             CCEEEEecCCcchhhHHHHHHHHHHhhhcCCccceEEEecccChHHHHHHHHHhhcc-------cCceEEEEeecCCC--
Confidence            56899999995433221    11111  15677899999886542 22222222211       12357799999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEec
Q 040835          118 AVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                        ..-.+..+....+.|+-.++
T Consensus       155 --~~G~~l~~~~~~~~Pi~~it  174 (196)
T PF00448_consen  155 --RLGALLSLAYESGLPISYIT  174 (196)
T ss_dssp             --TTHHHHHHHHHHTSEEEEEE
T ss_pred             --CcccceeHHHHhCCCeEEEE
Confidence              45567788888899876665

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 ....

>COG3523 IcmF Type VI protein secretion system component VasK [Intracellular trafficking, secretion, and vesicular transport]

Probab=98.20  E-value=1.7e-05  Score=70.70  Aligned_cols=114  Identities=25%  Similarity=0.232  Sum_probs=66.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCc--------hhhhhhhHhH------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQ--------ERYRAVTSAY------   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~--------~~~~~~~~~~------   65 (206)
                      |+|++|+||||++.. .+..|+....-.-.......+-+++ +-.-+..++||.|.        +.-...|..+      
T Consensus       130 viG~pgsGKTtal~~-sgl~Fpl~~~~~~~~~~~~gT~~cdwwf~deaVlIDtaGry~~q~s~~~~~~~~W~~fL~lLkk  208 (1188)
T COG3523         130 VIGPPGSGKTTALLN-SGLQFPLAEQMGALGLAGPGTRNCDWWFTDEAVLIDTAGRYITQDSADEVDRAEWLGFLGLLKK  208 (1188)
T ss_pred             EecCCCCCcchHHhc-ccccCcchhhhccccccCCCCcccCcccccceEEEcCCcceecccCcchhhHHHHHHHHHHHHH
Confidence            689999999998864 4444432211000000000011122 23345789999982        1222334332      


Q ss_pred             ---hcCCcEEEEEeeCCCh------hh---HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           66 ---YRGAVGAMLVYDITKR------QS---FDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        66 ---~~~~d~~i~v~d~~~~------~s---~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                         .+..|++|+.+|+.+-      +.   ...++.-+.++........|+++++||.|+..
T Consensus       209 ~R~~~piNGiiltlsv~~L~~~~~~~~~~~~~~LR~RL~El~~tL~~~~PVYl~lTk~Dll~  270 (1188)
T COG3523         209 YRRRRPLNGIILTLSVSDLLTADPAEREALARTLRARLQELRETLHARLPVYLVLTKADLLP  270 (1188)
T ss_pred             hccCCCCceEEEEEEHHHHcCCCHHHHHHHHHHHHHHHHHHHHhhccCCceEEEEecccccc
Confidence               3568999999998652      11   22344456666666667899999999999853

>KOG4273 consensus Uncharacterized conserved protein [Function unknown]

Probab=98.20  E-value=2.1e-05  Score=58.13  Aligned_cols=156  Identities=22%  Similarity=0.318  Sum_probs=93.0

Q ss_pred             CccCCCC--CHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEE----EEEEEeCCCchhhhhhhHhHhcCCcEEEE
Q 040835            1 LIGDSAV--GKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV----KAQIWDTAGQERYRAVTSAYYRGAVGAML   74 (206)
Q Consensus         1 v~G~~~~--GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~----~~~i~D~~G~~~~~~~~~~~~~~~d~~i~   74 (206)
                      |+|..|+  ||-+|+.+|....+.........+.++.  .+++.+.+    .+.|.-.. .+.+. ..........++++
T Consensus         9 v~g~sgvfsg~~~ll~rl~s~dfed~ses~~~te~hg--wtid~kyysadi~lcishic-de~~l-pn~~~a~pl~a~vm   84 (418)
T KOG4273|consen    9 VTGCSGVFSGDQLLLHRLGSEDFEDESESNDATEFHG--WTIDNKYYSADINLCISHIC-DEKFL-PNAEIAEPLQAFVM   84 (418)
T ss_pred             EecccccccchHHHHHHhcchhheeeccccCceeeec--eEecceeeecceeEEeeccc-chhcc-CCcccccceeeEEE
Confidence            5688888  9999999999888866654443333222  22333222    22222111 11111 11222344678999


Q ss_pred             EeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc---------------------------CC----------
Q 040835           75 VYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET---------------------------LR----------  117 (206)
Q Consensus        75 v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~---------------------------~~----------  117 (206)
                      +||.+....+..+..|+.......  --.++.|+||.|..+                           +.          
T Consensus        85 vfdlse~s~l~alqdwl~htdins--fdillcignkvdrvphhlahdeyrrrl~kasdpsrdl~~di~dfgisetegssl  162 (418)
T KOG4273|consen   85 VFDLSEKSGLDALQDWLPHTDINS--FDILLCIGNKVDRVPHHLAHDEYRRRLAKASDPSRDLMIDICDFGISETEGSSL  162 (418)
T ss_pred             EEeccchhhhHHHHhhcccccccc--chhheecccccccccchhhhhHHHHHHHhhcCcchhHhhhhhhccccccccccc
Confidence            999999999999999976432211  123567899999632                           00          


Q ss_pred             -------CCCHHHHHHHHHHcCCeEEEeccCC------------CCCHHHHHHHHHHHHHHHhh
Q 040835          118 -------AVPTEDAKEFAEKEGLCFMETSALE------------STNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       118 -------~~~~~~~~~~~~~~~~~~~~~Sa~~------------~~~v~~~~~~l~~~i~~~~~  162 (206)
                             -.......+|+.++|+.+++.++.+            ..||..+|..+-.++..-.-
T Consensus       163 lgsedasldirga~lewc~e~~~efieacasn~dfd~c~~~dgdsqgverifgal~ahmwpgmi  226 (418)
T KOG4273|consen  163 LGSEDASLDIRGAALEWCLEHGFEFIEACASNEDFDECDDDDGDSQGVERIFGALNAHMWPGMI  226 (418)
T ss_pred             cccccchhhHHHHHHHHHHhcCceeeeecCCccccchhhccCcchhhHHHHHHHhhhccCccce
Confidence                   0112234567778889999887732            35788888888777655433

>PRK13796 GTPase YqeH; Provisional

Probab=98.15  E-value=2.3e-06  Score=68.12  Aligned_cols=53  Identities=21%  Similarity=0.357  Sum_probs=35.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC----CCccccceeeEEEEEEECCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL----DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   56 (206)
                      |+|.+|||||||+|+|+......    ...+..|+|.....+.++..   ..++||||..
T Consensus       165 vvG~~NvGKSTLiN~L~~~~~~~~~~~~~s~~pGTT~~~~~~~l~~~---~~l~DTPGi~  221 (365)
T PRK13796        165 VVGVTNVGKSTLINRIIKEITGEKDVITTSRFPGTTLDKIEIPLDDG---SFLYDTPGII  221 (365)
T ss_pred             EEcCCCCcHHHHHHHHHhhccCccceEEecCCCCccceeEEEEcCCC---cEEEECCCcc
Confidence            58999999999999999643111    11222355665555555432   3799999963

>KOG1143 consensus Predicted translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=98.14  E-value=7.7e-06  Score=63.78  Aligned_cols=98  Identities=18%  Similarity=0.192  Sum_probs=61.3

Q ss_pred             EEEEEeCCCchhhhhhhHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----
Q 040835           46 KAQIWDTAGQERYRAVTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV----  119 (206)
Q Consensus        46 ~~~i~D~~G~~~~~~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~----  119 (206)
                      -+.++|.+|+..|......-+.  -.|..++|++++..-... .++.+..+..   .++|++++++|+|+.....+    
T Consensus       250 lvTfiDLAGh~kY~~TTi~gLtgY~Ph~A~LvVsA~~Gi~~t-TrEHLgl~~A---L~iPfFvlvtK~Dl~~~~~~~~tv  325 (591)
T KOG1143|consen  250 LVTFIDLAGHAKYQKTTIHGLTGYTPHFACLVVSADRGITWT-TREHLGLIAA---LNIPFFVLVTKMDLVDRQGLKKTV  325 (591)
T ss_pred             eEEEeecccchhhheeeeeecccCCCceEEEEEEcCCCCccc-cHHHHHHHHH---hCCCeEEEEEeeccccchhHHHHH
Confidence            4789999999988765544333  357788888887653321 1222222222   47999999999998642211    


Q ss_pred             --------------------CHHHHHHHHHHc----CCeEEEeccCCCCCHH
Q 040835          120 --------------------PTEDAKEFAEKE----GLCFMETSALESTNVE  147 (206)
Q Consensus       120 --------------------~~~~~~~~~~~~----~~~~~~~Sa~~~~~v~  147 (206)
                                          ..+++...+++.    -.|+|.+|+.+|+|++
T Consensus       326 ~~l~nll~~~Gc~kvp~~Vt~~ddAv~Aaq~~~s~nivPif~vSsVsGegl~  377 (591)
T KOG1143|consen  326 KDLSNLLAKAGCTKVPKRVTTKDDAVKAAQELCSGNIVPIFAVSSVSGEGLR  377 (591)
T ss_pred             HHHHHHHhhcCccccceEeechHHHHHHHHHhccCCceeEEEEeecCccchh
Confidence                                122222222222    2479999999999987

>KOG1487 consensus GTP-binding protein DRG1 (ODN superfamily) [Signal transduction mechanisms]

Probab=98.11  E-value=1.7e-05  Score=58.89  Aligned_cols=79  Identities=25%  Similarity=0.232  Sum_probs=48.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------hhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------AVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~~~~~~~~~d~~i   73 (206)
                      ++|-|.+|||||+..+.+......+...  .+.....-.+....-++++.|.||.-+-.       .......+.++.++
T Consensus        64 ~vgFPSvGksTl~~~l~g~~s~vasyef--ttl~~vpG~~~y~gaKiqlldlpgiiegakdgkgrg~qviavartcnli~  141 (358)
T KOG1487|consen   64 FVGFPSVGKSTLLSKLTGTFSEVAAYEF--TTLTTVPGVIRYKGAKIQLLDLPGIIEGAKDGKGRGKQVIAVARTCNLIF  141 (358)
T ss_pred             EEecCccchhhhhhhhcCCCCccccccc--eeEEEecceEeccccceeeecCcchhcccccCCCCccEEEEEeecccEEE
Confidence            5799999999999999886553332222  22222222222334568999999954321       12234456788888


Q ss_pred             EEeeCCCh
Q 040835           74 LVYDITKR   81 (206)
Q Consensus        74 ~v~d~~~~   81 (206)
                      +|.|+..+
T Consensus       142 ~vld~~kp  149 (358)
T KOG1487|consen  142 IVLDVLKP  149 (358)
T ss_pred             EEeeccCc
Confidence            88887653

>PRK14721 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=98.11  E-value=1.9e-05  Score=63.65  Aligned_cols=94  Identities=17%  Similarity=0.141  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCchhhh----hhhHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYR----AVTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~----~~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.++||+|.....    .....+..  ...-.++|+|++-..  ..+..+...+...    -+--+|+||.|...   
T Consensus       270 ~d~VLIDTaGrsqrd~~~~~~l~~l~~~~~~~~~~LVl~at~~~--~~~~~~~~~f~~~----~~~~~I~TKlDEt~---  340 (420)
T PRK14721        270 KHMVLIDTVGMSQRDQMLAEQIAMLSQCGTQVKHLLLLNATSSG--DTLDEVISAYQGH----GIHGCIITKVDEAA---  340 (420)
T ss_pred             CCEEEecCCCCCcchHHHHHHHHHHhccCCCceEEEEEcCCCCH--HHHHHHHHHhcCC----CCCEEEEEeeeCCC---
Confidence            457899999954322    22222221  234578888988432  2333333333221    23457899999654   


Q ss_pred             CCHHHHHHHHHHcCCeEEEeccCCCCCH-HHHH
Q 040835          119 VPTEDAKEFAEKEGLCFMETSALESTNV-ELAF  150 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v-~~~~  150 (206)
                       ..-.+..+....++|+..++  +|.+| +++.
T Consensus       341 -~~G~~l~~~~~~~lPi~yvt--~Gq~VP~Dl~  370 (420)
T PRK14721        341 -SLGIALDAVIRRKLVLHYVT--NGQKVPEDLH  370 (420)
T ss_pred             -CccHHHHHHHHhCCCEEEEE--CCCCchhhhh
Confidence             45567788888888877665  45666 3443

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.10  E-value=4.9e-06  Score=66.20  Aligned_cols=53  Identities=19%  Similarity=0.393  Sum_probs=34.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC----CCCccccceeeEEEEEEECCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFS----LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   56 (206)
                      |+|.+|||||||+|+|+.....    .......++|.....+.++.   .+.++||||..
T Consensus       159 ~vG~~nvGKStliN~l~~~~~~~~~~~~~s~~pgtT~~~~~~~~~~---~~~l~DtPG~~  215 (360)
T TIGR03597       159 VVGVTNVGKSSLINKLLKQNNGDKDVITTSPFPGTTLDLIEIPLDD---GHSLYDTPGII  215 (360)
T ss_pred             EECCCCCCHHHHHHHHHhhccCCcceeeecCCCCeEeeEEEEEeCC---CCEEEECCCCC
Confidence            5899999999999999985321    11122234555544444422   25799999964

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.09  E-value=4.9e-06  Score=64.53  Aligned_cols=55  Identities=25%  Similarity=0.266  Sum_probs=33.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc------cceeeEEEEEEECCeEEEEEEEeCCCchhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT------IGVEFQTKTLVIHHKNVKAQIWDTAGQERY   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~   58 (206)
                      |+|++|||||||+|.|++..........      ..++.....+.++..   ..++||||...+
T Consensus       169 ~~G~sgvGKStlin~l~~~~~~~~g~v~~~~~~G~htT~~~~~~~~~~~---~~~~DtpG~~~~  229 (298)
T PRK00098        169 LAGQSGVGKSTLLNALAPDLELKTGEISEALGRGKHTTTHVELYDLPGG---GLLIDTPGFSSF  229 (298)
T ss_pred             EECCCCCCHHHHHHHHhCCcCCCCcceeccCCCCCcccccEEEEEcCCC---cEEEECCCcCcc
Confidence            5899999999999999986543222111      112333333333322   378999997643

>cd03114 ArgK-like The function of this protein family is unkown

Probab=98.07  E-value=2e-05  Score=54.69  Aligned_cols=58  Identities=17%  Similarity=0.139  Sum_probs=37.8

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      .+.+.|+||+|.....   ..++..+|.+|++..+.-.+.+..++-  ..+.      .--++++||+|
T Consensus        91 ~~D~iiIDtaG~~~~~---~~~~~~Ad~~ivv~tpe~~D~y~~~k~--~~~~------~~~~~~~~k~~  148 (148)
T cd03114          91 GFDVIIVETVGVGQSE---VDIASMADTTVVVMAPGAGDDIQAIKA--GIME------IADIVVVNKAD  148 (148)
T ss_pred             CCCEEEEECCccChhh---hhHHHhCCEEEEEECCCchhHHHHhhh--hHhh------hcCEEEEeCCC
Confidence            4678999999865322   348889999999988874444433332  1122      12378899987

The protein sequences are similar to the ArgK protein in E. coli. ArgK protein is a membrane ATPase which is required for transporting arginine, ornithine and lysine into the cells by the arginine and ornithine (AO system) and lysine, arginine and ornithine (LAO) transport systems.

>PRK12727 flagellar biosynthesis regulator FlhF; Provisional

Probab=98.06  E-value=5.8e-05  Score=62.25  Aligned_cols=90  Identities=17%  Similarity=0.117  Sum_probs=52.2

Q ss_pred             EEEEEEEeCCCchhhhhhhH----hH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRAVTS----AY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~----~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ...+.|+||+|.........    .+  .. ....++|++.+..  ...+...+..+..    ..+.-+|+||.|...  
T Consensus       428 ~~DLVLIDTaG~s~~D~~l~eeL~~L~aa~-~~a~lLVLpAtss--~~Dl~eii~~f~~----~~~~gvILTKlDEt~--  498 (559)
T PRK12727        428 DYKLVLIDTAGMGQRDRALAAQLNWLRAAR-QVTSLLVLPANAH--FSDLDEVVRRFAH----AKPQGVVLTKLDETG--  498 (559)
T ss_pred             cCCEEEecCCCcchhhHHHHHHHHHHHHhh-cCCcEEEEECCCC--hhHHHHHHHHHHh----hCCeEEEEecCcCcc--
Confidence            46789999999543222111    11  11 2235667776632  3333344333333    135678999999743  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEeccCCCCCH
Q 040835          118 AVPTEDAKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                        ..-.+..+....++++..++  +|..|
T Consensus       499 --~lG~aLsv~~~~~LPI~yvt--~GQ~V  523 (559)
T PRK12727        499 --RFGSALSVVVDHQMPITWVT--DGQRV  523 (559)
T ss_pred             --chhHHHHHHHHhCCCEEEEe--CCCCc
Confidence              45667777788888877665  44555

>cd01854 YjeQ_engC YjeQ/EngC

Probab=98.03  E-value=6.5e-06  Score=63.49  Aligned_cols=56  Identities=21%  Similarity=0.256  Sum_probs=34.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc------ccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA------TIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      ++|++|+|||||+|.|++.........      ..+++.....+.+...   ..++||||...+.
T Consensus       166 ~~G~sg~GKSTlin~l~~~~~~~~g~v~~~~~~g~~tT~~~~~~~~~~~---~~liDtPG~~~~~  227 (287)
T cd01854         166 LVGQSGVGKSTLINALLPDLDLATGEISEKLGRGRHTTTHRELFPLPGG---GLLIDTPGFREFG  227 (287)
T ss_pred             EECCCCCCHHHHHHHHhchhhccccceeccCCCCCcccceEEEEEcCCC---CEEEECCCCCccC
Confidence            589999999999999998654322211      1112333333333322   2689999987653

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.

>PRK05703 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=98.03  E-value=6.6e-05  Score=61.01  Aligned_cols=91  Identities=15%  Similarity=0.184  Sum_probs=53.6

Q ss_pred             EEEEEEEeCCCchhhh----hhhHhHhc---CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040835           44 NVKAQIWDTAGQERYR----AVTSAYYR---GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL  116 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~----~~~~~~~~---~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  116 (206)
                      ...+.|+||+|.....    .....++.   .-.-+++|++.+-.  ...+......+...   + +--+|+||.|... 
T Consensus       299 ~~DlVlIDt~G~~~~d~~~~~~L~~ll~~~~~~~~~~LVl~a~~~--~~~l~~~~~~f~~~---~-~~~vI~TKlDet~-  371 (424)
T PRK05703        299 DCDVILIDTAGRSQRDKRLIEELKALIEFSGEPIDVYLVLSATTK--YEDLKDIYKHFSRL---P-LDGLIFTKLDETS-  371 (424)
T ss_pred             CCCEEEEeCCCCCCCCHHHHHHHHHHHhccCCCCeEEEEEECCCC--HHHHHHHHHHhCCC---C-CCEEEEecccccc-
Confidence            3578999999964332    12233333   23356777888643  23333333333321   1 2368899999643 


Q ss_pred             CCCCHHHHHHHHHHcCCeEEEeccCCCCCH
Q 040835          117 RAVPTEDAKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                         ..-.+..+....++|+..++  +|.+|
T Consensus       372 ---~~G~i~~~~~~~~lPv~yit--~Gq~V  396 (424)
T PRK05703        372 ---SLGSILSLLIESGLPISYLT--NGQRV  396 (424)
T ss_pred             ---cccHHHHHHHHHCCCEEEEe--CCCCC
Confidence               44467888888899977665  45554

>KOG3859 consensus Septins (P-loop GTPases) [Cell cycle control, cell division, chromosome partitioning]

Probab=98.01  E-value=1.7e-05  Score=59.51  Aligned_cols=53  Identities=25%  Similarity=0.423  Sum_probs=37.6

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCCCccc----cceeeEEEEEEECCeEEEEEEEeCCC
Q 040835            2 IGDSAVGKSQLLARFARDEFSLDSKAT----IGVEFQTKTLVIHHKNVKAQIWDTAG   54 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~i~D~~G   54 (206)
                      +|.+|.|||||++.|++..+.....+.    +......+...-.+..+.+.|+||.|
T Consensus        48 vGETg~GKsTLmdtLFNt~f~~~p~~H~~~~V~L~~~TyelqEsnvrlKLtiv~tvG  104 (406)
T KOG3859|consen   48 VGETGLGKSTLMDTLFNTKFESEPSTHTLPNVKLQANTYELQESNVRLKLTIVDTVG  104 (406)
T ss_pred             eccCCccHHHHHHHHhccccCCCCCccCCCCceeecchhhhhhcCeeEEEEEEeecc
Confidence            799999999999999998886554332    33333333333346678899999998

>PRK00771 signal recognition particle protein Srp54; Provisional

Probab=97.96  E-value=4.5e-05  Score=61.94  Aligned_cols=85  Identities=18%  Similarity=0.034  Sum_probs=49.1

Q ss_pred             EEEEEEeCCCchhhhhh----hHh--HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYRAV----TSA--YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~----~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.|+||+|.......    ...  ....+|.+++|+|++...   ........+....   ...-+|+||.|...   
T Consensus       176 ~DvVIIDTAGr~~~d~~lm~El~~l~~~~~pdevlLVvda~~gq---~av~~a~~F~~~l---~i~gvIlTKlD~~a---  246 (437)
T PRK00771        176 ADVIIVDTAGRHALEEDLIEEMKEIKEAVKPDEVLLVIDATIGQ---QAKNQAKAFHEAV---GIGGIIITKLDGTA---  246 (437)
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHHhcccceeEEEeccccH---HHHHHHHHHHhcC---CCCEEEEecccCCC---
Confidence            37899999996543221    111  133578899999987643   1112222233211   12467889999643   


Q ss_pred             CCHHHHHHHHHHcCCeEEEec
Q 040835          119 VPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~S  139 (206)
                       ..-.+..+....+.|+.+++
T Consensus       247 -~~G~~ls~~~~~~~Pi~fig  266 (437)
T PRK00771        247 -KGGGALSAVAETGAPIKFIG  266 (437)
T ss_pred             -cccHHHHHHHHHCcCEEEEe
Confidence             23345666677777766554

>cd02038 FleN-like FleN is a member of the Fer4_NifH superfamily

Probab=97.96  E-value=2.9e-05  Score=53.32  Aligned_cols=104  Identities=15%  Similarity=0.157  Sum_probs=60.4

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh
Q 040835            3 GDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ   82 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   82 (206)
                      |..|+|||++.-.+...-.. ......-.+...   ......+.+.++|+|+..  .......+..+|.++++.+.+- .
T Consensus         7 ~kgg~gkt~~~~~~a~~~~~-~~~~~~~vd~D~---~~~~~~yd~VIiD~p~~~--~~~~~~~l~~aD~vviv~~~~~-~   79 (139)
T cd02038           7 GKGGVGKTNISANLALALAK-LGKRVLLLDADL---GLANLDYDYIIIDTGAGI--SDNVLDFFLAADEVIVVTTPEP-T   79 (139)
T ss_pred             CCCCCcHHHHHHHHHHHHHH-CCCcEEEEECCC---CCCCCCCCEEEEECCCCC--CHHHHHHHHhCCeEEEEcCCCh-h
Confidence            67899999997776543211 110000000000   000112678999999753  3334577899999999998863 3


Q ss_pred             hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           83 SFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        83 s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ++......+..+.... ...++.+++|+.+..
T Consensus        80 s~~~~~~~l~~l~~~~-~~~~~~lVvN~~~~~  110 (139)
T cd02038          80 SITDAYALIKKLAKQL-RVLNFRVVVNRAESP  110 (139)
T ss_pred             HHHHHHHHHHHHHHhc-CCCCEEEEEeCCCCH
Confidence            4444444444444332 345678999999743

It shares the common function as an ATPase, with the ATP-binding domain at the N-terminus. In Pseudomonas aeruginosa, FleN gene is involved in regulating the number of flagella and chemotactic motility by influencing FleQ activity.

>PRK11537 putative GTP-binding protein YjiA; Provisional

Probab=97.96  E-value=0.00012  Score=57.21  Aligned_cols=85  Identities=8%  Similarity=0.062  Sum_probs=47.7

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhc--------CCcEEEEEeeCCChhhH-HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYR--------GAVGAMLVYDITKRQSF-DNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~--------~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      ....++++.|...-..+...++.        ..+.+|.|+|+.+-... ........++...      =+|++||+|+..
T Consensus        91 ~d~IvIEttG~a~p~~i~~~~~~~~~l~~~~~l~~vvtvvDa~~~~~~~~~~~~~~~Qi~~A------D~IvlnK~Dl~~  164 (318)
T PRK11537         91 FDRLVIECTGMADPGPIIQTFFSHEVLCQRYLLDGVIALVDAVHADEQMNQFTIAQSQVGYA------DRILLTKTDVAG  164 (318)
T ss_pred             CCEEEEECCCccCHHHHHHHHhcChhhcccEEeccEEEEEEhhhhhhhccccHHHHHHHHhC------CEEEEeccccCC
Confidence            45678888886544443333321        24779999998753321 1111122233322      378899999875


Q ss_pred             CCCCCHHHHHHHHHHc--CCeEEEec
Q 040835          116 LRAVPTEDAKEFAEKE--GLCFMETS  139 (206)
Q Consensus       116 ~~~~~~~~~~~~~~~~--~~~~~~~S  139 (206)
                      .    .+.++...+.+  .++++.++
T Consensus       165 ~----~~~~~~~l~~lnp~a~i~~~~  186 (318)
T PRK11537        165 E----AEKLRERLARINARAPVYTVV  186 (318)
T ss_pred             H----HHHHHHHHHHhCCCCEEEEec
Confidence            2    24556666555  35676654

>KOG0447 consensus Dynamin-like GTP binding protein [General function prediction only]

Probab=97.95  E-value=0.00054  Score=56.32  Aligned_cols=82  Identities=15%  Similarity=0.167  Sum_probs=54.5

Q ss_pred             EEEEEeCCCc-------------hhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHH-HHHHhcCCCCCcEEEEEeCC
Q 040835           46 KAQIWDTAGQ-------------ERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWL-EELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        46 ~~~i~D~~G~-------------~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~-~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ...++|.||.             +....+...++.+.+++|+|+--..   .+..+... +.+......+...|+|++|.
T Consensus       413 RMVLVDLPGvIsTvT~dMA~dTKd~I~~msKayM~NPNAIILCIQDGS---VDAERSnVTDLVsq~DP~GrRTIfVLTKV  489 (980)
T KOG0447|consen  413 RMVLVDLPGVINTVTSGMAPDTKETIFSISKAYMQNPNAIILCIQDGS---VDAERSIVTDLVSQMDPHGRRTIFVLTKV  489 (980)
T ss_pred             eeEEecCCchhhhhcccccccchHHHHHHHHHHhcCCCeEEEEeccCC---cchhhhhHHHHHHhcCCCCCeeEEEEeec
Confidence            3678999992             2334566788999999999985332   12222222 22333334677899999999


Q ss_pred             CCCcCCCCCHHHHHHHHHH
Q 040835          112 DLETLRAVPTEDAKEFAEK  130 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~  130 (206)
                      |+......+...+..+...
T Consensus       490 DlAEknlA~PdRI~kIleG  508 (980)
T KOG0447|consen  490 DLAEKNVASPSRIQQIIEG  508 (980)
T ss_pred             chhhhccCCHHHHHHHHhc
Confidence            9987656677777777664

>PRK10867 signal recognition particle protein; Provisional

Probab=97.94  E-value=6.5e-05  Score=60.95  Aligned_cols=87  Identities=16%  Similarity=0.064  Sum_probs=48.6

Q ss_pred             EEEEEEEeCCCchhhhh----hhHhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRA----VTSAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      .+.+.|+||+|......    ....+  .-..+.+++|+|.....   .+......+....  + ..-+|+||.|...  
T Consensus       183 ~~DvVIIDTaGrl~~d~~lm~eL~~i~~~v~p~evllVlda~~gq---~av~~a~~F~~~~--~-i~giIlTKlD~~~--  254 (433)
T PRK10867        183 GYDVVIVDTAGRLHIDEELMDELKAIKAAVNPDEILLVVDAMTGQ---DAVNTAKAFNEAL--G-LTGVILTKLDGDA--  254 (433)
T ss_pred             CCCEEEEeCCCCcccCHHHHHHHHHHHHhhCCCeEEEEEecccHH---HHHHHHHHHHhhC--C-CCEEEEeCccCcc--
Confidence            35689999999432211    11111  12467789999987543   2222223333211  1 2457789999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEecc
Q 040835          118 AVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                        ..-.+.......++|+.++..
T Consensus       255 --rgG~alsi~~~~~~PI~fig~  275 (433)
T PRK10867        255 --RGGAALSIRAVTGKPIKFIGT  275 (433)
T ss_pred             --cccHHHHHHHHHCcCEEEEeC
Confidence              222366777777888766543

>KOG0085 consensus G protein subunit Galphaq/Galphay, small G protein superfamily [Signal transduction mechanisms]

Probab=97.93  E-value=3e-05  Score=56.74  Aligned_cols=121  Identities=17%  Similarity=0.204  Sum_probs=80.1

Q ss_pred             CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh----------hHHHHHHHHHHHHhcC-CCCCcEEEEEeC
Q 040835           42 HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ----------SFDNVARWLEELRGHA-DKNIIIMLVGNK  110 (206)
Q Consensus        42 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~----------s~~~~~~~~~~~~~~~-~~~~p~ivv~nK  110 (206)
                      -..+.+.+.|.+|+..-...|...+.++-.+++++.++..+          ..+.-+.++..+..+. -.+.++++++||
T Consensus       196 l~~iifrmvDvGGqrserrKWIHCFEnvtsi~fLvaLSEYDQvL~E~dnENRMeESkALFrTIi~yPWF~nssVIlFLNK  275 (359)
T KOG0085|consen  196 LQKIIFRMVDVGGQRSERRKWIHCFENVTSIIFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNK  275 (359)
T ss_pred             hhhheeeeeecCCchhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHccchhhHHHHHHHHHHHhccccccCCceEEEech
Confidence            34456789999999888888888888888777776665422          2233333333333332 267899999999


Q ss_pred             CCCCcC----------------CCCCHHHHHHHHHHc----C------CeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          111 SDLETL----------------RAVPTEDAKEFAEKE----G------LCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       111 ~D~~~~----------------~~~~~~~~~~~~~~~----~------~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      -|+..+                ...+.+.++++.-+.    +      +.-+.+.|.+.+||.-+|..+-+.+++...
T Consensus       276 kDlLEekI~ySHl~~YFPe~~GP~qDa~AAreFILkm~~d~nPd~dKii~SHfTcATDT~NIRfVFaaVkDtiLq~~L  353 (359)
T KOG0085|consen  276 KDLLEEKILYSHLADYFPEFDGPKQDAQAAREFILKMYVDMNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLNL  353 (359)
T ss_pred             hhhhhhhhhHHHHHHhCcccCCCcccHHHHHHHHHHHHHhhCCCccceeeeeeeecccchhHHHHHHHHHHHHHHhhh
Confidence            998421                222334455554432    2      123567888999999999999999887644

>KOG1534 consensus Putative transcription factor FET5 [Transcription]

Probab=97.93  E-value=5.6e-06  Score=59.60  Aligned_cols=71  Identities=20%  Similarity=0.141  Sum_probs=38.3

Q ss_pred             EEEEEEeCCCchhhhh---hhHhH---hcC---CcEEEEEeeCCC-hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           45 VKAQIWDTAGQERYRA---VTSAY---YRG---AVGAMLVYDITK-RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~---~~~~~---~~~---~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      -.+.++|+||+.+...   ..+.+   +.+   --.+++++|..= -++...+.-.+..+.......+|-|-|++|+|+.
T Consensus        98 ddylifDcPGQIELytH~pVm~~iv~hl~~~~F~~c~Vylldsqf~vD~~KfiSG~lsAlsAMi~lE~P~INvlsKMDLl  177 (273)
T KOG1534|consen   98 DDYLIFDCPGQIELYTHLPVMPQIVEHLKQWNFNVCVVYLLDSQFLVDSTKFISGCLSALSAMISLEVPHINVLSKMDLL  177 (273)
T ss_pred             CCEEEEeCCCeeEEeecChhHHHHHHHHhcccCceeEEEEeccchhhhHHHHHHHHHHHHHHHHHhcCcchhhhhHHHHh
Confidence            3478999999754322   11222   121   123455655431 1122333333444444444679999999999985


Q ss_pred             c
Q 040835          115 T  115 (206)
Q Consensus       115 ~  115 (206)
                      .
T Consensus       178 k  178 (273)
T KOG1534|consen  178 K  178 (273)
T ss_pred             h
Confidence            3

>PRK14723 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.93  E-value=0.00015  Score=62.49  Aligned_cols=106  Identities=16%  Similarity=0.095  Sum_probs=59.0

Q ss_pred             EEEEEEeCCCchhhh----hhhHhHh--cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYR----AVTSAYY--RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~----~~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.|+||+|.....    .....+.  ...+-+++|+|.+..  .+.+.+....+...... -+-=+|+||.|...   
T Consensus       264 ~D~VLIDTAGRs~~d~~l~eel~~l~~~~~p~e~~LVLsAt~~--~~~l~~i~~~f~~~~~~-~i~glIlTKLDEt~---  337 (767)
T PRK14723        264 KHLVLIDTVGMSQRDRNVSEQIAMLCGVGRPVRRLLLLNAASH--GDTLNEVVHAYRHGAGE-DVDGCIITKLDEAT---  337 (767)
T ss_pred             CCEEEEeCCCCCccCHHHHHHHHHHhccCCCCeEEEEECCCCc--HHHHHHHHHHHhhcccC-CCCEEEEeccCCCC---
Confidence            468999999943221    1111211  234567889998743  23333333333322111 13457899999654   


Q ss_pred             CCHHHHHHHHHHcCCeEEEeccCCCCCH-HHHHH----HHHHHHHH
Q 040835          119 VPTEDAKEFAEKEGLCFMETSALESTNV-ELAFL----TVLTEIYR  159 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v-~~~~~----~l~~~i~~  159 (206)
                       ..-.+..+....++|+..++  +|++| +++..    .+++.++.
T Consensus       338 -~~G~iL~i~~~~~lPI~yit--~GQ~VPdDL~~a~~~~lv~~ll~  380 (767)
T PRK14723        338 -HLGPALDTVIRHRLPVHYVS--TGQKVPEHLELAQADELVDRAFA  380 (767)
T ss_pred             -CccHHHHHHHHHCCCeEEEe--cCCCChhhcccCCHHHHHHHHhc
Confidence             44456777888888877665  45666 44433    34444443

>COG1419 FlhF Flagellar GTP-binding protein [Cell motility and secretion]

Probab=97.91  E-value=0.00012  Score=58.23  Aligned_cols=129  Identities=19%  Similarity=0.242  Sum_probs=73.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccc---eeeEEE---------------EEE--E----------CCeEEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIG---VEFQTK---------------TLV--I----------HHKNVKAQIW   50 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~---~~~~~~---------------~~~--~----------~~~~~~~~i~   50 (206)
                      +||++||||||.+-+|............++   ++.+..               .+.  .          .-.+..+.++
T Consensus       208 LVGPTGVGKTTTlAKLAar~~~~~~~~kVaiITtDtYRIGA~EQLk~Ya~im~vp~~vv~~~~el~~ai~~l~~~d~ILV  287 (407)
T COG1419         208 LVGPTGVGKTTTLAKLAARYVMLKKKKKVAIITTDTYRIGAVEQLKTYADIMGVPLEVVYSPKELAEAIEALRDCDVILV  287 (407)
T ss_pred             EECCCCCcHHHHHHHHHHHHHhhccCcceEEEEeccchhhHHHHHHHHHHHhCCceEEecCHHHHHHHHHHhhcCCEEEE
Confidence            589999999999999887544111111111   111110               000  0          0223568999


Q ss_pred             eCCCchhhhhh----hHhHhcCC--cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           51 DTAGQERYRAV----TSAYYRGA--VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        51 D~~G~~~~~~~----~~~~~~~~--d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      ||.|...++..    ...++..+  .-+.+|++++-.  ..++...+..+....    .--+|+||.|...    ..-.+
T Consensus       288 DTaGrs~~D~~~i~el~~~~~~~~~i~~~Lvlsat~K--~~dlkei~~~f~~~~----i~~~I~TKlDET~----s~G~~  357 (407)
T COG1419         288 DTAGRSQYDKEKIEELKELIDVSHSIEVYLVLSATTK--YEDLKEIIKQFSLFP----IDGLIFTKLDETT----SLGNL  357 (407)
T ss_pred             eCCCCCccCHHHHHHHHHHHhccccceEEEEEecCcc--hHHHHHHHHHhccCC----cceeEEEcccccC----chhHH
Confidence            99996654332    33343322  335567777643  355565555554321    1246789999643    56667


Q ss_pred             HHHHHHcCCeEEEec
Q 040835          125 KEFAEKEGLCFMETS  139 (206)
Q Consensus       125 ~~~~~~~~~~~~~~S  139 (206)
                      ..+..+.+.|+-.++
T Consensus       358 ~s~~~e~~~PV~YvT  372 (407)
T COG1419         358 FSLMYETRLPVSYVT  372 (407)
T ss_pred             HHHHHHhCCCeEEEe
Confidence            778888887765554

>KOG0099 consensus G protein subunit Galphas, small G protein superfamily [Signal transduction mechanisms]

Probab=97.91  E-value=9.2e-05  Score=55.23  Aligned_cols=120  Identities=18%  Similarity=0.192  Sum_probs=77.3

Q ss_pred             eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh-------hHHHHHH---HHHHHHhcC-CCCCcEEEEEeCC
Q 040835           43 KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ-------SFDNVAR---WLEELRGHA-DKNIIIMLVGNKS  111 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-------s~~~~~~---~~~~~~~~~-~~~~p~ivv~nK~  111 (206)
                      ..+.|+.+|.+|+......|...+.++.++|+|+..+...       +...+.+   ++..+.... -....+|+++||.
T Consensus       200 dkv~FhMfDVGGQRDeRrKWIQcFndvtAiifv~acSsyn~vlrED~~qNRL~EaL~LFksiWnNRwL~tisvIlFLNKq  279 (379)
T KOG0099|consen  200 DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVACSSYNMVLREDNQQNRLQEALNLFKSIWNNRWLRTISVILFLNKQ  279 (379)
T ss_pred             cccceeeeccCCchhhhhhHHHHhcCccEEEEEEeccchhhhhhcCCchhHHHHHHHHHHHHHhhhHHhhhheeEEecHH
Confidence            3567999999999999999999999999999998876521       1222222   222222222 1356789999999


Q ss_pred             CCCcC----------------------------CCCCHH--HHHHHHHH-------------cCCeEEEeccCCCCCHHH
Q 040835          112 DLETL----------------------------RAVPTE--DAKEFAEK-------------EGLCFMETSALESTNVEL  148 (206)
Q Consensus       112 D~~~~----------------------------~~~~~~--~~~~~~~~-------------~~~~~~~~Sa~~~~~v~~  148 (206)
                      |+..+                            ...+..  .+..+.+.             +-+.+++|.|.+.++|..
T Consensus       280 DllaeKi~Agk~~i~dyFpEf~~y~~p~da~~es~~d~~v~raK~fird~FlRiSta~~Dg~h~CYpHFTcAvDTenIrr  359 (379)
T KOG0099|consen  280 DLLAEKILAGKSKIEDYFPEFARYTTPEDATPESGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRR  359 (379)
T ss_pred             HHHHHHHHcchhhHHHhChHHhccCCccccCCCCCCChhhHHHHHhhhhhHhhhccccCCCceecccceeEeechHHHHH
Confidence            97310                            000110  01111111             113467788999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 040835          149 AFLTVLTEIYRIVS  162 (206)
Q Consensus       149 ~~~~l~~~i~~~~~  162 (206)
                      +|+...+.|.+..-
T Consensus       360 VFnDcrdiIqr~hl  373 (379)
T KOG0099|consen  360 VFNDCRDIIQRMHL  373 (379)
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999888876644

>PRK06995 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.89  E-value=2.5e-05  Score=63.95  Aligned_cols=94  Identities=19%  Similarity=0.159  Sum_probs=52.9

Q ss_pred             EEEEEEeCCCchhhhh---hhHhHhcC---CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYRA---VTSAYYRG---AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~---~~~~~~~~---~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.++||+|......   .....+..   ..-.++|+|.+-..  ..+.+....+..    ....-+|+||.|...   
T Consensus       335 ~d~VLIDTaGr~~~d~~~~e~~~~l~~~~~p~e~~LVLdAt~~~--~~l~~i~~~f~~----~~~~g~IlTKlDet~---  405 (484)
T PRK06995        335 KHIVLIDTIGMSQRDRMVSEQIAMLHGAGAPVKRLLLLNATSHG--DTLNEVVQAYRG----PGLAGCILTKLDEAA---  405 (484)
T ss_pred             CCeEEeCCCCcChhhHHHHHHHHHHhccCCCCeeEEEEeCCCcH--HHHHHHHHHhcc----CCCCEEEEeCCCCcc---
Confidence            4578999999433221   11112222   22367888887432  223332222222    123457789999643   


Q ss_pred             CCHHHHHHHHHHcCCeEEEeccCCCCCH-HHHH
Q 040835          119 VPTEDAKEFAEKEGLCFMETSALESTNV-ELAF  150 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v-~~~~  150 (206)
                       ..-.+..+...+++|+..++  +|++| +++.
T Consensus       406 -~~G~~l~i~~~~~lPI~yvt--~GQ~VPeDL~  435 (484)
T PRK06995        406 -SLGGALDVVIRYKLPLHYVS--NGQRVPEDLH  435 (484)
T ss_pred             -cchHHHHHHHHHCCCeEEEe--cCCCChhhhc
Confidence             45567788888898877665  56666 4443

>COG0523 Putative GTPases (G3E family) [General function prediction only]

Probab=97.88  E-value=0.00032  Score=54.87  Aligned_cols=88  Identities=19%  Similarity=0.096  Sum_probs=51.1

Q ss_pred             EEEEEEeCCCchhhhhhhHhHh--------cCCcEEEEEeeCCChhhHHH-H-HHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           45 VKAQIWDTAGQERYRAVTSAYY--------RGAVGAMLVYDITKRQSFDN-V-ARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~--------~~~d~~i~v~d~~~~~s~~~-~-~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ....++++.|...-......++        -..|++|-|+|+.+-..... + .....++...      =+|++||.|+.
T Consensus        85 ~D~ivIEtTGlA~P~pv~~t~~~~~~l~~~~~ld~vvtvVDa~~~~~~~~~~~~~~~~Qia~A------D~ivlNK~Dlv  158 (323)
T COG0523          85 PDRLVIETTGLADPAPVIQTFLTDPELADGVRLDGVVTVVDAAHFLEGLDAIAELAEDQLAFA------DVIVLNKTDLV  158 (323)
T ss_pred             CCEEEEeCCCCCCCHHHHHHhccccccccceeeceEEEEEeHHHhhhhHHHHHHHHHHHHHhC------cEEEEecccCC
Confidence            4467788888543322222221        23577899999876443222 2 2233333332      37899999997


Q ss_pred             cCCCCCHHHHHHHHHHcC--CeEEEecc
Q 040835          115 TLRAVPTEDAKEFAEKEG--LCFMETSA  140 (206)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~--~~~~~~Sa  140 (206)
                      ....  .+..+...++.+  ++++.++.
T Consensus       159 ~~~~--l~~l~~~l~~lnp~A~i~~~~~  184 (323)
T COG0523         159 DAEE--LEALEARLRKLNPRARIIETSY  184 (323)
T ss_pred             CHHH--HHHHHHHHHHhCCCCeEEEccc
Confidence            6332  455566666664  67888876

>PRK11889 flhF flagellar biosynthesis regulator FlhF; Provisional

Probab=97.88  E-value=5.4e-05  Score=60.30  Aligned_cols=85  Identities=12%  Similarity=0.045  Sum_probs=50.6

Q ss_pred             EEEEEEeCCCchhhhh----hhHhHh--cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYRA----VTSAYY--RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.|+||+|......    ....++  ...+.+++|+|++-..  ..+......+...    -.--+|+||.|...   
T Consensus       321 ~DvVLIDTaGRs~kd~~lm~EL~~~lk~~~PdevlLVLsATtk~--~d~~~i~~~F~~~----~idglI~TKLDET~---  391 (436)
T PRK11889        321 VDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKDI----HIDGIVFTKFDETA---  391 (436)
T ss_pred             CCEEEEeCccccCcCHHHHHHHHHHHhhcCCCeEEEEECCccCh--HHHHHHHHHhcCC----CCCEEEEEcccCCC---
Confidence            5789999999643211    122222  2356788889876332  2333343444331    23457899999754   


Q ss_pred             CCHHHHHHHHHHcCCeEEEec
Q 040835          119 VPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~S  139 (206)
                       ..-.+..++...++|+..++
T Consensus       392 -k~G~iLni~~~~~lPIsyit  411 (436)
T PRK11889        392 -SSGELLKIPAVSSAPIVLMT  411 (436)
T ss_pred             -CccHHHHHHHHHCcCEEEEe
Confidence             44456777888888876655

>KOG0463 consensus GTP-binding protein GP-1 [General function prediction only]

Probab=97.85  E-value=5e-05  Score=59.43  Aligned_cols=104  Identities=17%  Similarity=0.118  Sum_probs=59.0

Q ss_pred             EEEEEEeCCCchhhhhhhH--hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           45 VKAQIWDTAGQERYRAVTS--AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~--~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      ..+.++|.+|++.|...+-  ..-+..|...+++-++-.- +.-.++.+....   ...+|+++|++|+|+-+ ..+..+
T Consensus       219 KviTFIDLAGHEkYLKTTvFGMTGH~PDf~MLMiGaNaGI-iGmTKEHLgLAL---aL~VPVfvVVTKIDMCP-ANiLqE  293 (641)
T KOG0463|consen  219 KVITFIDLAGHEKYLKTTVFGMTGHMPDFTMLMIGANAGI-IGMTKEHLGLAL---ALHVPVFVVVTKIDMCP-ANILQE  293 (641)
T ss_pred             eeEEEEeccchhhhhheeeeccccCCCCceEEEecccccc-eeccHHhhhhhh---hhcCcEEEEEEeeccCc-HHHHHH
Confidence            3478999999999865432  2234467677777665321 011112111111   24799999999999853 122222


Q ss_pred             HHHHHHH-----------------------------HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835          123 DAKEFAE-----------------------------KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus       123 ~~~~~~~-----------------------------~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      .+..+.+                             +.-+|+|.+|-.+|+|+. ++...+
T Consensus       294 tmKll~rllkS~gcrK~PvlVrs~DDVv~~A~NF~Ser~CPIFQvSNVtG~NL~-LLkmFL  353 (641)
T KOG0463|consen  294 TMKLLTRLLKSPGCRKLPVLVRSMDDVVHAAVNFPSERVCPIFQVSNVTGTNLP-LLKMFL  353 (641)
T ss_pred             HHHHHHHHhcCCCcccCcEEEecccceEEeeccCccccccceEEeccccCCChH-HHHHHH
Confidence            2222211                             122478999999999986 333333

>PF06858 NOG1: Nucleolar GTP-binding protein 1 (NOG1); InterPro: IPR010674 This domain represents a conserved region of approximately 60 residues in length within nucleolar GTP-binding protein 1 (NOG1)

Probab=97.83  E-value=0.00013  Score=41.32  Aligned_cols=47  Identities=19%  Similarity=0.206  Sum_probs=30.9

Q ss_pred             HhcCCcEEEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           65 YYRGAVGAMLVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      .-.-.++++|++|++...  +++....++..++..- .++|+++|.||+|
T Consensus        10 L~hL~~~ilfi~D~Se~CGysie~Q~~L~~~ik~~F-~~~P~i~V~nK~D   58 (58)
T PF06858_consen   10 LAHLADAILFIIDPSEQCGYSIEEQLSLFKEIKPLF-PNKPVIVVLNKID   58 (58)
T ss_dssp             GGGT-SEEEEEE-TT-TTSS-HHHHHHHHHHHHHHT-TTS-EEEEE--TT
T ss_pred             HHhhcceEEEEEcCCCCCCCCHHHHHHHHHHHHHHc-CCCCEEEEEeccC
Confidence            345678999999998754  5666667777777665 4799999999998

The NOG1 family includes eukaryotic, bacterial and archaeal proteins. In Saccharomyces cerevisiae, the NOG1 gene has been shown to be essential for cell viability, suggesting that NOG1 may play an important role in nucleolar functions. In particular, NOG1 is believed to be functionally linked to ribosome biogenesis, which occurs in the nucleolus. In eukaryotes, NOG1 mutants were found to disrupt the biogenesis of the 60S ribosomal subunit []. The DRG and OBG proteins as well as the prokaryotic NOG-like proteins are homologous throughout their length to the amino half of eukaryotic NOG1, which contains the GTP binding motifs (IPR006073 from INTERPRO); the N-terminal GTP-binding motif is required for function.; GO: 0005525 GTP binding; PDB: 2E87_A.

>TIGR00959 ffh signal recognition particle protein

Probab=97.82  E-value=0.00015  Score=58.85  Aligned_cols=87  Identities=17%  Similarity=0.064  Sum_probs=49.9

Q ss_pred             EEEEEEEeCCCchhhhh----hhHhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRA----VTSAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      .+.+.|+||+|......    ....+  .-..+.+++|+|++...   ....+...+....   ...-+|.||.|...  
T Consensus       182 ~~DvVIIDTaGr~~~d~~l~~eL~~i~~~~~p~e~lLVvda~tgq---~~~~~a~~f~~~v---~i~giIlTKlD~~~--  253 (428)
T TIGR00959       182 GFDVVIVDTAGRLQIDEELMEELAAIKEILNPDEILLVVDAMTGQ---DAVNTAKTFNERL---GLTGVVLTKLDGDA--  253 (428)
T ss_pred             CCCEEEEeCCCccccCHHHHHHHHHHHHhhCCceEEEEEeccchH---HHHHHHHHHHhhC---CCCEEEEeCccCcc--
Confidence            35689999999532211    11111  23467889999987543   2223333333222   12467799999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEecc
Q 040835          118 AVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                        ..-.+..+....++|+.++..
T Consensus       254 --~~G~~lsi~~~~~~PI~fi~~  274 (428)
T TIGR00959       254 --RGGAALSVRSVTGKPIKFIGV  274 (428)
T ss_pred             --cccHHHHHHHHHCcCEEEEeC
Confidence              223367777778888766543

This model represents Ffh (Fifty-Four Homolog), the protein component that forms the bacterial (and organellar) signal recognition particle together with a 4.5S RNA. Ffh is a GTPase homologous to eukaryotic SRP54 and also to the GTPase FtsY (TIGR00064) that is the receptor for the signal recognition particle.

>KOG1424 consensus Predicted GTP-binding protein MMR1 [General function prediction only]

Probab=97.79  E-value=2e-05  Score=63.76  Aligned_cols=52  Identities=21%  Similarity=0.229  Sum_probs=38.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   56 (206)
                      +||-|||||||+||+|.+.+....+. |.|-|.+..++.+.   -.+.+.||||.-
T Consensus       319 ~VGYPNVGKSSTINaLvG~KkVsVS~-TPGkTKHFQTi~ls---~~v~LCDCPGLV  370 (562)
T KOG1424|consen  319 FVGYPNVGKSSTINALVGRKKVSVSS-TPGKTKHFQTIFLS---PSVCLCDCPGLV  370 (562)
T ss_pred             eecCCCCchhHHHHHHhcCceeeeec-CCCCcceeEEEEcC---CCceecCCCCcc
Confidence            58999999999999999987755543 33566655555543   346899999953

>PRK12726 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.77  E-value=6.4e-05  Score=59.58  Aligned_cols=92  Identities=18%  Similarity=0.141  Sum_probs=52.7

Q ss_pred             EEEEEEEeCCCchhhhh----hhHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRA----VTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~----~~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ...+.|+||+|......    ....+..  ..+.+++|++++..  ..++...+..+..    --+--+|+||.|...  
T Consensus       285 ~~D~VLIDTAGr~~~d~~~l~EL~~l~~~~~p~~~~LVLsag~~--~~d~~~i~~~f~~----l~i~glI~TKLDET~--  356 (407)
T PRK12726        285 CVDHILIDTVGRNYLAEESVSEISAYTDVVHPDLTCFTFSSGMK--SADVMTILPKLAE----IPIDGFIITKMDETT--  356 (407)
T ss_pred             CCCEEEEECCCCCccCHHHHHHHHHHhhccCCceEEEECCCccc--HHHHHHHHHhcCc----CCCCEEEEEcccCCC--
Confidence            36789999999643222    1222222  34666777776422  2333333332221    123467799999753  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEeccCCCCCHH
Q 040835          118 AVPTEDAKEFAEKEGLCFMETSALESTNVE  147 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~  147 (206)
                        ..-.+..++...++|+..++  +|++|.
T Consensus       357 --~~G~~Lsv~~~tglPIsylt--~GQ~Vp  382 (407)
T PRK12726        357 --RIGDLYTVMQETNLPVLYMT--DGQNIT  382 (407)
T ss_pred             --CccHHHHHHHHHCCCEEEEe--cCCCCC
Confidence              45567788888898877665  344444

>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster

Probab=97.75  E-value=0.00018  Score=46.91  Aligned_cols=99  Identities=23%  Similarity=0.144  Sum_probs=57.7

Q ss_pred             cCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh
Q 040835            3 GDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ   82 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~   82 (206)
                      +..|+||||+.-.|...-.......+.-.+.     .... .-.+.++|+|+....  .....+..+|.++++.+.+ ..
T Consensus         7 ~kgg~gkt~~~~~la~~~~~~~~~~~~l~d~-----d~~~-~~D~IIiDtpp~~~~--~~~~~l~~aD~vlvvv~~~-~~   77 (106)
T cd03111           7 AKGGVGATTLAANLAVALAKEAGRRVLLVDL-----DLQF-GDDYVVVDLGRSLDE--VSLAALDQADRVFLVTQQD-LP   77 (106)
T ss_pred             CCCCCcHHHHHHHHHHHHHhcCCCcEEEEEC-----CCCC-CCCEEEEeCCCCcCH--HHHHHHHHcCeEEEEecCC-hH
Confidence            4679999998776654322110111100000     0001 117899999986433  2445778899999888765 34


Q ss_pred             hHHHHHHHHHHHHhcCCC-CCcEEEEEeC
Q 040835           83 SFDNVARWLEELRGHADK-NIIIMLVGNK  110 (206)
Q Consensus        83 s~~~~~~~~~~~~~~~~~-~~p~ivv~nK  110 (206)
                      ++..+..++..+...... ...+.+|+|+
T Consensus        78 s~~~~~~~~~~l~~~~~~~~~~~~lVvNr  106 (106)
T cd03111          78 SIRNAKRLLELLRVLDYSLPAKIELVLNR  106 (106)
T ss_pred             HHHHHHHHHHHHHHcCCCCcCceEEEecC
Confidence            566667777666665433 4567777775

The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.

>PRK12724 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.75  E-value=7.4e-05  Score=60.02  Aligned_cols=86  Identities=19%  Similarity=0.132  Sum_probs=49.8

Q ss_pred             EEEEEEEeCCCchhh----hhhhHhHhc-----CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           44 NVKAQIWDTAGQERY----RAVTSAYYR-----GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~----~~~~~~~~~-----~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ...+.++||+|....    ...+..++.     ...-.++|+|++-..  ..+......+...    -+--+|+||.|-.
T Consensus       299 ~~D~VLIDTaGr~~rd~~~l~eL~~~~~~~~~~~~~e~~LVLsAt~~~--~~~~~~~~~f~~~----~~~glIlTKLDEt  372 (432)
T PRK12724        299 GSELILIDTAGYSHRNLEQLERMQSFYSCFGEKDSVENLLVLSSTSSY--HHTLTVLKAYESL----NYRRILLTKLDEA  372 (432)
T ss_pred             CCCEEEEeCCCCCccCHHHHHHHHHHHHhhcCCCCCeEEEEEeCCCCH--HHHHHHHHHhcCC----CCCEEEEEcccCC
Confidence            457899999995421    111222222     233578899987653  2333333333221    2345789999965


Q ss_pred             cCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          115 TLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      .    ..-.+..+....++|+..++
T Consensus       373 ~----~~G~il~i~~~~~lPI~ylt  393 (432)
T PRK12724        373 D----FLGSFLELADTYSKSFTYLS  393 (432)
T ss_pred             C----CccHHHHHHHHHCCCEEEEe
Confidence            3    34456777778888876665

>PRK13695 putative NTPase; Provisional

Probab=97.73  E-value=0.00055  Score=48.81  Aligned_cols=78  Identities=12%  Similarity=0.141  Sum_probs=42.9

Q ss_pred             hHhcCCcEEEEEeeC---CChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEecc
Q 040835           64 AYYRGAVGAMLVYDI---TKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus        64 ~~~~~~d~~i~v~d~---~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      ..+..+++  +++|-   .+..+    ..+...+......+.|++++.+|...       ......+....+..++++  
T Consensus        92 ~~l~~~~~--lllDE~~~~e~~~----~~~~~~l~~~~~~~~~~i~v~h~~~~-------~~~~~~i~~~~~~~i~~~--  156 (174)
T PRK13695         92 RALEEADV--IIIDEIGKMELKS----PKFVKAVEEVLDSEKPVIATLHRRSV-------HPFVQEIKSRPGGRVYEL--  156 (174)
T ss_pred             hccCCCCE--EEEECCCcchhhh----HHHHHHHHHHHhCCCeEEEEECchhh-------HHHHHHHhccCCcEEEEE--
Confidence            34456675  57773   22222    22233333333356899999987532       223344555556677777  


Q ss_pred             CCCCCHHHHHHHHHHHH
Q 040835          141 LESTNVELAFLTVLTEI  157 (206)
Q Consensus       141 ~~~~~v~~~~~~l~~~i  157 (206)
                       +.+|-+++.+.+++.+
T Consensus       157 -~~~~r~~~~~~~~~~~  172 (174)
T PRK13695        157 -TPENRDSLPFEILNRL  172 (174)
T ss_pred             -cchhhhhHHHHHHHHH
Confidence             4556667777777644

>PRK12723 flagellar biosynthesis regulator FlhF; Provisional

Probab=97.71  E-value=0.00069  Score=54.34  Aligned_cols=91  Identities=11%  Similarity=0.012  Sum_probs=54.1

Q ss_pred             EEEEEEEeCCCchhhhh----hhHhHhcCC--c-EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040835           44 NVKAQIWDTAGQERYRA----VTSAYYRGA--V-GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL  116 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~----~~~~~~~~~--d-~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  116 (206)
                      ...+.++||+|......    ....++...  + -.++|+|++..  ...+...+..+...    -+--+|+||.|-.. 
T Consensus       254 ~~DlVLIDTaGr~~~~~~~l~el~~~l~~~~~~~e~~LVlsat~~--~~~~~~~~~~~~~~----~~~~~I~TKlDet~-  326 (388)
T PRK12723        254 DFDLVLVDTIGKSPKDFMKLAEMKELLNACGRDAEFHLAVSSTTK--TSDVKEIFHQFSPF----SYKTVIFTKLDETT-  326 (388)
T ss_pred             CCCEEEEcCCCCCccCHHHHHHHHHHHHhcCCCCeEEEEEcCCCC--HHHHHHHHHHhcCC----CCCEEEEEeccCCC-
Confidence            46789999999543221    122233322  2 57899999865  23344443333221    23467899999653 


Q ss_pred             CCCCHHHHHHHHHHcCCeEEEeccCCCCCH
Q 040835          117 RAVPTEDAKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                         ..-.+..+....++|+..++  +|++|
T Consensus       327 ---~~G~~l~~~~~~~~Pi~yit--~Gq~v  351 (388)
T PRK12723        327 ---CVGNLISLIYEMRKEVSYVT--DGQIV  351 (388)
T ss_pred             ---cchHHHHHHHHHCCCEEEEe--CCCCC
Confidence               44556777778888876554  45556

>PF02492 cobW: CobW/HypB/UreG, nucleotide-binding domain; InterPro: IPR003495 Cobalamin (vitamin B12) is a structurally complex cofactor, consisting of a modified tetrapyrrole with a centrally chelated cobalt

Probab=97.69  E-value=0.00011  Score=52.74  Aligned_cols=80  Identities=19%  Similarity=0.124  Sum_probs=41.7

Q ss_pred             EEEEEEeCCCchhhhhh---hH--hHhcCCcEEEEEeeCCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYRAV---TS--AYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~---~~--~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ....++++.|...-..+   ..  ...-..+.+|.|+|+.+-........ +..++...      =++++||+|+.... 
T Consensus        85 ~d~IiIE~sG~a~p~~l~~~~~~~~~~~~~~~iI~vVDa~~~~~~~~~~~~~~~Qi~~A------DvIvlnK~D~~~~~-  157 (178)
T PF02492_consen   85 PDRIIIETSGLADPAPLILQDPPLKEDFRLDSIITVVDATNFDELENIPELLREQIAFA------DVIVLNKIDLVSDE-  157 (178)
T ss_dssp             -SEEEEEEECSSGGGGHHHHSHHHHHHESESEEEEEEEGTTHGGHTTHCHHHHHHHCT-------SEEEEE-GGGHHHH-
T ss_pred             cCEEEECCccccccchhhhccccccccccccceeEEeccccccccccchhhhhhcchhc------CEEEEeccccCChh-
Confidence            45678888884433322   01  11234678999999976432333322 33333322      37889999986522 


Q ss_pred             CCHHHHHHHHHHc
Q 040835          119 VPTEDAKEFAEKE  131 (206)
Q Consensus       119 ~~~~~~~~~~~~~  131 (206)
                      ...+..++..++.
T Consensus       158 ~~i~~~~~~ir~l  170 (178)
T PF02492_consen  158 QKIERVREMIREL  170 (178)
T ss_dssp             --HHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHH
Confidence            1224555555554

Cobalamin is usually found in one of two biologically active forms: methylcobalamin and adocobalamin. Most prokaryotes, as well as animals, have cobalamin-dependent enzymes, whereas plants and fungi do not appear to use it. In bacteria and archaea, these include methionine synthase, ribonucleotide reductase, glutamate and methylmalonyl-CoA mutases, ethanolamine ammonia lyase, and diol dehydratase []. In mammals, cobalamin is obtained through the diet, and is required for methionine synthase and methylmalonyl-CoA mutase []. There are at least two distinct cobalamin biosynthetic pathways in bacteria []: Aerobic pathway that requires oxygen and in which cobalt is inserted late in the pathway []; found in Pseudomonas denitrificans and Rhodobacter capsulatus. Anaerobic pathway in which cobalt insertion is the first committed step towards cobalamin synthesis []; found in Salmonella typhimurium, Bacillus megaterium, and Propionibacterium freudenreichii subsp. shermanii. Either pathway can be divided into two parts: (1) corrin ring synthesis (differs in aerobic and anaerobic pathways) and (2) adenosylation of corrin ring, attachment of aminopropanol arm, and assembly of the nucleotide loop (common to both pathways) []. There are about 30 enzymes involved in either pathway, where those involved in the aerobic pathway are prefixed Cob and those of the anaerobic pathway Cbi. Several of these enzymes are pathway-specific: CbiD, CbiG, and CbiK are specific to the anaerobic route of S. typhimurium, whereas CobE, CobF, CobG, CobN, CobS, CobT, and CobW are unique to the aerobic pathway of P. denitrificans. CobW proteins are generally found proximal to the trimeric cobaltochelatase subunit CobN, which is essential for vitamin B12 (cobalamin) biosynthesis []. They contain a P-loop nucleotide-binding loop in the N-terminal domain and a histidine-rich region in the C-terminal portion suggesting a role in metal binding, possibly as an intermediary between the cobalt transport and chelation systems. CobW might be involved in cobalt reduction leading to cobalt(I) corrinoids. This entry represents CobW-like proteins, including P47K (P31521 from SWISSPROT), a Pseudomonas chlororaphis protein needed for nitrile hydratase expression [], and urease accessory protein UreG, which acts as a chaperone in the activation of urease upon insertion of nickel into the active site [].; PDB: 2WSM_B 1NIJ_A 2HF9_A 2HF8_B.

>PF03266 NTPase_1: NTPase; InterPro: IPR004948 This entry represents a family of nucleoside-triphosphatases which have activity towards ATP, GTP, CTP, TTP and UTP and may hydrolyse nucleoside diphosphates with lower efficiency []

Probab=97.63  E-value=0.00023  Score=50.48  Aligned_cols=131  Identities=18%  Similarity=0.225  Sum_probs=61.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeC-CCc----------------------hh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDT-AGQ----------------------ER   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~-~G~----------------------~~   57 (206)
                      +.|++|+|||||+++++..-.... .+..|  +....+.-++...-|.+.|. .|.                      +.
T Consensus         4 iTG~pG~GKTTll~k~i~~l~~~~-~~v~G--f~t~evr~~g~r~GF~iv~l~~g~~~~la~~~~~~~~~vgky~v~~e~   80 (168)
T PF03266_consen    4 ITGPPGVGKTTLLKKVIEELKKKG-LPVGG--FYTEEVRENGRRIGFDIVDLNSGEEAILARVDFRSGPRVGKYFVDLES   80 (168)
T ss_dssp             EES-TTSSHHHHHHHHHHHHHHTC-GGEEE--EEEEEEETTSSEEEEEEEET-TS-EEEEEETTSS-SCECTTCEE-HHH
T ss_pred             EECcCCCCHHHHHHHHHHHhhccC-Cccce--EEeecccCCCceEEEEEEECcCCCccccccccccccccCCCEEEcHHH
Confidence            469999999999999886432111 11112  22223333444455556555 221                      11


Q ss_pred             hhh----hhHhHhcCCcEEEEEeeCCCh-hhHHHHHHHHHHHHhcCCCCCcEEEEEeCC-CCCcCCCCCHHHHHHHHHHc
Q 040835           58 YRA----VTSAYYRGAVGAMLVYDITKR-QSFDNVARWLEELRGHADKNIIIMLVGNKS-DLETLRAVPTEDAKEFAEKE  131 (206)
Q Consensus        58 ~~~----~~~~~~~~~d~~i~v~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~-D~~~~~~~~~~~~~~~~~~~  131 (206)
                      |..    .....+..+|  ++++|---+ |-  ....|...+......++|++.++-+. +.        .-+..+....
T Consensus        81 fe~~~~~~L~~~~~~~~--liviDEIG~mEl--~~~~F~~~v~~~l~s~~~vi~vv~~~~~~--------~~l~~i~~~~  148 (168)
T PF03266_consen   81 FEEIGLPALRNALSSSD--LIVIDEIGKMEL--KSPGFREAVEKLLDSNKPVIGVVHKRSDN--------PFLEEIKRRP  148 (168)
T ss_dssp             HHCCCCCCCHHHHHCCH--EEEE---STTCC--C-CHHHHHHHHHHCTTSEEEEE--SS--S--------CCHHHHHTTT
T ss_pred             HHHHHHHHHHhhcCCCC--EEEEeccchhhh--cCHHHHHHHHHHHcCCCcEEEEEecCCCc--------HHHHHHHhCC
Confidence            111    1222235666  666664211 10  01123333333333578888888666 32        1245666666


Q ss_pred             CCeEEEeccCCCCCH
Q 040835          132 GLCFMETSALESTNV  146 (206)
Q Consensus       132 ~~~~~~~Sa~~~~~v  146 (206)
                      ++.+++++..+.+.+
T Consensus       149 ~~~i~~vt~~NRd~l  163 (168)
T PF03266_consen  149 DVKIFEVTEENRDAL  163 (168)
T ss_dssp             TSEEEE--TTTCCCH
T ss_pred             CcEEEEeChhHHhhH
Confidence            788998877665543

It includes proteins from bacteria to human, and the function was determined first in a hyperthermophilic bacterium to be an NTPase []. The structure of one member-sequence represents a variation of the RecA fold, and implies that the function might be that of a DNA/RNA modifying enzyme []. The sequence carries both a Walker A and Walker B motif which together are characteristic of ATPases or GTPases. The protein exhibits an increased expression profile in human liver cholangiocarcinoma when compared to normal tissue [].; GO: 0005524 ATP binding, 0016740 transferase activity, 0019204 nucleotide phosphatase activity; PDB: 1YE8_A 2I3B_A.

>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell

Probab=97.60  E-value=0.0025  Score=45.38  Aligned_cols=84  Identities=13%  Similarity=0.048  Sum_probs=51.5

Q ss_pred             EEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH
Q 040835           46 KAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAK  125 (206)
Q Consensus        46 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  125 (206)
                      .+.|+|+|+....  .....+..+|.+|++++++. .++..+..++..+....  .....+++|+.+...  ....+...
T Consensus        64 d~viiD~p~~~~~--~~~~~l~~ad~viiv~~~~~-~s~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~--~~~~~~~~  136 (179)
T cd02036          64 DYILIDSPAGIER--GFITAIAPADEALLVTTPEI-SSLRDADRVKGLLEALG--IKVVGVIVNRVRPDM--VEGGDMVE  136 (179)
T ss_pred             CEEEEECCCCCcH--HHHHHHHhCCcEEEEeCCCc-chHHHHHHHHHHHHHcC--CceEEEEEeCCcccc--cchhhHHH
Confidence            6899999975433  24455788999999988764 34455555555555421  234678999998642  11222234


Q ss_pred             HHHHHcCCeEE
Q 040835          126 EFAEKEGLCFM  136 (206)
Q Consensus       126 ~~~~~~~~~~~  136 (206)
                      .+.+.++.+++
T Consensus       137 ~~~~~~~~~v~  147 (179)
T cd02036         137 DIEEILGVPLL  147 (179)
T ss_pred             HHHHHhCCCEE
Confidence            45555676654

The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.

>cd03110 Fer4_NifH_child This protein family's function is unkown

Probab=97.57  E-value=0.0012  Score=47.25  Aligned_cols=85  Identities=26%  Similarity=0.308  Sum_probs=59.9

Q ss_pred             eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           43 KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      ..+.+.++|||+...  ......+..+|.+++++.++. .+...+..++..+...   +.|+.+|+||+|...   ...+
T Consensus        91 ~~~d~viiDtpp~~~--~~~~~~l~~aD~vliv~~~~~-~~~~~~~~~~~~l~~~---~~~~~vV~N~~~~~~---~~~~  161 (179)
T cd03110          91 EGAELIIIDGPPGIG--CPVIASLTGADAALLVTEPTP-SGLHDLERAVELVRHF---GIPVGVVINKYDLND---EIAE  161 (179)
T ss_pred             cCCCEEEEECcCCCc--HHHHHHHHcCCEEEEEecCCc-ccHHHHHHHHHHHHHc---CCCEEEEEeCCCCCc---chHH
Confidence            457899999996532  234456788999999998874 3555666666655543   467889999999643   1345


Q ss_pred             HHHHHHHHcCCeEE
Q 040835          123 DAKEFAEKEGLCFM  136 (206)
Q Consensus       123 ~~~~~~~~~~~~~~  136 (206)
                      +..++.++.+++++
T Consensus       162 ~~~~~~~~~~~~vl  175 (179)
T cd03110         162 EIEDYCEEEGIPIL  175 (179)
T ss_pred             HHHHHHHHcCCCeE
Confidence            67778888888765

It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.

>cd02042 ParA ParA and ParB of Caulobacter crescentus belong to a conserved family of bacterial proteins implicated in chromosome segregation

Probab=97.56  E-value=0.00055  Score=44.32  Aligned_cols=77  Identities=17%  Similarity=0.117  Sum_probs=47.5

Q ss_pred             CCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhh
Q 040835            4 DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQS   83 (206)
Q Consensus         4 ~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s   83 (206)
                      ..|+||||+...+...-.. ...+.       ..+..+.. +.+.++|+|+.....  ....+..+|.+|++++.+ ..+
T Consensus         8 kgG~Gkst~~~~la~~~~~-~~~~v-------l~~d~d~~-~d~viiD~p~~~~~~--~~~~l~~ad~viv~~~~~-~~s   75 (104)
T cd02042           8 KGGVGKTTTAVNLAAALAR-RGKRV-------LLIDLDPQ-YDYIIIDTPPSLGLL--TRNALAAADLVLIPVQPS-PLD   75 (104)
T ss_pred             CCCcCHHHHHHHHHHHHHh-CCCcE-------EEEeCCCC-CCEEEEeCcCCCCHH--HHHHHHHCCEEEEeccCC-HHH
Confidence            5699999998876653321 11111       11122222 678999999864332  336778899999998775 445


Q ss_pred             HHHHHHHHH
Q 040835           84 FDNVARWLE   92 (206)
Q Consensus        84 ~~~~~~~~~   92 (206)
                      +..+.+++.
T Consensus        76 ~~~~~~~~~   84 (104)
T cd02042          76 LDGLEKLLE   84 (104)
T ss_pred             HHHHHHHHH
Confidence            555555554

ParB binds to DNA sequences adjacent to the origin of replication and localizes to opposite cell poles shortly following the initiation of DNA replication. ParB regulates the ParA ATPase activity by promoting nucleotide exchange in a fashion reminiscent of the exchange factors of eukaryotic G proteins. ADP-bound ParA binds single-stranded DNA, whereas the ATP-bound form dissociates ParB from its DNA binding sites. Increasing the fraction of ParA-ADP in the cell inhibits cell division, suggesting that this simple nucleotide switch may regulate cytokinesis. ParA shares sequence similarity to a conserved and widespread family of ATPases which includes the repA protein of the repABC operon in R. etli Sym plasmid. This operon is involved in the plasmid replication and partition.

>cd01983 Fer4_NifH The Fer4_NifH superfamily contains a variety of proteins which share a common ATP-binding domain

Probab=97.54  E-value=0.00058  Score=43.18  Aligned_cols=67  Identities=19%  Similarity=0.122  Sum_probs=43.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh-hHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV-TSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-~~~~~~~~d~~i~v~d~~   79 (206)
                      +.|..|+||||+...+...-.....      .    ...++    .+.++|+++....... .......+|.++++++..
T Consensus         4 ~~g~~G~Gktt~~~~l~~~l~~~g~------~----v~~~~----d~iivD~~~~~~~~~~~~~~~~~~~~~vi~v~~~~   69 (99)
T cd01983           4 VTGKGGVGKTTLAANLAAALAKRGK------R----VLLID----DYVLIDTPPGLGLLVLLCLLALLAADLVIIVTTPE   69 (99)
T ss_pred             EECCCCCCHHHHHHHHHHHHHHCCC------e----EEEEC----CEEEEeCCCCccchhhhhhhhhhhCCEEEEecCCc
Confidence            3588899999999987764332111      1    11122    7899999986432221 245667889999998876


Q ss_pred             Ch
Q 040835           80 KR   81 (206)
Q Consensus        80 ~~   81 (206)
                      ..
T Consensus        70 ~~   71 (99)
T cd01983          70 AL   71 (99)
T ss_pred             hh
Confidence            43

Functionally, proteins in this superfamily use the energy from hydrolysis of NTP to transfer electron or ion.

>KOG0780 consensus Signal recognition particle, subunit Srp54 [Intracellular trafficking, secretion, and vesicular transport]

Probab=97.48  E-value=0.00032  Score=55.18  Aligned_cols=47  Identities=23%  Similarity=0.237  Sum_probs=29.2

Q ss_pred             eEEEEEEEeCCCchhhhh-hhHh-----HhcCCcEEEEEeeCCChhhHHHHHH
Q 040835           43 KNVKAQIWDTAGQERYRA-VTSA-----YYRGAVGAMLVYDITKRQSFDNVAR   89 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~-~~~~-----~~~~~d~~i~v~d~~~~~s~~~~~~   89 (206)
                      .++.+.|+||.|...... +..+     -.-..|-+|+|.|++-....+....
T Consensus       182 e~fdvIIvDTSGRh~qe~sLfeEM~~v~~ai~Pd~vi~VmDasiGQaae~Qa~  234 (483)
T KOG0780|consen  182 ENFDVIIVDTSGRHKQEASLFEEMKQVSKAIKPDEIIFVMDASIGQAAEAQAR  234 (483)
T ss_pred             cCCcEEEEeCCCchhhhHHHHHHHHHHHhhcCCCeEEEEEeccccHhHHHHHH
Confidence            357799999999432211 1111     1224788999999987765544433

>KOG1533 consensus Predicted GTPase [General function prediction only]

Probab=97.47  E-value=9.6e-05  Score=54.26  Aligned_cols=67  Identities=15%  Similarity=0.142  Sum_probs=37.0

Q ss_pred             EEEEEEeCCCchhhhh----h--hHhHhcCCcEEEEEeeC------CChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           45 VKAQIWDTAGQERYRA----V--TSAYYRGAVGAMLVYDI------TKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~----~--~~~~~~~~d~~i~v~d~------~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      ..+.++|+||+-++..    +  .-..++.-|.-+.++..      +++..|  +..++..+..+.--..|-+-|+.|+|
T Consensus        97 ~~Y~lFDcPGQVELft~h~~l~~I~~~Lek~~~rl~~V~LiDs~ycs~p~~~--iS~lL~sl~tMl~melphVNvlSK~D  174 (290)
T KOG1533|consen   97 DHYVLFDCPGQVELFTHHDSLNKIFRKLEKLDYRLVAVNLIDSHYCSDPSKF--ISSLLVSLATMLHMELPHVNVLSKAD  174 (290)
T ss_pred             CcEEEEeCCCcEEEEeccchHHHHHHHHHHcCceEEEEEeeeceeeCChHHH--HHHHHHHHHHHHhhcccchhhhhHhH
Confidence            4578999999754321    1  11233345555544444      334333  33333333333334678888999999


Q ss_pred             C
Q 040835          113 L  113 (206)
Q Consensus       113 ~  113 (206)
                      +
T Consensus       175 l  175 (290)
T KOG1533|consen  175 L  175 (290)
T ss_pred             H
Confidence            7

>PRK06731 flhF flagellar biosynthesis regulator FlhF; Validated

Probab=97.47  E-value=0.001  Score=50.79  Aligned_cols=86  Identities=12%  Similarity=0.043  Sum_probs=51.2

Q ss_pred             EEEEEEEeCCCchhhhh----hhHhHh--cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRA----VTSAYY--RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~----~~~~~~--~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ...+.|+||+|......    .+..++  ...+.+++|+|++-..  ..+..++..+..    -.+--+|+||.|...  
T Consensus       154 ~~D~ViIDt~Gr~~~~~~~l~el~~~~~~~~~~~~~LVl~a~~~~--~d~~~~~~~f~~----~~~~~~I~TKlDet~--  225 (270)
T PRK06731        154 RVDYILIDTAGKNYRASETVEEMIETMGQVEPDYICLTLSASMKS--KDMIEIITNFKD----IHIDGIVFTKFDETA--  225 (270)
T ss_pred             CCCEEEEECCCCCcCCHHHHHHHHHHHhhhCCCeEEEEEcCccCH--HHHHHHHHHhCC----CCCCEEEEEeecCCC--
Confidence            46789999999653211    122222  2356688999986331  233333333332    133467899999754  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEec
Q 040835          118 AVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                        ..-.+..++...++|+..++
T Consensus       226 --~~G~~l~~~~~~~~Pi~~it  245 (270)
T PRK06731        226 --SSGELLKIPAVSSAPIVLMT  245 (270)
T ss_pred             --CccHHHHHHHHHCcCEEEEe
Confidence              34456777778888876665

>cd00009 AAA The AAA+ (ATPases Associated with a wide variety of cellular Activities) superfamily represents an ancient group of ATPases belonging to the ASCE (for additional strand, catalytic E) division of the P-loop NTPase fold

Probab=97.44  E-value=0.00096  Score=45.39  Aligned_cols=21  Identities=33%  Similarity=0.534  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      +.|++|+|||+|++.+.....
T Consensus        24 i~G~~G~GKT~l~~~i~~~~~   44 (151)
T cd00009          24 LYGPPGTGKTTLARAIANELF   44 (151)
T ss_pred             EECCCCCCHHHHHHHHHHHhh
Confidence            579999999999999887654

The ASCE division also includes ABC, RecA-like, VirD4-like, PilT-like, and SF1/2 helicases. Members of the AAA+ ATPases function as molecular chaperons, ATPase subunits of proteases, helicases, or nucleic-acid stimulated ATPases. The AAA+ proteins contain several distinct features in addition to the conserved alpha-beta-alpha core domain structure and the Walker A and B motifs of the P-loop NTPases.

>PF07015 VirC1: VirC1 protein; InterPro: IPR009744 This family consists of several bacterial VirC1 proteins

Probab=97.40  E-value=0.00022  Score=52.58  Aligned_cols=102  Identities=11%  Similarity=0.080  Sum_probs=61.9

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQS--FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      ..+.|+|+.|.....  ....+..+|.+|+=.-.+..+.  ....-.|+..+........|..|+.|+++-.. ......
T Consensus        84 ~d~VlvDleG~as~~--~~~aia~sDlVlIP~~~s~lD~~eA~~t~~~v~~~~~~~~~~ip~~Vl~Tr~~~~~-~~~~~~  160 (231)
T PF07015_consen   84 FDFVLVDLEGGASEL--NDYAIARSDLVLIPMQPSQLDADEAAKTFKWVRRLEKAERRDIPAAVLFTRVPAAR-LTRAQR  160 (231)
T ss_pred             CCEEEEeCCCCCchh--HHHHHHHCCEEEECCCCChHHHHHHHHHHHHHHHHHHhhCCCCCeeEEEecCCcch-hhHHHH
Confidence            568999998854322  3445667998888766664332  22223355544444457799999999987321 111122


Q ss_pred             HHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835          123 DAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus       123 ~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .+.++..  ++|+|.+......-..++|.
T Consensus       161 ~~~e~~~--~lpvl~t~l~eR~Af~~m~~  187 (231)
T PF07015_consen  161 IISEQLE--SLPVLDTELHERDAFRAMFS  187 (231)
T ss_pred             HHHHHHh--cCCccccccccHHHHHHHHH
Confidence            2233333  58999988887766666655

In Agrobacterium tumefaciens, a cis-active 24-base-pair sequence adjacent to the right border of the T-DNA, called overdrive, stimulates tumour formation by increasing the level of T-DNA processing. It is thought that the virC operon, which enhances T-DNA processing probably, does so because the VirC1 protein interacts with overdrive. It has now been shown that the virC1 gene product binds to overdrive but not to the right border of T-DNA [].

>KOG0459 consensus Polypeptide release factor 3 [Translation, ribosomal structure and biogenesis]

Probab=97.27  E-value=0.00025  Score=56.05  Aligned_cols=117  Identities=22%  Similarity=0.194  Sum_probs=70.9

Q ss_pred             eeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hHHHH--HHHHHHHHhcCCCCCcEEE
Q 040835           32 EFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SFDNV--ARWLEELRGHADKNIIIML  106 (206)
Q Consensus        32 ~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~--~~~~~~~~~~~~~~~p~iv  106 (206)
                      +.......+......+.|.|.||+..|-.....-..+||+.++|+++.-.+   .|+.-  .+-+..+.... .-...|+
T Consensus       144 tvEvGrA~FEte~~~ftiLDApGHk~fv~nmI~GasqAD~~vLvisar~gefetgFerGgQTREha~Lakt~-gv~~lVv  222 (501)
T KOG0459|consen  144 TVEVGRAYFETENKRFTILDAPGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKTA-GVKHLIV  222 (501)
T ss_pred             eeeeeeEEEEecceeEEeeccCcccccchhhccccchhhhhhhhhhhhhchhhcccccccchhHHHHHHHhh-ccceEEE
Confidence            333334444455677999999999988766666677899999999884322   12211  11122222222 2356889


Q ss_pred             EEeCCCCCcCCCCCH-------HHHHHHHHHcC------CeEEEeccCCCCCHHHHH
Q 040835          107 VGNKSDLETLRAVPT-------EDAKEFAEKEG------LCFMETSALESTNVELAF  150 (206)
Q Consensus       107 v~nK~D~~~~~~~~~-------~~~~~~~~~~~------~~~~~~Sa~~~~~v~~~~  150 (206)
                      ++||+|..... .+.       +.+..+....|      ..++.+|..+|.++.+..
T Consensus       223 ~vNKMddPtvn-Ws~eRy~E~~~k~~~fLr~~g~n~~~d~~f~p~sg~tG~~~k~~~  278 (501)
T KOG0459|consen  223 LINKMDDPTVN-WSNERYEECKEKLQPFLRKLGFNPKPDKHFVPVSGLTGANVKDRT  278 (501)
T ss_pred             EEEeccCCccC-cchhhHHHHHHHHHHHHHHhcccCCCCceeeecccccccchhhcc
Confidence            99999975311 121       22334444333      358999999999988755

>TIGR02475 CobW cobalamin biosynthesis protein CobW

Probab=97.25  E-value=0.0046  Score=48.97  Aligned_cols=19  Identities=21%  Similarity=0.429  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|.-|||||||+++++..
T Consensus         9 ltGFLGaGKTTll~~ll~~   27 (341)
T TIGR02475         9 VTGFLGAGKTTLIRHLLQN   27 (341)
T ss_pred             EEECCCCCHHHHHHHHHhc
Confidence            4689999999999999864

A broader CobW family is delineated by two PFAM models which identify the N- and C-terminal domains (pfam02492 and pfam07683).

>PF13401 AAA_22: AAA domain; PDB: 2QBY_B 1FNN_B 1W5T_A 1W5S_B

Probab=97.25  E-value=0.00015  Score=48.92  Aligned_cols=20  Identities=35%  Similarity=0.607  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||++++.+....
T Consensus         9 i~G~~G~GKT~~~~~~~~~~   28 (131)
T PF13401_consen    9 ISGPPGSGKTTLIKRLARQL   28 (131)
T ss_dssp             EEE-TTSSHHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHHh
Confidence            57999999999999998853

>PF13555 AAA_29: P-loop containing region of AAA domain

Probab=97.25  E-value=0.00019  Score=41.70  Aligned_cols=18  Identities=33%  Similarity=0.523  Sum_probs=15.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|+.|+|||||++++.-
T Consensus        28 i~G~nGsGKSTllDAi~~   45 (62)
T PF13555_consen   28 ITGPNGSGKSTLLDAIQT   45 (62)
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998764

>COG0541 Ffh Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=97.25  E-value=0.0018  Score=51.96  Aligned_cols=63  Identities=25%  Similarity=0.170  Sum_probs=36.5

Q ss_pred             EEEEEEeCCCchhhhhhh----H--hHhcCCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           45 VKAQIWDTAGQERYRAVT----S--AYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~----~--~~~~~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      +.+.|+||+|........    .  .-.-+.|-+++|+|+.-....... +.+...+ .     + .=||++|.|-.
T Consensus       183 ~DvvIvDTAGRl~ide~Lm~El~~Ik~~~~P~E~llVvDam~GQdA~~~A~aF~e~l-~-----i-tGvIlTKlDGd  252 (451)
T COG0541         183 YDVVIVDTAGRLHIDEELMDELKEIKEVINPDETLLVVDAMIGQDAVNTAKAFNEAL-G-----I-TGVILTKLDGD  252 (451)
T ss_pred             CCEEEEeCCCcccccHHHHHHHHHHHhhcCCCeEEEEEecccchHHHHHHHHHhhhc-C-----C-ceEEEEcccCC
Confidence            568999999954332211    1  113357789999999876544333 3332222 1     1 24678898864

>PF00004 AAA: ATPase family associated with various cellular activities (AAA); InterPro: IPR003959 AAA ATPases (ATPases Associated with diverse cellular Activities) form a large protein family and play a number of roles in the cell including cell-cycle regulation, protein proteolysis and disaggregation, organelle biogenesis and intracellular transport

Probab=97.17  E-value=0.0017  Score=43.67  Aligned_cols=20  Identities=30%  Similarity=0.365  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|++|+|||+|++.+...-
T Consensus         3 l~G~~G~GKT~l~~~la~~l   22 (132)
T PF00004_consen    3 LHGPPGTGKTTLARALAQYL   22 (132)
T ss_dssp             EESSTTSSHHHHHHHHHHHT
T ss_pred             EECcCCCCeeHHHHHHHhhc
Confidence            47999999999999988753

Some of them function as molecular chaperones, subunits of proteolytic complexes or independent proteases (FtsH, Lon). They also act as DNA helicases and transcription factors []. AAA ATPases belong to the AAA+ superfamily of ringshaped P-loop NTPases, which act via the energy-dependent unfolding of macromolecules [, ]. There are six major clades of AAA domains (proteasome subunits, metalloproteases, domains D1 and D2 of ATPases with two AAA domains, the MSP1/katanin/spastin group and BCS1 and it homologues), as well as a number of deeply branching minor clades []. They assemble into oligomeric assemblies (often hexamers) that form a ring-shaped structure with a central pore. These proteins produce a molecular motor that couples ATP binding and hydrolysis to changes in conformational states that act upon a target substrate, either translocating or remodelling it []. They are found in all living organisms and share the common feature of the presence of a highly conserved AAA domain called the AAA module. This domain is responsible for ATP binding and hydrolysis. It contains 200-250 residues, among them there are two classical motifs, Walker A (GX4GKT) and Walker B (HyDE) []. The functional variety seen between AAA ATPases is in part due to their extensive number of accessory domains and factors, and to their variable organisation within oligomeric assemblies, in addition to changes in key functional residues within the ATPase domain itself. More information about these proteins can be found at Protein of the Month: AAA ATPases [].; GO: 0005524 ATP binding; PDB: 3H4M_A 1NSF_A 1D2N_A 1HQY_E 1DO0_E 1DO2_C 1G4B_E 1HT1_F 1G4A_F 1HT2_G ....

>KOG2484 consensus GTPase [General function prediction only]

Probab=97.15  E-value=0.00028  Score=55.61  Aligned_cols=51  Identities=24%  Similarity=0.359  Sum_probs=39.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|-|++||||+||.|........... .|.+.....+.++   -.+.|.|.||.
T Consensus       257 ViG~PNVGKSSvINsL~~~k~C~vg~~-pGvT~smqeV~Ld---k~i~llDsPgi  307 (435)
T KOG2484|consen  257 IIGYPNVGKSSVINSLKRRKACNVGNV-PGVTRSMQEVKLD---KKIRLLDSPGI  307 (435)
T ss_pred             eecCCCCChhHHHHHHHHhccccCCCC-ccchhhhhheecc---CCceeccCCce
Confidence            689999999999999998877544432 2677777677664   34789999994

>PF05621 TniB: Bacterial TniB protein; InterPro: IPR008868 This family consists of several bacterial TniB NTP-binding proteins

Probab=97.14  E-value=0.0028  Score=48.76  Aligned_cols=96  Identities=21%  Similarity=0.272  Sum_probs=58.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc---h---------------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ---E---------------------   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---~---------------------   56 (206)
                      ++|++|-|||+++++|....- +.....             ...+.+..+.+|..   .                     
T Consensus        66 ivG~snnGKT~Ii~rF~~~hp-~~~d~~-------------~~~~PVv~vq~P~~p~~~~~Y~~IL~~lgaP~~~~~~~~  131 (302)
T PF05621_consen   66 IVGDSNNGKTMIIERFRRLHP-PQSDED-------------AERIPVVYVQMPPEPDERRFYSAILEALGAPYRPRDRVA  131 (302)
T ss_pred             EecCCCCcHHHHHHHHHHHCC-CCCCCC-------------CccccEEEEecCCCCChHHHHHHHHHHhCcccCCCCCHH
Confidence            589999999999999998543 222211             11234555555431   1                     


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCCh---hhHHHHHHHHHHHHhcCC-CCCcEEEEEeC
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKR---QSFDNVARWLEELRGHAD-KNIIIMLVGNK  110 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~---~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK  110 (206)
                      ........+++....=++++|--+.   .+....+..++.+....+ ..+|+|.+|++
T Consensus       132 ~~~~~~~~llr~~~vrmLIIDE~H~lLaGs~~~qr~~Ln~LK~L~NeL~ipiV~vGt~  189 (302)
T PF05621_consen  132 KLEQQVLRLLRRLGVRMLIIDEFHNLLAGSYRKQREFLNALKFLGNELQIPIVGVGTR  189 (302)
T ss_pred             HHHHHHHHHHHHcCCcEEEeechHHHhcccHHHHHHHHHHHHHHhhccCCCeEEeccH
Confidence            1122233566777888899997542   234445556666665553 67999999875

TniB is a probable ATP-binding protein [] which is involved in Tn5053 mercury resistance transposition [].

>KOG2485 consensus Conserved ATP/GTP binding protein [General function prediction only]

Probab=97.14  E-value=0.00027  Score=54.01  Aligned_cols=54  Identities=26%  Similarity=0.355  Sum_probs=31.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc----cccceeeEEEE-EEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK----ATIGVEFQTKT-LVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~----~~~~~~~~~~~-~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.||+|||+|+|++..........    .-.|.+..... +.+.. .-.+.++||||.
T Consensus       148 VvGvPNVGKSsLINa~r~~~Lrk~k~a~vG~~pGVT~~V~~~iri~~-rp~vy~iDTPGi  206 (335)
T KOG2485|consen  148 VVGVPNVGKSSLINALRNVHLRKKKAARVGAEPGVTRRVSERIRISH-RPPVYLIDTPGI  206 (335)
T ss_pred             EEcCCCCChHHHHHHHHHHHhhhccceeccCCCCceeeehhheEecc-CCceEEecCCCc
Confidence            68999999999999887643221111    11133333333 22222 234789999993

>TIGR00150 HI0065_YjeE ATPase, YjeE family

Probab=97.06  E-value=0.002  Score=43.69  Aligned_cols=20  Identities=30%  Similarity=0.454  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|+.|+|||||++.+...-
T Consensus        27 l~G~lGaGKTtl~~~l~~~l   46 (133)
T TIGR00150        27 LKGDLGAGKTTLVQGLLQGL   46 (133)
T ss_pred             EEcCCCCCHHHHHHHHHHHc
Confidence            47999999999999998753

Members of this family have a conserved nucleotide-binding motif GXXGXGKT and a nucleotide-binding fold. Member protein YjeE of Haemophilus influenzae (HI0065) was shown to have ATPase activity.

>COG0802 Predicted ATPase or kinase [General function prediction only]

Probab=97.01  E-value=0.0027  Score=43.61  Aligned_cols=72  Identities=15%  Similarity=0.121  Sum_probs=36.2

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE--CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEE
Q 040835            2 IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI--HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLV   75 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   75 (206)
                      -|+-|+|||||.+.+...--......+  .++.......  ...-+++.++=....++...+-..-+-..|++++|
T Consensus        31 ~GdLGAGKTtf~rgi~~~Lg~~~~V~S--PTFtlv~~Y~~~~~~lyH~DlYRl~d~ee~~~lg~~e~~~~~gv~lI  104 (149)
T COG0802          31 SGDLGAGKTTLVRGIAKGLGVDGNVKS--PTFTLVEEYEEGRLPLYHFDLYRLSDPEELDELGLDEYFDGDGICLI  104 (149)
T ss_pred             EcCCcCChHHHHHHHHHHcCCCCcccC--CCeeeehhhcCCCCcEEEEeeeccCChHHhHhcCHHHHhCCCcEEEE
Confidence            489999999999998865442222222  2222222221  22345555655554444333322222223555554

>PF13207 AAA_17: AAA domain; PDB: 3AKC_A 3AKE_A 3AKD_A 2QL6_G 2QT1_A 2QSZ_A 2QSY_A 2QT0_A 2QG6_A 2P0E_A

Probab=97.01  E-value=0.00031  Score=46.74  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++||||||+++.|...
T Consensus         4 I~G~~gsGKST~a~~La~~   22 (121)
T PF13207_consen    4 ISGPPGSGKSTLAKELAER   22 (121)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998874

...

>COG3845 ABC-type uncharacterized transport systems, ATPase components [General function prediction only]

Probab=96.98  E-value=0.0069  Score=49.36  Aligned_cols=55  Identities=24%  Similarity=0.245  Sum_probs=35.2

Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      ..-.....++++++++|+= .++.--+..++++++..+..+...++.+++|-.|.+
T Consensus       147 QRVEIlKaLyr~a~iLILD-EPTaVLTP~E~~~lf~~l~~l~~~G~tIi~ITHKL~  201 (501)
T COG3845         147 QRVEILKALYRGARLLILD-EPTAVLTPQEADELFEILRRLAAEGKTIIFITHKLK  201 (501)
T ss_pred             HHHHHHHHHhcCCCEEEEc-CCcccCCHHHHHHHHHHHHHHHHCCCEEEEEeccHH
Confidence            3344566778888844431 233333456677777777777667888888887765

>cd03222 ABC_RNaseL_inhibitor The ABC ATPase RNase L inhibitor (RLI) is a key enzyme in ribosomal biogenesis, formation of translation preinitiation complexes, and assembly of HIV capsids

Probab=96.97  E-value=0.0055  Score=43.85  Aligned_cols=20  Identities=20%  Similarity=0.398  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        30 l~G~nGsGKSTLl~~l~Gl~   49 (177)
T cd03222          30 IVGPNGTGKTTAVKILAGQL   49 (177)
T ss_pred             EECCCCChHHHHHHHHHcCC
Confidence            58999999999999988754

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.

>COG0552 FtsY Signal recognition particle GTPase [Intracellular trafficking and secretion]

Probab=96.96  E-value=0.0021  Score=49.94  Aligned_cols=94  Identities=16%  Similarity=0.090  Sum_probs=52.8

Q ss_pred             EEEEEEEeCCCchhh-----hhh--hHhHhcCC-----cEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           44 NVKAQIWDTAGQERY-----RAV--TSAYYRGA-----VGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~-----~~~--~~~~~~~~-----d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ++.+.|+||+|.-..     ..+  ....+...     +-+++++|++-.. ++..++.+...+ ..      --+|+||
T Consensus       221 ~~DvvliDTAGRLhnk~nLM~EL~KI~rV~~k~~~~ap~e~llvlDAttGqnal~QAk~F~eav-~l------~GiIlTK  293 (340)
T COG0552         221 GIDVVLIDTAGRLHNKKNLMDELKKIVRVIKKDDPDAPHEILLVLDATTGQNALSQAKIFNEAV-GL------DGIILTK  293 (340)
T ss_pred             CCCEEEEeCcccccCchhHHHHHHHHHHHhccccCCCCceEEEEEEcccChhHHHHHHHHHHhc-CC------ceEEEEe
Confidence            577999999993211     111  11222323     3378888998765 344444443322 21      3478899


Q ss_pred             CCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 040835          111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAF  150 (206)
Q Consensus       111 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  150 (206)
                      .|-...-    -.+..++...++|+.++-.  |++++++-
T Consensus       294 lDgtAKG----G~il~I~~~l~~PI~fiGv--GE~~~DL~  327 (340)
T COG0552         294 LDGTAKG----GIILSIAYELGIPIKFIGV--GEGYDDLR  327 (340)
T ss_pred             cccCCCc----ceeeeHHHHhCCCEEEEeC--CCChhhcc
Confidence            9964311    2245677778888877653  44455543

>PRK04195 replication factor C large subunit; Provisional

Probab=96.96  E-value=0.016  Score=48.22  Aligned_cols=20  Identities=40%  Similarity=0.552  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+||||+++.|....
T Consensus        44 L~GppG~GKTtla~ala~el   63 (482)
T PRK04195         44 LYGPPGVGKTSLAHALANDY   63 (482)
T ss_pred             EECCCCCCHHHHHHHHHHHc
Confidence            57999999999999997743

>KOG0469 consensus Elongation factor 2 [Translation, ribosomal structure and biogenesis]

Probab=96.95  E-value=0.0027  Score=51.92  Aligned_cols=85  Identities=18%  Similarity=0.179  Sum_probs=56.4

Q ss_pred             CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC-cCCCCC
Q 040835           42 HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE-TLRAVP  120 (206)
Q Consensus        42 ~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-~~~~~~  120 (206)
                      +...-+.++|.||+-.|.+.....++-.|+.++|+|--+.--......+.+.+.+.    +.-++++||+|.. =+-+++
T Consensus        95 ~~~FLiNLIDSPGHVDFSSEVTAALRVTDGALVVVDcv~GvCVQTETVLrQA~~ER----IkPvlv~NK~DRAlLELq~~  170 (842)
T KOG0469|consen   95 GNGFLINLIDSPGHVDFSSEVTAALRVTDGALVVVDCVSGVCVQTETVLRQAIAER----IKPVLVMNKMDRALLELQLS  170 (842)
T ss_pred             CcceeEEeccCCCcccchhhhhheeEeccCcEEEEEccCceEechHHHHHHHHHhh----ccceEEeehhhHHHHhhcCC
Confidence            33566889999999999999999999999999999987654322222333444332    3335779999952 113455


Q ss_pred             HHHHHHHHHH
Q 040835          121 TEDAKEFAEK  130 (206)
Q Consensus       121 ~~~~~~~~~~  130 (206)
                      .+++.+..++
T Consensus       171 ~EeLyqtf~R  180 (842)
T KOG0469|consen  171 QEELYQTFQR  180 (842)
T ss_pred             HHHHHHHHHH
Confidence            5555544443

>PF13671 AAA_33: AAA domain; PDB: 1LTQ_A 2IA5_K 1RC8_A 1LY1_A 1RRC_A 1RPZ_A 3ZVM_A 1YJ5_A 3ZVL_A 3U7E_B

Probab=96.95  E-value=0.0004  Score=47.63  Aligned_cols=18  Identities=44%  Similarity=0.647  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+||||||||++.|..
T Consensus         4 ~~G~pgsGKSt~a~~l~~   21 (143)
T PF13671_consen    4 LCGPPGSGKSTLAKRLAK   21 (143)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999874

...

>PRK10646 ADP-binding protein; Provisional

Probab=96.90  E-value=0.0055  Score=42.56  Aligned_cols=19  Identities=32%  Similarity=0.522  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +-|+-|+|||||++.+...
T Consensus        33 L~GdLGaGKTtf~rgl~~~   51 (153)
T PRK10646         33 LYGDLGAGKTTFSRGFLQA   51 (153)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            3599999999999999764

>cd02019 NK Nucleoside/nucleotide kinase (NK) is a protein superfamily consisting of multiple families of enzymes that share structural similarity and are functionally related to the catalysis of the reversible phosphate group transfer from nucleoside triphosphates to nucleosides/nucleotides, nucleoside monophosphates, or sugars

Probab=96.86  E-value=0.00063  Score=40.62  Aligned_cols=20  Identities=30%  Similarity=0.474  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|++|+||||+.+.|...-
T Consensus         4 i~G~~gsGKst~~~~l~~~l   23 (69)
T cd02019           4 ITGGSGSGKSTVAKKLAEQL   23 (69)
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            57999999999999988753

Members of this family play a wide variety of essential roles in nucleotide metabolism, the biosynthesis of coenzymes and aromatic compounds, as well as the metabolism of sugar and sulfate.

>PRK00411 cdc6 cell division control protein 6; Reviewed

Probab=96.80  E-value=0.0065  Score=49.08  Aligned_cols=19  Identities=16%  Similarity=0.420  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||++++.+...
T Consensus        60 I~G~~GtGKT~l~~~v~~~   78 (394)
T PRK00411         60 IYGPPGTGKTTTVKKVFEE   78 (394)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999999864

>PF00005 ABC_tran: ABC transporter This structure is on hold until Dec 1999; InterPro: IPR003439 ABC transporters belong to the ATP-Binding Cassette (ABC) superfamily, which uses the hydrolysis of ATP to energise diverse biological systems

Probab=96.73  E-value=0.00072  Score=46.02  Aligned_cols=20  Identities=35%  Similarity=0.464  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        16 i~G~nGsGKStLl~~l~g~~   35 (137)
T PF00005_consen   16 IVGPNGSGKSTLLKALAGLL   35 (137)
T ss_dssp             EEESTTSSHHHHHHHHTTSS
T ss_pred             EEccCCCccccceeeecccc
Confidence            58999999999999888743

ABC transporters minimally consist of two conserved regions: a highly conserved ATP binding cassette (ABC) and a less conserved transmembrane domain (TMD). These can be found on the same protein or on two different ones. Most ABC transporters function as a dimer and therefore are constituted of four domains, two ABC modules and two TMDs. ABC transporters are involved in the export or import of a wide variety of substrates ranging from small ions to macromolecules. The major function of ABC import systems is to provide essential nutrients to bacteria. They are found only in prokaryotes and their four constitutive domains are usually encoded by independent polypeptides (two ABC proteins and two TMD proteins). Prokaryotic importers require additional extracytoplasmic binding proteins (one or more per systems) for function. In contrast, export systems are involved in the extrusion of noxious substances, the export of extracellular toxins and the targeting of membrane components. They are found in all living organisms and in general the TMD is fused to the ABC module in a variety of combinations. Some eukaryotic exporters encode the four domains on the same polypeptide chain []. The ABC module (approximately two hundred amino acid residues) is known to bind and hydrolyse ATP, thereby coupling transport to ATP hydrolysis in a large number of biological processes. The cassette is duplicated in several subfamilies. Its primary sequence is highly conserved, displaying a typical phosphate-binding loop: Walker A, and a magnesium binding site: Walker B. Besides these two regions, three other conserved motifs are present in the ABC cassette: the switch region which contains a histidine loop, postulated to polarise the attaching water molecule for hydrolysis, the signature conserved motif (LSGGQ) specific to the ABC transporter, and the Q-motif (between Walker A and the signature), which interacts with the gamma phosphate through a water bond. The Walker A, Walker B, Q-loop and switch region form the nucleotide binding site [, , ]. The 3D structure of a monomeric ABC module adopts a stubby L-shape with two distinct arms. ArmI (mainly beta-strand) contains Walker A and Walker B. The important residues for ATP hydrolysis and/or binding are located in the P-loop. The ATP-binding pocket is located at the extremity of armI. The perpendicular armII contains mostly the alpha helical subdomain with the signature motif. It only seems to be required for structural integrity of the ABC module. ArmII is in direct contact with the TMD. The hinge between armI and armII contains both the histidine loop and the Q-loop, making contact with the gamma phosphate of the ATP molecule. ATP hydrolysis leads to a conformational change that could facilitate ADP release. In the dimer the two ABC cassettes contact each other through hydrophobic interactions at the antiparallel beta-sheet of armI by a two-fold axis [, , , , , ]. The ATP-Binding Cassette (ABC) superfamily forms one of the largest of all protein families with a diversity of physiological functions []. Several studies have shown that there is a correlation between the functional characterisation and the phylogenetic classification of the ABC cassette [, ]. More than 50 subfamilies have been described based on a phylogenetic and functional classification [, , ]; (for further information see http://www.tcdb.org/tcdb/index.php?tc=3.A.1). On the basis of sequence similarities a family of related ATP-binding proteins has been characterised [, , , , ]. The proteins belonging to this family also contain one or two copies of the 'A' consensus sequence [] or the 'P-loop' [] (see IPR001687 from INTERPRO).; GO: 0005524 ATP binding, 0016887 ATPase activity; PDB: 3NHB_A 3NH9_A 3NHA_A 3NH6_A 1VCI_A 1V43_A 2YZ2_B 2PMK_A 2FFA_A 1XEF_D ....

>COG3640 CooC CO dehydrogenase maturation factor [Cell division and chromosome partitioning]

Probab=96.73  E-value=0.022  Score=42.19  Aligned_cols=77  Identities=31%  Similarity=0.284  Sum_probs=47.9

Q ss_pred             EEEEEEeC-CCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           45 VKAQIWDT-AGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        45 ~~~~i~D~-~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                      .++.++|| +|.+.|.   +...+++|.+|.|+|++- .++...++.........  -.++.+|+||.|..      ...
T Consensus       134 ~e~VivDtEAGiEHfg---Rg~~~~vD~vivVvDpS~-~sl~taeri~~L~~elg--~k~i~~V~NKv~e~------e~~  201 (255)
T COG3640         134 YEVVIVDTEAGIEHFG---RGTIEGVDLVIVVVDPSY-KSLRTAERIKELAEELG--IKRIFVVLNKVDEE------EEL  201 (255)
T ss_pred             CcEEEEecccchhhhc---cccccCCCEEEEEeCCcH-HHHHHHHHHHHHHHHhC--CceEEEEEeeccch------hHH
Confidence            44677777 5666554   566789999999999974 34444444322222221  37899999999953      333


Q ss_pred             HHHHHHHcCC
Q 040835          124 AKEFAEKEGL  133 (206)
Q Consensus       124 ~~~~~~~~~~  133 (206)
                      ....+...+.
T Consensus       202 ~~~~~~~~~~  211 (255)
T COG3640         202 LRELAEELGL  211 (255)
T ss_pred             HHhhhhccCC
Confidence            4444554454

>PF05879 RHD3: Root hair defective 3 GTP-binding protein (RHD3); InterPro: IPR008803 This family consists of several eukaryotic root hair defective 3 like GTP-binding proteins

Probab=96.73  E-value=0.0056  Score=53.38  Aligned_cols=23  Identities=30%  Similarity=0.514  Sum_probs=20.6

Q ss_pred             ccCCCCCHHHHHHHHhcCCCCCC
Q 040835            2 IGDSAVGKSQLLARFARDEFSLD   24 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~~~~~~   24 (206)
                      +|+.++|||||+|.|++..|..-
T Consensus         1 ~g~qssgkstlln~lf~t~f~~m   23 (742)
T PF05879_consen    1 FGSQSSGKSTLLNHLFGTQFDVM   23 (742)
T ss_pred             CCCCCCcHHHHHHHHHCCCcccc
Confidence            69999999999999999988653

It has been speculated that the RHD3 protein is a member of a novel class of GTP-binding proteins that is widespread in eukaryotes and required for regulated cell enlargement []. The family also contains the homologous Saccharomyces cerevisiae synthetic construct enhancement of YOP1 (SEY1) protein which is involved in membrane trafficking [].; GO: 0016817 hydrolase activity, acting on acid anhydrides

>PRK08118 topology modulation protein; Reviewed

Probab=96.70  E-value=0.00086  Score=47.54  Aligned_cols=19  Identities=37%  Similarity=0.599  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||...|...
T Consensus         6 I~G~~GsGKSTlak~L~~~   24 (167)
T PRK08118          6 LIGSGGSGKSTLARQLGEK   24 (167)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998864

>COG0194 Gmk Guanylate kinase [Nucleotide transport and metabolism]

Probab=96.70  E-value=0.00057  Score=48.60  Aligned_cols=20  Identities=45%  Similarity=0.660  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|+.|||||||+++|+...
T Consensus         9 lsgPSG~GKsTl~k~L~~~~   28 (191)
T COG0194           9 LSGPSGVGKSTLVKALLEDD   28 (191)
T ss_pred             EECCCCCCHHHHHHHHHhhc
Confidence            47999999999999999876

>COG1126 GlnQ ABC-type polar amino acid transport system, ATPase component [Amino acid transport and metabolism]

Probab=96.69  E-value=0.00089  Score=48.83  Aligned_cols=21  Identities=43%  Similarity=0.445  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      ++|+.|||||||++++-.-..
T Consensus        33 iiGpSGSGKSTlLRclN~LE~   53 (240)
T COG1126          33 IIGPSGSGKSTLLRCLNGLEE   53 (240)
T ss_pred             EECCCCCCHHHHHHHHHCCcC
Confidence            589999999999998766433

>cd04178 Nucleostemin_like Nucleostemin-like

Probab=96.69  E-value=0.0039  Score=44.41  Aligned_cols=44  Identities=25%  Similarity=0.130  Sum_probs=27.6

Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      |++++|+|+.++.+-.. ..+...+. ....++|+++|+||+|+.+
T Consensus         1 DvVl~VvDar~p~~~~~-~~i~~~~~-l~~~~kp~IlVlNK~DL~~   44 (172)
T cd04178           1 DVILEVLDARDPLGCRC-PQVEEAVL-QAGGNKKLVLVLNKIDLVP   44 (172)
T ss_pred             CEEEEEEECCCCCCCCC-HHHHHHHH-hccCCCCEEEEEehhhcCC
Confidence            78999999987532211 12222211 1224689999999999964

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

>PRK01889 GTPase RsgA; Reviewed

Probab=96.68  E-value=0.0013  Score=52.36  Aligned_cols=21  Identities=43%  Similarity=0.684  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|.+|+|||||+|.|.+...
T Consensus       200 lvG~sgvGKStLin~L~g~~~  220 (356)
T PRK01889        200 LLGSSGVGKSTLVNALLGEEV  220 (356)
T ss_pred             EECCCCccHHHHHHHHHHhcc
Confidence            589999999999999997543

>PRK07261 topology modulation protein; Provisional

Probab=96.64  E-value=0.001  Score=47.28  Aligned_cols=19  Identities=37%  Similarity=0.601  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||.+.|...
T Consensus         5 i~G~~GsGKSTla~~l~~~   23 (171)
T PRK07261          5 IIGYSGSGKSTLARKLSQH   23 (171)
T ss_pred             EEcCCCCCHHHHHHHHHHH
Confidence            5899999999999998653

>smart00382 AAA ATPases associated with a variety of cellular activities

Probab=96.64  E-value=0.0011  Score=44.66  Aligned_cols=23  Identities=26%  Similarity=0.385  Sum_probs=19.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL   23 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~   23 (206)
                      |+|++|+||||++..+...-...
T Consensus         7 l~G~~G~GKTtl~~~l~~~~~~~   29 (148)
T smart00382        7 IVGPPGSGKTTLARALARELGPP   29 (148)
T ss_pred             EECCCCCcHHHHHHHHHhccCCC
Confidence            57999999999999998865544

AAA - ATPases associated with a variety of cellular activities. This profile/alignment only detects a fraction of this vast family. The poorly conserved N-terminal helix is missing from the alignment.

>COG0563 Adk Adenylate kinase and related kinases [Nucleotide transport and metabolism]

Probab=96.64  E-value=0.00099  Score=47.68  Aligned_cols=19  Identities=32%  Similarity=0.653  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+..+|...
T Consensus         5 ilG~pGaGK~T~A~~La~~   23 (178)
T COG0563           5 ILGPPGAGKSTLAKKLAKK   23 (178)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999999986

>COG1136 SalX ABC-type antimicrobial peptide transport system, ATPase component [Defense mechanisms]

Probab=96.63  E-value=0.001  Score=49.11  Aligned_cols=21  Identities=33%  Similarity=0.444  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|||||||++-+-+-..
T Consensus        36 I~GpSGSGKSTLLniig~ld~   56 (226)
T COG1136          36 IVGPSGSGKSTLLNLLGGLDK   56 (226)
T ss_pred             EECCCCCCHHHHHHHHhcccC
Confidence            589999999999998766443

>cd01131 PilT Pilus retraction ATPase PilT

Probab=96.61  E-value=0.0088  Score=43.62  Aligned_cols=20  Identities=30%  Similarity=0.328  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+||||+++.++...
T Consensus         6 I~GptGSGKTTll~~ll~~~   25 (198)
T cd01131           6 VTGPTGSGKSTTLAAMIDYI   25 (198)
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            57999999999999987754

PilT is a nucleotide binding protein responsible for the retraction of type IV pili, likely by pili disassembly. This retraction provides the force required for travel of bacteria in low water environments by a mechanism known as twitching motility.

>PF02367 UPF0079: Uncharacterised P-loop hydrolase UPF0079; InterPro: IPR003442 This group consists of bacterial proteins, which contain a P-loop

Probab=96.61  E-value=0.0038  Score=41.72  Aligned_cols=18  Identities=33%  Similarity=0.562  Sum_probs=15.9

Q ss_pred             ccCCCCCHHHHHHHHhcC
Q 040835            2 IGDSAVGKSQLLARFARD   19 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~   19 (206)
                      -|+-|+|||||++.|...
T Consensus        21 ~GdLGaGKTtf~r~l~~~   38 (123)
T PF02367_consen   21 SGDLGAGKTTFVRGLARA   38 (123)
T ss_dssp             EESTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            589999999999998864

They are probably essential to bacteria as members are found in all genomes so far sequenced and no equivalent genes have been found in the archaea and eukaryotes, suggesting the protein may be involved in cell wall biosynthesis. The sequence of YjeE, from Haemophilus influenzae, has been determined to 1.7-A resolution. The protein has a nucleotide-binding fold with a four-stranded parallel beta-sheet flanked by antiparallel beta-strands on each side. The topology of the beta-sheet is unique among P-loop proteins and has features of different families of enzymes. ADP has been shown to bind to the P-loop in the presence of Mg2+ and ATPase activity has been confirmed by kinetic measurements [].; PDB: 1HTW_A 1FL9_A.

>PRK05416 glmZ(sRNA)-inactivating NTPase; Provisional

Probab=96.60  E-value=0.021  Score=44.13  Aligned_cols=17  Identities=35%  Similarity=0.407  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |.|++|+||||+++.|-
T Consensus        11 i~G~~GsGKtt~~~~l~   27 (288)
T PRK05416         11 VTGLSGAGKSVALRALE   27 (288)
T ss_pred             EECCCCCcHHHHHHHHH
Confidence            57999999999999984

>KOG2423 consensus Nucleolar GTPase [General function prediction only]

Probab=96.60  E-value=0.00044  Score=54.65  Aligned_cols=50  Identities=18%  Similarity=0.271  Sum_probs=0.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG   54 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G   54 (206)
                      |+|.|++||||+||+|....+....+.. |.+..-..+++   ...+.++||||
T Consensus       312 fiGYPNvGKSSiINTLR~KkVCkvAPIp-GETKVWQYItL---mkrIfLIDcPG  361 (572)
T KOG2423|consen  312 FIGYPNVGKSSIINTLRKKKVCKVAPIP-GETKVWQYITL---MKRIFLIDCPG  361 (572)
T ss_pred             eecCCCCchHHHHHHHhhcccccccCCC-CcchHHHHHHH---HhceeEecCCC

>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=96.59  E-value=0.0084  Score=41.86  Aligned_cols=20  Identities=40%  Similarity=0.464  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        30 i~G~nGsGKStll~~l~g~~   49 (157)
T cd00267          30 LVGPNGSGKSTLLRAIAGLL   49 (157)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988754

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.

>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=96.59  E-value=0.044  Score=37.76  Aligned_cols=20  Identities=40%  Similarity=0.577  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        31 i~G~nGsGKStLl~~l~G~~   50 (144)
T cd03221          31 LVGRNGAGKSTLLKLIAGEL   50 (144)
T ss_pred             EECCCCCCHHHHHHHHcCCC
Confidence            58999999999999988854

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.

>COG1120 FepC ABC-type cobalamin/Fe3+-siderophores transport systems, ATPase components [Inorganic ion transport and metabolism / Coenzyme metabolism]

Probab=96.59  E-value=0.0012  Score=49.81  Aligned_cols=18  Identities=39%  Similarity=0.606  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|+.|+|||||++.+.+
T Consensus        33 iiGpNG~GKSTLLk~l~g   50 (258)
T COG1120          33 ILGPNGSGKSTLLKCLAG   50 (258)
T ss_pred             EECCCCCCHHHHHHHHhc
Confidence            589999999999999987

>PLN03025 replication factor C subunit; Provisional

Probab=96.58  E-value=0.016  Score=45.56  Aligned_cols=21  Identities=24%  Similarity=0.415  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|++|+||||++..+...-+
T Consensus        39 l~Gp~G~GKTtla~~la~~l~   59 (319)
T PLN03025         39 LSGPPGTGKTTSILALAHELL   59 (319)
T ss_pred             EECCCCCCHHHHHHHHHHHHh
Confidence            469999999999999876543

>PF11111 CENP-M: Centromere protein M (CENP-M); InterPro: IPR020987 The prime candidate for specifying centromere identity is the array of nucleosomes assembles associated with CENP-A []

Probab=96.57  E-value=0.041  Score=38.84  Aligned_cols=92  Identities=9%  Similarity=0.034  Sum_probs=67.9

Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCH
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                      ...|.++|++|.....++..++.-+..+....-.++ +.++++-........+...++.+++..+..|++.+.-...++.
T Consensus        63 prIDlIVFvinl~sk~SL~~ve~SL~~vd~~fflGK-VCfl~t~a~~~~~~sv~~~~V~kla~~y~~plL~~~le~~~~~  141 (176)
T PF11111_consen   63 PRIDLIVFVINLHSKYSLQSVEASLSHVDPSFFLGK-VCFLATNAGRESHCSVHPNEVRKLAATYNSPLLFADLENEEGR  141 (176)
T ss_pred             ceeEEEEEEEecCCcccHHHHHHHHhhCChhhhccc-eEEEEcCCCcccccccCHHHHHHHHHHhCCCEEEeecccchHH
Confidence            558999999999999999888776665533221233 3444555555554677899999999999999999998888877


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      ..+-+.+++.+.-
T Consensus       142 ~~lAqRLL~~lqi  154 (176)
T PF11111_consen  142 TSLAQRLLRMLQI  154 (176)
T ss_pred             HHHHHHHHHHHHH
Confidence            7777666665543

CENP-A recruits a nucleosome associated complex (CENP-A-NAC complex) comprised of CENP-M which this entry represents, along with two other proteins []. Assembly of the CENP-A NAC at centromeres is partly dependent on CENP-M. The CENP-A NAC is essential, as disruption of the complex causes errors of chromosome alignment and segregation that preclude cell survival [].

>PRK14737 gmk guanylate kinase; Provisional

Probab=96.56  E-value=0.0013  Score=47.52  Aligned_cols=20  Identities=15%  Similarity=0.300  Sum_probs=17.9

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|||||||+++|+...
T Consensus         9 l~GpsG~GK~tl~~~l~~~~   28 (186)
T PRK14737          9 ISSVAGGGKSTIIQALLEEH   28 (186)
T ss_pred             EECCCCCCHHHHHHHHHhcC
Confidence            58999999999999998753

>cd00071 GMPK Guanosine monophosphate kinase (GMPK, EC 2

Probab=96.52  E-value=0.0018  Score=44.25  Aligned_cols=19  Identities=53%  Similarity=0.744  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|...
T Consensus         4 i~GpsGsGKstl~~~L~~~   22 (137)
T cd00071           4 LSGPSGVGKSTLLKRLLEE   22 (137)
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5899999999999999874

7.4.8), also known as guanylate kinase (GKase), catalyzes the reversible phosphoryl transfer from adenosine triphosphate (ATP) to guanosine monophosphate (GMP) to yield adenosine diphosphate (ADP) and guanosine diphosphate (GDP). It plays an essential role in the biosynthesis of guanosine triphosphate (GTP). This enzyme is also important for the activation of some antiviral and anticancer agents, such as acyclovir, ganciclovir, carbovir, and thiopurines.

>PHA02518 ParA-like protein; Provisional

Probab=96.48  E-value=0.028  Score=41.11  Aligned_cols=67  Identities=9%  Similarity=0.044  Sum_probs=41.2

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCC
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ--SFDNVARWLEELRGHADKNII-IMLVGNKSDL  113 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~  113 (206)
                      .+.+.|+|+||..  .......+..+|.+|+++.++...  ....+..++..+.... ...| ..++.|+.+.
T Consensus        76 ~~d~viiD~p~~~--~~~~~~~l~~aD~viip~~ps~~~~~~~~~~~~~~~~~~~~~-~~~~~~~iv~n~~~~  145 (211)
T PHA02518         76 GYDYVVVDGAPQD--SELARAALRIADMVLIPVQPSPFDIWAAPDLVELIKARQEVT-DGLPKFAFIISRAIK  145 (211)
T ss_pred             cCCEEEEeCCCCc--cHHHHHHHHHCCEEEEEeCCChhhHHHHHHHHHHHHHHHhhC-CCCceEEEEEeccCC
Confidence            4678999999873  344677888999999998886422  2333334444333222 2344 4566677653

>cd01129 PulE-GspE PulE/GspE The type II secretory pathway is the main terminal branch of the general secretory pathway (GSP)

Probab=96.48  E-value=0.016  Score=44.25  Aligned_cols=20  Identities=20%  Similarity=0.267  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+||||+++.++..-
T Consensus        85 isG~tGSGKTT~l~all~~i  104 (264)
T cd01129          85 VTGPTGSGKTTTLYSALSEL  104 (264)
T ss_pred             EECCCCCcHHHHHHHHHhhh
Confidence            57999999999999988754

It is responsible for the export the majority of Gram-negative bacterial exoenzymes and toxins. PulE is a cytoplasmic protein of the GSP, which contains an ATP binding site and a tetracysteine motif. This subgroup also includes PillB and HofB.

>PRK10078 ribose 1,5-bisphosphokinase; Provisional

Probab=96.47  E-value=0.0016  Score=47.00  Aligned_cols=20  Identities=45%  Similarity=0.677  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||++.|....
T Consensus         7 l~G~sGsGKsTl~~~l~~~~   26 (186)
T PRK10078          7 LMGPSGSGKDSLLAALRQRE   26 (186)
T ss_pred             EECCCCCCHHHHHHHHhccC
Confidence            58999999999999997643

>COG1161 Predicted GTPases [General function prediction only]

Probab=96.46  E-value=0.009  Score=46.98  Aligned_cols=94  Identities=18%  Similarity=0.101  Sum_probs=60.7

Q ss_pred             eCCCc-hhhhhhhHhHhcCCcEEEEEeeCCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH
Q 040835           51 DTAGQ-ERYRAVTSAYYRGAVGAMLVYDITKRQSFD--NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF  127 (206)
Q Consensus        51 D~~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~  127 (206)
                      +.+|+ ..+.......+..+|+++.|+|+.++.+-.  .+.++       . .+.|.++|+||.|+.+... ...=...+
T Consensus        16 ~~~g~~~k~~~~~~~~~~~~d~vvevvDar~P~~s~~~~l~~~-------v-~~k~~i~vlNK~DL~~~~~-~~~W~~~~   86 (322)
T COG1161          16 WFPGHMKKAKRQLKEVLKSVDVVVEVVDARDPLGTRNPELERI-------V-KEKPKLLVLNKADLAPKEV-TKKWKKYF   86 (322)
T ss_pred             CCCCchHHHHHHHHHhcccCCEEEEEEeccccccccCccHHHH-------H-ccCCcEEEEehhhcCCHHH-HHHHHHHH
Confidence            44664 456667788899999999999999876432  22222       1 2455699999999975222 22223333


Q ss_pred             HHHcCCeEEEeccCCCCCHHHHHHHH
Q 040835          128 AEKEGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus       128 ~~~~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      ..+.+...+.++++.+.+...+...+
T Consensus        87 ~~~~~~~~~~v~~~~~~~~~~i~~~~  112 (322)
T COG1161          87 KKEEGIKPIFVSAKSRQGGKKIRKAL  112 (322)
T ss_pred             HhcCCCccEEEEeecccCccchHHHH
Confidence            34446667888888888777666433

>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=96.45  E-value=0.0017  Score=48.05  Aligned_cols=20  Identities=35%  Similarity=0.517  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        35 l~G~nGsGKSTLl~~i~Gl~   54 (218)
T cd03255          35 IVGPSGSGKSTLLNILGGLD   54 (218)
T ss_pred             EEcCCCCCHHHHHHHHhCCc
Confidence            58999999999999998853

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.

>COG1116 TauB ABC-type nitrate/sulfonate/bicarbonate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.45  E-value=0.0017  Score=48.37  Aligned_cols=21  Identities=43%  Similarity=0.479  Sum_probs=18.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      ++|++|+|||||++.+.+-..
T Consensus        34 ilGpSGcGKSTLLriiAGL~~   54 (248)
T COG1116          34 ILGPSGCGKSTLLRLIAGLEK   54 (248)
T ss_pred             EECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999887433

>TIGR02322 phosphon_PhnN phosphonate metabolism protein/1,5-bisphosphokinase (PRPP-forming) PhnN

Probab=96.44  E-value=0.0016  Score=46.52  Aligned_cols=19  Identities=32%  Similarity=0.457  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|...
T Consensus         6 i~G~sGsGKttl~~~l~~~   24 (179)
T TIGR02322         6 VVGPSGAGKDTLLDYARAR   24 (179)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998775

Members of this family resemble PhnN of phosphonate utilization operons, where different such operons confer the ability to use somewhat different profiles of C-P bond-containing compounds (see PubMed:15231805), including phosphites as well as phosphonates. PhnN in E. coli shows considerable homology to guanylate kinases (EC 2.7.4.8), and has actually been shown to act as a ribose 1,5-bisphosphokinase (PRPP forming). This suggests an analogous kinase reaction for phosphonate metabolism, converting 5-phosphoalpha-1-(methylphosphono)ribose to methylphosphono-PRPP.

>PRK14738 gmk guanylate kinase; Provisional

Probab=96.44  E-value=0.0015  Score=47.92  Aligned_cols=20  Identities=40%  Similarity=0.639  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||++.|....
T Consensus        18 i~GpsG~GK~tl~~~L~~~~   37 (206)
T PRK14738         18 ISGPSGVGKDAVLARMRERK   37 (206)
T ss_pred             EECcCCCCHHHHHHHHHhcC
Confidence            57999999999999997643

>cd01130 VirB11-like_ATPase Type IV secretory pathway component VirB11, and related ATPases

Probab=96.43  E-value=0.0092  Score=43.01  Aligned_cols=20  Identities=25%  Similarity=0.336  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||++.|++..
T Consensus        30 I~G~tGSGKTTll~aL~~~i   49 (186)
T cd01130          30 ISGGTGSGKTTLLNALLAFI   49 (186)
T ss_pred             EECCCCCCHHHHHHHHHhhc
Confidence            58999999999999988743

The homohexamer, VirB11 is one of eleven Vir proteins, which are required for T-pilus biogenesis and virulence in the transfer of T-DNA from the Ti (tumor-inducing) plasmid of bacterial to plant cells. The pilus is a fibrous cell surface organelle, which mediates adhesion between bacteria during conjugative transfer or between bacteria and host eukaryotic cells during infection. VirB11- related ATPases include the archaeal flagella biosynthesis protein and the pilus assembly proteins CpaF/TadA and TrbB. This alignment contains the C-terminal domain, which is the ATPase.

>COG1121 ZnuC ABC-type Mn/Zn transport systems, ATPase component [Inorganic ion transport and metabolism]

Probab=96.42  E-value=0.0018  Score=48.73  Aligned_cols=18  Identities=44%  Similarity=0.615  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|+|||||+..+++
T Consensus        35 iiGPNGaGKSTLlK~iLG   52 (254)
T COG1121          35 LIGPNGAGKSTLLKAILG   52 (254)
T ss_pred             EECCCCCCHHHHHHHHhC
Confidence            589999999999999998

>PF13238 AAA_18: AAA domain; PDB: 3IIK_A 3IIJ_A 3IIL_A 1RKB_A 3IIM_A 2AXP_A 3KB2_A 1KHT_A 1NKS_A 3H86_C

Probab=96.42  E-value=0.0016  Score=43.54  Aligned_cols=20  Identities=20%  Similarity=0.307  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|.+||||||+++.|....
T Consensus         3 i~G~~GsGKtTia~~L~~~~   22 (129)
T PF13238_consen    3 ISGIPGSGKTTIAKELAERL   22 (129)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            47999999999999988753

...

>TIGR01360 aden_kin_iso1 adenylate kinase, isozyme 1 subfamily

Probab=96.42  E-value=0.0018  Score=46.51  Aligned_cols=18  Identities=17%  Similarity=0.442  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+++.|..
T Consensus         8 i~G~~GsGKsTl~~~l~~   25 (188)
T TIGR01360         8 IVGGPGSGKGTQCEKIVE   25 (188)
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999984

Members of this family are adenylate kinase, EC 2.7.4.3. This clade is found only in eukaryotes and includes human adenylate kinase isozyme 1 (myokinase). Within the adenylate kinase superfamily, this set appears specifically closely related to a subfamily of eukaryotic UMP-CMP kinases (TIGR01359), rather than to the large clade of bacterial, archaeal, and eukaryotic adenylate kinase family members in TIGR01351.

>cd03225 ABC_cobalt_CbiO_domain1 Domain I of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.41  E-value=0.0018  Score=47.58  Aligned_cols=20  Identities=30%  Similarity=0.390  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        32 l~G~nGsGKSTLl~~l~G~~   51 (211)
T cd03225          32 IVGPNGSGKSTLLRLLNGLL   51 (211)
T ss_pred             EECCCCCCHHHHHHHHhcCC
Confidence            58999999999999998753

The transition metal cobalt is an essential component of many enzymes and must be transported into cells in appropriate amounts when needed. This ABC transport system of the CbiMNQO family is involved in cobalt transport in association with the cobalamin (vitamin B12) biosynthetic pathways. Most of 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.

>PRK13851 type IV secretion system protein VirB11; Provisional

Probab=96.39  E-value=0.019  Score=45.53  Aligned_cols=20  Identities=20%  Similarity=0.321  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|||||||+++|+..-
T Consensus       167 I~G~tGSGKTTll~aLl~~i  186 (344)
T PRK13851        167 LCGPTGSGKTTMSKTLISAI  186 (344)
T ss_pred             EECCCCccHHHHHHHHHccc
Confidence            57999999999999998753

>TIGR01166 cbiO cobalt transport protein ATP-binding subunit

Probab=96.38  E-value=0.0019  Score=46.64  Aligned_cols=20  Identities=35%  Similarity=0.466  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        23 i~G~nGsGKSTLl~~i~G~~   42 (190)
T TIGR01166        23 LLGANGAGKSTLLLHLNGLL   42 (190)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988753

This model describes the ATP binding subunit of the multisubunit cobalt transporter in bacteria and its equivalents in archaea. The model is restricted to ATP subunit that is a part of the cobalt transporter, which belongs to the ABC transporter superfamily (ATP Binding Cassette). The model excludes ATP binding subunit that are associated with other transporters belonging to ABC transporter superfamily. This superfamily includes two groups, one which catalyze the uptake of small molecules, including ions from the external milieu and the other group which is engaged in the efflux of small molecular weight compounds and ions from within the cell. Energy derived from the hydrolysis of ATP drive the both the process of uptake and efflux.

>cd03226 ABC_cobalt_CbiO_domain2 Domain II of the ABC component of a cobalt transport family found in bacteria, archaea, and eukaryota

Probab=96.37  E-value=0.0019  Score=47.26  Aligned_cols=20  Identities=30%  Similarity=0.335  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        31 i~G~nGsGKSTLl~~l~Gl~   50 (205)
T cd03226          31 LTGKNGAGKTTLAKILAGLI   50 (205)
T ss_pred             EECCCCCCHHHHHHHHhcCC
Confidence            58999999999999998853

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.

>cd00820 PEPCK_HprK Phosphoenolpyruvate carboxykinase (PEPCK), a critical gluconeogenic enzyme, catalyzes the first committed step in the diversion of tricarboxylic acid cycle intermediates toward gluconeogenesis

Probab=96.35  E-value=0.002  Score=41.88  Aligned_cols=17  Identities=35%  Similarity=0.696  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      ++|++|+|||||++.+.
T Consensus        20 I~GpSGsGKSTLl~~l~   36 (107)
T cd00820          20 ITGDSGIGKTELALELI   36 (107)
T ss_pred             EEcCCCCCHHHHHHHhh
Confidence            58999999999999875

It catalyzes the reversible decarboxylation and phosphorylation of oxaloacetate to yield phosphoenolpyruvate and carbon dioxide, using a nucleotide molecule (ATP or GTP) for the phosphoryl transfer, and has a strict requirement for divalent metal ions for activity. PEPCK's separate into two phylogenetic groups based on their nucleotide substrate specificity (the ATP-, and GTP-dependent groups).HprK/P, the bifunctional histidine-containing protein kinase/phosphatase, controls the phosphorylation state of the phosphocarrier protein HPr and regulates the utilization of carbon sources by gram-positive bacteria. It catalyzes both the ATP-dependent phosphorylation of HPr and its dephosphorylation by phosphorolysis. PEPCK and the C-terminal catalytic domain of HprK/P are structural

>TIGR00960 3a0501s02 Type II (General) Secretory Pathway (IISP) Family protein

Probab=96.34  E-value=0.0021  Score=47.48  Aligned_cols=20  Identities=40%  Similarity=0.516  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        34 i~G~nGsGKSTLl~~l~Gl~   53 (216)
T TIGR00960        34 LVGHSGAGKSTFLKLILGIE   53 (216)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999998853

>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=96.33  E-value=0.0021  Score=48.11  Aligned_cols=20  Identities=40%  Similarity=0.416  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        31 l~G~nGsGKSTLl~~l~G~~   50 (235)
T cd03261          31 IIGPSGSGKSTLLRLIVGLL   50 (235)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999998753

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.

>cd02023 UMPK Uridine monophosphate kinase (UMPK, EC 2

Probab=96.33  E-value=0.002  Score=46.88  Aligned_cols=19  Identities=21%  Similarity=0.426  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|||||||++.|.+.
T Consensus         4 i~G~~GsGKSTl~~~l~~~   22 (198)
T cd02023           4 IAGGSGSGKTTVAEEIIEQ   22 (198)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998774

7.1.48), also known as uridine kinase or uridine-cytidine kinase (UCK), catalyzes the reversible phosphoryl transfer from ATP to uridine or cytidine to yield UMP or CMP. In the primidine nucleotide-salvage pathway, this enzyme combined with nucleoside diphosphate kinases further phosphorylates UMP and CMP to form UTP and CTP. This kinase also catalyzes the phosphorylation of several cytotoxic ribonucleoside analogs such as 5-flurrouridine and cyclopentenyl-cytidine.

>cd02025 PanK Pantothenate kinase (PanK) catalyzes the phosphorylation of pantothenic acid to form 4'-phosphopantothenic, which is the first of five steps in coenzyme A (CoA) biosynthetic pathway

Probab=96.32  E-value=0.0023  Score=47.52  Aligned_cols=19  Identities=32%  Similarity=0.317  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|||||||++.|.+.
T Consensus         4 I~G~sGSGKTTla~~L~~~   22 (220)
T cd02025           4 IAGSVAVGKSTTARVLQAL   22 (220)
T ss_pred             eeCCCCCCHHHHHHHHHHH
Confidence            5799999999999998864

The reaction carried out by this enzyme is a key regulatory point in CoA biosynthesis.

>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=96.31  E-value=0.0022  Score=45.80  Aligned_cols=17  Identities=35%  Similarity=0.356  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||++.++
T Consensus        26 l~G~nG~GKSTLl~~il   42 (176)
T cd03238          26 VTGVSGSGKSTLVNEGL   42 (176)
T ss_pred             EECCCCCCHHHHHHHHh
Confidence            58999999999999886

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.

>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=96.30  E-value=0.0022  Score=47.45  Aligned_cols=20  Identities=50%  Similarity=0.579  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus        35 i~G~nGsGKSTLl~~l~Gl~   54 (220)
T cd03293          35 LVGPSGCGKSTLLRIIAGLE   54 (220)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999998753

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.

>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=96.30  E-value=0.0023  Score=45.76  Aligned_cols=19  Identities=47%  Similarity=0.527  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+.
T Consensus        31 i~G~nGsGKSTLl~~l~G~   49 (178)
T cd03229          31 LLGPSGSGKSTLLRCIAGL   49 (178)
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999999875

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.

>PRK08727 hypothetical protein; Validated

Probab=96.30  E-value=0.026  Score=42.23  Aligned_cols=19  Identities=26%  Similarity=0.436  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||.|+..+...
T Consensus        46 l~G~~G~GKThL~~a~~~~   64 (233)
T PRK08727         46 LSGPAGTGKTHLALALCAA   64 (233)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998764

>PRK08233 hypothetical protein; Provisional

Probab=96.30  E-value=0.0023  Score=45.78  Aligned_cols=19  Identities=26%  Similarity=0.377  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|.+|||||||.+.|...
T Consensus         8 I~G~~GsGKtTla~~L~~~   26 (182)
T PRK08233          8 IAAVSGGGKTTLTERLTHK   26 (182)
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            4699999999999998864

>PF03205 MobB: Molybdopterin guanine dinucleotide synthesis protein B; PDB: 2F1R_B 1P9N_A 1NP6_B 2NPI_A 1XJC_A

Probab=96.30  E-value=0.0019  Score=44.32  Aligned_cols=21  Identities=19%  Similarity=0.444  Sum_probs=18.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||++.|++.-.
T Consensus         5 VvG~~~sGKTTl~~~Li~~l~   25 (140)
T PF03205_consen    5 VVGPKNSGKTTLIRKLINELK   25 (140)
T ss_dssp             EEESTTSSHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHHh
Confidence            589999999999999988543

>PF00406 ADK: Adenylate kinase; InterPro: IPR000850 Adenylate kinases (ADK) are phosphotransferases that catalyse the reversible reaction AMP + MgATP = ADP + MgADP an essential reaction for many processes in living cells

Probab=96.29  E-value=0.0021  Score=44.68  Aligned_cols=19  Identities=26%  Similarity=0.525  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||++.+|...
T Consensus         1 i~G~PgsGK~t~~~~la~~   19 (151)
T PF00406_consen    1 ILGPPGSGKGTQAKRLAKR   19 (151)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             CcCCCCCChHHHHHHHHHh
Confidence            5899999999999998874

Two ADK isozymes have been identified in mammalian cells. These specifically bind AMP and favour binding to ATP over other nucleotide triphosphates (AK1 is cytosolic and AK2 is located in the mitochondria). A third ADK has been identified in bovine heart and human cells [], this is a mitochondrial GTP:AMP phosphotransferase, also specific for the phosphorylation of AMP, but can only use GTP or ITP as a substrate []. ADK has also been identified in different bacterial species and in yeast []. Two further enzymes are known to be related to the ADK family, i.e. yeast uridine monophosphokinase and slime mold UMP-CMP kinase. Within the ADK family there are several conserved regions, including the ATP-binding domains. One of the most conserved areas includes an Arg residue, whose modification inactivates the enzyme, together with an Asp that resides in the catalytic cleft of the enzyme and participates in a salt bridge.; GO: 0005524 ATP binding, 0019205 nucleobase-containing compound kinase activity, 0006139 nucleobase-containing compound metabolic process; PDB: 1ZD8_A 3TLX_D 1TEV_A 1ZAK_B 3CM0_A 3ADK_A 1ZIP_A 1ZIO_A 1ZIN_A 3NDP_A ....

>COG4559 ABC-type hemin transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.29  E-value=0.0029  Score=46.19  Aligned_cols=21  Identities=29%  Similarity=0.496  Sum_probs=18.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||+..|++.-.
T Consensus        32 ilGPNGAGKSTlLk~LsGel~   52 (259)
T COG4559          32 ILGPNGAGKSTLLKALSGELS   52 (259)
T ss_pred             EECCCCccHHHHHHHhhCccC
Confidence            589999999999999998644

>TIGR00235 udk uridine kinase

Probab=96.29  E-value=0.0022  Score=47.11  Aligned_cols=19  Identities=21%  Similarity=0.366  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+.
T Consensus        11 I~G~sGsGKSTl~~~l~~~   29 (207)
T TIGR00235        11 IGGGSGSGKTTVARKIYEQ   29 (207)
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999999863

Model contains a number of longer eukaryotic proteins and starts bringing in phosphoribulokinase hits at scores of 160 and below

>TIGR02673 FtsE cell division ATP-binding protein FtsE

Probab=96.29  E-value=0.0023  Score=47.12  Aligned_cols=20  Identities=35%  Similarity=0.409  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        33 l~G~nGsGKSTLl~~i~Gl~   52 (214)
T TIGR02673        33 LTGPSGAGKTTLLKLLYGAL   52 (214)
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988753

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.

>COG1117 PstB ABC-type phosphate transport system, ATPase component [Inorganic ion transport and metabolism]

Probab=96.28  E-value=0.0023  Score=46.73  Aligned_cols=17  Identities=53%  Similarity=0.696  Sum_probs=15.1

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      ++|+.|+|||||++.|-
T Consensus        38 lIGPSGcGKST~LR~lN   54 (253)
T COG1117          38 LIGPSGCGKSTLLRCLN   54 (253)
T ss_pred             EECCCCcCHHHHHHHHH
Confidence            58999999999998754

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	206
1yzk_A	184	Gppnhp Bound Rab11 Gtpase Length = 184		2e-66
2f9l_A	199	3d Structure Of Inactive Human Rab11b Gtpase Length		3e-66
2hv8_A	172	Crystal Structure Of Gtp-Bound Rab11 In Complex Wit		1e-65
1oiv_A	191	X-Ray Structure Of The Small G Protein Rab11a In Co		3e-65
1oiw_A	191	X-ray Structure Of The Small G Protein Rab11a In Co		3e-64
2d7c_A	167	Crystal Structure Of Human Rab11 In Complex With Fi		1e-63
2gzd_A	173	Crystal Structure Of Rab11 In Complex With Rab11-Fi		2e-63
3bfk_A	181	Crystal Structure Of Plasmodium Falciparum Rab11a I		3e-63
2oil_A	193	Crystal Structure Of Human Rab25 In Complex With Gd		3e-59
3tso_A	178	Structure Of The Cancer Associated Rab25 Protein In		3e-59
3cpj_B	223	Crystal Structure Of Ypt31 In Complex With Yeast Ra		2e-58
3rwm_B	185	Crystal Structure Of Ypt32 In Complex With Gppnhp L		3e-55
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		4e-45
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		4e-45
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		6e-44
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		7e-44
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		7e-44
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		8e-44
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		8e-44
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		9e-44
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		1e-43
4fmc_B	171	Espg-Rab1 Complex Length = 171		1e-43
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		1e-43
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		2e-43
1z0f_A	179	Gdp-Bound Rab14 Gtpase Length = 179		3e-43
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		5e-43
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		5e-43
3l0i_B	199	Complex Structure Of Sidm/drra With The Wild Type R		5e-43
4drz_A	196	Crystal Structure Of Human Rab14 Length = 196		1e-42
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		2e-42
2hup_A	201	Crystal Structure Of Human Rab43 In Complex With Gd		1e-41
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		7e-40
2o52_A	200	Crystal Structure Of Human Rab4b In Complex With Gd		8e-40
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-39
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		6e-39
2bmd_A	186	High Resolution Structure Of Gdp-Bound Human Rab4a		9e-39
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		2e-38
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		2e-38
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		3e-38
3dz8_A	191	Crystal Structure Of Human Rab3b Gtpase Bound With		3e-38
1yu9_A	175	Gppnhp-Bound Rab4a Length = 175		3e-38
2efc_B	181	Ara7-GdpATVPS9A Length = 181		4e-38
2gf9_A	189	Crystal Structure Of Human Rab3d In Complex With Gd		4e-38
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		1e-37
3tw8_B	181	Gef Domain Of Dennd 1b In Complex With Rab Gtpase R		1e-37
1z0k_A	172	Structure Of Gtp-Bound Rab4q67l Gtpase In Complex W		3e-37
2fg5_A	192	Crystal Structure Of Human Rab31 In Complex With A		5e-37
1n6h_A	170	Crystal Structure Of Human Rab5a Length = 170		4e-36
1tu3_A	171	Crystal Structure Of Rab5 Complex With Rabaptin5 C-		4e-36
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		6e-36
1n6i_A	170	Crystal Structure Of Human Rab5a A30p Mutant Comple		1e-35
3rab_A	169	Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169		1e-35
2il1_A	192	Crystal Structure Of A Predicted Human Gtpase In Co		1e-35
1n6o_A	170	Crystal Structure Of Human Rab5a A30k Mutant Comple		2e-35
1n6p_A	170	Crystal Structure Of Human Rab5a A30e Mutant Comple		2e-35
1n6r_A	170	Crystal Structure Of Human Rab5a A30l Mutant Comple		2e-35
1n6n_A	170	Crystal Structure Of Human Rab5a A30r Mutant Comple		2e-35
2ew1_A	201	Crystal Structure Of Rab30 In Complex With A Gtp An		2e-35
1huq_A	164	1.8a Crystal Structure Of The Monomeric Gtpase Rab5		2e-35
1tu4_A	171	Crystal Structure Of Rab5-Gdp Complex Length = 171		4e-35
3mjh_A	168	Crystal Structure Of Human Rab5a In Complex With Th		4e-35
2hei_A	179	Crystal Structure Of Human Rab5b In Complex With Gd		1e-34
1z0d_A	167	Gdp-bound Rab5c Gtpase Length = 167		2e-34
1z07_A	166	Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166		2e-34
1yvd_A	169	Gppnhp-Bound Rab22 Gtpase Length = 169		3e-34
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		9e-34
1z0j_A	170	Structure Of Gtp-Bound Rab22q64l Gtpase In Complex		1e-33
1d5c_A	162	Crystal Structure Of Plasmodium Falciparum Rab6 Com		2e-33
4fmc_F	117	Espg-Rab1 Complex Length = 117		7e-33
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-32
1x3s_A	195	Crystal Structure Of Human Rab18 In Complex With Gp		2e-32
2y8e_A	179	Crystal Structure Of D. Melanogaster Rab6 Gtpase Bo		3e-32
2fe4_A	171	The Crystal Structure Of Human Neuronal Rab6b In It		1e-31
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		2e-31
1yzq_A	170	Gppnhp-Bound Rab6 Gtpase Length = 170		2e-31
2gil_A	162	Structure Of The Extremely Slow Gtpase Rab6a In The		3e-31
3bc1_A	195	Crystal Structure Of The Complex Rab27a-slp2a Lengt		1e-30
4dkx_A	216	Crystal Structure Of The Rab 6a'(Q72l) Length = 216		2e-30
3cwz_A	188	Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188		2e-30
2f7s_A	217	The Crystal Structure Of Human Rab27b Bound To Gdp		3e-30
3bbp_A	211	Rab6-Gtp:gcc185 Rab Binding Domain Complex Length =		3e-30
2iez_A	220	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-29
2if0_A	200	Crystal Structure Of Mouse Rab27b Bound To Gdp In M		2e-29
1z08_A	170	Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170		4e-29
1yzt_A	184	Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Leng		4e-28
2zet_A	203	Crystal Structure Of The Small Gtpase Rab27b Comple		4e-28
2iey_A	195	Crystal Structure Of Mouse Rab27b Bound To Gdp In H		4e-28
1yzu_A	170	Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Leng		4e-28
1vg0_B	207	The Crystal Structures Of The Rep-1 Protein In Comp		3e-27
1z06_A	189	Gppnhp-Bound Rab33 Gtpase Length = 189		3e-27
1vg1_A	185	Gdp-bound Rab7 Length = 185		4e-27
3law_A	207	Structure Of Gtp-Bound L129f Mutant Rab7 Length = 2		7e-27
2ocb_A	180	Crystal Structure Of Human Rab9b In Complex With A		9e-27
2g77_B	198	Crystal Structure Of Gyp1 Tbc Domain In Complex Wit		2e-26
1t91_A	207	Crystal Structure Of Human Small Gtpase Rab7(Gtp) L		2e-26
1yzl_A	179	Gppnhp-Bound Rab9 Gtpase Length = 179		2e-26
1ky2_A	182	Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182		3e-26
1s8f_A	177	Crystal Structure Of Rab9 Complexed To Gdp Reveals		2e-25
1wms_A	177	High Resolution Crystal Structure Of Human Rab9 Gtp		2e-25
1z22_A	168	Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Spac		9e-25
2bov_A	206	Molecular Recognition Of An Adp-Ribosylating Clostr		1e-23
2a78_A	187	Crystal Structure Of The C3bot-Rala Complex Reveals		1e-23
1uad_A	175	Crystal Structure Of The Rala-gppnhp-sec5 Ral-bindi		1e-23
2kwi_A	178	Ralb-Rlip76 (Ralbp1) Complex Length = 178		3e-23
2ke5_A	174	Solution Structure And Dynamics Of The Small Gtpase		3e-23
1u8y_A	168	Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal		4e-23
3clv_A	208	Crystal Structure Of Rab5a From Plasmodium Falcipar		1e-22
1zc3_A	175	Crystal Structure Of The Ral-Binding Domain Of Exo8		1e-22
2hxs_A	178	Crystal Structure Of Rab28a Gtpase In The Inactive		1e-20
4djt_A	218	Crystal Structure Of A Nuclear Gtp-Binding Protein		2e-18
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		4e-18
1qg4_A	216	Canine Gdp-Ran F72y Mutant Length = 216		5e-18
1wa5_A	176	Crystal Structure Of The Exportin Cse1p Complexed W		1e-17
1rrp_A	204	Structure Of The Ran-Gppnhp-Ranbd1 Complex Length =		1e-17
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-17
3ea5_A	216	Kap95p Binding Induces The Switch Loops Of Rangdp T		1e-17
3gj0_A	221	Crystal Structure Of Human Rangdp Length = 221		1e-17
1qg2_A	216	Canine Gdp-Ran R76e Mutant Length = 216		1e-17
1a2k_C	216	Gdpran-Ntf2 Complex Length = 216		2e-17
2x19_A	172	Crystal Structure Of Importin13 - Rangtp Complex Le		2e-17
3icq_B	171	Karyopherin Nuclear State Length = 171		2e-17
3m1i_A	219	Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex		2e-17
1qbk_C	216	Structure Of The Karyopherin Beta2-ran Gppnhp Nucle		2e-17
2bku_A	177	Kap95p:rangtp Complex Length = 177		2e-17
3oes_A	201	Crystal Structure Of The Small Gtpase Rhebl1 Length		3e-17
1byu_A	216	Canine Gdp-Ran Length = 216		3e-17
3nby_C	176	Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclea		7e-17
3nc1_C	182	Crystal Structure Of The Crm1-Rangtp Complex Length		7e-17
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		7e-17
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		8e-17
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		1e-16
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-16
3ran_A	216	Canine Gdp-Ran Q69l Mutant Length = 216		1e-16
3gj4_A	221	Crystal Structure Of Human Rangdp-Nup153znf3 Comple		2e-16
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		5e-16
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-16
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		7e-16
2fn4_A	181	The Crystal Structure Of Human Ras-Related Protein,		1e-15
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		1e-15
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-15
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		4e-15
4q21_A	189	Molecular Switch For Signal Transduction: Structura		6e-15
2nty_C	180	Rop4-Gdp-Prone8 Length = 180		6e-15
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		9e-15
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		9e-15
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		1e-14
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		1e-14
2j1l_A	214	Crystal Structure Of Human Rho-Related Gtp-Binding		1e-14
2yc2_C	208	Intraflagellar Transport Complex 25-27 From Chlamyd		1e-14
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-14
1wq1_R	166	Ras-Rasgap Complex Length = 166		1e-14
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		1e-14
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		1e-14
6q21_A	171	Molecular Switch For Signal Transduction: Structura		2e-14
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		2e-14
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		2e-14
1gua_A	167	Human Rap1a, Residues 1-167, Double Mutant (E30d,K3		2e-14
3bwd_D	182	Crystal Structure Of The Plant Rho Protein Rop5 Len		2e-14
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		2e-14
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		2e-14
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		3e-14
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		3e-14
3sea_A	167	Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bo		3e-14
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		3e-14
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		3e-14
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-14
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-14
3brw_D	167	Structure Of The Rap-Rapgap Complex Length = 167		3e-14
1c1y_A	167	Crystal Structure Of Rap.Gmppnp In Complex With The		3e-14
3t5g_A	181	Structure Of Fully Modified Farnesylated Rheb In Co		4e-14
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-14
2l0x_A	169	Solution Structure Of The 21 Kda Gtpase Rheb Bound		4e-14
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		5e-14
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		5e-14
4dxa_A	169	Co-Crystal Structure Of Rap1 In Complex With Krit1		5e-14
1xtq_A	177	Structure Of Small Gtpase Human Rheb In Complex Wit		5e-14
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		5e-14
2wbl_C	180	Three-Dimensional Structure Of A Binary Rop-Prone C		8e-14
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		8e-14
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		9e-14
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		1e-13
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		1e-13
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		1e-13
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		1e-13
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		1e-13
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		1e-13
2atv_A	196	The Crystal Structure Of Human Rerg In The Gdp Boun		1e-13
2j0v_A	212	The Crystal Structure Of Arabidopsis Thaliana Rac7-		2e-13
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		2e-13
2q3h_A	201	The Crystal Structure Of Rhoua In The Gdp-bound Sta		7e-13
3lw8_A	185	Shigella Ipgb2 In Complex With Human Rhoa, Gdp And		2e-12
3kz1_E	182	Crystal Structure Of The Complex Of Pdz-Rhogef DhPH		2e-12
4f38_A	195	Crystal Structure Of Geranylgeranylated Rhoa In Com		2e-12
1x86_B	196	Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-A		2e-12
1s1c_A	183	Crystal Structure Of The Complex Between The Human		2e-12
1lb1_B	192	Crystal Structure Of The Dbl And Pleckstrin Homolog		2e-12
3tvd_A	193	Crystal Structure Of Mouse Rhoa-Gtp Complex Length		2e-12
1mh1_A	186	Small G-Protein Length = 186		3e-12
1g4u_R	184	Crystal Structure Of The Salmonella Tyrosine Phosph		3e-12
1cxz_A	182	Crystal Structure Of Human Rhoa Complexed With The		3e-12
2h7v_A	188	Co-crystal Structure Of Ypka-rac1 Length = 188		3e-12
1hh4_A	192	Rac1-Rhogdi Complex Involved In Nadph Oxidase Activ		3e-12
2fv8_A	207	The Crystal Structure Of Rhob In The Gdp-Bound Stat		5e-12
3sbd_A	187	Crystal Structure Of Rac1 P29s Mutant Length = 187		6e-12
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		6e-12
2gco_A	201	Crystal Structure Of The Human Rhoc-gppnhp Complex		8e-12
2vrw_A	184	Critical Structural Role For The Ph And C1 Domains		9e-12
1i4d_D	192	Crystal Structure Analysis Of Rac1-Gdp Complexed Wi		9e-12
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		9e-12
1he1_C	176	Crystal Structure Of The Complex Between The Gap Do		1e-11
1dpf_A	180	Crystal Structure Of A Mg-Free Form Of Rhoa Complex		1e-11
2gcn_A	201	Crystal Structure Of The Human Rhoc-Gdp Complex Len		1e-11
3sua_A	184	Crystal Structure Of The Intracellular Domain Of Pl		1e-11
2fju_A	178	Activated Rac1 Bound To Its Effector Phospholipase		1e-11
1foe_B	177	Crystal Structure Of Rac1 In Complex With The Guani		1e-11
2yin_C	196	Structure Of The Complex Between Dock2 And Rac1. Le		1e-11
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		1e-11
3b13_B	184	Crystal Structure Of The Dhr-2 Domain Of Dock2 In C		2e-11
3th5_A	204	Crystal Structure Of Wild-Type Rac1 Length = 204		2e-11
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		2e-11
2erx_A	172	Crystal Structure Of Diras2 In Complex With Gdp And		2e-11
1gwn_A	205	The Crystal Structure Of The Core Domain Of RhoeRND		2e-11
2v55_B	200	Mechanism Of Multi-site Phosphorylation From A Rock		2e-11
1m7b_A	184	Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATI		2e-11
1cc0_A	190	Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Le		3e-11
1ow3_B	193	Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With		3e-11
1ds6_A	192	Crystal Structure Of A Rac-Rhogdi Complex Length =		3e-11
1ryf_A	203	Alternative Splicing Of Rac1 Generates Rac1b, A Sel		4e-11
1tx4_B	177	RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177		6e-11
3msx_A	180	Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With		6e-11
2w2t_A	185	Rac2 (G12v) In Complex With Gdp Length = 185		6e-11
2c2h_A	192	Crystal Structure Of The Human Rac3 In Complex With		6e-11
2atx_A	194	Crystal Structure Of The Tc10 Gppnhp Complex Length		6e-11
1xcg_B	178	Crystal Structure Of Human Rhoa In Complex With DhP		6e-11
1e96_A	192	Structure Of The RacP67PHOX COMPLEX Length = 192		7e-11
1i4t_D	192	Crystal Structure Analysis Of Rac1-Gmppnp In Comple		7e-11
2w2v_A	184	Rac2 (G12v) In Complex With Gtpgs Length = 184		7e-11
2g0n_A	179	The Crystal Structure Of The Human Rac3 In Complex		8e-11
2ic5_A	180	Crystal Structure Of Human Rac3 Grown In The Presen		8e-11
4gzm_A	204	Crystal Structure Of Rac1 F28l Mutant Length = 204		8e-11
3ryt_C	180	The Plexin A1 Intracellular Region In Complex With		9e-11
4gzl_A	204	Crystal Structure Of Rac1 Q61l Mutant Length = 204		1e-10
3ref_B	194	Crystal Structure Of Ehrho1 Bound To Gdp And Magnes		1e-10
4dvg_A	188	Crystal Structure Of E. Histolytica Formin1 Bound T		2e-10
1z2c_A	193	Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With		2e-10
1kmq_A	184	Crystal Structure Of A Constitutively Activated Rho		2e-10
3rap_R	167	The Small G Protein Rap2 In A Non Catalytic Complex		3e-10
2gf0_A	199	The Crystal Structure Of The Human Diras1 Gtpase In		9e-10
2wkr_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-09
2wkp_A	332	Structure Of A Photoactivatable Rac1 Containing Lov		2e-09
2ht6_A	174	Crystal Structure Of Human Gem G-Domain Bound To Gd		2e-09
2wkq_A	332	Structure Of A Photoactivatable Rac1 Containing The		2e-09
2g3y_A	211	Crystal Structure Of The Human Small Gtpase Gem Len		2e-09
3lvr_E	497	The Crystal Structure Of Asap3 In Complex With Arf6		4e-09
2cjw_A	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		5e-09
2nzj_A	175	The Crystal Structure Of Rem1 In Complex With Gdp L		5e-09
2cjw_B	192	Crystal Structure Of The Small Gtpase Gem (Gemdndca		5e-09
2cls_A	198	The Crystal Structure Of The Human Rnd1 Gtpase In T		7e-09
2rex_B	197	Crystal Structure Of The Effector Domain Of Plxnb1		7e-09
3q3j_B	214	Crystal Structure Of Plexin A2 Rbd In Complex With		8e-09
1e0s_A	174	Small G Protein Arf6-Gdp Length = 174		9e-09
2a5d_A	175	Structural Basis For The Activation Of Cholera Toxi		9e-09
3n5c_A	162	Crystal Structure Of Arf6delta13 Complexed With Gdp		9e-09
3pcr_B	162	Structure Of Espg-Arf6 Complex Length = 162		1e-08
4fme_C	160	Espg-Rab1-Arf6 Complex Length = 160		1e-08
1grn_A	191	Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX.		2e-08
4did_A	193	Crystal Structure Of Salmonella Effector N-Terminal		2e-08
2qrz_A	189	Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is		2e-08
2odb_A	192	The Crystal Structure Of Human Cdc42 In Complex Wit		2e-08
2wm9_B	190	Structure Of The Complex Between Dock9 And Cdc42. L		2e-08
1cee_A	179	Solution Structure Of Cdc42 In Complex With The Gtp		2e-08
2dfk_B	194	Crystal Structure Of The Cdc42-Collybistin Ii Compl		2e-08
1am4_D	177	Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. S		2e-08
1kz7_B	188	Crystal Structure Of The DhPH FRAGMENT OF MURINE DB		2e-08
1aje_A	194	Cdc42 From Human, Nmr, 20 Structures Length = 194		3e-08
1a4r_B	191	G12v Mutant Of Human Placental Cdc42 Gtpase In The		3e-08
3eg5_A	178	Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex W		3e-08
1ees_A	178	Solution Structure Of Cdc42hs Complexed With A Pept		3e-08
3gcg_A	182	Crystal Structure Of Map And Cdc42 Complex Length =		3e-08
1gzs_A	180	Crystal Structure Of The Complex Between The Gef Do		3e-08
1doa_A	191	Structure Of The Rho Family Gtp-Binding Protein Cdc		3e-08
1an0_A	190	Cdc42hs-Gdp Complex Length = 190		3e-08
2al7_A	186	Structure Of Human Adp-Ribosylation Factor-Like 10c		4e-08
3vhl_B	195	Crystal Structure Of The Dhr-2 Domain Of Dock8 In C		4e-08
2a5g_A	175	Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length		7e-08
2w83_A	165	Crystal Structure Of The Arf6 Gtpase In Complex Wit		7e-08
3vhx_A	172	The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesi		8e-08
1z6x_A	180	Structure Of Human Adp-Ribosylation Factor 4 Length		9e-08
3qbv_A	178	Structure Of Designed Orthogonal Interaction Betwee		1e-07
3a58_B	188	Crystal Structure Of Sec3p - Rho1p Complex From Sac		1e-07
2kb0_A	178	Cdc42(T35a) Length = 178		1e-07
2ase_A	178	Nmr Structure Of The F28l Mutant Of Cdc42hs Length		1e-07
1cf4_A	184	Cdc42ACK GTPASE-Binding Domain Complex Length = 184		2e-07
1nf3_A	195	Structure Of Cdc42 In A Complex With The Gtpase-Bin		2e-07
1zd9_A	188	Structure Of Human Adp-Ribosylation Factor-Like 10b		3e-07
1mr3_F	181	Saccharomyces Cerevisiae Adp-Ribosylation Factor 2		3e-07
2h18_A	193	Structure Of Human Adp-Ribosylation Factor-Like 10b		5e-07
3tjz_A	164	Crystal Structure Of Arf1 Bound To The GammaZETA-Co		8e-07
2dpx_A	174	Crystal Structure Of Human Rad Gtpase Length = 174		9e-07
3q72_A	166	Crystal Structure Of Rad G-Domain-Gtp Analog Comple		9e-07
2k5u_A	181	Solution Structure Of Myirstoylated Yeast Arf1 Prot		1e-06
2gjs_A	176	The Crystal Structure Of Human Rrad In Complex With		1e-06
3lrp_A	181	Crystal Structure Of Plasmodium Falciparum Adp-Ribo		1e-06
3cbq_A	195	Crystal Structure Of The Human Rem2 Gtpase With Bou		1e-06
3rd1_A	178	Structure Of An Adp Ribosylation Factor From Entamo		1e-06
3q85_A	169	Crystal Structure Of Rem2 G-Domain -Gtp Analog Comp		2e-06
4aii_A	180	Crystal Structure Of The Rat Rem2 Gtpase - G Domain		3e-06
2b6h_A	192	Structure Of Human Adp-Ribosylation Factor 5 Length		3e-06
3o47_A	329	Crystal Structure Of Arfgap1-Arf1 Fusion Protein Le		4e-06
1re0_A	164	Structure Of Arf1-Gdp Bound To Sec7 Domain Complexe		5e-06
3aq4_A	184	Molecular Insights Into Plant Cell Proliferation Di		5e-06
1rrg_A	181	Non-Myristoylated Rat Adp-Ribosylation Factor-1 Com		6e-06
1hur_A	180	Human Adp-Ribosylation Factor 1 Complexed With Gdp,		7e-06
3doe_A	192	Complex Of Arl2 And Bart, Crystal Form 1 Length = 1		2e-05
1j2j_A	166	Crystal Structure Of Gga1 Gat N-terminal Region In		4e-05
1ksg_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 1 Lengt		4e-05
1ksh_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Nati		5e-05
3c5c_A	187	Crystal Structure Of Human Ras-Like, Family 12 Prot		9e-05
3d6t_B	171	Structure Of The Roc Domain From The Parkinson's Di		1e-04
2zej_A	184	Structure Of The Roc Domain From The Parkinson's Di		1e-04
1moz_A	183	Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharo		1e-04
1ksj_A	186	Complex Of Arl2 And Pde Delta, Crystal Form 2 (Seme		2e-04
1r4a_A	165	Crystal Structure Of Gtp-Bound Adp-Ribosylation Fac		2e-04
2h16_A	183	Structure Of Human Adp-Ribosylation Factor-Like 5 (		3e-04
2h17_A	181	Structure Of Human Adp-Ribosylation Factor-Like 5 (		3e-04
1yzg_A	179	Structure Of Human Adp-ribosylation Factor-like 8 L		3e-04
2ksq_A	181	The Myristoylated Yeast Arf1 In A Gtp And Bicelle B		3e-04
1zj6_A	187	Crystal Structure Of Human Arl5 Length = 187		4e-04
1z6y_A	179	Structure Of Human Adp-Ribosylation Factor-Like 5 L		4e-04

>pdb|1YZK|A Chain A, Gppnhp Bound Rab11 Gtpase Length = 184

Iteration: 1
 Score =  248 bits (633), Expect = 2e-66,   Method: Compositional matrix adjust.
 Identities = 116/160 (72%), Positives = 139/160 (86%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAGQERYRA
Sbjct: 25  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRA 84
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 85  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 144
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIYRI
Sbjct: 145 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 184

>pdb|2F9L|A Chain A, 3d Structure Of Inactive Human Rab11b Gtpase Length = 199

Iteration: 1
 Score =  247 bits (631), Expect = 3e-66,   Method: Compositional matrix adjust.
 Identities = 116/166 (69%), Positives = 141/166 (84%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAGQERYR 
Sbjct: 10  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 70  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
           T++A+ FAEK  L F+ETSAL+STNVE AF  +LTEIYRIVS+K +
Sbjct: 130 TDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQI 175

>pdb|2HV8|A Chain A, Crystal Structure Of Gtp-Bound Rab11 In Complex With Fip3 Length = 172

Iteration: 1
 Score =  245 bits (625), Expect = 1e-65,   Method: Compositional matrix adjust.
 Identities = 115/160 (71%), Positives = 138/160 (86%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAG ERYRA
Sbjct: 13  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRA 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 73  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIYRI
Sbjct: 133 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIYRI 172

>pdb|1OIV|A Chain A, X-Ray Structure Of The Small G Protein Rab11a In Complex With Gdp Length = 191

Iteration: 1
 Score =  244 bits (622), Expect = 3e-65,   Method: Compositional matrix adjust.
 Identities = 114/158 (72%), Positives = 137/158 (86%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAGQERYRA
Sbjct: 34  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRA 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 94  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 153
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIY
Sbjct: 154 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|1OIW|A Chain A, X-ray Structure Of The Small G Protein Rab11a In Complex With Gtpgammas Length = 191

Iteration: 1
 Score =  241 bits (614), Expect = 3e-64,   Method: Compositional matrix adjust.
 Identities = 113/158 (71%), Positives = 136/158 (86%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAG ERYRA
Sbjct: 34  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRA 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 94  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 153
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIY
Sbjct: 154 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>pdb|2D7C|A Chain A, Crystal Structure Of Human Rab11 In Complex With Fip3 Rab- Binding Domain Length = 167

Iteration: 1
 Score =  238 bits (608), Expect = 1e-63,   Method: Compositional matrix adjust.
 Identities = 112/158 (70%), Positives = 135/158 (85%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAG ERYRA
Sbjct: 10  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRA 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+I LVGNKSDL  LRAVP
Sbjct: 70  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVP 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIY
Sbjct: 130 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 167

>pdb|2GZD|A Chain A, Crystal Structure Of Rab11 In Complex With Rab11-Fip2 Length = 173

Iteration: 1
 Score =  238 bits (607), Expect = 2e-63,   Method: Compositional matrix adjust.
 Identities = 112/158 (70%), Positives = 135/158 (85%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAG ERYRA
Sbjct: 16  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRA 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+I LVGNKSDL  LRAVP
Sbjct: 76  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIXLVGNKSDLRHLRAVP 135
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIY
Sbjct: 136 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 173

>pdb|3BFK|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab11a In Complex With Gdp Length = 181

Iteration: 1
 Score =  237 bits (605), Expect = 3e-63,   Method: Compositional matrix adjust.
 Identities = 113/170 (66%), Positives = 142/170 (83%), Gaps = 1/170 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYR 59
           LIGDS VGKS LL+RF RDEF+L+SK+TIGVEF TK++ + ++K +KAQIWDTAGQERYR
Sbjct: 12  LIGDSGVGKSNLLSRFTRDEFNLESKSTIGVEFATKSIQLKNNKIIKAQIWDTAGQERYR 71
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           A+TSAYYRGAVGA+LVYDITK+ SF+N+ +WL+ELR +AD NI+I+LVGNKSDL+ LR +
Sbjct: 72  AITSAYYRGAVGALLVYDITKKNSFENIEKWLKELRDNADSNIVILLVGNKSDLKHLRVI 131
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAN 169
              DA ++A+KE L F+ETSALE+TNVELAF  +L EIY +  KK  T N
Sbjct: 132 NDNDATQYAKKEKLAFIETSALEATNVELAFHQLLNEIYNVRQKKQATKN 181

>pdb|2OIL|A Chain A, Crystal Structure Of Human Rab25 In Complex With Gdp Length = 193

Iteration: 1
 Score =  224 bits (571), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 108/164 (65%), Positives = 133/164 (81%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGK+ LL+RF R+EFS DS+ TIGVEF T+T+++    VKAQIWDTAG ERYRA
Sbjct: 30  LIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRA 89
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LV+D+TK Q++  V RWL+EL  HA+  I++MLVGNKSDL   R VP
Sbjct: 90  ITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVP 149
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           TE+A+ FAE  GL F+ETSAL+STNVELAF TVL EI+  VSK+
Sbjct: 150 TEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>pdb|3TSO|A Chain A, Structure Of The Cancer Associated Rab25 Protein In Complex With Fip2 Length = 178

Iteration: 1
 Score =  224 bits (571), Expect = 3e-59,   Method: Compositional matrix adjust.
 Identities = 108/164 (65%), Positives = 133/164 (81%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGK+ LL+RF R+EFS DS+ TIGVEF T+T+++    VKAQIWDTAG ERYRA
Sbjct: 15  LIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRA 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LV+D+TK Q++  V RWL+EL  HA+  I++MLVGNKSDL   R VP
Sbjct: 75  ITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVP 134
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           TE+A+ FAE  GL F+ETSAL+STNVELAF TVL EI+  VSK+
Sbjct: 135 TEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 178

>pdb|3CPJ|B Chain B, Crystal Structure Of Ypt31 In Complex With Yeast Rab-Gdi Length = 223

Iteration: 1
 Score =  221 bits (563), Expect = 2e-58,   Method: Compositional matrix adjust.
 Identities = 109/206 (52%), Positives = 137/206 (66%), Gaps = 3/206 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF ++EF++DSK+TIGVEF T+TL I  K +KAQIWDTAGQERYRA
Sbjct: 18  LIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRA 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA++VYDI+K  S++N   WL ELR +AD N+ + L+GNKSDL  LRAVP
Sbjct: 78  ITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVP 137
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDXXXXXXXXXX 180
           TE++K FA++  L F ETSAL S NV+ AF  ++  IY+ VSK  +   D          
Sbjct: 138 TEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGNANGA 197
Query: 181 XKATNIVV---PGQEPESGRRSYNCC 203
                  +   P           NCC
Sbjct: 198 SAPNGPTISLTPTPNENKKANGNNCC 223

>pdb|3RWM|B Chain B, Crystal Structure Of Ypt32 In Complex With Gppnhp Length = 185

Iteration: 1
 Score =  211 bits (536), Expect = 3e-55,   Method: Compositional matrix adjust.
 Identities = 99/163 (60%), Positives = 129/163 (79%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF  DEF+++SK+TIGVEF T+T+ + +K +KAQIWDTAG ERYRA
Sbjct: 15  LIGDSGVGKSNLLSRFTTDEFNIESKSTIGVEFATRTIEVENKKIKAQIWDTAGLERYRA 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA++VYDI+K  S++N   WL ELR +AD N+ + L+GNKSDL  LRAVP
Sbjct: 75  ITSAYYRGAVGALIVYDISKSSSYENCNHWLTELRENADDNVAVGLIGNKSDLAHLRAVP 134
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           T++AK FA +  + F ETSAL S NV+ AF  ++  I+++VSK
Sbjct: 135 TDEAKNFAMENQMLFTETSALNSDNVDKAFRELIVAIFQMVSK 177

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score =  177 bits (449), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 83/158 (52%), Positives = 112/158 (70%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I  K +K QIWDTAGQE +R+
Sbjct: 15  IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMITIDGKQIKLQIWDTAGQESFRS 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R +F+++  WLE+ R H++ N++IML+GNKSDLE+ R V 
Sbjct: 75  ITRSYYRGAAGALLVYDITRRDTFNHLTTWLEDARQHSNSNMVIMLIGNKSDLESRREVK 134
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
            E+ + FA + GL FMETSA  ++NVE AF+    EIY
Sbjct: 135 KEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEIY 172

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score =  177 bits (449), Expect = 4e-45,   Method: Compositional matrix adjust.
 Identities = 84/163 (51%), Positives = 114/163 (69%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I  K +K QIWDTAGQE +R+
Sbjct: 26  IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRS 85
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R++F+++  WLE+ R H+  N++IML+GNKSDLE+ R V 
Sbjct: 86  ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVK 145
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
            E+ + FA + GL FMETSA  + NVE AF+    EIYR + +
Sbjct: 146 REEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 188

>pdb|3JZA|A Chain A, Crystal Structure Of Human Rab1b In Complex With The Gef Domain Of DrraSIDM FROM LEGIONELLA PNEUMOPHILA Length = 175

Iteration: 1
 Score =  173 bits (438), Expect = 6e-44,   Method: Compositional matrix adjust.
 Identities = 84/157 (53%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 14  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++S+ NV +WL+E+  +A +N+  +LVGNKSDL T + V 
Sbjct: 74  ITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVD 133
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE AF+T+  EI
Sbjct: 134 NTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score =  173 bits (438), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 85/166 (51%), Positives = 121/166 (72%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGKS LL RF+ D ++ D  +TIGV+F+ KT+ +  K VK QIWDTAGQER+R 
Sbjct: 13  LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRT 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRG+ G ++VYD+T ++SF+ V  WL+E+  +A   ++ +LVGNK DL+  R V 
Sbjct: 73  ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            + AKEFA+   + F+ETSAL+STNVE AFLT+  +I   +S++ L
Sbjct: 133 YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNL 178

>pdb|4I1O|A Chain A, Crystal Structure Of The Legionella Pneumophila Gap Domain Of Lepb In Complex With Rab1b Bound To Gdp And Bef3 Length = 181

Iteration: 1
 Score =  173 bits (438), Expect = 7e-44,   Method: Compositional matrix adjust.
 Identities = 84/157 (53%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 14  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++S+ NV +WL+E+  +A +N+  +LVGNKSDL T + V 
Sbjct: 74  ITSSYYRGAHGIIVVYDVTDQESYANVKQWLQEIDRYASENVNKLLVGNKSDLTTKKVVD 133
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE AF+T+  EI
Sbjct: 134 NTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEI 170

>pdb|3TKL|A Chain A, Crystal Structure Of The Gtp-Bound Rab1a In Complex With The Coiled- Coil Domain Of Lida From Legionella Pneumophila Length = 196

Iteration: 1
 Score =  172 bits (437), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 21  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 80
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 81  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 140
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 141 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score =  172 bits (437), Expect = 8e-44,   Method: Compositional matrix adjust.
 Identities = 85/166 (51%), Positives = 121/166 (72%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGKS LL RF+ D ++ D  +TIGV+F+ KT+ +  K VK QIWDTAGQER+R 
Sbjct: 13  LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRT 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRG+ G ++VYD+T ++SF+ V  WL+E+  +A   ++ +LVGNK DL+  R V 
Sbjct: 73  ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            + AKEFA+   + F+ETSAL+STNVE AFLT+  +I   +S++ L
Sbjct: 133 YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNL 178

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score =  172 bits (437), Expect = 9e-44,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 4   LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 63
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 64  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 123
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 124 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 160

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score =  172 bits (436), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 11  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 71  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 131 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score =  172 bits (436), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 11  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 71  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 131 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 167

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score =  172 bits (436), Expect = 1e-43,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 30  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 89
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 90  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 149
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 150 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 186

>pdb|3SFV|A Chain A, Crystal Structure Of The Gdp-Bound Rab1a S25n Mutant In Complex With The Coiled-Coil Domain Of Lida From Legionella Pneumophila Length = 181

Iteration: 1
 Score =  171 bits (434), Expect = 2e-43,   Method: Compositional matrix adjust.
 Identities = 82/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 21  LIGDSGVGKNCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 80
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 81  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 140
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 141 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 177

>pdb|1Z0F|A Chain A, Gdp-Bound Rab14 Gtpase Length = 179

Iteration: 1
 Score =  171 bits (433), Expect = 3e-43,   Method: Compositional matrix adjust.
 Identities = 81/159 (50%), Positives = 112/159 (70%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD  VGKS LL +F   +F  D   TIGVEF T+ + +  + +K QIWDTAGQER+RA
Sbjct: 20  IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRA 79
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA++VYDIT+R ++++++ WL + R   + N +I+L+GNK+DLE  R V 
Sbjct: 80  VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVT 139
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+AK+FAE+ GL F+E SA    NVE AFL    +IY+
Sbjct: 140 YEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score =  170 bits (431), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 82/157 (52%), Positives = 115/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ + +K VK QIWDTAGQER+R 
Sbjct: 14  LIGDSGVGKSCLLLRFADDTYTDSYISTIGVDFKIRTISLENKTVKLQIWDTAGQERFRT 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T R SFDNV +W++E+  +A +N+  +LVGNK DL + R V 
Sbjct: 74  ITSSYYRGAHGIIIVYDVTDRDSFDNVKQWIQEIDRYAMENVNKLLVGNKCDLVSKRVVT 133
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           +++ +E A+  G+ F+ETSA  + NVE AF T+  EI
Sbjct: 134 SDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEI 170

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score =  170 bits (431), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 116/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGKS LL RF+ D ++ D  +TIGV+F+ KT+ +  K VK QIWDTAGQER+R 
Sbjct: 26  LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRT 85
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRG+ G ++VYD+T ++SF+ V  WL+E+  +A   ++ +LVGNK DL+  R V 
Sbjct: 86  ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE 145
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            + AKEFA+   + F+ETSAL+STNVE AFLT+  +I
Sbjct: 146 YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQI 182

>pdb|3L0I|B Chain B, Complex Structure Of Sidm/drra With The Wild Type Rab1 Length = 199

Iteration: 1
 Score =  170 bits (431), Expect = 5e-43,   Method: Compositional matrix adjust.
 Identities = 83/157 (52%), Positives = 114/157 (72%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 38  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 97
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 98  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 157
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F T   EI
Sbjct: 158 YTTAKEFADSLGIPFLETSAKNATNVEQSFXTXAAEI 194

>pdb|4DRZ|A Chain A, Crystal Structure Of Human Rab14 Length = 196

Iteration: 1
 Score =  169 bits (427), Expect = 1e-42,   Method: Compositional matrix adjust.
 Identities = 80/159 (50%), Positives = 111/159 (69%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD  VGKS LL +F   +F  D   TIGVEF T+ + +  + +K QIWDTAGQ R+RA
Sbjct: 35  IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQGRFRA 94
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA++VYDIT+R ++++++ WL + R   + N +I+L+GNK+DLE  R V 
Sbjct: 95  VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVT 154
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+AK+FAE+ GL F+E SA    NVE AFL    +IY+
Sbjct: 155 YEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 193

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score =  168 bits (426), Expect = 2e-42,   Method: Compositional matrix adjust.
 Identities = 82/157 (52%), Positives = 115/157 (73%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 13  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVG K DL T + V 
Sbjct: 73  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGIKCDLTTKKVVD 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI
Sbjct: 133 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEI 169

>pdb|2HUP|A Chain A, Crystal Structure Of Human Rab43 In Complex With Gdp Length = 201

Iteration: 1
 Score =  166 bits (419), Expect = 1e-41,   Method: Compositional matrix adjust.
 Identities = 85/158 (53%), Positives = 112/158 (70%), Gaps = 1/158 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD++VGK+ ++ RF    FS    +TIGV+F  KTL I  K VK QIWDTAGQER+R 
Sbjct: 34  LVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRT 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A GA+L YDITKR SF +V  W+E++R +A  NI+ +L+GNKSDL  LR V 
Sbjct: 94  ITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVS 153
Query: 121 TEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEI 157
             +A+  AE  + LC +ETSA +S+NVE AFL V TE+
Sbjct: 154 LAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATEL 191

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score =  159 bits (403), Expect = 7e-40,   Method: Compositional matrix adjust.
 Identities = 78/164 (47%), Positives = 110/164 (67%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ +L RF+ D F+    +TIG++F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 11  LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G MLVYDIT  +SFDN+  W+  +  HA  ++  M++GNK D+   R V 
Sbjct: 71  ITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            E  ++ A   G+ FMETSA  + NVE AF T+  +I   + KK
Sbjct: 131 KERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKK 174

>pdb|2O52|A Chain A, Crystal Structure Of Human Rab4b In Complex With Gdp Length = 200

Iteration: 1
 Score =  159 bits (403), Expect = 8e-40,   Method: Compositional matrix adjust.
 Identities = 81/161 (50%), Positives = 111/161 (68%), Gaps = 4/161 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG +  GKS LL +F  ++F  DS  TIGVEF ++ + +  K VK QIWDTAGQER+R+
Sbjct: 30  VIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRS 89
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++++A WL + R  A  NI+++L GNK DL+  R V 
Sbjct: 90  VTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVT 149
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL----TVLTEI 157
             +A  FA++  L F+ETSAL   NVE AFL    T+L +I
Sbjct: 150 FLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKI 190

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score =  159 bits (401), Expect = 1e-39,   Method: Compositional matrix adjust.
 Identities = 76/157 (48%), Positives = 107/157 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ +L RF+ D F+    +TIG++F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 13  LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G MLVYDIT  +SFDN+  W+  +  HA  ++  M++GNK D+   R V 
Sbjct: 73  ITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            E  ++ A   G+ FMETSA  + NVE AF T+  +I
Sbjct: 133 KERGEKLALDYGIKFMETSAKANINVENAFFTLARDI 169

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score =  156 bits (395), Expect = 6e-39,   Method: Compositional matrix adjust.
 Identities = 76/153 (49%), Positives = 106/153 (69%), Gaps = 1/153 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK QIWDTAGQER+R 
Sbjct: 8   LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRT 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYDIT  ++F N+ +W + +  HA+    ++LVGNKSD+ET R V 
Sbjct: 68  ITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVT 126
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            +  +  A++ G+ F+E+SA    NV   F T+
Sbjct: 127 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|2BMD|A Chain A, High Resolution Structure Of Gdp-Bound Human Rab4a Length = 186

Iteration: 1
 Score =  156 bits (394), Expect = 9e-39,   Method: Compositional matrix adjust.
 Identities = 79/157 (50%), Positives = 107/157 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG++  GKS LL +F   +F  DS  TIGVEF +K + +  K VK QIWDTAGQER+R+
Sbjct: 15  VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRS 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++ +  WL + R  A +NI+I+L GNK DL+  R V 
Sbjct: 75  VTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT 134
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +A  FA++  L F+ETSAL   NVE AF+    +I
Sbjct: 135 FLEASRFAQENELMFLETSALTGENVEEAFVQCARKI 171

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score =  155 bits (392), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/153 (48%), Positives = 106/153 (69%), Gaps = 1/153 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK Q+WDTAGQER+R 
Sbjct: 25  LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRT 84
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYD+T  ++F N+ +W + +  HA+    ++LVGNKSD+ET R V 
Sbjct: 85  ITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVT 143
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            +  +  A++ G+ F+E+SA    NV   F T+
Sbjct: 144 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 176

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score =  155 bits (391), Expect = 2e-38,   Method: Compositional matrix adjust.
 Identities = 74/153 (48%), Positives = 106/153 (69%), Gaps = 1/153 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK Q+WDTAGQER+R 
Sbjct: 12  LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRT 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYD+T  ++F N+ +W + +  HA+    ++LVGNKSD+ET R V 
Sbjct: 72  ITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVT 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            +  +  A++ G+ F+E+SA    NV   F T+
Sbjct: 131 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 163

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score =  154 bits (390), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 76/153 (49%), Positives = 104/153 (67%), Gaps = 1/153 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK QIWDTAGQER+R 
Sbjct: 8   LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRT 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA G +LVYDIT  ++F N+ +W + +  HA+    ++LVGNKSD ET R V 
Sbjct: 68  ITTAYYRGAXGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXET-RVVT 126
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            +  +  A++ G+ F+E+SA    NV   F T+
Sbjct: 127 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|3DZ8|A Chain A, Crystal Structure Of Human Rab3b Gtpase Bound With Gdp Length = 191

Iteration: 1
 Score =  154 bits (389), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 73/150 (48%), Positives = 104/150 (69%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  H K VK QIWDTAGQERYR 
Sbjct: 28  IIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRT 87
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R VP
Sbjct: 88  ITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVP 147
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
           TE  +  AE+ G  F E SA E+ +V  AF
Sbjct: 148 TEKGQLLAEQLGFDFFEASAKENISVRQAF 177

>pdb|1YU9|A Chain A, Gppnhp-Bound Rab4a Length = 175

Iteration: 1
 Score =  154 bits (389), Expect = 3e-38,   Method: Compositional matrix adjust.
 Identities = 78/157 (49%), Positives = 107/157 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG++  GKS LL +F   +F  DS  TIGVEF +K + +  K VK QIWDTAGQER+R+
Sbjct: 16  VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++ +  WL + R  A +NI+I+L GNK DL+  R V 
Sbjct: 76  VTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT 135
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +A  FA++  L F+ETSAL   +VE AF+    +I
Sbjct: 136 FLEASRFAQENELMFLETSALTGEDVEEAFVQCARKI 172

>pdb|2EFC|B Chain B, Ara7-GdpATVPS9A Length = 181

Iteration: 1
 Score =  154 bits (388), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 70/160 (43%), Positives = 106/160 (66%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GKS L+ RF +D+F    ++TIG  F ++TL ++   VK +IWDTAGQERY +
Sbjct: 17  LLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHS 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++V+D+T + SF+   +W++EL+   + N+++ L GNKSDL   R V 
Sbjct: 77  LAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVT 136
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
            EDA+ +A++ GL FMETSA  +TNV+  F  +   + R+
Sbjct: 137 AEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRV 176

>pdb|2GF9|A Chain A, Crystal Structure Of Human Rab3d In Complex With Gdp Length = 189

Iteration: 1
 Score =  154 bits (388), Expect = 4e-38,   Method: Compositional matrix adjust.
 Identities = 72/150 (48%), Positives = 102/150 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S+VGK+  L R+A D F+    +T+G++F+ KT+  H K +K QIWDTAGQERYR 
Sbjct: 27  LIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRT 86
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDI  ++SF  V  W  +++ ++  N  ++LVGNK DLE  R VP
Sbjct: 87  ITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVP 146
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            ED +  A+  G  F E SA E+ NV+  F
Sbjct: 147 AEDGRRLADDLGFEFFEASAKENINVKQVF 176

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score =  152 bits (385), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 74/153 (48%), Positives = 104/153 (67%), Gaps = 1/153 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK Q+WDTAGQER+R 
Sbjct: 8   LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRT 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA G +LVYD+T  ++F N+ +W + +  HA+    ++LVGNKSD ET R V 
Sbjct: 68  ITTAYYRGAXGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDXET-RVVT 126
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            +  +  A++ G+ F+E+SA    NV   F T+
Sbjct: 127 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTL 159

>pdb|3TW8|B Chain B, Gef Domain Of Dennd 1b In Complex With Rab Gtpase Rab35 Length = 181

Iteration: 1
 Score =  152 bits (384), Expect = 1e-37,   Method: Compositional matrix adjust.
 Identities = 80/157 (50%), Positives = 107/157 (68%), Gaps = 2/157 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGDS VGKS LL RFA + FS     TIGV+F+ +T+ I+ + VK QIWDTAGQER+R 
Sbjct: 14  IIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRT 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS YYRG  G ++VYD+T  +SF NV RWL E+  + D ++  +LVGNK+D    + V 
Sbjct: 74  ITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVE 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           TEDA +FA + G+   ETSA E+ NVE  F   +TE+
Sbjct: 133 TEDAYKFAGQMGIQLFETSAKENVNVEEMF-NCITEL 168

>pdb|1Z0K|A Chain A, Structure Of Gtp-Bound Rab4q67l Gtpase In Complex With The Central Rab Binding Domain Of Rabenosyn-5 Length = 172

Iteration: 1
 Score =  151 bits (381), Expect = 3e-37,   Method: Compositional matrix adjust.
 Identities = 76/151 (50%), Positives = 104/151 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG++  GKS LL +F   +F  DS  TIGVEF +K + +  K VK QIWDTAG ER+R+
Sbjct: 13  VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGLERFRS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++ +  WL + R  A +NI+I+L GNK DL+  R V 
Sbjct: 73  VTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
             +A  FA++  L F+ETSAL   +VE AF+
Sbjct: 133 FLEASRFAQENELMFLETSALTGEDVEEAFV 163

>pdb|2FG5|A Chain A, Crystal Structure Of Human Rab31 In Complex With A Gtp Analogue Length = 192

Iteration: 1
 Score =  150 bits (379), Expect = 5e-37,   Method: Compositional matrix adjust.
 Identities = 70/157 (44%), Positives = 103/157 (65%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF +D F  +   TIG  F TKT+   ++  K  IWDTAGQER+ +
Sbjct: 28  LLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHS 87
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK+ SF  + +W++EL+ H  +NI++ + GNK DL  +R VP
Sbjct: 88  LAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVP 147
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            +DAKE+AE  G   +ETSA  + N+E  F  +  +I
Sbjct: 148 LKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQI 184

>pdb|1N6H|A Chain A, Crystal Structure Of Human Rab5a Length = 170

Iteration: 1
 Score =  147 bits (371), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 72/153 (47%), Positives = 100/153 (65%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1TU3|A Chain A, Crystal Structure Of Rab5 Complex With Rabaptin5 C-Terminal Domain Length = 171

Iteration: 1
 Score =  147 bits (371), Expect = 4e-36,   Method: Compositional matrix adjust.
 Identities = 72/153 (47%), Positives = 100/153 (65%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 12  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 72  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 132 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 164

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  147 bits (370), Expect = 6e-36,   Method: Compositional matrix adjust.
 Identities = 74/160 (46%), Positives = 104/160 (65%), Gaps = 1/160 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           L+GDS VGK+ LL RF    F   +  +T+G++F+ K L +    VK Q+WDTAGQER+R
Sbjct: 15  LVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFR 74
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +VT AYYR A   +L+YD+T + SFDN+  WL E+  +A  ++ +ML+GNK D    R V
Sbjct: 75  SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVV 134
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             ED ++ A++ GL FMETSA    NV+LAF  +  E+ R
Sbjct: 135 KREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 174

>pdb|1N6I|A Chain A, Crystal Structure Of Human Rab5a A30p Mutant Complex With Gdp Length = 170

Iteration: 1
 Score =  145 bits (367), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESPVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|3RAB|A Chain A, Gppnhp-bound Rab3a At 2.0 A Resolution Length = 169

Iteration: 1
 Score =  145 bits (367), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 67/150 (44%), Positives = 103/150 (68%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  + K +K QIWDTAGQERYR 
Sbjct: 10  IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRT 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R V 
Sbjct: 70  ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
           +E  ++ A+  G  F E SA ++ NV+  F
Sbjct: 130 SERGRQLADHLGFEFFEASAKDNINVKQTF 159

>pdb|2IL1|A Chain A, Crystal Structure Of A Predicted Human Gtpase In Complex With Gdp Length = 192

Iteration: 1
 Score =  145 bits (366), Expect = 1e-35,   Method: Compositional matrix adjust.
 Identities = 68/160 (42%), Positives = 111/160 (69%), Gaps = 1/160 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG   VGK+ L+ RF  D F    K+T+GV+F+ KT+ +  K ++ QIWDTAGQER+ +
Sbjct: 31  IIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNS 90
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYR A G +LVYDITK+++FD++ +W++ +  +A ++  ++LVGNK D ET R + 
Sbjct: 91  ITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREIT 150
Query: 121 TEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  ++FA++  G+ F E SA ++ NV+  FL ++ +I +
Sbjct: 151 RQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK 190

>pdb|1N6O|A Chain A, Crystal Structure Of Human Rab5a A30k Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  145 bits (366), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESKVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6P|A Chain A, Crystal Structure Of Human Rab5a A30e Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESEVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6R|A Chain A, Crystal Structure Of Human Rab5a A30l Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESLVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|1N6N|A Chain A, Crystal Structure Of Human Rab5a A30r Mutant Complex With Gppnhp Length = 170

Iteration: 1
 Score =  145 bits (365), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESRVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 163

>pdb|2EW1|A Chain A, Crystal Structure Of Rab30 In Complex With A Gtp Analogue Length = 201

Iteration: 1
 Score =  144 bits (364), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 75/169 (44%), Positives = 105/169 (62%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG++ VGK+ L+ RF +  F     ATIGV+F  KT+ I+ + VK QIWDTAGQER+R+
Sbjct: 31  LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRS 90
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A   +L YDIT  +SF  +  WL E+  +A   +I +LVGNK DL   R V 
Sbjct: 91  ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVS 150
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAN 169
            + A+EF+E + + ++ETSA ES NVE  FL +   +     +  L  N
Sbjct: 151 QQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNN 199

>pdb|1HUQ|A Chain A, 1.8a Crystal Structure Of The Monomeric Gtpase Rab5c (Mouse) Length = 164

Iteration: 1
 Score =  144 bits (364), Expect = 2e-35,   Method: Compositional matrix adjust.
 Identities = 70/153 (45%), Positives = 100/153 (65%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 8   LLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT   +F     W++EL+  A  NI+I L GNK+DL + RAV 
Sbjct: 68  LAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVE 127
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  + NV   F+ +
Sbjct: 128 FQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 160

>pdb|1TU4|A Chain A, Crystal Structure Of Rab5-Gdp Complex Length = 171

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 74/164 (45%), Positives = 103/164 (62%), Gaps = 8/164 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 12  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 72  LAPXYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            ++A+ +A+   L F ETSA  S NV         EI+  ++KK
Sbjct: 132 FQEAQSYADDNSLLFXETSAKTSXNV--------NEIFXAIAKK 167

>pdb|3MJH|A Chain A, Crystal Structure Of Human Rab5a In Complex With The C2h2 Zinc Finger Of Eea1 Length = 168

Iteration: 1
 Score =  144 bits (363), Expect = 4e-35,   Method: Compositional matrix adjust.
 Identities = 71/153 (46%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAG ERY +
Sbjct: 10  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHS 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 70  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  S NV   F+ +
Sbjct: 130 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAI 162

>pdb|2HEI|A Chain A, Crystal Structure Of Human Rab5b In Complex With Gdp Length = 179

Iteration: 1
 Score =  142 bits (358), Expect = 1e-34,   Method: Compositional matrix adjust.
 Identities = 69/153 (45%), Positives = 100/153 (65%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+++ +    VK +IWDTAGQERY +
Sbjct: 13  LLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQSVCLDDTTVKFEIWDTAGQERYHS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT +++F     W++EL+  A  +I+I L GNK+DL   R V 
Sbjct: 73  LAPMYYRGAQAAIVVYDITNQETFARAKTWVKELQRQASPSIVIALAGNKADLANKRMVE 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            E+A+ +A+   L FMETSA  + NV   FL +
Sbjct: 133 YEEAQAYADDNSLLFMETSAKTAMNVNDLFLAI 165

>pdb|1Z0D|A Chain A, Gdp-bound Rab5c Gtpase Length = 167

Iteration: 1
 Score =  141 bits (356), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 69/153 (45%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAG ERY +
Sbjct: 10  LLGESAVGKSSLVLRFVKGQFHEYQESTIGAAFLTQTVCLDDTTVKFEIWDTAGLERYHS 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT   +F     W++EL+  A  NI+I L GNK+DL + RAV 
Sbjct: 70  LAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVE 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  + NV   F+ +
Sbjct: 130 FQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|1Z07|A Chain A, Gppnhp-Bound Rab5c G55q Mutant Gtpase Length = 166

Iteration: 1
 Score =  141 bits (356), Expect = 2e-34,   Method: Compositional matrix adjust.
 Identities = 69/153 (45%), Positives = 99/153 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TI   F T+T+ +    VK +IWDTAGQERY +
Sbjct: 10  LLGESAVGKSSLVLRFVKGQFHEYQESTIQAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT   +F     W++EL+  A  NI+I L GNK+DL + RAV 
Sbjct: 70  LAPMYYRGAQAAIVVYDITNTDTFARAKNWVKELQRQASPNIVIALAGNKADLASKRAVE 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +A+   L FMETSA  + NV   F+ +
Sbjct: 130 FQEAQAYADDNSLLFMETSAKTAMNVNEIFMAI 162

>pdb|1YVD|A Chain A, Gppnhp-Bound Rab22 Gtpase Length = 169

Iteration: 1
 Score =  141 bits (355), Expect = 3e-34,   Method: Compositional matrix adjust.
 Identities = 66/153 (43%), Positives = 96/153 (62%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF  D F  +   TIG  F TKT+   ++  K  IWDTAGQER+RA
Sbjct: 10  LLGDTGVGKSSIVWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGQERFRA 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK ++F  +  W+ ELR H   +I++ + GNK DL  +R V 
Sbjct: 70  LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVM 129
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
             DAK++A+     F+ETSA  + N+   F+ +
Sbjct: 130 ERDAKDYADSIHAIFVETSAKNAININELFIEI 162

>pdb|1ZBD|A Chain A, Structural Basis Of Rab Effector Specificity: Crystal Structure Of The Small G Protein Rab3a Complexed With The Effector Domain Of Rabphilin-3a Length = 203

Iteration: 1
 Score =  139 bits (351), Expect = 9e-34,   Method: Compositional matrix adjust.
 Identities = 66/150 (44%), Positives = 99/150 (66%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  + K +K QIWDTAG ERYR 
Sbjct: 13  IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRT 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA G +L YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D E  R V 
Sbjct: 73  ITTAYYRGAXGFILXYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDXEDERVVS 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
           +E  ++ A+  G  F E SA ++ NV+  F
Sbjct: 133 SERGRQLADHLGFEFFEASAKDNINVKQTF 162

>pdb|1Z0J|A Chain A, Structure Of Gtp-Bound Rab22q64l Gtpase In Complex With The Minimal Rab Binding Domain Of Rabenosyn-5 Length = 170

Iteration: 1
 Score =  139 bits (349), Expect = 1e-33,   Method: Compositional matrix adjust.
 Identities = 65/153 (42%), Positives = 95/153 (62%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF  D F  +   TIG  F TKT+   ++  K  IWDTAG ER+RA
Sbjct: 11  LLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRA 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK ++F  +  W+ ELR H   +I++ + GNK DL  +R V 
Sbjct: 71  LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVM 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
             DAK++A+     F+ETSA  + N+   F+ +
Sbjct: 131 ERDAKDYADSIHAIFVETSAKNAININELFIEI 163

>pdb|1D5C|A Chain A, Crystal Structure Of Plasmodium Falciparum Rab6 Complexed With Gdp Length = 162

Iteration: 1
 Score =  138 bits (348), Expect = 2e-33,   Method: Compositional matrix adjust.
 Identities = 63/150 (42%), Positives = 100/150 (66%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ AVGK+ ++ RF  D F  + ++TIG++F +KTL +    V+ Q+WDTAGQER+R+
Sbjct: 6   FLGEQAVGKTSIITRFXYDTFDNNYQSTIGIDFLSKTLYLDEGPVRLQLWDTAGQERFRS 65
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT RQSF+N  +W++++     K++II LVGNK+DL  LR V 
Sbjct: 66  LIPSYIRDSAAAIVVYDITNRQSFENTTKWIQDILNERGKDVIIALVGNKTDLGDLRKVT 125
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E+  + A++    F ETSA    N+++ F
Sbjct: 126 YEEGXQKAQEYNTXFHETSAKAGHNIKVLF 155

>pdb|4FMC|F Chain F, Espg-Rab1 Complex Length = 117

Iteration: 1
 Score =  136 bits (343), Expect = 7e-33,   Method: Compositional matrix adjust.
 Identities = 63/115 (54%), Positives = 88/115 (76%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 3   LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 62
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET 115
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T
Sbjct: 63  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTT 117

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score =  135 bits (340), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 70/156 (44%), Positives = 99/156 (63%), Gaps = 3/156 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G++AVGKS ++ RF  ++F+ + + TIG  F T+ + I+   VK +IWDTAGQER+ +
Sbjct: 8   LLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFAS 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL---ETLR 117
           +   YYR A  A++VYD+TK QSF     W++EL   A K+III LVGNK D       R
Sbjct: 68  LAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGER 127
Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            V  E+ ++ AE++GL F ETSA    NV   FL +
Sbjct: 128 KVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGI 163

>pdb|1X3S|A Chain A, Crystal Structure Of Human Rab18 In Complex With Gppnhp Length = 195

Iteration: 1
 Score =  135 bits (339), Expect = 2e-32,   Method: Compositional matrix adjust.
 Identities = 72/158 (45%), Positives = 97/158 (61%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S VGKS LL RF  D F  +  ATIGV+F+ KT+ +     K  IWDTAGQER+R 
Sbjct: 20  IIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRT 79
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIII-MLVGNKSDLETLRAV 119
           +T +YYRGA G +LVYD+T+R +F  +  WL EL  +  +N I+  LVGNK D E  R V
Sbjct: 80  LTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNXLVGNKIDKEN-REV 138
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
              +  +FA K    F+E SA     V+ AF  ++ +I
Sbjct: 139 DRNEGLKFARKHSXLFIEASAKTCDGVQCAFEELVEKI 176

>pdb|2Y8E|A Chain A, Crystal Structure Of D. Melanogaster Rab6 Gtpase Bound To Gmppnp Length = 179

Iteration: 1
 Score =  134 bits (338), Expect = 3e-32,   Method: Compositional matrix adjust.
 Identities = 62/150 (41%), Positives = 99/150 (66%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAGQER+R+
Sbjct: 19  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 78
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF   ++W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 79  LIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVS 138
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
           TE+ +  A++  + F+ETSA    NV+  F
Sbjct: 139 TEEGERKAKELNVMFIETSAKAGYNVKQLF 168

>pdb|2FE4|A Chain A, The Crystal Structure Of Human Neuronal Rab6b In Its Inactive Gdp-Bound Form Length = 171

Iteration: 1
 Score =  132 bits (333), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 60/150 (40%), Positives = 99/150 (66%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAGQER+R+
Sbjct: 7   FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF   ++W++++R     ++IIMLVGNK+DL   R + 
Sbjct: 67  LIPSYIRDSTVAVVVYDITNLNSFQQTSKWIDDVRTERGSDVIIMLVGNKTDLADKRQIT 126
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E+ ++ A++  + F+ETSA    NV+  F
Sbjct: 127 IEEGEQRAKELSVMFIETSAKTGYNVKQLF 156

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 66/165 (40%), Positives = 102/165 (61%), Gaps = 6/165 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L GD+AVGKS  L R  ++EF  +  AT+GV+FQ KTL++  +    Q+WDTAGQER+R+
Sbjct: 33  LAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRS 92
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL------E 114
           +  +Y+R A G +L+YD+T  +SF N+  W++ +   A + + IMLVGNK+D+      E
Sbjct: 93  IAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATE 152
Query: 115 TLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             + VP    ++ A   G  F ETSA + +N+  A L +  E+ +
Sbjct: 153 GQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK 197

>pdb|1YZQ|A Chain A, Gppnhp-Bound Rab6 Gtpase Length = 170

Iteration: 1
 Score =  132 bits (331), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 60/150 (40%), Positives = 97/150 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + ++ Q+WDTAGQER+R+
Sbjct: 11  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 71  LIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E+ +  A++  + F+ETSA    NV+  F
Sbjct: 131 IEEGERKAKELNVMFIETSAKAGYNVKQLF 160

>pdb|2GIL|A Chain A, Structure Of The Extremely Slow Gtpase Rab6a In The Gtp Bound Form At 1.8 Resolution Length = 162

Iteration: 1
 Score =  131 bits (329), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 61/150 (40%), Positives = 97/150 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAGQER+R+
Sbjct: 6   FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 65
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 66  LIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 125
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E+ +  A++  + F+ETSA    NV+  F
Sbjct: 126 IEEGERKAKELNVMFIETSAKAGYNVKQLF 155

>pdb|3BC1|A Chain A, Crystal Structure Of The Complex Rab27a-slp2a Length = 195

Iteration: 1
 Score =  129 bits (323), Expect = 1e-30,   Method: Compositional matrix adjust.
 Identities = 68/169 (40%), Positives = 106/169 (62%), Gaps = 11/169 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------HKNVKAQIWD 51
           +GDS VGK+ +L ++   +F+     T+G++F+ K +V             + +  Q+WD
Sbjct: 17  LGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWD 76
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNK 110
           TAG ER+R++T+A++R A+G +L++D+T  QSF NV  W+ +L+ HA  +N  I+L GNK
Sbjct: 77  TAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNK 136
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           SDLE  RAV  E+A+E AEK G+ + ETSA   TN+  A   +L  I +
Sbjct: 137 SDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMK 185

>pdb|4DKX|A Chain A, Crystal Structure Of The Rab 6a'(Q72l) Length = 216

Iteration: 1
 Score =  129 bits (323), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 60/153 (39%), Positives = 97/153 (63%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + ++ Q+WDTAG ER+R+
Sbjct: 18  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRS 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 78  LIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 137
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            E+ +  A++  + F+ETSA    NV+  F  V
Sbjct: 138 IEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 170

>pdb|3CWZ|A Chain A, Strucure Of Rab6(Gtp)-R6ip1 Complex Length = 188

Iteration: 1
 Score =  128 bits (322), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 60/150 (40%), Positives = 96/150 (64%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAG ER+R+
Sbjct: 11  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRS 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 71  LIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAF 150
            E+ +  A++  + F+ETSA    NV+  F
Sbjct: 131 IEEGERKAKELNVMFIETSAKAGYNVKQLF 160

>pdb|2F7S|A Chain A, The Crystal Structure Of Human Rab27b Bound To Gdp Length = 217

Iteration: 1
 Score =  128 bits (321), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 67/169 (39%), Positives = 107/169 (63%), Gaps = 11/169 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V + +           V  Q+WD
Sbjct: 31  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWD 90
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNK 110
           TAGQER+R++T+A++R A+G +L++D+T +QSF NV  W+ +L+ +A  +N  I+L+GNK
Sbjct: 91  TAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNK 150
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           +DL   R V    A+E A+K G+ + ETSA    NVE A  T+L  I +
Sbjct: 151 ADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMK 199

>pdb|3BBP|A Chain A, Rab6-Gtp:gcc185 Rab Binding Domain Complex Length = 211

Iteration: 1
 Score =  128 bits (321), Expect = 3e-30,   Method: Compositional matrix adjust.
 Identities = 61/153 (39%), Positives = 97/153 (63%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAG ER+R+
Sbjct: 21  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRS 80
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 81  LIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 140
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            E+ +  A++  + F+ETSA    NV+  F  V
Sbjct: 141 IEEGERKAKELNVMFIETSAKAGYNVKQLFRRV 173

>pdb|2IEZ|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 220

Iteration: 1
 Score =  125 bits (313), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 67/173 (38%), Positives = 107/173 (61%), Gaps = 11/173 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V   +           V  Q+WD
Sbjct: 17  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWD 76
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNK 110
           TAG ER+R++T+A++R A+G +L++D+T +QSF NV  W+ +L+ +A  +N  I+L+GNK
Sbjct: 77  TAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNK 136
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           +DL   R V    A+E AEK G+ + ETSA    NVE +  T+L  I + + K
Sbjct: 137 ADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189

>pdb|2IF0|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Monoclinic Space Group Length = 200

Iteration: 1
 Score =  124 bits (312), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 67/173 (38%), Positives = 107/173 (61%), Gaps = 11/173 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V   +           V  Q+WD
Sbjct: 17  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWD 76
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNK 110
           TAG ER+R++T+A++R A+G +L++D+T +QSF NV  W+ +L+ +A  +N  I+L+GNK
Sbjct: 77  TAGLERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNK 136
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           +DL   R V    A+E AEK G+ + ETSA    NVE +  T+L  I + + K
Sbjct: 137 ADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIMKRMEK 189

>pdb|1Z08|A Chain A, Gppnhp-Bound Rab21 Q53g Mutant Gtpase Length = 170

Iteration: 1
 Score =  124 bits (311), Expect = 4e-29,   Method: Compositional matrix adjust.
 Identities = 65/153 (42%), Positives = 90/153 (58%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+     T+G  F TK L I  K V   IWDTAGQER+ A
Sbjct: 11  LLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHA 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR + GA+LVYDIT   SF  V  W++ELR      I + +VGNK DLE  R V 
Sbjct: 71  LGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +AE  G     TSA ++  +E  FL +
Sbjct: 131 IQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|1YZT|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.05 A Resolution Length = 184

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 64/153 (41%), Positives = 89/153 (58%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+     T+   F TK L I  K V   IWDTAGQER+ A
Sbjct: 25  LLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHA 84
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR + GA+LVYDIT   SF  V  W++ELR      I + +VGNK DLE  R V 
Sbjct: 85  LGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS 144
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +AE  G     TSA ++  +E  FL +
Sbjct: 145 IQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 177

>pdb|2ZET|A Chain A, Crystal Structure Of The Small Gtpase Rab27b Complexed With The Slp Homology Domain Of Slac2-AMELANOPHILIN Length = 203

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/173 (38%), Positives = 103/173 (59%), Gaps = 11/173 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V   +           V  Q+WD
Sbjct: 17  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWD 76
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNK 110
           TAG ER+R++T+A++R A G +L +D+T +QSF NV  W  +L+ +A  +N  I+L+GNK
Sbjct: 77  TAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVLIGNK 136
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           +DL   R V    A+E AEK G+ + ETSA    NVE +  T+L  I +   K
Sbjct: 137 ADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|2IEY|A Chain A, Crystal Structure Of Mouse Rab27b Bound To Gdp In Hexagonal Space Group Length = 195

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 67/173 (38%), Positives = 103/173 (59%), Gaps = 11/173 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIWD 51
           +GDS VGK+  L R+  ++F+     T+G++F+ K +V   +           V  Q+WD
Sbjct: 17  LGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYDTQGADGASGKAFKVHLQLWD 76
Query: 52  TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNK 110
           TAG ER+R++T+A++R A G +L +D+T +QSF NV  W  +L+ +A  +N  I+L+GNK
Sbjct: 77  TAGLERFRSLTTAFFRDAXGFLLXFDLTSQQSFLNVRNWXSQLQANAYCENPDIVLIGNK 136
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           +DL   R V    A+E AEK G+ + ETSA    NVE +  T+L  I +   K
Sbjct: 137 ADLPDQREVNERQARELAEKYGIPYFETSAATGQNVEKSVETLLDLIXKRXEK 189

>pdb|1YZU|A Chain A, Gppnhp-Bound Rab21 Gtpase At 2.50 A Resolution Length = 170

Iteration: 1
 Score =  120 bits (302), Expect = 4e-28,   Method: Compositional matrix adjust.
 Identities = 64/153 (41%), Positives = 89/153 (58%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+     T+   F TK L I  K V   IWDTAGQER+ A
Sbjct: 11  LLGEGCVGKTSLVLRYCENKFNDKHITTLQASFLTKKLNIGGKRVNLAIWDTAGQERFHA 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR + GA+LVYDIT   SF  V  W++ELR      I + +VGNK DLE  R V 
Sbjct: 71  LGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS 130
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTV 153
            ++A+ +AE  G     TSA ++  +E  FL +
Sbjct: 131 IQEAESYAESVGAKHYHTSAKQNKGIEELFLDL 163

>pdb|1VG0|B Chain B, The Crystal Structures Of The Rep-1 Protein In Complex With Monoprenylated Rab7 Protein Length = 207

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 98/158 (62%), Gaps = 6/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAGQER+++
Sbjct: 13  ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W +E    A     +N   +++GNK DLE  
Sbjct: 73  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN- 131
Query: 117 RAVPTEDAKEFA-EKEGLCFMETSALESTNVELAFLTV 153
           R V T+ A+ +   K  + + ETSA E+ NVE AF T+
Sbjct: 132 RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|1Z06|A Chain A, Gppnhp-Bound Rab33 Gtpase Length = 189

Iteration: 1
 Score =  118 bits (295), Expect = 3e-27,   Method: Compositional matrix adjust.
 Identities = 65/158 (41%), Positives = 97/158 (61%), Gaps = 5/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR- 59
           +IGDS VGK+ L  RF    F   ++ATIGV+F+ + + I  + +K Q+WDTAGQER+R 
Sbjct: 25  VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRK 84
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKN-IIIMLVGNKSDLETLRA 118
           ++   YYR     + VYD+T   SF ++  W+EE + H   N I  +LVGNK DL +   
Sbjct: 85  SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ 144
Query: 119 VPTEDAKEFAEKEGLCFMETSAL---ESTNVELAFLTV 153
           VPT+ A++FA+   +   ETSA    ++ +VE  F+T+
Sbjct: 145 VPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 182

>pdb|1VG1|A Chain A, Gdp-bound Rab7 Length = 185

Iteration: 1
 Score =  117 bits (293), Expect = 4e-27,   Method: Compositional matrix adjust.
 Identities = 64/158 (40%), Positives = 98/158 (62%), Gaps = 6/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAGQER+++
Sbjct: 13  ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W +E    A     +N   +++GNK DLE  
Sbjct: 73  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN- 131
Query: 117 RAVPTEDAKEFA-EKEGLCFMETSALESTNVELAFLTV 153
           R V T+ A+ +   K  + + ETSA E+ NVE AF T+
Sbjct: 132 RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|3LAW|A Chain A, Structure Of Gtp-Bound L129f Mutant Rab7 Length = 207

Iteration: 1
 Score =  116 bits (291), Expect = 7e-27,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 97/158 (61%), Gaps = 6/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAGQER+++
Sbjct: 13  ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W +E    A     +N   +++GNK D E  
Sbjct: 73  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDFEN- 131
Query: 117 RAVPTEDAKEFA-EKEGLCFMETSALESTNVELAFLTV 153
           R V T+ A+ +   K  + + ETSA E+ NVE AF T+
Sbjct: 132 RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|2OCB|A Chain A, Crystal Structure Of Human Rab9b In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score =  116 bits (290), Expect = 9e-27,   Method: Compositional matrix adjust.
 Identities = 62/155 (40%), Positives = 97/155 (62%), Gaps = 6/155 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F   +  TIGVEF  + L +  + V  QIWDTAGQER+++
Sbjct: 12  LLGDGGVGKSSLMNRYVTNKFDSQAFHTIGVEFLNRDLEVDGRFVTLQIWDTAGQERFKS 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRGA   +L + +  RQSF+N+  W +E   +AD    ++   +++GNK D E  
Sbjct: 72  LRTPFYRGADCCLLTFSVDDRQSFENLGNWQKEFIYYADVKDPEHFPFVVLGNKVDKED- 130
Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
           R V TE+A+ +  + G   ++ETSA + TNV +AF
Sbjct: 131 RQVTTEEAQTWCMENGDYPYLETSAKDDTNVTVAF 165

>pdb|2G77|B Chain B, Crystal Structure Of Gyp1 Tbc Domain In Complex With Rab33 Gtpase Bound To Gdp And Alf3 Length = 198

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 65/158 (41%), Positives = 94/158 (59%), Gaps = 5/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR- 59
           +IGDS VGK+ L  RF    F   ++ATIGV+F+ + + I  + +K Q+WDTAGQER+R 
Sbjct: 34  VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRK 93
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIII-MLVGNKSDLETLRA 118
           ++   YYR     + VYD T   SF ++  W+EE + H   N I  +LVGNK DL +   
Sbjct: 94  SMVQHYYRNVHAVVFVYDXTNXASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ 153
Query: 119 VPTEDAKEFAEKEGLCFMETSAL---ESTNVELAFLTV 153
           VPT+ A++FA+       ETSA    ++ +VE  F T+
Sbjct: 154 VPTDLAQKFADTHSXPLFETSAKNPNDNDHVEAIFXTL 191

>pdb|1T91|A Chain A, Crystal Structure Of Human Small Gtpase Rab7(Gtp) Length = 207

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 97/158 (61%), Gaps = 6/158 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAG ER+++
Sbjct: 13  ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGLERFQS 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W +E    A     +N   +++GNK DLE  
Sbjct: 73  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN- 131
Query: 117 RAVPTEDAKEFA-EKEGLCFMETSALESTNVELAFLTV 153
           R V T+ A+ +   K  + + ETSA E+ NVE AF T+
Sbjct: 132 RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTI 169

>pdb|1YZL|A Chain A, Gppnhp-Bound Rab9 Gtpase Length = 179

Iteration: 1
 Score =  115 bits (287), Expect = 2e-26,   Method: Compositional matrix adjust.
 Identities = 62/155 (40%), Positives = 95/155 (61%), Gaps = 6/155 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 16  LLGDGGVGKSSLMNRYVTNKFDSQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD    ++   +++GNK+D++  
Sbjct: 76  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKTDIKE- 134
Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
           R V TE+A+ + +  G   + ETSA +STNV  AF
Sbjct: 135 RQVSTEEAQAWCKDNGDYPYFETSAKDSTNVAAAF 169

>pdb|1KY2|A Chain A, Gppnhp-Bound Ypt7p At 1.6 A Resolution Length = 182

Iteration: 1
 Score =  114 bits (286), Expect = 3e-26,   Method: Compositional matrix adjust.
 Identities = 63/157 (40%), Positives = 96/157 (61%), Gaps = 7/157 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKA-QIWDTAGQERYR 59
           ++GDS VGK+ L+ R+  D++S   KATIG +F TK + +    V   Q+WDTAGQER++
Sbjct: 13  ILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQ 72
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKN----IIIMLVGNKSDLET 115
           ++  A+YRGA   +LVYD+T   SF+N+  W +E   HA+ N       +++GNK D E 
Sbjct: 73  SLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 132
Query: 116 LRAVPTE-DAKEFAEKEG-LCFMETSALESTNVELAF 150
            + + +E  A+E A+  G +    TSA  + NV+ AF
Sbjct: 133 SKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAF 169

>pdb|1S8F|A Chain A, Crystal Structure Of Rab9 Complexed To Gdp Reveals A Dimer With An Active Conformation Of Switch Ii Length = 177

Iteration: 1
 Score =  112 bits (279), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 61/155 (39%), Positives = 92/155 (59%), Gaps = 6/155 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 14  LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD    ++   +++GNK D+   
Sbjct: 74  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE- 132
Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
           R V TE+A+ +    G   + ETSA ++TNV  AF
Sbjct: 133 RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 167

>pdb|1WMS|A Chain A, High Resolution Crystal Structure Of Human Rab9 Gtpase: A Novel Antiviral Drug Target Length = 177

Iteration: 1
 Score =  111 bits (278), Expect = 2e-25,   Method: Compositional matrix adjust.
 Identities = 61/155 (39%), Positives = 93/155 (60%), Gaps = 6/155 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 12  LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD    ++   +++GNK D+ + 
Sbjct: 72  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDI-SE 130
Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
           R V TE+A+ +    G   + ETSA ++TNV  AF
Sbjct: 131 RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAF 165

>pdb|1Z22|A Chain A, Gdp-Bound Rab23 Gtpase Crystallized In C222(1) Space Group Length = 168

Iteration: 1
 Score =  109 bits (273), Expect = 9e-25,   Method: Compositional matrix adjust.
 Identities = 59/166 (35%), Positives = 99/166 (59%), Gaps = 9/166 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G+ AVGKS ++ R+ +  F+ D K TIGV+F  + + ++ ++V+  +WDTAGQE + A
Sbjct: 10  VVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDA 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T AYYRGA   +LV+  T R+SF+ ++ W E++      +I   LV NK DL     + 
Sbjct: 70  ITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIK 128
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            E+A+  A++  L F  TS  E  NV        +E+++ +++K L
Sbjct: 129 NEEAEGLAKRLKLRFYRTSVKEDLNV--------SEVFKYLAEKHL 166

>pdb|2BOV|A Chain A, Molecular Recognition Of An Adp-Ribosylating Clostridium Botulinum C3 Exoenzyme By Rala Gtpase Length = 206

Iteration: 1
 Score =  106 bits (264), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 92/158 (58%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 19  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQEDYAA 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 78  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 137
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI
Sbjct: 138 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 175

>pdb|2A78|A Chain A, Crystal Structure Of The C3bot-Rala Complex Reveals A Novel Type Of Action Of A Bacterial Exoenzyme Length = 187

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 92/158 (58%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 23  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQEDYAA 81
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 82  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 141
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI
Sbjct: 142 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 179

>pdb|1UAD|A Chain A, Crystal Structure Of The Rala-gppnhp-sec5 Ral-binding Domain Complex Length = 175

Iteration: 1
 Score =  105 bits (263), Expect = 1e-23,   Method: Compositional matrix adjust.
 Identities = 63/158 (39%), Positives = 92/158 (58%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 11  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQEDYAA 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 70  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI
Sbjct: 130 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|2KWI|A Chain A, Ralb-Rlip76 (Ralbp1) Complex Length = 178

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 63/159 (39%), Positives = 96/159 (60%), Gaps = 3/159 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAG E Y A
Sbjct: 12  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGLEDYAA 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKN-IIIMLVGNKSDLETLRA 118
           +   Y+R   G +LV+ IT+ +SF   A + E+ LR  A+++ I +++VGNKSDLE  R 
Sbjct: 71  IRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQ 130
Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           VP E+A+  AE+ G+ ++ETSA    NV+  F  ++ EI
Sbjct: 131 VPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 169

>pdb|2KE5|A Chain A, Solution Structure And Dynamics Of The Small Gtpase Ralb In Its Active Conformation: Significance For Effector Protein Binding Length = 174

Iteration: 1
 Score =  104 bits (260), Expect = 3e-23,   Method: Compositional matrix adjust.
 Identities = 63/159 (39%), Positives = 96/159 (60%), Gaps = 3/159 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAG E Y A
Sbjct: 8   MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGLEDYAA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKN-IIIMLVGNKSDLETLRA 118
           +   Y+R   G +LV+ IT+ +SF   A + E+ LR  A+++ I +++VGNKSDLE  R 
Sbjct: 67  IRDNYFRSGEGFLLVFSITEHESFTATAEFREQILRVKAEEDKIPLLVVGNKSDLEERRQ 126
Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           VP E+A+  AE+ G+ ++ETSA    NV+  F  ++ EI
Sbjct: 127 VPVEEARSKAEEWGVQYVETSAKTRANVDKVFFDLMREI 165

>pdb|1U8Y|A Chain A, Crystal Structures Of Ral-Gppnhp And Ral-Gdp Reveal Two Novel Binding Sites That Are Also Present In Ras And Rap Length = 168

Iteration: 1
 Score =  104 bits (259), Expect = 4e-23,   Method: Compositional matrix adjust.
 Identities = 62/158 (39%), Positives = 92/158 (58%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 9   MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGQEDYAA 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 68  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 127
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+AK  A++  + ++ETSA    NV+  F  ++ EI
Sbjct: 128 SVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREI 165

>pdb|3CLV|A Chain A, Crystal Structure Of Rab5a From Plasmodium Falciparum, Pfb0500c Length = 208

Iteration: 1
 Score =  103 bits (256), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 61/196 (31%), Positives = 96/196 (48%), Gaps = 40/196 (20%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-------------------- 40
           L+G+S+VGKS ++ R  +D F  ++  TIG  F T  + +                    
Sbjct: 12  LLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSI 71
Query: 41  -----------HHK------NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQS 83
                      H+       N+K  IWDTAGQERY ++   YYRGA  A++V+DI+   +
Sbjct: 72  NDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNT 131
Query: 84  FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALES 143
            D    W+ +L+     N II+LV NK D    + V   + +++A+   L F++TSA   
Sbjct: 132 LDRAKTWVNQLK--ISSNYIIILVANKIDKNKFQ-VDILEVQKYAQDNNLLFIQTSAKTG 188
Query: 144 TNVELAFLTVLTEIYR 159
           TN++  F  +  EIY+
Sbjct: 189 TNIKNIFYMLAEEIYK 204

>pdb|1ZC3|A Chain A, Crystal Structure Of The Ral-Binding Domain Of Exo84 In Complex With The Active Rala Length = 175

Iteration: 1
 Score =  102 bits (254), Expect = 1e-22,   Method: Compositional matrix adjust.
 Identities = 62/158 (39%), Positives = 91/158 (57%), Gaps = 2/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAG E Y A
Sbjct: 11  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKK-VVLDGEEVQIDILDTAGLEDYAA 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 70  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI
Sbjct: 130 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREI 167

>pdb|2HXS|A Chain A, Crystal Structure Of Rab28a Gtpase In The Inactive (Gdp-3'p- Bound) Form Length = 178

Iteration: 1
 Score = 95.9 bits (237), Expect = 1e-20,   Method: Compositional matrix adjust.
 Identities = 58/164 (35%), Positives = 86/164 (52%), Gaps = 4/164 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYR 59
           ++GD A GK+ L   FA++ F    K TIG++F  + + +  + NV  QIWD  GQ    
Sbjct: 11  VLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGG 70
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARW---LEELRGHADKNIIIMLVGNKSDLETL 116
            +   Y  GA G +LVYDIT  QSF+N+  W   ++++   ++   ++ LVGNK DLE +
Sbjct: 71  KMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM 130
Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
           R +  E    F ++ G      SA    +V L F  V  EI  I
Sbjct: 131 RTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGI 174

>pdb|4DJT|A Chain A, Crystal Structure Of A Nuclear Gtp-Binding Protein From Encephalitozoon Cuniculi Bound To Gdp-Mg2+ Length = 218

Iteration: 1
 Score = 88.6 bits (218), Expect = 2e-18,   Method: Compositional matrix adjust.
 Identities = 50/152 (32%), Positives = 77/152 (50%), Gaps = 1/152 (0%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV-KAQIWDTAGQERYR 59
           LIGD  VGK+  + R     F  +  AT+G      T +    NV K  +WDTAGQE+  
Sbjct: 16  LIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKA 75
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
            +   YY GA GA+L +D+T R +  N+ARW++E +        I++  NK D++  + +
Sbjct: 76  VLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKI 135
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFL 151
             +   E  + +   + E SA  + N  L FL
Sbjct: 136 SKKLVMEVLKGKNYEYFEISAKTAHNFGLPFL 167

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 87.8 bits (216), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 55/158 (34%), Positives = 90/158 (56%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 9   VVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++  + E+++   D +++ ++LVGNKSDL + R V
Sbjct: 68  MRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTV 126
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            T+ A++ A   G+ F+ETSA     V+ AF T++ EI
Sbjct: 127 DTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|1QG4|A Chain A, Canine Gdp-Ran F72y Mutant Length = 216

Iteration: 1
 Score = 87.4 bits (215), Expect = 5e-18,   Method: Compositional matrix adjust.
 Identities = 50/151 (33%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE+Y  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKYGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|1WA5|A Chain A, Crystal Structure Of The Exportin Cse1p Complexed With Its Cargo (Kap60p) And Rangtp Length = 176

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 51/151 (33%), Positives = 78/151 (51%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  R V 
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKD-RKVK 132
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
            +    F  K+ L + + SA  + N E  FL
Sbjct: 133 AKSI-VFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|1RRP|A Chain A, Structure Of The Ran-Gppnhp-Ranbd1 Complex Length = 204

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 8   LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 68  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 124
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 125 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 155

>pdb|4DSO|A Chain A, Small-Molecule Ligands Bind To A Distinct Pocket In Ras And Inhibit Sos-Mediated Nucleotide Exchange Activity Length = 189

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 89/158 (56%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 9   VVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++  + E+++   D +++ ++LVGNK DL + R V
Sbjct: 68  MRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTV 126
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            T+ A++ A   G+ F+ETSA     V+ AF T++ EI
Sbjct: 127 DTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|3EA5|A Chain A, Kap95p Binding Induces The Switch Loops Of Rangdp To Adopt The Gtp- Bound Conformation: Implications For Nuclear Import Complex Assembly Dynamics Length = 216

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|3GJ0|A Chain A, Crystal Structure Of Human Rangdp Length = 221

Iteration: 1
 Score = 86.3 bits (212), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 20  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 79
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 80  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 136
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 137 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 167

>pdb|1QG2|A Chain A, Canine Gdp-Ran R76e Mutant Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 1e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LEDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|1A2K|C Chain C, Gdpran-Ntf2 Complex Length = 216

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 77/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|2X19|A Chain A, Crystal Structure Of Importin13 - Rangtp Complex Length = 172

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 51/151 (33%), Positives = 78/151 (51%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     ATIGVE    +   +   +K  +WDTAG E++  
Sbjct: 10  LVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGG 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  R V 
Sbjct: 70  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKE-RKVK 127
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
            +    F  K+ L + + SA  + N E  FL
Sbjct: 128 AKTI-TFHRKKNLQYYDISAKSNYNFEKPFL 157

>pdb|3ICQ|B Chain B, Karyopherin Nuclear State Length = 171

Iteration: 1
 Score = 85.9 bits (211), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 51/151 (33%), Positives = 78/151 (51%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     ATIGVE    +   +   +K  +WDTAG E++  
Sbjct: 9   LVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGG 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  R V 
Sbjct: 69  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKE-RKVK 126
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
            +    F  K+ L + + SA  + N E  FL
Sbjct: 127 AKTI-TFHRKKNLQYYDISAKSNYNFEKPFL 156

>pdb|3M1I|A Chain A, Crystal Structure Of Yeast Crm1 (Xpo1p) In Complex With Yeas (Yrb1p) And Yeast Rangtp (Gsp1pgtp) Length = 219

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     ATIGVE    +   +   +K  +WDTAG E++  
Sbjct: 17  LVGDGGTGKTTFVKRHLTGEFEKKYIATIGVEVHPLSFYTNFGEIKFDVWDTAGLEKFGG 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 77  LRDGYYINAQCAIIMFDVTSRITYKNVPNWHRDLV-RVCENIPIVLCGNKVDVKERKV-- 133
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
                 F  K+ L + + SA  + N E  FL
Sbjct: 134 KAKTITFHRKKNLQYYDISAKSNYNFEKPFL 164

>pdb|1QBK|C Chain C, Structure Of The Karyopherin Beta2-ran Gppnhp Nuclear Transport Complex Length = 216

Iteration: 1
 Score = 85.5 bits (210), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++ +D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIXFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|2BKU|A Chain A, Kap95p:rangtp Complex Length = 177

Iteration: 1
 Score = 85.1 bits (209), Expect = 2e-17,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF      T+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|3OES|A Chain A, Crystal Structure Of The Small Gtpase Rhebl1 Length = 201

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 52/161 (32%), Positives = 82/161 (50%), Gaps = 2/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGK+ L  +F   EFS     T+   + +K + +        + DTAGQ+ Y  
Sbjct: 29  ILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSI 87
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +  ++  G  G +LVY +T   SF  +    ++L  GH    + ++LVGNK+DL   R V
Sbjct: 88  LPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREV 147
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
              + K+ AE  G  FME+SA E+   +  F  V+ EI R+
Sbjct: 148 QAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARV 188

>pdb|1BYU|A Chain A, Canine Gdp-Ran Length = 216

Iteration: 1
 Score = 84.7 bits (208), Expect = 3e-17,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF      T+GVE        +   +K  +WDTAGQE++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVPTLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|3NBY|C Chain C, Crystal Structure Of The Pki Nes-Crm1-Rangtp Nuclear Export Complex Length = 176

Iteration: 1
 Score = 83.6 bits (205), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAG E++  
Sbjct: 11  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGG 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 71  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 127
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 128 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 158

>pdb|3NC1|C Chain C, Crystal Structure Of The Crm1-Rangtp Complex Length = 182

Iteration: 1
 Score = 83.6 bits (205), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAG E++  
Sbjct: 17  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGG 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 77  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 133
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 134 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 164

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 83.6 bits (205), Expect = 7e-17,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 8   VVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTV 125
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            +  A++ A   G+ ++ETSA     VE AF T++ EI
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1AGP|A Chain A, Three-Dimensional Structures And Properties Of A Transforming And A Nontransforming Gly-12 Mutant Of P21-H-Ras Length = 166

Iteration: 1
 Score = 83.2 bits (204), Expect = 8e-17,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 8   VVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTV 125
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            +  A++ A   G+ ++ETSA     VE AF T++ EI
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1JAH|A Chain A, H-Ras P21 Protein Mutant G12p, Complexed With Guanosine-5'- [beta,Gamma-Methylene] Triphosphate And Magnesium Length = 166

Iteration: 1
 Score = 83.2 bits (204), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 8   VVGAPGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAG-RTV 125
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            +  A++ A   G+ ++ETSA     VE AF T++ EI
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|421P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 54/158 (34%), Positives = 86/158 (54%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 8   VVGARGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTV 125
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            +  A++ A   G+ ++ETSA     VE AF T++ EI
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3RAN|A Chain A, Canine Gdp-Ran Q69l Mutant Length = 216

Iteration: 1
 Score = 82.8 bits (203), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 48/151 (31%), Positives = 76/151 (50%), Gaps = 3/151 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAG E++  
Sbjct: 15  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGLEKFGG 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 75  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 131
Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFL 151
              +  F  K+ L + + SA  + N E  FL
Sbjct: 132 KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 162

>pdb|3GJ4|A Chain A, Crystal Structure Of Human Rangdp-Nup153znf3 Complex Length = 221

Iteration: 1
 Score = 82.4 bits (202), Expect = 2e-16,   Method: Compositional matrix adjust.
 Identities = 50/153 (32%), Positives = 77/153 (50%), Gaps = 7/153 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    E      AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 20  LVGDGGTGKTTFVKRHLTGESEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 79
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L     +NI I+L GNK D++  +   
Sbjct: 80  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLV-RVCENIPIVLCGNKVDIKDRKV-- 136
Query: 121 TEDAKE--FAEKEGLCFMETSALESTNVELAFL 151
              AK   F  K+ L + + SA  + N E  FL
Sbjct: 137 --KAKSIVFHRKKNLQYYDISAKSNYNFEKPFL 167

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 80.5 bits (197), Expect = 5e-16,   Method: Compositional matrix adjust.
 Identities = 57/157 (36%), Positives = 84/157 (53%), Gaps = 3/157 (1%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 92
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF ++  + E+++   D + + M LVGNK DL T R V T+ A E 
Sbjct: 93  GEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHEL 151
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           A+  G+ F+ETSA     VE AF T++ EI +   KK
Sbjct: 152 AKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKK 188

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 80.1 bits (196), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 85/150 (56%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++  + E+++   D +++ ++LVGNKSDL + R V T+ A++ 
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ F+ETSA     V+ AF T++ EI
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 80.1 bits (196), Expect = 7e-16,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 85/150 (56%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 17  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 75
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++  + E+++   D +++ ++LVGNKSDL + R V T+ A++ 
Sbjct: 76  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKSDLPS-RTVDTKQAQDL 134
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ F+ETSA     V+ AF T++ EI
Sbjct: 135 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 164

>pdb|2FN4|A Chain A, The Crystal Structure Of Human Ras-Related Protein, Rras, In The Gdp- Bound State Length = 181

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 51/143 (35%), Positives = 72/143 (50%), Gaps = 2/143 (1%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +F +  F  D   TI   + TK   +     +  I DTAGQE + A+   Y R 
Sbjct: 22  KSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILDTAGQEEFGAMREQYMRA 80
Query: 69  AVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF 127
             G +LV+ I  RQSF+ V +   + LR     +  ++LVGNK+DLE+ R VP  +A  F
Sbjct: 81  GHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAF 140
Query: 128 AEKEGLCFMETSALESTNVELAF 150
                + + E SA    NV+ AF
Sbjct: 141 GASHHVAYFEASAKLRLNVDEAF 163

>pdb|2ERY|A Chain A, The Crystal Structure Of The Ras Related Protein Rras2 (Rras2) In The Gdp Bound State Length = 172

Iteration: 1
 Score = 79.7 bits (195), Expect = 1e-15,   Method: Compositional matrix adjust.
 Identities = 51/156 (32%), Positives = 84/156 (53%), Gaps = 6/156 (3%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +F +  F  D   TI   + TK  VI  +  +  I DTAGQE + A+   Y R 
Sbjct: 18  KSALTIQFIQSYFVTDYDPTIEDSY-TKQCVIDDRAARLDILDTAGQEEFGAMREQYMRT 76
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKN-IIIMLVGNKSDLETLRAVPTEDAKEF 127
             G +LV+ +T R SF+ + ++  ++    D++   ++L+GNK+DL+  R V  E+ ++ 
Sbjct: 77  GEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQL 136
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           A +  + +ME SA    NV+ AF     E+ R++ K
Sbjct: 137 ARQLKVTYMEASAKIRMNVDQAF----HELVRVIRK 168

>pdb|2CL0|X Chain X, Crystal Structure Analysis Of A Fluorescent Form Of H-Ras P21 In Complex With Gppnhp Length = 166

Iteration: 1
 Score = 78.2 bits (191), Expect = 3e-15,   Method: Compositional matrix adjust.
 Identities = 52/150 (34%), Positives = 82/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDECDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNKSDL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 189

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2NTY|C Chain C, Rop4-Gdp-Prone8 Length = 180

Iteration: 1
 Score = 77.0 bits (188), Expect = 6e-15,   Method: Compositional matrix adjust.
 Identities = 47/142 (33%), Positives = 73/142 (51%), Gaps = 10/142 (7%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ +L  +  + F  D   T+   F +  +V+    V   +WDTAGQE Y  +
Sbjct: 12  VGDGAVGKTCMLISYTSNTFPTDYVPTVFDNF-SANVVVDGNTVNLGLWDTAGQEDYNRL 70
Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
               YRGA   +L + +  + S++NVA +W+ ELR H    + I+LVG K DL       
Sbjct: 71  RPLSYRGADVFILAFSLISKASYENVAKKWIPELR-HYAPGVPIILVGTKLDLR------ 123
Query: 121 TEDAKEFAEKEGLCFMETSALE 142
            +D + F +  G   + T+  E
Sbjct: 124 -DDKQFFIDHPGAVPITTNQGE 144

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 83/150 (55%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 34  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRT 92
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++  + E+++   D +++ ++LVGNK DL + R V T+ A++ 
Sbjct: 93  GEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDL 151
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ F+ETSA     V+ AF T++ EI
Sbjct: 152 ARSYGIPFIETSAKTRQGVDDAFYTLVREI 181

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 76.6 bits (187), Expect = 9e-15,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 23  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 81
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 82  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 140
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 141 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 170

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 76.6 bits (187), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 79
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 138
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|2J1L|A Chain A, Crystal Structure Of Human Rho-Related Gtp-Binding Protein Rhod Length = 214

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 54/164 (32%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ LL  FA   F      T+  E     L +  K V   IWDTAGQ+ Y  
Sbjct: 39  LVGDGGCGKTSLLMVFADGAFPESYTPTV-FERYMVNLQVKGKPVHLHIWDTAGQDDYDR 97
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +   +Y  A   +L +D+T   SFDN+  RW  E+  H  K + I++VG K+DL      
Sbjct: 98  LRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVN-HFCKKVPIIVVGCKTDLRKDKSL 156
Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                   L  V     +E A   G + ++E SA    NV   F
Sbjct: 157 VNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>pdb|2YC2|C Chain C, Intraflagellar Transport Complex 25-27 From Chlamydomonas Length = 208

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 52/168 (30%), Positives = 87/168 (51%), Gaps = 9/168 (5%)
Query: 1   LIGDSAVGKSQLLARFAR--DEFSLDSKATIGVEFQTKTLVIHHKNVKAQIW--DTAGQE 56
           ++G++ VGKS L++ F     +F  D   T GVE     + I    V  +++  DTAG +
Sbjct: 25  VVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSD 84
Query: 57  RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL---RGHADKNIIIMLVGNKSDL 113
            Y+   S Y+ G   A+LV+D++  +SF++   W E L   R   ++ +  +LV NK+DL
Sbjct: 85  LYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDL 144
Query: 114 ETLR-AVPTEDAKEFAEKEGLCFMETSA-LESTNVELAFLTVLTEIYR 159
              R  V  + A+++A    L F + SA     + +  FL++ T  YR
Sbjct: 145 PPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYR 192

>pdb|221P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEESYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 76.3 bits (186), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 75.9 bits (185), Expect = 1e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDEYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|6Q21|A Chain A, Molecular Switch For Signal Transduction: Structural Differences Between Active And Inactive Forms Of Protooncogenic Ras Proteins Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2Q21|A Chain A, Crystal Structures At 2.2 Angstroms Resolution Of The Catalytic Domains Of Normal Ras Protein And An Oncogenic Mutant Complexed With Gsp Length = 171

Iteration: 1
 Score = 75.9 bits (185), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEFDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1GUA|A Chain A, Human Rap1a, Residues 1-167, Double Mutant (E30d,K31e) Complexed With Gppnhp And The Ras-Binding-Domain Of Human C-Raf1, Residues 51-131 Length = 167

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 84/161 (52%), Gaps = 3/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  +   TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 8   VLGSGGVGKSALTVQFVQGIFVDEYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E+ LR    +++ ++LVGNK DLE  R V
Sbjct: 67  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 126
Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +   C F+E+SA    NV   F  ++ +I R
Sbjct: 127 GKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|3BWD|D Chain D, Crystal Structure Of The Plant Rho Protein Rop5 Length = 182

Iteration: 1
 Score = 75.5 bits (184), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 44/132 (33%), Positives = 70/132 (53%), Gaps = 10/132 (7%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ LL  +  + F  D   T+   F +  +V++   V   +WDTAGQE Y  +
Sbjct: 14  VGDGAVGKTCLLISYTSNTFPTDYVPTVFDNF-SANVVVNGATVNLGLWDTAGQEDYNRL 72
Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
               YRGA   +L + +  + S++NV+ +W+ EL+ H    + I+LVG K DL       
Sbjct: 73  RPLSYRGADVFILAFSLISKASYENVSKKWIPELK-HYAPGVPIVLVGTKLDLR------ 125
Query: 121 TEDAKEFAEKEG 132
            +D + F +  G
Sbjct: 126 -DDKQFFIDHPG 136

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F      TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVEKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 75.1 bits (183), Expect = 2e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   +I   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 22  KSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 80
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 81  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 139
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 140 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 169

>pdb|2QUZ|A Chain A, Crystal Structure Of The Activating H-Rask117r Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGN+ DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNRCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1LFD|B Chain B, Crystal Structure Of The Active Ras Protein Complexed With The Ras-interacting Domain Of Ralgds Length = 167

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F      TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDKYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3SEA|A Chain A, Structure Of Rheb-Y35a Mutant In Gdp- And Gmppnp-Bound Forms Length = 167

Iteration: 1
 Score = 75.1 bits (183), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 77/157 (49%), Gaps = 2/157 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F   +  TI   F TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 9   ILGYRSVGKSSLTIQFVEGQFVDSADPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSI 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     +L     K  I IMLVGNK DL   R +
Sbjct: 68  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 127
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE 156
             E+ K  AE     F+E+SA E+      F  ++ E
Sbjct: 128 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 164

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/150 (34%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGEICLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           K+ L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KNALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1IAQ|A Chain A, C-H-Ras P21 Protein Mutant With Thr 35 Replaced By Ser (T35s) Complexed With Guanosine-5'-[b,G-Imido] Triphosphate Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   +I   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPSIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DT GQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTGGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|3BRW|D Chain D, Structure Of The Rap-Rapgap Complex Length = 167

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 82/161 (50%), Gaps = 3/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 8   VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTEQFTA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E+ LR     ++ ++LVGNK DLE  R V
Sbjct: 67  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVV 126
Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +   C F+E+SA    NV   F  ++ +I R
Sbjct: 127 GKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|1C1Y|A Chain A, Crystal Structure Of Rap.Gmppnp In Complex With The Ras- Binding-Domain Of C-Raf1 Kinase (Rafrbd) Length = 167

Iteration: 1
 Score = 74.7 bits (182), Expect = 3e-14,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 83/161 (51%), Gaps = 3/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 8   VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTA 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E+ LR    +++ ++LVGNK DLE  R V
Sbjct: 67  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 126
Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +   C F+E+SA    NV   F  ++ +I R
Sbjct: 127 GKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>pdb|3T5G|A Chain A, Structure Of Fully Modified Farnesylated Rheb In Complex With Pde6d Length = 181

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 76/157 (48%), Gaps = 2/157 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F      TI   F TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 11  ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSI 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     +L     K  I IMLVGNK DL   R +
Sbjct: 70  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE 156
             E+ K  AE     F+E+SA E+      F  ++ E
Sbjct: 130 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>pdb|521P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DT GQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTTGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2L0X|A Chain A, Solution Structure Of The 21 Kda Gtpase Rheb Bound To Gdp Length = 169

Iteration: 1
 Score = 74.3 bits (181), Expect = 4e-14,   Method: Compositional matrix adjust.
 Identities = 53/161 (32%), Positives = 78/161 (48%), Gaps = 2/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F      TI   F TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 6   ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSI 64
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     +L     K  I IMLVGNK DL   R +
Sbjct: 65  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 124
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
             E+ K  AE     F+E+SA E+      F  ++ E  +I
Sbjct: 125 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKI 165

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 81/150 (54%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG+E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGKEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2X1V|A Chain A, Crystal Structure Of The Activating H-Ras I163f Mutant In Costello Syndrome, Bound To Mg-Gdp Length = 166

Iteration: 1
 Score = 74.3 bits (181), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ E 
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREF 163

>pdb|4DXA|A Chain A, Co-Crystal Structure Of Rap1 In Complex With Krit1 Length = 169

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 51/161 (31%), Positives = 82/161 (50%), Gaps = 3/161 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 10  VLGSVGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDAQQCMLEILDTAGTEQFTA 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E+ LR     ++ ++LVGNK DLE  R V
Sbjct: 69  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTDDVPMILVGNKCDLEDERVV 128
Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +   C F+E+SA    NV   F  ++ +I R
Sbjct: 129 GKEQGQNLARQWNNCAFLESSAKSKINVNEIFYDLVRQINR 169

>pdb|1XTQ|A Chain A, Structure Of Small Gtpase Human Rheb In Complex With Gdp Length = 177

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 52/157 (33%), Positives = 76/157 (48%), Gaps = 2/157 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F      TI   F TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 11  ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSI 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     +L     K  I IMLVGNK DL   R +
Sbjct: 70  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE 156
             E+ K  AE     F+E+SA E+      F  ++ E
Sbjct: 130 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILE 166

>pdb|621P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 73.9 bits (180), Expect = 5e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGHEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2WBL|C Chain C, Three-Dimensional Structure Of A Binary Rop-Prone Complex Length = 180

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 52/165 (31%), Positives = 82/165 (49%), Gaps = 14/165 (8%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ +L  +  + F  D   T+   F +  +V+    V   +WDTAGQE Y  +
Sbjct: 12  VGDGAVGKTCMLISYTGNTFPTDYVPTVFDNF-SANVVVDGSTVNLGLWDTAGQEDYNRL 70
Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ETL 116
               YRGA   +L + +  + S++N+  +WL EL+ H    I I+LVG K DL    + L
Sbjct: 71  RPLSYRGADVFLLAFSLISKASYENIHKKWLPELK-HYAPGIPIVLVGTKLDLRDDKQFL 129
Query: 117 RAVPTEDAKEFAEKEGL-------CFMETSALESTNVELAFLTVL 154
           +  P   +   A+ E L        ++E S+    NV+  F T +
Sbjct: 130 KDHPGAASITTAQGEELRKMIGAVRYLECSSKTQQNVKAVFDTAI 174

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 73.6 bits (179), Expect = 8e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTA QE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 73.2 bits (178), Expect = 9e-14,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTA QE Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAAQEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKXDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 21  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRT 79
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 80  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDL 138
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 139 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 168

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 73.2 bits (178), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGGEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGVEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|721P|A Chain A, Three-Dimensional Structures Of H-Ras P21 Mutants: Molecular Basis For Their Inability To Function As Signal Switch Molecules Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGLEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 72.8 bits (177), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETXLLDILDTAGGEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAG E Y A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGIEEYSAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2ATV|A Chain A, The Crystal Structure Of Human Rerg In The Gdp Bound State Length = 196

Iteration: 1
 Score = 72.4 bits (176), Expect = 1e-13,   Method: Compositional matrix adjust.
 Identities = 55/163 (33%), Positives = 83/163 (50%), Gaps = 8/163 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G + VGKS L+ RF    F  +   T+   ++ +   I  + V  +I DTAGQE    
Sbjct: 33  IFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQED-TI 90
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV---ARWLEELRGHADKNIIIMLVGNKSDLETLR 117
               + R   G +LVYDIT R SF+ V      L+E++    KN+ ++LVGNK+DL+  R
Sbjct: 91  QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIK--KPKNVTLILVGNKADLDHSR 148
Query: 118 AVPTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIYR 159
            V TE+ ++ A +    F E SA     N+   F  +  E+ R
Sbjct: 149 QVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 191

>pdb|2J0V|A Chain A, The Crystal Structure Of Arabidopsis Thaliana Rac7-Rop9: The First Ras Superfamily Gtpase From The Plant Kingdom Length = 212

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 50/173 (28%), Positives = 87/173 (50%), Gaps = 12/173 (6%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ +L  +  ++F  D   T+   F +  + +  + V   +WDTAGQE Y  +
Sbjct: 15  VGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRL 73
Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL------- 113
               YRGA   +L + +  + S++NV  +W+ ELR  A  N+ I+LVG K DL       
Sbjct: 74  RPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYL 132
Query: 114 -ETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            +    + +   +E  ++ G   ++E S+    NV+  F T +  + +   +K
Sbjct: 133 ADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRK 185

>pdb|1NVV|Q Chain Q, Structural Evidence For Feedback Activation By Rasgtp Of The Ras-specific Nucleotide Exchange Factor Sos Length = 166

Iteration: 1
 Score = 72.4 bits (176), Expect = 2e-13,   Method: Compositional matrix adjust.
 Identities = 50/150 (33%), Positives = 80/150 (53%), Gaps = 3/150 (2%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE   A+   Y R 
Sbjct: 16  KSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEASAMRDQYMRT 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTEDAKEF 127
             G + V+ I   +SF+++ ++ E+++   D + + M LVGNK DL   R V +  A++ 
Sbjct: 75  GEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDL-AARTVESRQAQDL 133
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           A   G+ ++ETSA     VE AF T++ EI
Sbjct: 134 ARSYGIPYIETSAKTRQGVEDAFYTLVREI 163

>pdb|2Q3H|A Chain A, The Crystal Structure Of Rhoua In The Gdp-bound State Length = 201

Iteration: 1
 Score = 70.5 bits (171), Expect = 7e-13,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 80/164 (48%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD AVGK+ L+  +  + +  +   T    F +  + +  + V+ Q+ DTAGQ+ +  
Sbjct: 25  LVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDK 83
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLE----- 114
           +    Y      +L + +    SF NV+ +W+ E+R H  K  II LVG +SDL      
Sbjct: 84  LRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCPKAPII-LVGTQSDLREDVKV 142
Query: 115 -------TLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELAF 150
                    + VP E AK  AE+ +   ++E SAL   N++  F
Sbjct: 143 LIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>pdb|3LW8|A Chain A, Shigella Ipgb2 In Complex With Human Rhoa, Gdp And Mg2+ (Complex A) Length = 185

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 14  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 73  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 131
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 132 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 183
Query: 167 TA 168
            A
Sbjct: 184 QA 185

>pdb|3KZ1|E Chain E, Crystal Structure Of The Complex Of Pdz-Rhogef DhPH DOMAINS WITH GTP- Gamma-S Activated Rhoa Length = 182

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 11  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 70  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 128
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 129 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 180
Query: 167 TA 168
            A
Sbjct: 181 QA 182

>pdb|4F38|A Chain A, Crystal Structure Of Geranylgeranylated Rhoa In Complex With Rhogdi In Its Active Gppnhp-Bound Form Length = 195

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 12  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 71  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 129
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 130 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 181
Query: 167 TA 168
            A
Sbjct: 182 QA 183

>pdb|1X86|B Chain B, Crystal Structure Of The DhPH DOMAINS OF LEUKEMIA-Associated Rhogef In Complex With Rhoa Length = 196

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 13  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 72  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 130
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 131 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 182
Query: 167 TA 168
            A
Sbjct: 183 QA 184

>pdb|1S1C|A Chain A, Crystal Structure Of The Complex Between The Human Rhoa And Rho-Binding Domain Of Human Rocki Length = 183

Iteration: 1
 Score = 68.9 bits (167), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 12  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 71  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 129
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 130 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 181
Query: 167 TA 168
            A
Sbjct: 182 QA 183

>pdb|1LB1|B Chain B, Crystal Structure Of The Dbl And Pleckstrin Homology Domains Of Dbs In Complex With Rhoa Length = 192

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 12  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 71  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 129
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 130 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 181
Query: 167 TA 168
            A
Sbjct: 182 QA 183

>pdb|3TVD|A Chain A, Crystal Structure Of Mouse Rhoa-Gtp Complex Length = 193

Iteration: 1
 Score = 68.6 bits (166), Expect = 2e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 69  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 127
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 128 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 179
Query: 167 TA 168
            A
Sbjct: 180 QA 181

>pdb|1MH1|A Chain A, Small G-Protein Length = 186

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y     +++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 69  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 127
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 128 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>pdb|1G4U|R Chain R, Crystal Structure Of The Salmonella Tyrosine Phosphatase And Gtpase Activating Protein Sptp Bound To Rac1 Length = 184

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y     +++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1CXZ|A Chain A, Crystal Structure Of Human Rhoa Complexed With The Effector Domain Of The Protein Kinase PknPRK1 Length = 182

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 53/182 (29%), Positives = 85/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 11  IVGDVACGKTCLLIVFSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 70  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 128
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 129 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 180
Query: 167 TA 168
            A
Sbjct: 181 QA 182

>pdb|2H7V|A Chain A, Co-crystal Structure Of Ypka-rac1 Length = 188

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 12  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y     +++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 71  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 129
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 130 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 173

>pdb|1HH4|A Chain A, Rac1-Rhogdi Complex Involved In Nadph Oxidase Activation Length = 192

Iteration: 1
 Score = 68.2 bits (165), Expect = 3e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y     +++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2FV8|A Chain A, The Crystal Structure Of Rhob In The Gdp-Bound State Length = 207

Iteration: 1
 Score = 67.8 bits (164), Expect = 5e-12,   Method: Compositional matrix adjust.
 Identities = 41/126 (32%), Positives = 66/126 (52%), Gaps = 3/126 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++DEF      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 30  VVGDGACGKTCLLIVFSKDEFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 88
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +    Y      ++ + +    S +N+  +W+ E++ H   N+ I+LV NK DL +   V
Sbjct: 89  LRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVK-HFCPNVPIILVANKKDLRSDEHV 147
Query: 120 PTEDAK 125
            TE A+
Sbjct: 148 RTELAR 153

>pdb|3SBD|A Chain A, Crystal Structure Of Rac1 P29s Mutant Length = 187

Iteration: 1
 Score = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 48/164 (29%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + FS +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 18  VVGDGAVGKTCLLISYTTNAFSGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 77  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 135
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 136 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 179

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 67.0 bits (162), Expect = 6e-12,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 75/149 (50%), Gaps = 13/149 (8%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQ-----IWDTAGQERYRAVTS 63
           KS L  +F +  F  D   TI   +      + H  +  Q     + DTAGQE + A+  
Sbjct: 26  KSALTIQFFQKIFVPDYDPTIEDSY------LKHTEIDNQWAILDVLDTAGQEEFSAMRE 79
Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVPTE 122
            Y R   G ++VY +T + SF++V R+ +  LR    ++  ++LV NK DL  LR V  +
Sbjct: 80  QYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRD 139
Query: 123 DAKEFAEKEGLCFMETSALEST-NVELAF 150
             KE A K  + ++ETSA +   NV+  F
Sbjct: 140 QGKEMATKYNIPYIETSAKDPPLNVDKTF 168

>pdb|2GCO|A Chain A, Crystal Structure Of The Human Rhoc-gppnhp Complex Length = 201

Iteration: 1
 Score = 66.6 bits (161), Expect = 8e-12,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 60/114 (52%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 30  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQEDYDR 88
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL
Sbjct: 89  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFXPNVPIILVGNKKDL 141

>pdb|2VRW|A Chain A, Critical Structural Role For The Ph And C1 Domains Of The Vav1 Exchange Factor Length = 184

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1I4D|D Chain D, Crystal Structure Analysis Of Rac1-Gdp Complexed With Arfaptin (P21) Length = 192

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 66.6 bits (161), Expect = 9e-12,   Method: Compositional matrix adjust.
 Identities = 49/149 (32%), Positives = 75/149 (50%), Gaps = 13/149 (8%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQ-----IWDTAGQERYRAVTS 63
           KS L  +F +  F  D   TI   +      + H  +  Q     + DTAGQE + A+  
Sbjct: 31  KSALTIQFFQKIFVDDYDPTIEDSY------LKHTEIDNQWAILDVLDTAGQEEFSAMRE 84
Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVPTE 122
            Y R   G ++VY +T + SF++V R+ +  LR    ++  ++LV NK DL  LR V  +
Sbjct: 85  QYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRD 144
Query: 123 DAKEFAEKEGLCFMETSALEST-NVELAF 150
             KE A K  + ++ETSA +   NV+  F
Sbjct: 145 QGKEMATKYNIPYIETSAKDPPLNVDKTF 173

>pdb|1HE1|C Chain C, Crystal Structure Of The Complex Between The Gap Domain Of The Pseudomonas Aeruginosa Exos Toxin And Human Rac Length = 176

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1DPF|A Chain A, Crystal Structure Of A Mg-Free Form Of Rhoa Complexed With Gdp Length = 180

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 59/114 (51%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDVACGKTCLLIVFSKDQFPAVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
                Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL
Sbjct: 69  ARPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDL 121

>pdb|2GCN|A Chain A, Crystal Structure Of The Human Rhoc-Gdp Complex Length = 201

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 60/114 (52%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 30  IVGDGACGKTCLLIVFSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQEDYDR 88
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL
Sbjct: 89  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDL 141

>pdb|3SUA|A Chain A, Crystal Structure Of The Intracellular Domain Of Plexin-B1 In Complex With Rac1 Length = 184

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2FJU|A Chain A, Activated Rac1 Bound To Its Effector Phospholipase C Beta 2 Length = 178

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1FOE|B Chain B, Crystal Structure Of Rac1 In Complex With The Guanine Nucleotide Exchange Region Of Tiam1 Length = 177

Iteration: 1
 Score = 66.2 bits (160), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2YIN|C Chain C, Structure Of The Complex Between Dock2 And Rac1. Length = 196

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 27  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 85
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 86  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 144
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 145 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 188

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 65.9 bits (159), Expect = 1e-11,   Method: Compositional matrix adjust.
 Identities = 39/104 (37%), Positives = 60/104 (57%), Gaps = 2/104 (1%)
Query: 49  IWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLV 107
           + DTAGQE + A+   Y R   G ++VY +T + SF++V R+ +  LR    ++  ++LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 108 GNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALEST-NVELAF 150
            NK DL  LR V  +  KE A K  + ++ETSA +   NV+  F
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTF 173

>pdb|3B13|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock2 In Complex With Rac1 (T17n Mutant) Length = 184

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 15  VVGDGAVGKNCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 74  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 132
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 133 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 176

>pdb|3TH5|A Chain A, Crystal Structure Of Wild-Type Rac1 Length = 204

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 35  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 94  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 152
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 153 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 39/104 (37%), Positives = 60/104 (57%), Gaps = 2/104 (1%)
Query: 49  IWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLV 107
           + DTAGQE + A+   Y R   G ++VY +T + SF++V R+ +  LR    ++  ++LV
Sbjct: 70  VLDTAGQEEFSAMREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILV 129
Query: 108 GNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALEST-NVELAF 150
            NK DL  LR V  +  KE A K  + ++ETSA +   NV+  F
Sbjct: 130 ANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTF 173

>pdb|2ERX|A Chain A, Crystal Structure Of Diras2 In Complex With Gdp And Inorganic Phosphate Length = 172

Iteration: 1
 Score = 65.9 bits (159), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 53/158 (33%), Positives = 77/158 (48%), Gaps = 7/158 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV-KAQIWDTAGQERYR 59
           + G   VGKS L+ RF +  F      T  VE   + ++   K++   QI DT G  ++ 
Sbjct: 8   VFGAGGVGKSSLVLRFVKGTFRESYIPT--VEDTYRQVISCDKSICTLQITDTTGSHQFP 65
Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLE---ELRGHADKNIIIMLVGNKSDLETL 116
           A+           +LVY IT RQS + +    E   E++G  + +I IMLVGNK D    
Sbjct: 66  AMQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVE-SIPIMLVGNKCDESPS 124
Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL 154
           R V + +A+  A      FMETSA  + NV+  F  +L
Sbjct: 125 REVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELL 162

>pdb|1GWN|A Chain A, The Crystal Structure Of The Core Domain Of RhoeRND3 - A Constitutively Activated Small G Protein Length = 205

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 79/159 (49%), Gaps = 16/159 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+  E  T +  I  + ++  +WDT+G   Y  
Sbjct: 33  VVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDN 91
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E++     N  ++LVG KSDL T    
Sbjct: 92  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVST 150
Query: 116 ------LRAVPT--EDAKEFAEKEGLC-FMETSALESTN 145
                  R  P   +     A++ G   ++E SAL+S N
Sbjct: 151 LVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 189

>pdb|2V55|B Chain B, Mechanism Of Multi-site Phosphorylation From A Rock-i:rhoe Complex Structure Length = 200

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 79/159 (49%), Gaps = 16/159 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+  E  T +  I  + ++  +WDT+G   Y  
Sbjct: 28  VVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDN 86
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E++     N  ++LVG KSDL T    
Sbjct: 87  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVST 145
Query: 116 ------LRAVPT--EDAKEFAEKEGLC-FMETSALESTN 145
                  R  P   +     A++ G   ++E SAL+S N
Sbjct: 146 LVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 184

>pdb|1M7B|A Chain A, Crystal Structure Of Rnd3RHOE: FUNCTIONAL IMPLICATIONS Length = 184

Iteration: 1
 Score = 65.5 bits (158), Expect = 2e-11,   Method: Compositional matrix adjust.
 Identities = 47/159 (29%), Positives = 79/159 (49%), Gaps = 16/159 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+  E  T +  I  + ++  +WDT+G   Y  
Sbjct: 12  VVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDN 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E++     N  ++LVG KSDL T    
Sbjct: 71  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVST 129
Query: 116 ------LRAVPT--EDAKEFAEKEGLC-FMETSALESTN 145
                  R  P   +     A++ G   ++E SAL+S N
Sbjct: 130 LVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSEN 168

>pdb|1CC0|A Chain A, Crystal Structure Of The Rhoa.Gdp-Rhogdi Complex Length = 190

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 84/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 69  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 127
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 128 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 179
Query: 167 TA 168
            A
Sbjct: 180 QA 181

>pdb|1OW3|B Chain B, Crystal Structure Of Rhoa.Gdp.Mgf3-In Complex With Rhogap Length = 193

Iteration: 1
 Score = 65.1 bits (157), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 52/182 (28%), Positives = 84/182 (46%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 69  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 127
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 128 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 179
Query: 167 TA 168
            A
Sbjct: 180 QA 181

>pdb|1DS6|A Chain A, Crystal Structure Of A Rac-Rhogdi Complex Length = 192

Iteration: 1
 Score = 64.7 bits (156), Expect = 3e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DSKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    S++NV A+W  E+R H     II LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 169

>pdb|1RYF|A Chain A, Alternative Splicing Of Rac1 Generates Rac1b, A Self-Activating Gtpase Length = 203

Iteration: 1
 Score = 64.3 bits (155), Expect = 4e-11,   Method: Compositional matrix adjust.
 Identities = 53/183 (28%), Positives = 77/183 (42%), Gaps = 35/183 (19%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKR-------------------QSFDNV-ARWLEELRGHADK 100
           +    Y   VG     DIT R                    SF+NV A+W  E+R H   
Sbjct: 69  LRPLSYPQTVGETYGKDITSRGKDKPIADVFLICFSLVSPASFENVRAKWYPEVRHHC-P 127
Query: 101 NIIIMLVGNKSDL----ETLRAVPTEDAKEFAEKEGLC---------FMETSALESTNVE 147
           N  I+LVG K DL    +T+  +  +        +GL          ++E SAL    ++
Sbjct: 128 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLK 187
Query: 148 LAF 150
             F
Sbjct: 188 TVF 190

>pdb|1TX4|B Chain B, RhoRHOGAPGDP(DOT)ALF4 COMPLEX Length = 177

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 8   IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 67  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 125
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
            R         V  E+ ++ A + G   +ME SA     V   F
Sbjct: 126 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|3MSX|A Chain A, Crystal Structure Of Rhoa.Gdp.Mgf3 In Complex With Gap Domain Of Arhgap20 Length = 180

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 69  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 127
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
            R         V  E+ ++ A + G   +ME SA     V   F
Sbjct: 128 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 171

>pdb|2W2T|A Chain A, Rac2 (G12v) In Complex With Gdp Length = 185

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 14  VVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DSKPVNLGLWDTAGQEDYDR 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    S++NV A+W  E+R H     II LVG K DL    +T
Sbjct: 73  LRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDDKDT 131
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 132 IEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 175

>pdb|2C2H|A Chain A, Crystal Structure Of The Human Rac3 In Complex With Gdp Length = 192

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 38/114 (33%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV A+W  E+R H   +  I+LVG K DL
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDL 119

>pdb|2ATX|A Chain A, Crystal Structure Of The Tc10 Gppnhp Complex Length = 194

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 80/164 (48%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +A D F  +   T+  +    ++ +  K     ++DTAGQE Y  
Sbjct: 23  VVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQEDYDR 81
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF NV   W+ EL+ +A  N+  +L+G + DL    +T
Sbjct: 82  LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKT 140
Query: 116 L--------RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
           L        + +  E  ++ A++ G  C++E SAL    ++  F
Sbjct: 141 LARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>pdb|1XCG|B Chain B, Crystal Structure Of Human Rhoa In Complex With DhPH Fragment Of Pdzrhogef Length = 178

Iteration: 1
 Score = 63.9 bits (154), Expect = 6e-11,   Method: Compositional matrix adjust.
 Identities = 49/164 (29%), Positives = 76/164 (46%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 8   IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 67  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 125
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
            R         V  E+ ++ A + G   +ME SA     V   F
Sbjct: 126 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVF 169

>pdb|1E96|A Chain A, Structure Of The RacP67PHOX COMPLEX Length = 192

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|1I4T|D Chain D, Crystal Structure Analysis Of Rac1-Gmppnp In Complex With Arfaptin Length = 192

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 67  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 125
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 126 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 169

>pdb|2W2V|A Chain A, Rac2 (G12v) In Complex With Gtpgs Length = 184

Iteration: 1
 Score = 63.5 bits (153), Expect = 7e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 15  VVGDVAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DSKPVNLGLWDTAGQEDYDR 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    S++NV A+W  E+R H     II LVG K DL    +T
Sbjct: 74  LRPLSYPQTDVFLICFSLVSPASYENVRAKWFPEVRHHCPSTPII-LVGTKLDLRDDKDT 132
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 133 IEKLKEKKLAPITYPQGLALAKEIDSVKYLECSALTQRGLKTVF 176

>pdb|2G0N|A Chain A, The Crystal Structure Of The Human Rac3 In Complex With Gdp And Chloride Length = 179

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 9   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   +  I+LVG K DL    +T
Sbjct: 68  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDLRDDKDT 126
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 127 IERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|2IC5|A Chain A, Crystal Structure Of Human Rac3 Grown In The Presence Of Gpp(Nh)p. Length = 180

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 75/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 9   VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   +  I+LVG K DL    +T
Sbjct: 68  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PHTPILLVGTKLDLRDDKDT 126
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 127 IERLRDKKLAPITYPQGLAMAREIGSVKYLECSALTQRGLKTVF 170

>pdb|4GZM|A Chain A, Crystal Structure Of Rac1 F28l Mutant Length = 204

Iteration: 1
 Score = 63.5 bits (153), Expect = 8e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  +    +   T+   +    +V   K V   +WDTAGQE Y  
Sbjct: 35  VVGDGAVGKTCLLISYTTNALPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGQEDYDR 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 94  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 152
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 153 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3RYT|C Chain C, The Plexin A1 Intracellular Region In Complex With Rac1 Length = 180

Iteration: 1
 Score = 63.2 bits (152), Expect = 9e-11,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 11  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 70  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 128
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 129 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 172

>pdb|4GZL|A Chain A, Crystal Structure Of Rac1 Q61l Mutant Length = 204

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 46/164 (28%), Positives = 74/164 (45%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 35  VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 93
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 94  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 152
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 153 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>pdb|3REF|B Chain B, Crystal Structure Of Ehrho1 Bound To Gdp And Magnesium Length = 194

Iteration: 1
 Score = 62.8 bits (151), Expect = 1e-10,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 80/156 (51%), Gaps = 10/156 (6%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVK--AQIWDTAGQERY 58
           ++GD AVGK+ LL  F++ E      A +   F+  + V+ +KN +    +WDTAGQE Y
Sbjct: 28  VVGDGAVGKTCLLLAFSKGEIP---TAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEY 84
Query: 59  RAVTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL--ET 115
             +    Y  +   +L + +  R SFDN++ +W  E++ + D    + LVG K DL  + 
Sbjct: 85  DRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDG 143
Query: 116 LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
              V  ++  +  +K G + ++E S++    +   F
Sbjct: 144 SDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>pdb|4DVG|A Chain A, Crystal Structure Of E. Histolytica Formin1 Bound To Ehrho1-Gtpgammas Length = 188

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 45/156 (28%), Positives = 80/156 (51%), Gaps = 10/156 (6%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVK--AQIWDTAGQERY 58
           ++GD AVGK+ LL  F++ E      A +   F+  + V+ +KN +    +WDTAGQE Y
Sbjct: 27  VVGDGAVGKTCLLLAFSKGEIP---TAYVPTVFENFSHVMKYKNEEFILHLWDTAGQEEY 83
Query: 59  RAVTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL--ET 115
             +    Y  +   +L + +  R SFDN++ +W  E++ + D    + LVG K DL  + 
Sbjct: 84  DRLRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYIDTAKTV-LVGLKVDLRKDG 142
Query: 116 LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
              V  ++  +  +K G + ++E S++    +   F
Sbjct: 143 SDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 178

>pdb|1Z2C|A Chain A, Crystal Structure Of Mdia1 Gbd-Fh3 In Complex With Rhoc- Gmppnp Length = 193

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 37/114 (32%), Positives = 59/114 (51%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 10  IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYIADIEVDGKQVELALWDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL
Sbjct: 69  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDL 121

>pdb|1KMQ|A Chain A, Crystal Structure Of A Constitutively Activated Rhoa Mutant (Q63l) Length = 184

Iteration: 1
 Score = 62.4 bits (150), Expect = 2e-10,   Method: Compositional matrix adjust.
 Identities = 51/182 (28%), Positives = 83/182 (45%), Gaps = 24/182 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAG E Y  
Sbjct: 13  IVGDGACGKTCLLIVNSKDQFPEVYVPTV-FENYVADIEVDGKQVELALWDTAGLEDYDR 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + I    S +N+  +W  E++ H   N+ I+LVGNK DL     T
Sbjct: 72  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVK-HFCPNVPIILVGNKKDLRNDEHT 130
Query: 116 LR--------AVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            R         V  E+ ++ A + G   +ME SA     V         E++ + ++ AL
Sbjct: 131 RRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR--------EVFEMATRAAL 182
Query: 167 TA 168
            A
Sbjct: 183 QA 184

>pdb|3RAP|R Chain R, The Small G Protein Rap2 In A Non Catalytic Complex With Gtp Length = 167

Iteration: 1
 Score = 61.6 bits (148), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 46/150 (30%), Positives = 78/150 (52%), Gaps = 2/150 (1%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG 68
           KS L  +F    F      TI  +F  K + +       +I DTAG E++ ++   Y + 
Sbjct: 16  KSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKN 74
Query: 69  AVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF 127
             G +LVY +  +QSF ++    +++ R    + + ++LVGNK DLE+ R V + + +  
Sbjct: 75  GQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRAL 134
Query: 128 AEKEGLCFMETSALESTNVELAFLTVLTEI 157
           AE+ G  FMETSA   T V+  F  ++ ++
Sbjct: 135 AEEWGCPFMETSAKSKTMVDELFAEIVRQM 164

>pdb|2GF0|A Chain A, The Crystal Structure Of The Human Diras1 Gtpase In The Inactive Gdp Bound State Length = 199

Iteration: 1
 Score = 60.1 bits (144), Expect = 9e-10,   Method: Compositional matrix adjust.
 Identities = 49/151 (32%), Positives = 79/151 (52%), Gaps = 8/151 (5%)
Query: 9   KSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV-KAQIWDTAGQERYRAVTSAYYR 67
           KS L+ RF +  F      TI  E   + ++   K+V   QI DT G  ++ A+      
Sbjct: 21  KSSLVLRFVKGTFRDTYIPTI--EDTYRQVISCDKSVCTLQITDTTGSHQFPAMQRLSIS 78
Query: 68  GAVGAMLVYDITKRQSFDNVA---RWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA 124
                +LV+ +T +QS + +    + + +++G  + +I +MLVGNK D ET R V T +A
Sbjct: 79  KGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVE-DIPVMLVGNKCD-ETQREVDTREA 136
Query: 125 KEFAEKEGLCFMETSALESTNVELAFLTVLT 155
           +  A++    FMETSA  + NV+  F  +LT
Sbjct: 137 QAVAQEWKCAFMETSAKMNYNVKELFQELLT 167

>pdb|2WKR|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450m Mutant Length = 332

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 73/164 (44%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 160 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 218
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF +V A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 219 LRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 277
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 278 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2WKP|A Chain A, Structure Of A Photoactivatable Rac1 Containing Lov2 Wildtype Length = 332

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 73/164 (44%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 160 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 218
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF +V A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 219 LRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 277
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 278 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2HT6|A Chain A, Crystal Structure Of Human Gem G-Domain Bound To Gdp Length = 174

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 81/167 (48%), Gaps = 17/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS    +G +   +TL++  ++   +   +W+  G+ 
Sbjct: 11  LIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGEN 70
Query: 57  RY-----RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNK 110
            +       V  AY       ++VY IT R SF+  +    +LR     ++I I+LVGNK
Sbjct: 71  EWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           SDL   R V   + +  A      F+ETSA    NV+  F  ++ ++
Sbjct: 124 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2WKQ|A Chain A, Structure Of A Photoactivatable Rac1 Containing The Lov2 C450a Mutant Length = 332

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 45/164 (27%), Positives = 73/164 (44%), Gaps = 16/164 (9%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+   +    +V   K V   +WDTAG E Y  
Sbjct: 160 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNYSANVMV-DGKPVNLGLWDTAGLEDYDR 218
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y      ++ + +    SF +V A+W  E+R H   N  I+LVG K DL    +T
Sbjct: 219 LRPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 277
Query: 116 LRAVPTEDAKEFAEKEGLC---------FMETSALESTNVELAF 150
           +  +  +        +GL          ++E SAL    ++  F
Sbjct: 278 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>pdb|2G3Y|A Chain A, Crystal Structure Of The Human Small Gtpase Gem Length = 211

Iteration: 1
 Score = 58.9 bits (141), Expect = 2e-09,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 81/167 (48%), Gaps = 17/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS    +G +   +TL++  ++   +   +W+  G+ 
Sbjct: 42  LIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGEN 101
Query: 57  RY-----RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNK 110
            +       V  AY       ++VY IT R SF+  +    +LR     ++I I+LVGNK
Sbjct: 102 EWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 154
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           SDL   R V   + +  A      F+ETSA    NV+  F  ++ ++
Sbjct: 155 SDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQV 201

>pdb|3LVR|E Chain E, The Crystal Structure Of Asap3 In Complex With Arf6 In Trans State Soaked With Calcium Length = 497

Iteration: 1
 Score = 57.8 bits (138), Expect = 4e-09,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 74/167 (44%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 327 MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 381
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 382 LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 437
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 438 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 483

>pdb|2CJW|A Chain A, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 57.8 bits (138), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 81/167 (48%), Gaps = 17/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATI-GVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS   + G +   +TL++  ++   +   +W+  G+ 
Sbjct: 11  LIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGEN 70
Query: 57  RY-----RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNK 110
            +       V  AY       ++VY IT R SF+  +    +LR     ++I I+LVGNK
Sbjct: 71  EWLHDHCMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           SDL   R V   + +  A      F+ETSA    NV+  F  ++ ++
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2NZJ|A Chain A, The Crystal Structure Of Rem1 In Complex With Gdp Length = 175

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 47/153 (30%), Positives = 74/153 (48%), Gaps = 4/153 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGK+ L + FA  +   D    +G +   +TL +  ++    + DT   E+   
Sbjct: 9   LLGDPGVGKTSLASLFAGKQ-ERDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDK 67
Query: 61  VTS--AYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLR 117
             S  +  +G    ++VY I  R SF++ +    +LR  H   ++ I+LVGNK+DL   R
Sbjct: 68  SWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCR 127
Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAF 150
            V  E+ +  A      F+ETSA    NV   F
Sbjct: 128 EVSVEEGRACAVVFDCKFIETSATLQHNVAELF 160

>pdb|2CJW|B Chain B, Crystal Structure Of The Small Gtpase Gem (Gemdndcam) In Complex To Mg.Gdp Length = 192

Iteration: 1
 Score = 57.4 bits (137), Expect = 5e-09,   Method: Compositional matrix adjust.
 Identities = 51/167 (30%), Positives = 81/167 (48%), Gaps = 17/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATI-GVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS   + G +   +TL++  ++   +   +W+  G+ 
Sbjct: 11  LIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGEN 70
Query: 57  RY-----RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNK 110
            +       V  AY       ++VY IT R SF+  +    +LR     ++I I+LVGNK
Sbjct: 71  EWLHDHXMQVGDAY-------LIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNK 123
Query: 111 SDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           SDL   R V   + +  A      F+ETSA    NV+  F  ++ ++
Sbjct: 124 SDLVRXREVSVSEGRAXAVVFDCKFIETSAAVQHNVKELFEGIVRQV 170

>pdb|2CLS|A Chain A, The Crystal Structure Of The Human Rnd1 Gtpase In The Active Gtp Bound State Length = 198

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 59/116 (50%), Gaps = 3/116 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ +L   A+D +      T+  E  T  L    + V+  +WDT+G   Y  
Sbjct: 16  LVGDVQCGKTAMLQVLAKDCYPETYVPTV-FENYTACLETEEQRVELSLWDTSGSPYYDN 74
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDN-VARWLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   +L +DI++ ++ D+ + +W  E+  +   +  ++L+G K+DL T
Sbjct: 75  VRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRT 129

>pdb|2REX|B Chain B, Crystal Structure Of The Effector Domain Of Plxnb1 Bound With Rnd1 Gtpase Length = 197

Iteration: 1
 Score = 57.0 bits (136), Expect = 7e-09,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 59/116 (50%), Gaps = 3/116 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ +L   A+D +      T+  E  T  L    + V+  +WDT+G   Y  
Sbjct: 15  LVGDVQCGKTAMLQVLAKDCYPETYVPTV-FENYTACLETEEQRVELSLWDTSGSPYYDN 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDN-VARWLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   +L +DI++ ++ D+ + +W  E+  +   +  ++L+G K+DL T
Sbjct: 74  VRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRT 128

>pdb|3Q3J|B Chain B, Crystal Structure Of Plexin A2 Rbd In Complex With Rnd1 Length = 214

Iteration: 1
 Score = 56.6 bits (135), Expect = 8e-09,   Method: Compositional matrix adjust.
 Identities = 32/116 (27%), Positives = 59/116 (50%), Gaps = 3/116 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ +L   A+D +      T+  E  T  L    + V+  +WDT+G   Y  
Sbjct: 32  LVGDVQCGKTAMLQVLAKDCYPETYVPTV-FENYTACLETEEQRVELSLWDTSGSPYYDN 90
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDN-VARWLEELRGHADKNIIIMLVGNKSDLET 115
           V    Y  +   +L +DI++ ++ D+ + +W  E+  +   +  ++L+G K+DL T
Sbjct: 91  VRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRT 145

>pdb|1E0S|A Chain A, Small G Protein Arf6-Gdp Length = 174

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 74/167 (44%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 17  MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 71
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 72  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 127
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 128 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>pdb|2A5D|A Chain A, Structural Basis For The Activation Of Cholera Toxin By Human Arf6-Gtp Length = 175

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 74/167 (44%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 18  MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 73  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 128
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 129 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 174

>pdb|3N5C|A Chain A, Crystal Structure Of Arf6delta13 Complexed With Gdp Length = 162

Iteration: 1
 Score = 56.6 bits (135), Expect = 9e-09,   Method: Compositional matrix adjust.
 Identities = 46/167 (27%), Positives = 74/167 (44%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 5   MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 59
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 60  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 115
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 116 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 161

>pdb|3PCR|B Chain B, Structure Of Espg-Arf6 Complex Length = 162

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 46/166 (27%), Positives = 72/166 (43%), Gaps = 18/166 (10%)
Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R +
Sbjct: 6   LGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRPL 60
Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVP 120
              YY G  G + V D   R   D   + L   +     ++ II++  NK DL       
Sbjct: 61  WRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREXRDAIILIFANKQDLPD----- 115
Query: 121 TEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 116 AXKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 161

>pdb|4FME|C Chain C, Espg-Rab1-Arf6 Complex Length = 160

Iteration: 1
 Score = 56.2 bits (134), Expect = 1e-08,   Method: Compositional matrix adjust.
 Identities = 39/134 (29%), Positives = 62/134 (46%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  GQ++ R 
Sbjct: 5   MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGQDKIRP 59
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 60  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 115
Query: 120 PTEDAKEFAEKEGL 133
                 E  EK GL
Sbjct: 116 -AMKPHEIQEKLGL 128

>pdb|1GRN|A Chain A, Crystal Structure Of The Cdc42CDC42GAPALF3 COMPLEX. Length = 191

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|4DID|A Chain A, Crystal Structure Of Salmonella Effector N-Terminal Domain Sopb In Complex With Cdc42 Length = 193

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 18  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 77  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 129

>pdb|2QRZ|A Chain A, Cdc42 Bound To Gmp-Pcp: Induced Fit By Effector Is Required Length = 189

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|2ODB|A Chain A, The Crystal Structure Of Human Cdc42 In Complex With The Crib Domain Of Human P21-Activated Kinase 6 (Pak6) Length = 192

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 9   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 67
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 68  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 120

>pdb|2WM9|B Chain B, Structure Of The Complex Between Dock9 And Cdc42. Length = 190

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 69  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 121

>pdb|1CEE|A Chain A, Solution Structure Of Cdc42 In Complex With The Gtpase Binding Domain Of Wasp Length = 179

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|2DFK|B Chain B, Crystal Structure Of The Cdc42-Collybistin Ii Complex Length = 194

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 11  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 70  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 122

>pdb|1AM4|D Chain D, Complex Between Cdc42hs.Gmppnp And P50 Rhogap (H. Sapiens) Length = 177

Iteration: 1
 Score = 55.5 bits (132), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|1KZ7|B Chain B, Crystal Structure Of The DhPH FRAGMENT OF MURINE DBS IN Complex With The Placental Isoform Of Human Cdc42 Length = 188

Iteration: 1
 Score = 55.1 bits (131), Expect = 2e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|1AJE|A Chain A, Cdc42 From Human, Nmr, 20 Structures Length = 194

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 15  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 74  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 126

>pdb|1A4R|B Chain B, G12v Mutant Of Human Placental Cdc42 Gtpase In The Gdp Form Length = 191

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDVAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|3EG5|A Chain A, Crystal Structure Of Mdia1-Tsh Gbd-Fh3 In Complex With Cdc42-Gmppnp Length = 178

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|1EES|A Chain A, Solution Structure Of Cdc42hs Complexed With A Peptide Derived From P-21 Activated Kinase, Nmr, 20 Structures Length = 178

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|3GCG|A Chain A, Crystal Structure Of Map And Cdc42 Complex Length = 182

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 12  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 71  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 123

>pdb|1GZS|A Chain A, Crystal Structure Of The Complex Between The Gef Domain Of The Salmonella Typhimurium Sope Toxin And Human Cdc42 Length = 180

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 68
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 69  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 121

>pdb|1DOA|A Chain A, Structure Of The Rho Family Gtp-Binding Protein Cdc42 In Complex With The Multifunctional Regulator Rhogdi Length = 191

Iteration: 1
 Score = 55.1 bits (131), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 11  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 70  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 122

>pdb|1AN0|A Chain A, Cdc42hs-Gdp Complex Length = 190

Iteration: 1
 Score = 54.7 bits (130), Expect = 3e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T+ I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVXIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|2AL7|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10c Length = 186

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 42/159 (26%), Positives = 65/159 (40%), Gaps = 18/159 (11%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+  +   A  +FS D   T+G   +  T      NV  +IWD  GQ R+R+
Sbjct: 27  LVGLQYSGKTTFVNVIASGQFSEDMIPTVGFNMRKVT----KGNVTIKIWDIGGQPRFRS 82
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y RG    + + D   R+  +     L  L      + I ++++GNK DL      
Sbjct: 83  MWERYCRGVNAIVYMIDAADREKIEASRNELHNLLDKPQLQGIPVLVLGNKRDLPN---- 138
Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVELAF 150
              D K+  EK  L        C    S  E  N+++  
Sbjct: 139 -ALDEKQLIEKMNLSAIQDREICCYSISCKEKDNIDITL 176

>pdb|3VHL|B Chain B, Crystal Structure Of The Dhr-2 Domain Of Dock8 In Complex With Cdc42 (T17n Mutant) Length = 195

Iteration: 1
 Score = 54.7 bits (130), Expect = 4e-08,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 58/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 15  VVGDGAVGKNCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 74  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 126

>pdb|2A5G|A Chain A, Cholera Toxin A1 Subunit Bound To Arf6(Q67l) Length = 175

Iteration: 1
 Score = 53.9 bits (128), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 45/167 (26%), Positives = 73/167 (43%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  G ++ R 
Sbjct: 18  MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGLDKIRP 72
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 73  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 128
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 129 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 174

>pdb|2W83|A Chain A, Crystal Structure Of The Arf6 Gtpase In Complex With A Specific Effector, Jip4 Length = 165

Iteration: 1
 Score = 53.5 bits (127), Expect = 7e-08,   Method: Compositional matrix adjust.
 Identities = 45/167 (26%), Positives = 73/167 (43%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  G ++ R 
Sbjct: 8   MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGLDKIRP 62
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 63  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 118
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 119 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 164

>pdb|3VHX|A Chain A, The Crystal Structure Of Arf6-Mklp1 (Mitotic Kinesin-Like Protein 1) Complex Length = 172

Iteration: 1
 Score = 53.5 bits (127), Expect = 8e-08,   Method: Compositional matrix adjust.
 Identities = 45/167 (26%), Positives = 73/167 (43%), Gaps = 18/167 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    + S+ +  T+G   +T T    +KNVK  +WD  G ++ R 
Sbjct: 7   MLGLDAAGKTTILYKLKLGQ-SVTTIPTVGFNVETVT----YKNVKFNVWDVGGLDKIRP 61
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 62  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPD---- 117
Query: 120 PTEDAKEFAEKEGLC-------FMETSALESTNVELAFLTVLTEIYR 159
                 E  EK GL        +++ S   S +     LT LT  Y+
Sbjct: 118 -AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 163

>pdb|1Z6X|A Chain A, Structure Of Human Adp-Ribosylation Factor 4 Length = 180

Iteration: 1
 Score = 53.5 bits (127), Expect = 9e-08,   Method: Compositional matrix adjust.
 Identities = 37/134 (27%), Positives = 64/134 (47%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ+R R 
Sbjct: 22  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNICFTVWDVGGQDRIRP 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y++   G + V D   R+    VA  L++ L     ++ +++L  NK DL    A+
Sbjct: 77  LWKHYFQNTQGLIFVVDSNDRERIQEVADELQKMLLVDELRDAVLLLFANKQDLPNAMAI 136
Query: 120 PTEDAKEFAEKEGL 133
                 E  +K GL
Sbjct: 137 -----SEMTDKLGL 145

>pdb|3QBV|A Chain A, Structure Of Designed Orthogonal Interaction Between Cdc42 And Nucleotide Exchange Domains Of Intersectin Length = 178

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 33/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     + DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLRDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|3A58|B Chain B, Crystal Structure Of Sec3p - Rho1p Complex From Saccharomyces Cerevisiae Length = 188

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 38/137 (27%), Positives = 67/137 (48%), Gaps = 7/137 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++ +F      T+  E     + +  + V+  +WDTAGQE Y  
Sbjct: 15  IVGDGACGKTCLLIVNSKGQFPEVYVPTV-FENYVADVEVDGRRVELALWDTAGQEDYDR 73
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL----ET 115
           +    Y  +   ++ + I    S +NV  +W+ E+  H  + + I+LVG K DL    +T
Sbjct: 74  LRPLSYPDSNVVLICFSIDLPDSLENVQEKWIAEVL-HFCQGVPIILVGCKVDLRNDPQT 132
Query: 116 LRAVPTEDAKEFAEKEG 132
           +  +  E  +    +EG
Sbjct: 133 IEQLRQEGQQPVTSQEG 149

>pdb|2KB0|A Chain A, Cdc42(T35a) Length = 178

Iteration: 1
 Score = 53.1 bits (126), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +    +   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPAVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|2ASE|A Chain A, Nmr Structure Of The F28l Mutant Of Cdc42hs Length = 178

Iteration: 1
 Score = 52.8 bits (125), Expect = 1e-07,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++   +   T+   +   T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKLPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGQEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|1CF4|A Chain A, Cdc42ACK GTPASE-Binding Domain Complex Length = 184

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAG E Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLEDYDR 66
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 119

>pdb|1NF3|A Chain A, Structure Of Cdc42 In A Complex With The Gtpase-Binding Domain Of The Cell Polarity Protein, Par6 Length = 195

Iteration: 1
 Score = 52.4 bits (124), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 32/114 (28%), Positives = 57/114 (50%), Gaps = 3/114 (2%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+   +   T++I  +     ++DTAG E Y  
Sbjct: 12  VVGDGAVGKTCLLISYTTNKFPSEYVPTVFDNYAV-TVMIGGEPYTLGLFDTAGLEDYDR 70
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL 113
           +    Y      ++ + +    SF+NV  +W+ E+  H  K    +LVG + DL
Sbjct: 71  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKT-PFLLVGTQIDL 123

>pdb|1ZD9|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b Length = 188

Iteration: 1
 Score = 52.0 bits (123), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 40/159 (25%), Positives = 65/159 (40%), Gaps = 18/159 (11%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+  +   A  +F+ D   T+G   +     I   NV  ++WD  GQ R+R+
Sbjct: 27  LVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQPRFRS 82
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y RG    + + D   ++  +     L  L      + I ++++GNK DL      
Sbjct: 83  MWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG---- 138
Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVELAF 150
              D KE  EK  L        C    S  E  N+++  
Sbjct: 139 -ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITL 176

>pdb|1MR3|F Chain F, Saccharomyces Cerevisiae Adp-Ribosylation Factor 2 (Scarf2) Complexed With Gdp-3'p At 1.6a Resolution Length = 181

Iteration: 1
 Score = 51.6 bits (122), Expect = 3e-07,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 60/134 (44%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ+R R+
Sbjct: 22  MVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQDRIRS 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YYR   G + V D   R         ++ +    + +N + ++  NK DL    + 
Sbjct: 77  LWRHYYRNTEGVIFVIDSNDRSRIGEAREVMQRMLNEDELRNAVWLVFANKQDLPEAMS- 135
Query: 120 PTEDAKEFAEKEGL 133
               A E  EK GL
Sbjct: 136 ----AAEITEKLGL 145

>pdb|2H18|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 10b (Arl10b) Length = 193

Iteration: 1
 Score = 50.8 bits (120), Expect = 5e-07,   Method: Compositional matrix adjust.
 Identities = 40/159 (25%), Positives = 65/159 (40%), Gaps = 18/159 (11%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+  +   A  +F+ D   T+G   +     I   NV  ++WD  GQ R+R+
Sbjct: 36  LVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQPRFRS 91
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y RG    + + D   ++  +     L  L      + I ++++GNK DL      
Sbjct: 92  MWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG---- 147
Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVELAF 150
              D KE  EK  L        C    S  E  N+++  
Sbjct: 148 -ALDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITL 185

>pdb|3TJZ|A Chain A, Crystal Structure Of Arf1 Bound To The GammaZETA-Cop Core Complex Length = 164

Iteration: 1
 Score = 50.1 bits (118), Expect = 8e-07,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 59/134 (44%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ+R R+
Sbjct: 5   MVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQDRIRS 59
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YYR   G + V D   R         ++ +    + +N   ++  NK DL    + 
Sbjct: 60  LWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLPEAMS- 118
Query: 120 PTEDAKEFAEKEGL 133
               A E  EK GL
Sbjct: 119 ----AAEITEKLGL 128

>pdb|2DPX|A Chain A, Crystal Structure Of Human Rad Gtpase Length = 174

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 75/158 (47%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G   VGKS L   F   E   +++A  G  +  +++V+  +     ++D   Q+  R 
Sbjct: 12  LLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQDGGRW 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +           ++VY +T + SF+  +    +LR      ++ I+LVGNKSDL   R V
Sbjct: 70  LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             ++ +  A      F+ETSA    NV+  F  V+ +I
Sbjct: 130 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|3Q72|A Chain A, Crystal Structure Of Rad G-Domain-Gtp Analog Complex Length = 166

Iteration: 1
 Score = 50.1 bits (118), Expect = 9e-07,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 75/158 (47%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G   VGKS L   F   E   +++A  G  +  +++V+  +     ++D   Q+  R 
Sbjct: 7   LLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQDGGRW 64
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +           ++VY +T + SF+  +    +LR      ++ I+LVGNKSDL   R V
Sbjct: 65  LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 124
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             ++ +  A      F+ETSA    NV+  F  V+ +I
Sbjct: 125 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 162

>pdb|2K5U|A Chain A, Solution Structure Of Myirstoylated Yeast Arf1 Protein, Gdp- Bound Length = 181

Iteration: 1
 Score = 50.1 bits (118), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 35/134 (26%), Positives = 58/134 (43%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ+R R+
Sbjct: 22  MVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVET----VQYKNISFTVWDVGGQDRIRS 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   YYR   G + V D   R         ++ +    + +N   ++  NK DL      
Sbjct: 77  LWRHYYRNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELRNAAWLVFANKQDLP----- 131
Query: 120 PTEDAKEFAEKEGL 133
               A E  EK GL
Sbjct: 132 EAMSAAEITEKLGL 145

>pdb|2GJS|A Chain A, The Crystal Structure Of Human Rrad In Complex With Gdp Length = 176

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 44/158 (27%), Positives = 75/158 (47%), Gaps = 3/158 (1%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G   VGKS L   F   E   +++A  G  +  +++V+  +     ++D   Q+  R 
Sbjct: 12  LLGAPGVGKSALARIFGGVEDGPEAEAA-GHTYD-RSIVVDGEEASLMVYDIWEQDGGRW 69
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +           ++VY +T + SF+  +    +LR      ++ I+LVGNKSDL   R V
Sbjct: 70  LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 129
Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             ++ +  A      F+ETSA    NV+  F  V+ +I
Sbjct: 130 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQI 167

>pdb|3LRP|A Chain A, Crystal Structure Of Plasmodium Falciparum Adp-Ribosylation Factor 1 Length = 181

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 31/114 (27%), Positives = 54/114 (47%), Gaps = 6/114 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    +  +N+   +WD  GQ++ R 
Sbjct: 22  MVGLDAAGKTTILYKVKLGEV-VTTIPTIGFNVET----VEFRNISFTVWDVGGQDKIRP 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL 113
           +   YY    G + V D   R+  D+    L  +    + K+ II++  NK DL
Sbjct: 77  LWRHYYSNTDGLIFVVDSNDRERIDDAREELHRMINEEELKDAIILVFANKQDL 130

>pdb|3CBQ|A Chain A, Crystal Structure Of The Human Rem2 Gtpase With Bound Gdp Length = 195

Iteration: 1
 Score = 49.7 bits (117), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 50/170 (29%), Positives = 74/170 (43%), Gaps = 24/170 (14%)
Query: 1   LIGDSAVGKSQLLARFA--------RDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIW- 50
           L+G+S VGKS L   F           E   D+ +  I V+ +  TLV++       IW 
Sbjct: 28  LVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVY------DIWE 81
Query: 51  --DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLV 107
             D  G  R   + +         ++V+ +T R+SF  V   L  LR G    ++ ++LV
Sbjct: 82  QGDAGGWLRDHCLQTGD-----AFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILV 136
Query: 108 GNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           GNKSDL   R V  E+ +  A       +ETSA    N    F   + +I
Sbjct: 137 GNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 186

>pdb|3RD1|A Chain A, Structure Of An Adp Ribosylation Factor From Entamoeba Histolytica Hm- 1:imss Bound To Mg-Gdp Length = 178

Iteration: 1
 Score = 49.3 bits (116), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 37/137 (27%), Positives = 62/137 (45%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 22  MVGLDAAGKTSILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +   YY+     + V D   R   D +    EEL    +    +N I+++  NK DL   
Sbjct: 77  LWRHYYQNTQAIIFVVDSNDR---DRIGEAREELMKMLNEDEMRNAILLVFANKHDLPQA 133
Query: 117 RAVPTEDAKEFAEKEGL 133
            ++      E  EK GL
Sbjct: 134 MSI-----SEVTEKLGL 145

>pdb|3Q85|A Chain A, Crystal Structure Of Rem2 G-Domain -Gtp Analog Complex Length = 169

Iteration: 1
 Score = 48.9 bits (115), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 51/172 (29%), Positives = 76/172 (44%), Gaps = 28/172 (16%)
Query: 1   LIGDSAVGKSQLLARFA--------RDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIW- 50
           L+G+S VGKS L   F           E S D+ +  I V+ +  TL+++       IW 
Sbjct: 7   LVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVY------DIWE 60
Query: 51  --DTAG--QERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIM 105
             D  G  Q+       A+       ++V+ +T R+SF  V   L  LR G    ++ ++
Sbjct: 61  QGDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVI 113
Query: 106 LVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           LVGNKSDL   R V  E+ +  A       +ETSA    N    F   + +I
Sbjct: 114 LVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 165

>pdb|4AII|A Chain A, Crystal Structure Of The Rat Rem2 Gtpase - G Domain Bound To Gdp Length = 180

Iteration: 1
 Score = 48.5 bits (114), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 51/172 (29%), Positives = 76/172 (44%), Gaps = 28/172 (16%)
Query: 1   LIGDSAVGKSQLLARFA--------RDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIW- 50
           L+G+S VGKS L   F           E S D+ +  I V+ +  TL+++       IW 
Sbjct: 17  LLGESGVGKSTLAGTFGGLQGDNAHEMENSEDTYERRIMVDKEEVTLIVY------DIWE 70
Query: 51  --DTAG--QERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIM 105
             D  G  Q+       A+       ++V+ +T R+SF  V   L  LR G    ++ ++
Sbjct: 71  QGDAGGWLQDHCLQTGDAF-------LIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVI 123
Query: 106 LVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           LVGNKSDL   R V  E+ +  A       +ETSA    N    F   + +I
Sbjct: 124 LVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQI 175

>pdb|2B6H|A Chain A, Structure Of Human Adp-Ribosylation Factor 5 Length = 192

Iteration: 1
 Score = 48.1 bits (113), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 33/134 (24%), Positives = 65/134 (48%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 34  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNICFTVWDVGGQDKIRP 88
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y++   G + V D   R+     A  L+++    + ++ ++++  NK D+    A+
Sbjct: 89  LWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN--AM 146
Query: 120 PTEDAKEFAEKEGL 133
           P     E  +K GL
Sbjct: 147 P---VSELTDKLGL 157

>pdb|3O47|A Chain A, Crystal Structure Of Arfgap1-Arf1 Fusion Protein Length = 329

Iteration: 1
 Score = 47.8 bits (112), Expect = 4e-06,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 170 MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 224
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHAD---KNIIIMLVGNKSDLETL 116
           +   Y++   G + V D   R+   N AR  EEL R  A+   ++ ++++  NK DL   
Sbjct: 225 LWRHYFQNTQGLIFVVDSNDRERV-NEAR--EELMRMLAEDELRDAVLLVFANKQDLPN- 280
Query: 117 RAVPTEDAKEFAEKEGL 133
                 +A E  +K GL
Sbjct: 281 ----AMNAAEITDKLGL 293

>pdb|1RE0|A Chain A, Structure Of Arf1-Gdp Bound To Sec7 Domain Complexed With Brefeldin A Length = 164

Iteration: 1
 Score = 47.8 bits (112), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 5   MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 59
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHAD---KNIIIMLVGNKSDLETL 116
           +   Y++   G + V D   R+   N AR  EEL R  A+   ++ ++++  NK DL   
Sbjct: 60  LWRHYFQNTQGLIFVVDSNDRERV-NEAR--EELMRMLAEDELRDAVLLVFANKQDLPN- 115
Query: 117 RAVPTEDAKEFAEKEGL 133
                 +A E  +K GL
Sbjct: 116 ----AMNAAEITDKLGL 128

>pdb|3AQ4|A Chain A, Molecular Insights Into Plant Cell Proliferation Disturbance By Agrobacterium Protein 6b Length = 184

Iteration: 1
 Score = 47.4 bits (111), Expect = 5e-06,   Method: Compositional matrix adjust.
 Identities = 37/139 (26%), Positives = 66/139 (47%), Gaps = 21/139 (15%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 25  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 79
Query: 61  VTSAYYRGAVGAMLVYDITKR----QSFDNVARWL--EELRGHADKNIIIMLVGNKSDLE 114
           +   Y++   G + V D   R    ++ D + R L  +ELR     + ++++  NK DL 
Sbjct: 80  LWRHYFQNTQGLIFVVDSNDRDRVVEARDELHRMLNEDELR-----DAVLLVFANKQDLP 134
Query: 115 TLRAVPTEDAKEFAEKEGL 133
                   +A E  +K GL
Sbjct: 135 N-----AMNAAEITDKLGL 148

>pdb|1RRG|A Chain A, Non-Myristoylated Rat Adp-Ribosylation Factor-1 Complexed With Gdp, Dimeric Crystal Form Length = 181

Iteration: 1
 Score = 47.4 bits (111), Expect = 6e-06,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 22  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHAD---KNIIIMLVGNKSDLETL 116
           +   Y++   G + V D   R+   N AR  EEL R  A+   ++ ++++  NK DL   
Sbjct: 77  LWRHYFQNTQGLIFVVDSNDRERV-NEAR--EELMRMLAEDELRDAVLLVFANKQDLPN- 132
Query: 117 RAVPTEDAKEFAEKEGL 133
                 +A E  +K GL
Sbjct: 133 ----AMNAAEITDKLGL 145

>pdb|1HUR|A Chain A, Human Adp-Ribosylation Factor 1 Complexed With Gdp, Full Length = 180

Iteration: 1
 Score = 47.0 bits (110), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 39/137 (28%), Positives = 67/137 (48%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  GQ++ R 
Sbjct: 21  MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGQDKIRP 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHAD---KNIIIMLVGNKSDLETL 116
           +   Y++   G + V D   R+   N AR  EEL R  A+   ++ ++++  NK DL   
Sbjct: 76  LWRHYFQNTQGLIFVVDSNDRERV-NEAR--EELMRMLAEDELRDAVLLVFANKQDLPN- 131
Query: 117 RAVPTEDAKEFAEKEGL 133
                 +A E  +K GL
Sbjct: 132 ----AMNAAEITDKLGL 144

>pdb|3DOE|A Chain A, Complex Of Arl2 And Bart, Crystal Form 1 Length = 192

Iteration: 1
 Score = 45.1 bits (105), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 40/152 (26%), Positives = 65/152 (42%), Gaps = 13/152 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  ++    S  T+G  F  KTL   H+  K  IWD  GQ+  R+
Sbjct: 21  MLGLDNAGKTTILKKFNGEDIDTIS-PTLG--FNIKTL--EHRGFKLNIWDVGGQKSLRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
               Y+    G + V D   RQ   +  R L+ L          +++  NK DL    A+
Sbjct: 76  YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG--AL 133
Query: 120 PTEDAKEFAEKEGL-----CFMETSALESTNV 146
            +   +E  E + +     C    SA+   N+
Sbjct: 134 SSNAIREVLELDSIRSHHWCIQGCSAVTGENL 165

>pdb|1J2J|A Chain A, Crystal Structure Of Gga1 Gat N-terminal Region In Complex With Arf1 Gtp Form Length = 166

Iteration: 1
 Score = 44.7 bits (104), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 38/137 (27%), Positives = 66/137 (48%), Gaps = 17/137 (12%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E  + +  TIG   +T    + +KN+   +WD  G ++ R 
Sbjct: 7   MVGLDAAGKTTILYKLKLGEI-VTTIPTIGFNVET----VEYKNISFTVWDVGGLDKIRP 61
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHAD---KNIIIMLVGNKSDLETL 116
           +   Y++   G + V D   R+   N AR  EEL R  A+   ++ ++++  NK DL   
Sbjct: 62  LWRHYFQNTQGLIFVVDSNDRERV-NEAR--EELMRMLAEDELRDAVLLVFANKQDLPN- 117
Query: 117 RAVPTEDAKEFAEKEGL 133
                 +A E  +K GL
Sbjct: 118 ----AMNAAEITDKLGL 130

>pdb|1KSG|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 1 Length = 186

Iteration: 1
 Score = 44.3 bits (103), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 44/94 (46%), Gaps = 5/94 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  ++    S  T+G  F  KTL   H+  K  IWD  GQ+  R+
Sbjct: 23  MLGLDNAGKTTILKKFNGEDVDTIS-PTLG--FNIKTL--EHRGFKLNIWDVGGQKSLRS 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL 94
               Y+    G + V D   RQ   +  R L+ L
Sbjct: 78  YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSL 111

>pdb|1KSH|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Native) Length = 186

Iteration: 1
 Score = 44.3 bits (103), Expect = 5e-05,   Method: Compositional matrix adjust.
 Identities = 29/94 (30%), Positives = 44/94 (46%), Gaps = 5/94 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  ++    S  T+G  F  KTL   H+  K  IWD  GQ+  R+
Sbjct: 23  MLGLDNAGKTTILKKFNGEDVDTIS-PTLG--FNIKTL--EHRGFKLNIWDVGGQKSLRS 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL 94
               Y+    G + V D   RQ   +  R L+ L
Sbjct: 78  YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSL 111

>pdb|3C5C|A Chain A, Crystal Structure Of Human Ras-Like, Family 12 Protein In Complex With Gdp Length = 187

Iteration: 1
 Score = 43.5 bits (101), Expect = 9e-05,   Method: Compositional matrix adjust.
 Identities = 46/163 (28%), Positives = 76/163 (46%), Gaps = 6/163 (3%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GKS L  +F    F  +    +   + ++   + H+ V  ++ DTA  +  R 
Sbjct: 26  ILGRRGAGKSALTVKFLTKRFISEYDPNLEDTYSSEE-TVDHQPVHLRVMDTADLDTPRN 84
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLR 117
               Y   A   ++VY +  RQSFD+ + +LE L  HA    ++I  +L+GNK D+   R
Sbjct: 85  CER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYR 143
Query: 118 AVPTEDAKEFAEKEGLCFMETSA-LESTNVELAFLTVLTEIYR 159
            V   +    A + G  F E SA L+  +V+  F   + E  R
Sbjct: 144 QVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR 186

>pdb|3D6T|B Chain B, Structure Of The Roc Domain From The Parkinson's Disease-Associated Leucine-Rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 171

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 68/142 (47%), Gaps = 10/142 (7%)
Query: 1   LIGDSAVGKSQLLARFARDEFS--LDSKATIGVEFQTKTLVIHHK---NVKAQIWDTAGQ 55
           ++G++  GK+ LL +  + + S      AT+G++ +   + I  K   ++   +WD AG+
Sbjct: 5   IVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGR 64
Query: 56  ERYRAVTSAYYRGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNK---S 111
           E + +    +       + VYD++K Q+  D    WL  ++  A  + +I LVG     S
Sbjct: 65  EEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVI-LVGTHLDVS 123
Query: 112 DLETLRAVPTEDAKEFAEKEGL 133
           D +  +A  ++  KE   K G 
Sbjct: 124 DEKQRKACXSKITKELLNKRGF 145

>pdb|2ZEJ|A Chain A, Structure Of The Roc Domain From The Parkinson's Disease-associated Leucine-rich Repeat Kinase 2 Reveals A Dimeric Gtpase Length = 184

Iteration: 1
 Score = 43.1 bits (100), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 36/142 (25%), Positives = 68/142 (47%), Gaps = 10/142 (7%)
Query: 1   LIGDSAVGKSQLLARFARDEFSL--DSKATIGVEFQTKTLVIHHK---NVKAQIWDTAGQ 55
           ++G++  GK+ LL +  + + S      AT+G++ +   + I  K   ++   +WD AG+
Sbjct: 7   IVGNTGSGKTTLLQQLXKTKKSDLGXQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGR 66
Query: 56  ERYRAVTSAYYRGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNK---S 111
           E + +    +       + VYD++K Q+  D    WL  ++  A  + +I LVG     S
Sbjct: 67  EEFYSTHPHFXTQRALYLAVYDLSKGQAEVDAXKPWLFNIKARASSSPVI-LVGTHLDVS 125
Query: 112 DLETLRAVPTEDAKEFAEKEGL 133
           D +  +A  ++  KE   K G 
Sbjct: 126 DEKQRKACXSKITKELLNKRGF 147

>pdb|1MOZ|A Chain A, Adp-Ribosylation Factor-Like 1 (Arl1) From Saccharomyces Cerevisiae Length = 183

Iteration: 1
 Score = 42.7 bits (99), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 32/118 (27%), Positives = 51/118 (43%), Gaps = 16/118 (13%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E  + +K TIG   +T    + +KN+K  +WD  GQ   R 
Sbjct: 23  ILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNVET----LSYKNLKLNVWDLGGQTSIRP 77
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWL------EELRGHADKNIIIMLVGNKSD 112
               YY      + V D T +      ++ L      EEL+  A     +++  NK D
Sbjct: 78  YWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAA-----LLVFANKQD 130

>pdb|1KSJ|A Chain A, Complex Of Arl2 And Pde Delta, Crystal Form 2 (Semet) Length = 186

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 5/87 (5%)
Query: 8   GKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYR 67
           GK+ +L +F  ++    S  T+G  F  KTL   H+  K  IWD  GQ+  R+    Y+ 
Sbjct: 30  GKTTILKKFNGEDVDTIS-PTLG--FNIKTL--EHRGFKLNIWDVGGQKSLRSYWRNYFE 84
Query: 68  GAVGAMLVYDITKRQSFDNVARWLEEL 94
              G + V D   RQ   +  R L+ L
Sbjct: 85  STDGLIWVVDSADRQRXQDCQRELQSL 111

>pdb|1R4A|A Chain A, Crystal Structure Of Gtp-Bound Adp-Ribosylation Factor Like Protein 1 (Arl1) And Grip Domain Of Golgin245 Complex Length = 165

Iteration: 1
 Score = 42.0 bits (97), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 34/118 (28%), Positives = 51/118 (43%), Gaps = 12/118 (10%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E  + +  TIG   +T T    +KN+K Q+WD  GQ   R 
Sbjct: 7   ILGLDGAGKTTILYRLQVGEV-VTTIPTIGFNVETVT----YKNLKFQVWDLGGQTSIRP 61
Query: 61  VTSAYYRGAVGAMLVYDITKRQ----SFDNVARWLEELRGHADKNIIIMLVGNKSDLE 114
               YY      + V D   R     S   +   LEE      +  I+++  NK D+E
Sbjct: 62  YWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEE---EELRKAILVVFANKQDME 116

>pdb|2H16|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) Length = 183

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/120 (25%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F+ +E  + +  TIG   +   +VI+  N +  +WD  GQE  R+
Sbjct: 27  IVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVEE--IVIN--NTRFLMWDIGGQESLRS 81
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
             + YY      ++V D T R+        L ++  H D +   +++  NK D++    V
Sbjct: 82  SWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV 141

>pdb|2H17|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 (Arl5) (Casp Target) Length = 181

Iteration: 1
 Score = 42.0 bits (97), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 31/120 (25%), Positives = 58/120 (48%), Gaps = 6/120 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F+ +E  + +  TIG   +   +VI+  N +  +WD  GQE  R+
Sbjct: 26  IVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVEE--IVIN--NTRFLMWDIGGQESLRS 80
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
             + YY      ++V D T R+        L ++  H D +   +++  NK D++    V
Sbjct: 81  SWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV 140

>pdb|1YZG|A Chain A, Structure Of Human Adp-ribosylation Factor-like 8 Length = 179

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 29/115 (25%), Positives = 51/115 (44%), Gaps = 6/115 (5%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  +E  + +  TIG   +   +    KN    +WD  GQE  R+
Sbjct: 21  IVGLDNAGKTTILYQFLMNEV-VHTSPTIGSNVEEIVV----KNTHFLMWDIGGQESLRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE 114
             + YY      +LV D   R+        L  +  H D +   +++  NK D++
Sbjct: 76  SWNTYYSNTEFIILVVDSIDRERLAITKEELYRMLAHEDLRKAAVLIFANKQDMK 130

>pdb|2KSQ|A Chain A, The Myristoylated Yeast Arf1 In A Gtp And Bicelle Bound Conformation Length = 181

Iteration: 1
 Score = 41.6 bits (96), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 32/134 (23%), Positives = 55/134 (41%), Gaps = 11/134 (8%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +    E  + +  TIG   +     + + N+   +WD  GQ+R R+
Sbjct: 22  MVGLDGAGKTTVLYKLKLGEV-ITTIPTIGFNVE----CVQYCNISFTVWDVGGQDRIRS 76
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
           +   YY    G + V D   R         ++ +    +  N   ++  NK DL    + 
Sbjct: 77  LWRHYYCNTEGVIFVVDSNDRSRIGEAREVMQRMLNEDELCNAAWLVFANKQDLPEAMS- 135
Query: 120 PTEDAKEFAEKEGL 133
               A E  EK GL
Sbjct: 136 ----AAEITEKLGL 145

>pdb|1ZJ6|A Chain A, Crystal Structure Of Human Arl5 Length = 187

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/121 (25%), Positives = 58/121 (47%), Gaps = 6/121 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F+ +E  + +  TIG     + +VI+  N +  +WD  GQE  R+
Sbjct: 21  IVGLDNAGKTTILYQFSMNEV-VHTSPTIGS--NVEEIVIN--NTRFLMWDIGGQESLRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
             + YY      ++V D T R+        L ++  H D +   +++  NK D++    V
Sbjct: 76  SWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV 135
Query: 120 P 120
Sbjct: 136 A 136

>pdb|1Z6Y|A Chain A, Structure Of Human Adp-Ribosylation Factor-Like 5 Length = 179

Iteration: 1
 Score = 41.2 bits (95), Expect = 4e-04,   Method: Compositional matrix adjust.
 Identities = 31/121 (25%), Positives = 58/121 (47%), Gaps = 6/121 (4%)
Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F+ +E  + +  TIG     + +VI+  N +  +WD  GQE  R+
Sbjct: 21  IVGLDNAGKTTILYQFSMNEV-VHTSPTIGS--NVEEIVIN--NTRFLMWDIGGQESLRS 75
Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
             + YY      ++V D T R+        L ++  H D +   +++  NK D++    V
Sbjct: 76  SWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV 135
Query: 120 P 120
Sbjct: 136 A 136

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	206
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	1e-114
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	1e-112
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-110
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	1e-109
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-109
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	1e-109
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	1e-108
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	1e-108
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	1e-108
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-108
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	1e-108
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	1e-108
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-107
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	1e-107
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	1e-106
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	1e-106
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	1e-105
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-105
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-105
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	1e-105
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	1e-105
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	1e-105
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	1e-105
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	1e-104
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	1e-104
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	1e-104
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	1e-103
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-103
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	1e-103
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	1e-103
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	1e-103
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	1e-102
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	1e-102
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	1e-101
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-101
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	1e-100
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-99
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	3e-99
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	6e-99
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	1e-97
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-93
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	1e-91
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	7e-87
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	8e-82
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	1e-81
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	1e-80
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	1e-77
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	6e-77
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	2e-76
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	1e-75
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	4e-74
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-73
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	3e-72
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	8e-72
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	2e-71
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	2e-70
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	2e-68
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	2e-67
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	4e-67
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	2e-66
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-66
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	2e-65
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	2e-65
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	3e-65
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	6e-64
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	6e-63
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	2e-62
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	4e-58
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	6e-58
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	8e-56
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-42
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	4e-39
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	1e-38
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	9e-38
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	1e-37
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	1e-37
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	1e-36
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	1e-35
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	6e-35
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	7e-35
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	2e-34
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	2e-34
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	2e-33
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	3e-33
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	2e-21
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	7e-18
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	8e-17
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	2e-14
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	7e-14
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	2e-13
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	3e-13
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	3e-13
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	3e-13
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	5e-13
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	6e-13
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	6e-13
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	9e-13
3llu_A	196	RAS-related GTP-binding protein C; structural geno	3e-12
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	4e-12
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	4e-11
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	1e-10
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	6e-10
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	7e-10
2ged_A	193	SR-beta, signal recognition particle receptor beta	2e-09
2fh5_B	214	SR-beta, signal recognition particle receptor beta	2e-09
1nrj_B	218	SR-beta, signal recognition particle receptor beta	2e-09
1vt4_I	1221	APAF-1 related killer DARK; drosophila apoptosome,	4e-05
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	5e-04

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae} Length = 223

 Score =  323 bits (830), Expect = e-114
 Identities = 114/206 (55%), Positives = 145/206 (70%), Gaps = 3/206 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF ++EF++DSK+TIGVEF T+TL I  K +KAQIWDTAGQERYRA
Sbjct: 18  LIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRA 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA++VYDI+K  S++N   WL ELR +AD N+ + L+GNKSDL  LRAVP
Sbjct: 78  ITSAYYRGAVGALIVYDISKSSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVP 137

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESG---GS 177
           TE++K FA++  L F ETSAL S NV+ AF  ++  IY+ VSK  +   D S +G   G+
Sbjct: 138 TEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGNANGA 197

Query: 178 SSLLKATNIVVPGQEPESGRRSYNCC 203
           S+    T  + P           NCC
Sbjct: 198 SAPNGPTISLTPTPNENKKANGNNCC 223

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A* Length = 199

 Score =  317 bits (815), Expect = e-112
 Identities = 116/184 (63%), Positives = 147/184 (79%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAGQERYR 
Sbjct: 10  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRR 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 70  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           T++A+ FAEK  L F+ETSAL+STNVE AF  +LTEIYRIVS+K +      +    +++
Sbjct: 130 TDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESPGNNV 189

Query: 181 LKAT 184
           +  +
Sbjct: 190 VDIS 193

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A* Length = 206

 Score =  313 bits (805), Expect = e-110
 Identities = 89/203 (43%), Positives = 129/203 (63%), Gaps = 9/203 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGKS LL RF+ D ++ D  +TIGV+F+ KT+ +  K VK QIWDTAGQER+R 
Sbjct: 13  LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRT 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRG+ G ++VYD+T ++SF+ V  WL+E+  +A   ++ +LVGNK DL+  R V 
Sbjct: 73  ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE 132

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            + AKEFA+   + F+ETSAL+STNVE AFLT+  +I   +S++ L    + +    +  
Sbjct: 133 YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVN 192

Query: 181 LKATNIVVPGQEPESGRRSYNCC 203
           LK  +                CC
Sbjct: 193 LKGQS---------LTNTGGCCC 206

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A* Length = 186

 Score =  310 bits (797), Expect = e-109
 Identities = 80/170 (47%), Positives = 109/170 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG++  GKS LL +F   +F  DS  TIGVEF +K + +  K VK QIWDTAGQER+R+
Sbjct: 15  VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRS 74

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++ +  WL + R  A +NI+I+L GNK DL+  R V 
Sbjct: 75  VTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT 134

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAND 170
             +A  FA++  L F+ETSAL   NVE AF+    +I   +    L    
Sbjct: 135 FLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESGELDPER 184

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens} Length = 193

 Score =  310 bits (796), Expect = e-109
 Identities = 108/164 (65%), Positives = 133/164 (81%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGK+ LL+RF R+EFS DS+ TIGVEF T+T+++    VKAQIWDTAG ERYRA
Sbjct: 30  LIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRA 89

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LV+D+TK Q++  V RWL+EL  HA+  I++MLVGNKSDL   R VP
Sbjct: 90  ITSAYYRGAVGALLVFDLTKHQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVP 149

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           TE+A+ FAE  GL F+ETSAL+STNVELAF TVL EI+  VSK+
Sbjct: 150 TEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens} Length = 200

 Score =  309 bits (795), Expect = e-109
 Identities = 80/170 (47%), Positives = 109/170 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG +  GKS LL +F  ++F  DS  TIGVEF ++ + +  K VK QIWDTAGQER+R+
Sbjct: 30  VIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRS 89

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++++A WL + R  A  NI+++L GNK DL+  R V 
Sbjct: 90  VTRSYYRGAAGALLVYDITSRETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVT 149

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAND 170
             +A  FA++  L F+ETSAL   NVE AFL     I   +    L    
Sbjct: 150 FLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSGELDPER 199

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score =  308 bits (792), Expect = e-108
 Identities = 85/172 (49%), Positives = 120/172 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 21  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 80

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 81  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 140

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDES 172
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI + +   A     E 
Sbjct: 141 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEK 192

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8 Length = 203

 Score =  308 bits (792), Expect = e-108
 Identities = 71/195 (36%), Positives = 114/195 (58%), Gaps = 5/195 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  + K +K QIWDTAG ERYR 
Sbjct: 13  IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRT 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R V 
Sbjct: 73  ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS 132

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
           +E  ++ A+  G  F E SA ++ NV+  F  ++  I   +S+   TA+           
Sbjct: 133 SERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVTGAK---- 188

Query: 181 LKATNIVVPGQEPES 195
            +   +      P  
Sbjct: 189 -QGPQLTDQQAPPHQ 202

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B* Length = 181

 Score =  307 bits (788), Expect = e-108
 Identities = 70/164 (42%), Positives = 107/164 (65%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GKS L+ RF +D+F    ++TIG  F ++TL ++   VK +IWDTAGQERY +
Sbjct: 17  LLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHS 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++V+D+T + SF+   +W++EL+   + N+++ L GNKSDL   R V 
Sbjct: 77  LAPMYYRGAAAAIIVFDVTNQASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVT 136

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            EDA+ +A++ GL FMETSA  +TNV+  F  +   + R+   +
Sbjct: 137 AEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>1oix_A RAS-related protein RAB-11A; small G protein, intracellular trafficking, GTP-binding, lipoprotein, prenylation, protein transport; HET: GDP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1oiw_A* 1oiv_A* 3rwo_B* 3rwm_B* Length = 191

 Score =  307 bits (789), Expect = e-108
 Identities = 113/158 (71%), Positives = 136/158 (86%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAG ERYRA
Sbjct: 34  LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRA 93

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 94  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 153

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
           T++A+ FAEK GL F+ETSAL+STNVE AF T+LTEIY
Sbjct: 154 TDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEIY 191

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A* Length = 191

 Score =  307 bits (788), Expect = e-108
 Identities = 84/166 (50%), Positives = 114/166 (68%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I  K +K QIWDTAGQE +R+
Sbjct: 26  IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRS 85

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R++F+++  WLE+ R H+  N++IML+GNKSDLE+ R V 
Sbjct: 86  ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVK 145

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
            E+ + FA + GL FMETSA  + NVE AF+    EIYR + +   
Sbjct: 146 REEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGLF 191

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 201

 Score =  306 bits (787), Expect = e-108
 Identities = 75/169 (44%), Positives = 105/169 (62%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG++ VGK+ L+ RF +  F     ATIGV+F  KT+ I+ + VK QIWDTAGQER+R+
Sbjct: 31  LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRS 90

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A   +L YDIT  +SF  +  WL E+  +A   +I +LVGNK DL   R V 
Sbjct: 91  ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVS 150

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAN 169
            + A+EF+E + + ++ETSA ES NVE  FL +   +     +  L  N
Sbjct: 151 QQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNN 199

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A* Length = 179

 Score =  304 bits (782), Expect = e-107
 Identities = 81/159 (50%), Positives = 112/159 (70%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD  VGKS LL +F   +F  D   TIGVEF T+ + +  + +K QIWDTAGQER+RA
Sbjct: 20  IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRA 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA++VYDIT+R ++++++ WL + R   + N +I+L+GNK+DLE  R V 
Sbjct: 80  VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVT 139

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+AK+FAE+ GL F+E SA    NVE AFL    +IY+
Sbjct: 140 YEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ 178

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A* Length = 183

 Score =  303 bits (779), Expect = e-107
 Identities = 77/168 (45%), Positives = 109/168 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ +L RF+ D F+    +TIG++F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 13  LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G MLVYDIT  +SFDN+  W+  +  HA  ++  M++GNK D+   R V 
Sbjct: 73  ITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS 132

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTA 168
            E  ++ A   G+ FMETSA  + NVE AF T+  +I   + K     
Sbjct: 133 KERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKAT 180

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A* Length = 189

 Score =  302 bits (775), Expect = e-106
 Identities = 73/163 (44%), Positives = 108/163 (66%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S+VGK+  L R+A D F+    +T+G++F+ KT+  H K +K QIWDTAGQERYR 
Sbjct: 27  LIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRT 86

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDI  ++SF  V  W  +++ ++  N  ++LVGNK DLE  R VP
Sbjct: 87  ITTAYYRGAMGFLLMYDIANQESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVP 146

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
            ED +  A+  G  F E SA E+ NV+  F  ++  I   +++
Sbjct: 147 AEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKMNE 189

>3bbp_A RAB-6, RAS-related protein RAB-6A; golgi complex, GRIP domain, RAB GTPase, ARL GTPase, golgin, RAB effector, clAsp protein; HET: GTP; 3.00A {Homo sapiens} Length = 211

 Score =  302 bits (776), Expect = e-106
 Identities = 65/203 (32%), Positives = 108/203 (53%), Gaps = 13/203 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAG ER+R+
Sbjct: 21  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGLERFRS 80

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 81  LIPSYIRDSTVAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 140

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            E+ +  A++  + F+ETSA    NV+  F  V   +  + S +  +  D  +       
Sbjct: 141 IEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQDRSREDMID------- 193

Query: 181 LKATNIVVPGQEPESGRRSYNCC 203
                 +   +  E       C 
Sbjct: 194 ------IKLEKPQEQPVSEGGCL 210

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8 Length = 192

 Score =  301 bits (772), Expect = e-105
 Identities = 70/164 (42%), Positives = 105/164 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF +D F  +   TIG  F TKT+   ++  K  IWDTAGQER+ +
Sbjct: 28  LLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHS 87

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK+ SF  + +W++EL+ H  +NI++ + GNK DL  +R VP
Sbjct: 88  LAPMYYRGSAAAVIVYDITKQDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVP 147

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            +DAKE+AE  G   +ETSA  + N+E  F  +  +I  +   +
Sbjct: 148 LKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 191

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A* Length = 170

 Score =  300 bits (770), Expect = e-105
 Identities = 72/159 (45%), Positives = 103/159 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            ++A+ +A+   L FMETSA  S NV   F+ +  ++ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A* Length = 170

 Score =  300 bits (770), Expect = e-105
 Identities = 66/159 (41%), Positives = 96/159 (60%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF  D F  +   TIG  F TKT+   ++  K  IWDTAG ER+RA
Sbjct: 11  LLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRA 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK ++F  +  W+ ELR H   +I++ + GNK DL  +R V 
Sbjct: 71  LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVM 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             DAK++A+     F+ETSA  + N+   F+ +   I  
Sbjct: 131 ERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 169

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 213

 Score =  301 bits (772), Expect = e-105
 Identities = 77/178 (43%), Positives = 111/178 (62%), Gaps = 1/178 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK Q+WDTAGQER+R 
Sbjct: 25  LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRT 84

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYD+T  ++F N+ +W + +  HA+    ++LVGNKSD+E  R V 
Sbjct: 85  ITTAYYRGAMGIILVYDVTDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVT 143

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSS 178
            +  +  A++ G+ F+E+SA    NV   F T+   I   +    L      + G  S
Sbjct: 144 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNGKEGNIS 201

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 180

 Score =  298 bits (766), Expect = e-105
 Identities = 75/165 (45%), Positives = 105/165 (63%), Gaps = 1/165 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           L+GDS VGK+ LL RF    F   +  +T+G++F+ K L +    VK Q+WDTAGQER+R
Sbjct: 15  LVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFR 74

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +VT AYYR A   +L+YD+T + SFDN+  WL E+  +A  ++ +ML+GNK D    R V
Sbjct: 75  SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVV 134

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
             ED ++ A++ GL FMETSA    NV+LAF  +  E+ R   K 
Sbjct: 135 KREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKA 179

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A* Length = 178

 Score =  298 bits (766), Expect = e-105
 Identities = 59/168 (35%), Positives = 85/168 (50%), Gaps = 4/168 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK-NVKAQIWDTAGQERYR 59
           ++GD A GK+ L   FA++ F    K TIG++F  + + +    NV  QIWD  GQ    
Sbjct: 11  VLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGG 70

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWL---EELRGHADKNIIIMLVGNKSDLETL 116
            +   Y  GA G +LVYDIT  QSF+N+  W    +++   ++   ++ LVGNK DLE +
Sbjct: 71  KMLDKYIYGAQGVLLVYDITNYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHM 130

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           R +  E    F ++ G      SA    +V L F  V  EI  I   K
Sbjct: 131 RTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens} Length = 199

 Score =  299 bits (767), Expect = e-105
 Identities = 83/159 (52%), Positives = 117/159 (73%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RFA D ++    +TIGV+F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 38  LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRT 97

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRGA G ++VYD+T ++SF+NV +WL+E+  +A +N+  +LVGNK DL T + V 
Sbjct: 98  ITSSYYRGAHGIIVVYDVTDQESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVD 157

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
              AKEFA+  G+ F+ETSA  +TNVE +F+T+  EI +
Sbjct: 158 YTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK 196

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A* Length = 170

 Score =  297 bits (763), Expect = e-104
 Identities = 65/158 (41%), Positives = 91/158 (57%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+     T+G  F TK L I  K V   IWDTAGQER+ A
Sbjct: 11  LLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHA 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR + GA+LVYDIT   SF  V  W++ELR      I + +VGNK DLE  R V 
Sbjct: 71  LGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
            ++A+ +AE  G     TSA ++  +E  FL +   + 
Sbjct: 131 IQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} Length = 191

 Score =  297 bits (764), Expect = e-104
 Identities = 75/162 (46%), Positives = 109/162 (67%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  H K VK QIWDTAGQERYR 
Sbjct: 28  IIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRT 87

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R VP
Sbjct: 88  ITTAYYRGAMGFILMYDITNEESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVP 147

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVS 162
           TE  +  AE+ G  F E SA E+ +V  AF  ++  I   +S
Sbjct: 148 TEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKMS 189

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score =  296 bits (761), Expect = e-104
 Identities = 79/164 (48%), Positives = 106/164 (64%), Gaps = 1/164 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGDS VGKS LL RFA + FS     TIGV+F+ +T+ I+ + VK QIWDTAGQER+R 
Sbjct: 14  IIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRT 73

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS YYRG  G ++VYD+T  +SF NV RWL E+  + D ++  +LVGNK+D    + V 
Sbjct: 74  ITSTYYRGTHGVIVVYDVTSAESFVNVKRWLHEINQNCD-DVCRILVGNKNDDPERKVVE 132

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           TEDA +FA + G+   ETSA E+ NVE  F  +   + R     
Sbjct: 133 TEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDN 176

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens} Length = 201

 Score =  296 bits (760), Expect = e-103
 Identities = 85/160 (53%), Positives = 111/160 (69%), Gaps = 1/160 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD++VGK+ ++ RF    FS    +TIGV+F  KTL I  K VK QIWDTAGQER+R 
Sbjct: 34  LVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRT 93

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A GA+L YDITKR SF +V  W+E++R +A  NI+ +L+GNKSDL  LR V 
Sbjct: 94  ITQSYYRSANGAILAYDITKRSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVS 153

Query: 121 TEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYR 159
             +A+  AE    LC +ETSA +S+NVE AFL V TE+  
Sbjct: 154 LAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIM 193

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens} Length = 192

 Score =  296 bits (759), Expect = e-103
 Identities = 68/160 (42%), Positives = 111/160 (69%), Gaps = 1/160 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG   VGK+ L+ RF  D F    K+T+GV+F+ KT+ +  K ++ QIWDTAGQER+ +
Sbjct: 31  IIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNS 90

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYR A G +LVYDITK+++FD++ +W++ +  +A ++  ++LVGNK D ET R + 
Sbjct: 91  ITSAYYRSAKGIILVYDITKKETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREIT 150

Query: 121 TEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  ++FA++  G+ F E SA ++ NV+  FL ++ +I +
Sbjct: 151 RQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK 190

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A* Length = 179

 Score =  294 bits (756), Expect = e-103
 Identities = 63/160 (39%), Positives = 102/160 (63%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + V+ Q+WDTAGQER+R+
Sbjct: 19  FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRS 78

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF   ++W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 79  LIPSYIRDSTVAVVVYDITNTNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVS 138

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
           TE+ +  A++  + F+ETSA    NV+  F  V   +  +
Sbjct: 139 TEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM 178

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A Length = 170

 Score =  293 bits (753), Expect = e-103
 Identities = 76/163 (46%), Positives = 107/163 (65%), Gaps = 1/163 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK QIWDTAGQER+R 
Sbjct: 8   LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRT 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYDIT  ++F N+ +W + +  HA+    ++LVGNKSD+E  R V 
Sbjct: 68  ITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVT 126

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
            +  +  A++ G+ F+E+SA    NV   F T+   I   +  
Sbjct: 127 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A* Length = 217

 Score =  295 bits (756), Expect = e-103
 Identities = 70/188 (37%), Positives = 115/188 (61%), Gaps = 12/188 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN----------VKAQIW 50
            +GDS VGK+  L R+  ++F+     T+G++F+ K +V + +           V  Q+W
Sbjct: 30  ALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLW 89

Query: 51  DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGN 109
           DTAGQER+R++T+A++R A+G +L++D+T +QSF NV  W+ +L+ +A  +N  I+L+GN
Sbjct: 90  DTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGN 149

Query: 110 KSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL-TA 168
           K+DL   R V    A+E A+K G+ + ETSA    NVE A  T+L  I + + +    T 
Sbjct: 150 KADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEKTQ 209

Query: 169 NDESESGG 176
             ++ +GG
Sbjct: 210 IPDTVNGG 217

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8 Length = 195

 Score =  293 bits (751), Expect = e-102
 Identities = 75/177 (42%), Positives = 103/177 (58%), Gaps = 2/177 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S VGKS LL RF  D F  +  ATIGV+F+ KT+ +     K  IWDTAGQER+R 
Sbjct: 20  IIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRT 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKN-IIIMLVGNKSDLETLRAV 119
           +T +YYRGA G +LVYD+T+R +F  +  WL EL  +  +N I+ MLVGNK D E  R V
Sbjct: 80  LTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKE-NREV 138

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGG 176
              +  +FA K  + F+E SA     V+ AF  ++ +I +          +   S G
Sbjct: 139 DRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQTPGLWESENQNSGPSSG 195

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A* Length = 195

 Score =  292 bits (750), Expect = e-102
 Identities = 68/175 (38%), Positives = 108/175 (61%), Gaps = 11/175 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH----------KNVKAQIW 50
            +GDS VGK+ +L ++   +F+     T+G++F+ K +V             + +  Q+W
Sbjct: 16  ALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLW 75

Query: 51  DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGN 109
           DTAG ER+R++T+A++R A+G +L++D+T  QSF NV  W+ +L+ HA  +N  I+L GN
Sbjct: 76  DTAGLERFRSLTTAFFRDAMGFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGN 135

Query: 110 KSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           KSDLE  RAV  E+A+E AEK G+ + ETSA   TN+  A   +L  I + + + 
Sbjct: 136 KSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERS 190

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens} Length = 199

 Score =  291 bits (746), Expect = e-101
 Identities = 66/165 (40%), Positives = 102/165 (61%), Gaps = 6/165 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L GD+AVGKS  L R  ++EF  +  AT+GV+FQ KTL++  +    Q+WDTAGQER+R+
Sbjct: 33  LAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRS 92

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL------E 114
           +  +Y+R A G +L+YD+T  +SF N+  W++ +   A + + IMLVGNK+D+      E
Sbjct: 93  IAKSYFRKADGVLLLYDVTCEKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATE 152

Query: 115 TLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             + VP    ++ A   G  F ETSA + +N+  A L +  E+ +
Sbjct: 153 GQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKK 197

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A* Length = 168

 Score =  289 bits (741), Expect = e-101
 Identities = 57/159 (35%), Positives = 93/159 (58%), Gaps = 1/159 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G+ AVGKS ++ R+ +  F+ D K TIGV+F  + + ++ ++V+  +WDTAGQE + A
Sbjct: 10  VVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDA 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T AYYRGA   +LV+  T R+SF+ ++ W E++      +I   LV NK DL     + 
Sbjct: 70  ITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIK 128

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+A+  A++  L F  TS  E  NV   F  +  +  +
Sbjct: 129 NEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 167

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score =  288 bits (740), Expect = e-100
 Identities = 53/183 (28%), Positives = 90/183 (49%), Gaps = 9/183 (4%)

Query: 1   LIGDSAVGKSQLLARFAR--DEFSLDSKATIGVEFQTKTLVIHHKNVKAQIW--DTAGQE 56
           ++G++ VGKS L++ F     +F  D   T GVE     + I    V  +++  DTAG +
Sbjct: 25  VVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSD 84

Query: 57  RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR---GHADKNIIIMLVGNKSDL 113
            Y+   S Y+ G   A+LV+D++  +SF++   W E L+      ++ +  +LV NK+DL
Sbjct: 85  LYKEQISQYWNGVYYAILVFDVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDL 144

Query: 114 ETLR-AVPTEDAKEFAEKEGLCFMETSA-LESTNVELAFLTVLTEIYRIVSKKALTANDE 171
              R  V  + A+++A    L F + SA     + +  FL++ T  YR    K     D 
Sbjct: 145 PPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKVAAFQDA 204

Query: 172 SES 174
             +
Sbjct: 205 CRN 207

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B* Length = 189

 Score =  285 bits (732), Expect = 1e-99
 Identities = 65/164 (39%), Positives = 99/164 (60%), Gaps = 5/164 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR- 59
           +IGDS VGK+ L  RF    F   ++ATIGV+F+ + + I  + +K Q+WDTAGQER+R 
Sbjct: 25  VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRK 84

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKN-IIIMLVGNKSDLETLRA 118
           ++   YYR     + VYD+T   SF ++  W+EE + H   N I  +LVGNK DL +   
Sbjct: 85  SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ 144

Query: 119 VPTEDAKEFAEKEGLCFMETSAL---ESTNVELAFLTVLTEIYR 159
           VPT+ A++FA+   +   ETSA    ++ +VE  F+T+  ++  
Sbjct: 145 VPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKS 188

>4djt_A GTP-binding nuclear protein GSP1; structural genomics, seattle structural genomics center for infectious disease, ssgcid, RAN family; HET: GDP; 1.80A {Encephalitozoon cuniculi} Length = 218

 Score =  285 bits (732), Expect = 3e-99
 Identities = 53/199 (26%), Positives = 86/199 (43%), Gaps = 6/199 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVE-FQTKTLVIHHKNVKAQIWDTAGQERYR 59
           LIGD  VGK+  + R     F  +  AT+G        L      +K  +WDTAGQE+  
Sbjct: 16  LIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKA 75

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
            +   YY GA GA+L +D+T R +  N+ARW++E +        I++  NK D++  + +
Sbjct: 76  VLKDVYYIGASGAILFFDVTSRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKI 135

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY-----RIVSKKALTANDESES 174
             +   E  + +   + E SA  + N  L FL +            VS   L   + +  
Sbjct: 136 SKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNLEPTEVNYD 195

Query: 175 GGSSSLLKATNIVVPGQEP 193
             S    K  + +    + 
Sbjct: 196 YHSPEESKYIDYMEQASKM 214

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B* Length = 207

 Score =  284 bits (729), Expect = 6e-99
 Identities = 62/207 (29%), Positives = 102/207 (49%), Gaps = 17/207 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAGQER+++
Sbjct: 13  ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W +E    A     +N   +++GNK DLE  
Sbjct: 73  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR 132

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGG 176
           +            K  + + ETSA E+ NVE AF T+     +  ++  L          
Sbjct: 133 QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEF------ 186

Query: 177 SSSLLKATNIVVPGQEPESGRRSYNCC 203
                     +   +   +   + +C 
Sbjct: 187 -------PEPIKLDKNERAKASAESCS 206

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A* Length = 177

 Score =  280 bits (718), Expect = 1e-97
 Identities = 61/164 (37%), Positives = 94/164 (57%), Gaps = 6/164 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 12  LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD    ++   +++GNK D+   
Sbjct: 72  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE- 130

Query: 117 RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYR 159
           R V TE+A+ +    G   + ETSA ++TNV  AF   +  +  
Sbjct: 131 RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 174

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A* Length = 182

 Score =  270 bits (692), Expect = 1e-93
 Identities = 62/166 (37%), Positives = 97/166 (58%), Gaps = 7/166 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYR 59
           ++GDS VGK+ L+ R+  D++S   KATIG +F TK + +   K    Q+WDTAGQER++
Sbjct: 13  ILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQ 72

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLET 115
           ++  A+YRGA   +LVYD+T   SF+N+  W +E   HA+    +    +++GNK D E 
Sbjct: 73  SLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 132

Query: 116 L-RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYR 159
             + V  + A+E A+  G +    TSA  + NV+ AF  +     +
Sbjct: 133 SKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 178

>3gj0_A GTP-binding nuclear protein RAN; G protein, GDP, acetylation, cytoplasm, HOST- virus interaction, nucleotide-binding, nucleus, phosphoprotein; HET: GDP; 1.48A {Homo sapiens} PDB: 3gj3_A* 3gj5_A* 3gj4_A* 3gj6_A* 3gj7_A* 3gj8_A* 1i2m_A 1a2k_C 1ibr_A* 1k5d_A* 1k5g_A* 1qbk_C* 3a6p_C* 3ch5_A* 1qg4_A* 3ea5_A* 1qg2_A* 1byu_A* 3ran_A* 3gjx_C* ... Length = 221

 Score =  266 bits (683), Expect = 1e-91
 Identities = 52/204 (25%), Positives = 92/204 (45%), Gaps = 13/204 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 20  LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 79

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L    + NI I+L GNK D++  +   
Sbjct: 80  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVK- 137

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKA----------LTAND 170
              +  F  K+ L + + SA  + N E  FL +  ++    + +           +  + 
Sbjct: 138 -AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPEVVMDP 196

Query: 171 ESESGGSSSLLKATNIVVPGQEPE 194
              +     L  A    +P ++ +
Sbjct: 197 ALAAQYEHDLEVAQTTALPDEDDD 220

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score =  253 bits (649), Expect = 7e-87
 Identities = 60/198 (30%), Positives = 95/198 (47%), Gaps = 40/198 (20%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKA------------- 47
           L+G+S+VGKS ++ R  +D F  ++  TIG  F T  + ++  N+K              
Sbjct: 12  LLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSI 71

Query: 48  ------------------------QIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQS 83
                                    IWDTAGQERY ++   YYRGA  A++V+DI+   +
Sbjct: 72  NDDNNVIITNQHNNYNENLCNIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNT 131

Query: 84  FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALES 143
            D    W+ +L+     N II+LV NK D      V   + +++A+   L F++TSA   
Sbjct: 132 LDRAKTWVNQLK--ISSNYIIILVANKIDKNK-FQVDILEVQKYAQDNNLLFIQTSAKTG 188

Query: 144 TNVELAFLTVLTEIYRIV 161
           TN++  F  +  EIY+ +
Sbjct: 189 TNIKNIFYMLAEEIYKNI 206

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens} Length = 195

 Score =  240 bits (615), Expect = 8e-82
 Identities = 40/166 (24%), Positives = 68/166 (40%), Gaps = 2/166 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L   F   +     +     +   + +++  + V   ++D   Q     
Sbjct: 28  LVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGG 87

Query: 61  V-TSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLRA 118
                  +     ++V+ +T R+SF  V   L  L  G    ++ ++LVGNKSDL   R 
Sbjct: 88  WLRDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSRE 147

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           V  E+ +  A       +ETSA    N    F   + +I     + 
Sbjct: 148 VSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRN 193

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score =  239 bits (612), Expect = 1e-81
 Identities = 40/161 (24%), Positives = 67/161 (41%), Gaps = 2/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+S VGKS L   F   +     +     +   + +++  + V   ++D   Q     
Sbjct: 7   LVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGG 66

Query: 61  V-TSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLRA 118
                  +     ++V+ +T R+SF  V   L  L  G    ++ ++LVGNKSDL   R 
Sbjct: 67  WLQDHCLQTGDAFLIVFSVTDRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSRE 126

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           V  E+ +  A       +ETSA    N    F   + +I  
Sbjct: 127 VSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL 167

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 170

 Score =  236 bits (604), Expect = 1e-80
 Identities = 71/162 (43%), Positives = 101/162 (62%), Gaps = 3/162 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G++AVGKS ++ RF  ++F+ + + TIG  F T+ + I+   VK +IWDTAGQER+ +
Sbjct: 8   LLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFAS 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD---LETLR 117
           +   YYR A  A++VYD+TK QSF     W++EL   A K+III LVGNK D       R
Sbjct: 68  LAPXYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGER 127

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            V  E+ ++ AE++GL F ETSA    NV   FL +  +I  
Sbjct: 128 KVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPL 169

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A* Length = 168

 Score =  229 bits (586), Expect = 1e-77
 Identities = 62/160 (38%), Positives = 92/160 (57%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 9   MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 68  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 127

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E+AK  A++  + ++ETSA    NV+  F  ++ EI  
Sbjct: 128 SVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A* Length = 187

 Score =  228 bits (583), Expect = 6e-77
 Identities = 63/160 (39%), Positives = 92/160 (57%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 23  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 82  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 141

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI  
Sbjct: 142 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA 181

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens} Length = 175

 Score =  226 bits (578), Expect = 2e-76
 Identities = 48/162 (29%), Positives = 78/162 (48%), Gaps = 4/162 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGK+ L + FA  +   D    +G +   +TL +  ++    + DT   E+   
Sbjct: 9   LLGDPGVGKTSLASLFAGKQE-RDLHEQLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDK 67

Query: 61  VTS--AYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLETLR 117
             S  +  +G    ++VY I  R SF++ +    +L R H   ++ I+LVGNK+DL   R
Sbjct: 68  SWSQESCLQGGSAYVIVYSIADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCR 127

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            V  E+ +  A      F+ETSA    NV   F  V+ ++  
Sbjct: 128 EVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRL 169

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens} Length = 206

 Score =  225 bits (575), Expect = 1e-75
 Identities = 64/183 (34%), Positives = 100/183 (54%), Gaps = 2/183 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K +V+  + V+  I DTAGQE Y A
Sbjct: 19  MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYR-KKVVLDGEEVQIDILDTAGQEDYAA 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 78  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 137

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSS 179
             E+AK  AE+  + ++ETSA    NV+  F  ++ EI     + +   N + +    + 
Sbjct: 138 SVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMEDSKEKNGKKKRKSLAK 197

Query: 180 LLK 182
            ++
Sbjct: 198 RIR 200

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score =  221 bits (566), Expect = 4e-74
 Identities = 51/165 (30%), Positives = 82/165 (49%), Gaps = 2/165 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGK+ L  +F   EFS     T+   + +K + +        + DTAGQ+ Y  
Sbjct: 29  ILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSI 87

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +  ++  G  G +LVY +T   SF  +    ++   GH    + ++LVGNK+DL   R V
Sbjct: 88  LPYSFIIGVHGYVLVYSVTSLHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREV 147

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
              + K+ AE  G  FME+SA E+   +  F  V+ EI R+ +  
Sbjct: 148 QAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSY 192

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B* Length = 184

 Score =  219 bits (560), Expect = 1e-73
 Identities = 37/174 (21%), Positives = 75/174 (43%), Gaps = 11/174 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSL--DSKATIGVEFQTKTLVIHHK---NVKAQIWDTAGQ 55
           ++G++  GK+ LL +  + + S      AT+G++ +   + I  K   ++   +WD AG+
Sbjct: 7   IVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGR 66

Query: 56  ERYRAVTSAYYRGAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKSDLE 114
           E + +    +       + VYD++K Q+  D +  WL  ++  A  +  ++LVG   D+ 
Sbjct: 67  EEFYSTHPHFMTQRALYLAVYDLSKGQAEVDAMKPWLFNIKARAS-SSPVILVGTHLDVS 125

Query: 115 TLR---AVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLTEIYRIVSKK 164
             +   A  ++  KE   K G     +   + +T    A   +   I       
Sbjct: 126 DEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNF 179

>2g3y_A GTP-binding protein GEM; small GTPase, GDP, inactive state, RGK family, structur genomics, structural genomics consortium, SGC, signaling PR; HET: GDP; 2.40A {Homo sapiens} SCOP: c.37.1.8 Length = 211

 Score =  217 bits (554), Expect = 3e-72
 Identities = 49/169 (28%), Positives = 81/169 (47%), Gaps = 7/169 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS    +G +   +TL++  ++   +   +W+  G+ 
Sbjct: 42  LIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGEN 101

Query: 57  RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLET 115
            +  +     +     ++VY IT R SF+  +    +L R    ++I I+LVGNKSDL  
Sbjct: 102 EW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR 159

Query: 116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            R V   + +  A      F+ETSA    NV+  F  ++ ++      K
Sbjct: 160 CREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 208

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A* Length = 181

 Score =  214 bits (548), Expect = 8e-72
 Identities = 54/165 (32%), Positives = 83/165 (50%), Gaps = 2/165 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  D   TI   + TK   +     +  I DTAGQE + A
Sbjct: 14  VVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSY-TKICSVDGIPARLDILDTAGQEEFGA 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LV+ I  RQSF+ V +   + LR     +  ++LVGNK+DLE+ R V
Sbjct: 73  MREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQV 132

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           P  +A  F     + + E SA    NV+ AF  ++  + +   ++
Sbjct: 133 PRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQE 177

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A* Length = 166

 Score =  213 bits (545), Expect = 2e-71
 Identities = 42/160 (26%), Positives = 70/160 (43%), Gaps = 3/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G   VGKS L   F   E         G  +  +++V+  +     ++D   Q+  R 
Sbjct: 7   LLGAPGVGKSALARIFGGVEDG-PEAEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRW 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +           ++VY +T + SF+  +    +  R     ++ I+LVGNKSDL   R V
Sbjct: 65  LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 124

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             ++ +  A      F+ETSA    NV+  F  V+ +I  
Sbjct: 125 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL 164

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A* Length = 192

 Score =  211 bits (540), Expect = 2e-70
 Identities = 49/169 (28%), Positives = 81/169 (47%), Gaps = 7/169 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSK-ATIGVEFQTKTLVIHHKN---VKAQIWDTAGQE 56
           LIG+  VGKS L   FA    S+DS    +G +   +TL++  ++   +   +W+  G+ 
Sbjct: 11  LIGEQGVGKSTLANIFAGVHDSMDSDXEVLGEDTYERTLMVDGESATIILLDMWENKGEN 70

Query: 57  RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEEL-RGHADKNIIIMLVGNKSDLET 115
            +  +     +     ++VY IT R SF+  +    +L R    ++I I+LVGNKSDL  
Sbjct: 71  EW--LHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVR 128

Query: 116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            R V   + +  A      F+ETSA    NV+  F  ++ ++      K
Sbjct: 129 XREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 177

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* Length = 181

 Score =  206 bits (527), Expect = 2e-68
 Identities = 51/165 (30%), Positives = 77/165 (46%), Gaps = 2/165 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F      TI   F TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 11  ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSI 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     + L       I IMLVGNK DL   R +
Sbjct: 70  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 129

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
             E+ K  AE     F+E+SA E+      F  ++ E  ++    
Sbjct: 130 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGAC 174

>2ce2_X GTPase HRAS; signaling protein, guanine nucleotide binding protein, fluor membrane, lipoprotein, palmitate, prenylation; HET: GDP XY2; 1.0A {Homo sapiens} PDB: 2cl0_X* 2cl6_X* 2cl7_X* 2clc_X* 2evw_X* 2cld_X* 1aa9_A* 1ioz_A* 1q21_A* 6q21_A* 3k9l_A* 3k9n_A* 1ctq_A* 1bkd_R 1crp_A* 1crq_A* 1crr_A* 121p_A* 1gnp_A* 1gnq_A* ... Length = 166

 Score =  203 bits (519), Expect = 2e-67
 Identities = 54/160 (33%), Positives = 88/160 (55%), Gaps = 3/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   +  K +VI  +     I DTAGQE Y A
Sbjct: 8   VVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D  ++ ++LVGNKSDL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTV 125

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  A++ A   G+ ++ETSA     VE AF T++ EI +
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 Length = 172

 Score =  202 bits (517), Expect = 4e-67
 Identities = 49/161 (30%), Positives = 71/161 (44%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G   VGKS L+ RF +  F      T+   +  + +         QI DT G  ++ A
Sbjct: 8   VFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK--NIIIMLVGNKSDLETLRA 118
           +           +LVY IT RQS + +    E++        +I IMLVGNK D    R 
Sbjct: 67  MQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE 126

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           V + +A+  A      FMETSA  + NV+  F  +L    R
Sbjct: 127 VQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKR 167

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A* Length = 183

 Score =  201 bits (513), Expect = 2e-66
 Identities = 53/161 (32%), Positives = 85/161 (52%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD  VGKS L  +F +  F  D   TI   +  K   I ++     + DTAGQE + A
Sbjct: 23  VVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSA 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
           +   Y R   G ++VY +T + SF++V R+ + +    D+ +  ++LV NK DL  LR V
Sbjct: 82  MREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKV 141

Query: 120 PTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIYR 159
             +  KE A K  + ++ETSA +   NV+  F  ++  I +
Sbjct: 142 TRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 182

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R* Length = 167

 Score =  200 bits (511), Expect = 2e-66
 Identities = 49/160 (30%), Positives = 83/160 (51%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F    F      TI  +F  K + +       +I DTAG E++ +
Sbjct: 8   VLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFAS 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G +LVY +  +QSF ++    ++ +R    + + ++LVGNK DLE+ R V
Sbjct: 67  MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREV 126

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            + + +  AE+ G  FMETSA   T V+  F  ++ ++  
Sbjct: 127 SSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY 166

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A* Length = 189

 Score =  198 bits (507), Expect = 2e-65
 Identities = 55/179 (30%), Positives = 93/179 (51%), Gaps = 3/179 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ K +VI  +     I DTAGQE Y A
Sbjct: 9   VVGADGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++  + E+  R    +++ ++LVGNK DL + R V
Sbjct: 68  MRDQYMRTGEGFLCVFAINNTKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTV 126

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSS 178
            T+ A++ A   G+ F+ETSA     V+ AF T++ EI +   K +     + +   + 
Sbjct: 127 DTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKMSKDGKKKKKKSKTK 185

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D* Length = 167

 Score =  197 bits (504), Expect = 2e-65
 Identities = 51/161 (31%), Positives = 83/161 (51%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI   ++ K + +  +    +I DTAG E++ A
Sbjct: 8   VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E+ LR    +++ ++LVGNK DLE  R V
Sbjct: 67  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 126

Query: 120 PTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +   C F+E+SA    NV   F  ++ +I R
Sbjct: 127 GKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>3con_A GTPase NRAS; structural genomics consortium, SGC, GDP, oncogene, disease mutation, golgi apparatus, GTP-binding, lipoprotein membrane, methylation; HET: GDP; 1.65A {Homo sapiens} PDB: 2pmx_A* 3gft_A* 4q21_A* Length = 190

 Score =  198 bits (505), Expect = 3e-65
 Identities = 59/165 (35%), Positives = 89/165 (53%), Gaps = 3/165 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   +  K +VI  +     I DTAGQE Y A
Sbjct: 26  VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSA 84

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF ++  + E+++   D  ++ ++LVGNK DL T R V
Sbjct: 85  MRDQYMRTGEGFLCVFAINNSKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTV 143

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
            T+ A E A+  G+ F+ETSA     VE AF T++ EI +   KK
Sbjct: 144 DTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKK 188

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 199

 Score =  195 bits (498), Expect = 6e-64
 Identities = 47/161 (29%), Positives = 75/161 (46%), Gaps = 4/161 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G   VGKS L+ RF +  F      TI   +  + +         QI DT G  ++ A
Sbjct: 13  VFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTY-RQVISCDKSVCTLQITDTTGSHQFPA 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR--GHADKNIIIMLVGNKSDLETLRA 118
           +           +LV+ +T +QS + +    + +     + ++I +MLVGNK D    R 
Sbjct: 72  MQRLSISKGHAFILVFSVTSKQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-RE 130

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           V T +A+  A++    FMETSA  + NV+  F  +LT   R
Sbjct: 131 VDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETR 171

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens} Length = 187

 Score =  192 bits (490), Expect = 6e-63
 Identities = 45/163 (27%), Positives = 73/163 (44%), Gaps = 6/163 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GKS L  +F    F  +    +   + +    + H+ V  ++ DTA  +  R 
Sbjct: 26  ILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRN 84

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLR 117
               Y   A   ++VY +  RQSFD+ + +LE L  HA    ++I  +L+GNK D+   R
Sbjct: 85  CER-YLNWAHAFLVVYSVDSRQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYR 143

Query: 118 AVPTEDAKEFAEKEGLCFMETSALES-TNVELAFLTVLTEIYR 159
            V   +    A + G  F E SA     +V+  F   + E  R
Sbjct: 144 QVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARR 186

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 196

 Score =  191 bits (488), Expect = 2e-62
 Identities = 53/161 (32%), Positives = 76/161 (47%), Gaps = 4/161 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G + VGKS L+ RF    F  +   T+   +      I  + V  +I DTAGQE    
Sbjct: 33  IFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQEDT-I 90

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
               + R   G +LVYDIT R SF+ V             KN+ ++LVGNK+DL+  R V
Sbjct: 91  QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQV 150

Query: 120 PTEDAKEFAEKEGLCFMETSALES-TNVELAFLTVLTEIYR 159
            TE+ ++ A +    F E SA     N+   F  +  E+ R
Sbjct: 151 STEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 191

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} Length = 184

 Score =  180 bits (458), Expect = 4e-58
 Identities = 32/163 (19%), Positives = 64/163 (39%), Gaps = 11/163 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G+ + GKS L+ R+    +    ++  G  F  K +V+  ++    I D  G    + 
Sbjct: 25  IVGNLSSGKSALVHRYLTGTYV-QEESPEGGRF-KKEIVVDGQSYLLLIRDEGGPPELQ- 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK-NIIIMLVGNKSDL--ETLR 117
               +       + V+ +    SF  V  +   L    +   + ++LVG +  +     R
Sbjct: 82  ----FAAWVDAVVFVFSLEDEISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPR 137

Query: 118 AVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYR 159
            +    A++ +     C + ET A    NVE  F  V  ++  
Sbjct: 138 VIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVA 180

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score =  189 bits (482), Expect = 6e-58
 Identities = 35/167 (20%), Positives = 54/167 (32%), Gaps = 12/167 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH--------KNVKAQIWDT 52
           LIGD   GK+ LL +   + F      T G+   TK              K      WD 
Sbjct: 46  LIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDF 105

Query: 53  AGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD 112
            GQE   A    +   +   ML+ D     +  N   WL  +  +      +++V NK D
Sbjct: 106 GGQEIMHASHQFFMTRSSVYMLLLDSR---TDSNKHYWLRHIEKYGG-KSPVIVVMNKID 161

Query: 113 LETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
                 +  +   E        F   S      VE    ++ + +  
Sbjct: 162 ENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLH 208

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A Length = 178

 Score =  173 bits (442), Expect = 8e-56
 Identities = 38/174 (21%), Positives = 71/174 (40%), Gaps = 13/174 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD+  GKS L+ RF    +    + T   ++  K +++  +     I + AG    + 
Sbjct: 12  VLGDARSGKSSLIHRFLTGSYQ-VLEKTESEQY-KKEMLVDGQTHLVLIREEAGAPDAK- 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE---LRGHADKNIIIMLVG--NKSDLET 115
               +   A   + V+ +    SF  V+R   +   LRG     + + LVG  ++    +
Sbjct: 69  ----FSGWADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASS 124

Query: 116 LRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEIYRIVSKKALTA 168
            R V    A+        C + ET A    NV+  F  V  ++  +  ++ L A
Sbjct: 125 PRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQQLLA 178

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* Length = 194

 Score =  140 bits (356), Expect = 2e-42
 Identities = 42/154 (27%), Positives = 75/154 (48%), Gaps = 6/154 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  F++ E       T+   F +  +   ++     +WDTAGQE Y  
Sbjct: 28  VVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENF-SHVMKYKNEEFILHLWDTAGQEEYDR 86

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL--ETLR 117
           +    Y  +   +L + +  R SFDN+  +W  E++ + D     +LVG K DL  +   
Sbjct: 87  LRPLSYADSDVVLLCFAVNNRTSFDNISTKWEPEIKHYID-TAKTVLVGLKVDLRKDGSD 145

Query: 118 AVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
            V  ++  +  +K G + ++E S++    +   F
Sbjct: 146 DVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVF 179

>3bwd_D RAC-like GTP-binding protein ARAC6; G domain, cytoplasm, lipoprotein, membrane, methylation, nucleotide-binding, prenylation, ----; HET: GDP; 1.53A {Arabidopsis thaliana} PDB: 2nty_C* 2wbl_C Length = 182

 Score =  131 bits (332), Expect = 4e-39
 Identities = 49/162 (30%), Positives = 79/162 (48%), Gaps = 14/162 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +GD AVGK+ LL  +  + F  D   T+   F    +V++   V   +WDTAGQE Y  
Sbjct: 13  TVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFSA-NVVVNGATVNLGLWDTAGQEDYNR 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    YRGA   +L + +  + S++NV+ +W+ EL+ +A   + I+LVG K DL      
Sbjct: 72  LRPLSYRGADVFILAFSLISKASYENVSKKWIPELKHYAP-GVPIVLVGTKLDLRDDKQF 130

Query: 116 ------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                    + T   +E  +  G   ++E S+    NV+  F
Sbjct: 131 FIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVF 172

>2j1l_A RHO-related GTP-binding protein RHOD; GTPase, membrane, prenylation, hydrolase, nucleotide-binding, methylation, lipoprotein, endosome DYNA; HET: GDP; 2.5A {Homo sapiens} Length = 214

 Score =  131 bits (331), Expect = 1e-38
 Identities = 52/164 (31%), Positives = 73/164 (44%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ LL  FA   F      T+   +    L +  K V   IWDTAGQ+ Y  
Sbjct: 39  LVGDGGCGKTSLLMVFADGAFPESYTPTVFERYMVN-LQVKGKPVHLHIWDTAGQDDYDR 97

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +   +Y  A   +L +D+T   SFDN+  RW  E+     K + I++VG K+DL      
Sbjct: 98  LRPLFYPDASVLLLCFDVTSPNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSL 156

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                   L  V     +E A   G + ++E SA    NV   F
Sbjct: 157 VNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVF 200

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana} Length = 212

 Score =  129 bits (325), Expect = 9e-38
 Identities = 50/192 (26%), Positives = 92/192 (47%), Gaps = 12/192 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +GD AVGK+ +L  +  ++F  D   T+  +  +  + +  + V   +WDTAGQE Y  
Sbjct: 14  TVGDGAVGKTCMLICYTSNKFPTDYIPTV-FDNFSANVAVDGQIVNLGLWDTAGQEDYSR 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDL------ 113
           +    YRGA   +L + +  + S++NV  +W+ ELR  A  N+ I+LVG K DL      
Sbjct: 73  LRPLSYRGADIFVLAFSLISKASYENVLKKWMPELRRFAP-NVPIVLVGTKLDLRDDKGY 131

Query: 114 --ETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYRIVSKKALTAND 170
             +    + +   +E  ++ G   ++E S+    NV+  F T +  + +   +K +    
Sbjct: 132 LADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQPPRRKEVPRRR 191

Query: 171 ESESGGSSSLLK 182
           ++      S+  
Sbjct: 192 KNHRRSGCSIAS 203

>2fv8_A H6, RHO-related GTP-binding protein RHOB; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8 Length = 207

 Score =  128 bits (324), Expect = 1e-37
 Identities = 44/164 (26%), Positives = 73/164 (44%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++DEF      T+   +    + +  K V+  +WDTAGQE Y  
Sbjct: 30  VVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYVAD-IEVDGKQVELALWDTAGQEDYDR 88

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDL------ 113
           +    Y      ++ + +    S +N+  +W+ E++     N+ I+LV NK DL      
Sbjct: 89  LRPLSYPDTDVILMCFSVDSPDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHV 147

Query: 114 ------ETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                      V T+D +  A +     ++E SA     V   F
Sbjct: 148 RTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVF 191

>2gco_A H9, RHO-related GTP-binding protein RHOC; GTPase,signaling protein, signaling Pro; HET: GNP; 1.40A {Homo sapiens} PDB: 2gcn_A* 2gcp_A* 1z2c_A* 1x86_B 2rgn_C* 1lb1_B 1s1c_A* 3kz1_E* 3lxr_A* 3lwn_A* 3lw8_A* 1cxz_A* 1a2b_A* 1ow3_B* 1ftn_A* 1cc0_A* 3msx_A* 1xcg_B 3t06_B 1tx4_B* ... Length = 201

 Score =  128 bits (323), Expect = 1e-37
 Identities = 45/164 (27%), Positives = 74/164 (45%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL  F++D+F      T+  E     + +  K V+  +WDTAGQE Y  
Sbjct: 30  IVGDGACGKTCLLIVFSKDQFPEVYVPTVF-ENYIADIEVDGKQVELALWDTAGQEDYDR 88

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y      ++ + I    S +N+  +W  E++     N+ I+LVGNK DL      
Sbjct: 89  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHT 147

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                      V +E+ ++ A +     ++E SA     V   F
Sbjct: 148 RRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>3th5_A RAS-related C3 botulinum toxin substrate 1; rossmann fold, GTPase, GTP binding, protein binding, signali protein; HET: GNP; 2.30A {Homo sapiens} Length = 204

 Score =  126 bits (317), Expect = 1e-36
 Identities = 46/164 (28%), Positives = 76/164 (46%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+  +  +  +++  K V   +WDTAGQE Y  
Sbjct: 35  VVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQEDYDR 93

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y      ++ + +    SF+NV A+W  E+R H   N  I+LVG K DL      
Sbjct: 94  LRPLSYPQTDVFLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 152

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                   L  +        A++ G + ++E SAL    ++  F
Sbjct: 153 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 196

>3c5h_A Glucocorticoid receptor DNA-binding factor 1; RAS, GTPase, glucorticoid receptor, structural genomics consortium, SGC, alternative splicing; HET: GNP; 1.80A {Homo sapiens} Length = 255

 Score =  125 bits (314), Expect = 1e-35
 Identities = 46/222 (20%), Positives = 74/222 (33%), Gaps = 66/222 (29%)

Query: 3   GDSAVGKSQLLARFAR---DEFSLDSKATIG-VEFQTKTLVIHH--------------KN 44
           G   +GKS L  RF R   DEF LD  + +   +F  + +   H                
Sbjct: 35  GQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVE 94

Query: 45  VKAQIW-------DTAGQERYRAVTSAYYRGAV--------------------------- 70
            K  I        D   Q         Y + A                            
Sbjct: 95  CKMHIVEQTEFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQK 154

Query: 71  ----------GAMLVYDITK--RQSFDNVARWLEELRGHADK-NIIIMLVGNKSDLETLR 117
                     G +L  D+++   ++FD+  +++  L     K    I++V  K D    R
Sbjct: 155 QMPDGKLLVDGFLLGIDVSRGMNRNFDDQLKFVSNLYNQLAKTKKPIVVVLTKCDEGVER 214

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            +        + K+ L  +ETSA  + NV+LAF T++  I +
Sbjct: 215 YIRDAHTFALS-KKNLQVVETSARSNVNVDLAFSTLVQLIDK 255

>1m7b_A RND3/RHOE small GTP-binding protein; small GTPase, signaling protein; HET: GTP; 2.00A {Homo sapiens} SCOP: c.37.1.8 PDB: 2v55_B* Length = 184

 Score =  120 bits (304), Expect = 6e-35
 Identities = 45/173 (26%), Positives = 80/173 (46%), Gaps = 21/173 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+   +     +   + ++  +WDT+G   Y  
Sbjct: 12  VVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDN 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E++     N  ++LVG KSDL T    
Sbjct: 71  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVST 129

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNV-----ELAFLTVL 154
                      V  +     A++ G   ++E SAL+S N       +A L  +
Sbjct: 130 LVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV 182

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score =  121 bits (304), Expect = 7e-35
 Identities = 46/164 (28%), Positives = 77/164 (46%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+  +  +  +++  K V   +WDTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQEDYDR 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y     +++ + +    SF+NV A+W  E+R H   N  I+LVG K DL      
Sbjct: 69  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDT 127

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                   L  +        A++ G + ++E SAL    ++  F
Sbjct: 128 IEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 171

>1gwn_A RHO-related GTP-binding protein RHOE; GTPase, inactive GTPase, signal transduction; HET: GTP; 2.1A {Mus musculus} SCOP: c.37.1.8 Length = 205

 Score =  120 bits (302), Expect = 2e-34
 Identities = 45/165 (27%), Positives = 78/165 (47%), Gaps = 17/165 (10%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+   +     +   + ++  +WDT+G   Y  
Sbjct: 33  VVGDSQCGKTALLHVFAKDCFPENYVPTVFENYTASFEI-DTQRIELSLWDTSGSPYYDN 91

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   ++ +DI++ ++ D+V  +W  E++     N  ++LVG KSDL T    
Sbjct: 92  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVST 150

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTN-VELAF 150
                      V  +     A++ G   ++E SAL+S N V   F
Sbjct: 151 LVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF 195

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score =  119 bits (301), Expect = 2e-34
 Identities = 46/164 (28%), Positives = 77/164 (46%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD AVGK+ L+  +  + +  +   T   +  +  + +  + V+ Q+ DTAGQ+ +  
Sbjct: 25  LVGDGAVGKTSLVVSYTTNGYPTEYIPTA-FDNFSAVVSVDGRPVRLQLCDTAGQDEFDK 83

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y      +L + +    SF NV  +W+ E+R H      I+LVG +SDL      
Sbjct: 84  LRPLCYTNTDIFLLCFSVVSPSSFQNVSEKWVPEIRCHCP-KAPIILVGTQSDLREDVKV 142

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                    + VP E AK  AE+     ++E SAL   N++  F
Sbjct: 143 LIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVF 186

>2atx_A Small GTP binding protein TC10; GTPase, P-loop, alpha-beta, hydrolase; HET: GNP; 2.65A {Homo sapiens} SCOP: c.37.1.8 Length = 194

 Score =  117 bits (294), Expect = 2e-33
 Identities = 43/164 (26%), Positives = 77/164 (46%), Gaps = 16/164 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +A D F  +   T+  +    ++ +  K     ++DTAGQE Y  
Sbjct: 23  VVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQEDYDR 81

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           +    Y      ++ + +    SF NV   W+ EL+ +A  N+  +L+G + DL      
Sbjct: 82  LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKT 140

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                    + +  E  ++ A++ G  C++E SAL    ++  F
Sbjct: 141 LARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVF 184

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A* Length = 214

 Score =  117 bits (294), Expect = 3e-33
 Identities = 37/165 (22%), Positives = 71/165 (43%), Gaps = 17/165 (10%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+ +L   A+D +      T+   +         + V+  +WDT+G   Y  
Sbjct: 32  LVGDVQCGKTAMLQVLAKDCYPETYVPTVFENYTACLET-EEQRVELSLWDTSGSPYYDN 90

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET---- 115
           V    Y  +   +L +DI++ ++ D+   +W  E+  +   +  ++L+G K+DL T    
Sbjct: 91  VRPLCYSDSDAVLLCFDISRPETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLST 149

Query: 116 --------LRAVPTEDAKEFAEKEG-LCFMETSALES-TNVELAF 150
                      +  E     A++ G   ++E SA  S  ++   F
Sbjct: 150 LMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIF 194

>2wkq_A NPH1-1, RAS-related C3 botulinum toxin substrate 1; transferase, cell adhesion, nucleotide-binding, protein engineering, RAS superfamily LOV2; HET: GTP FMN; 1.60A {Avena sativa} PDB: 2wkr_A* 2wkp_A* Length = 332

 Score = 88.9 bits (220), Expect = 2e-21
 Identities = 44/163 (26%), Positives = 73/163 (44%), Gaps = 16/163 (9%)

Query: 2   IGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV 61
           +GD AVGK+ LL  +  + F  +   T+  +  +  +++  K V   +WDTAG E Y  +
Sbjct: 161 VGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGLEDYDRL 219

Query: 62  TSAYYRGAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET----- 115
               Y      ++ + +    SF +V A+W  E+R H   N  I+LVG K DL       
Sbjct: 220 RPLSYPQTDVFLICFSLVSPASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTI 278

Query: 116 -------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF 150
                  L  +        A++ G + ++E SAL    ++  F
Sbjct: 279 EKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVF 321

>3t1o_A Gliding protein MGLA; G domain containing protein, bacterial GTPase, bacterial POL motility, POLE localisation, alpha/beta protein; HET: GDP; 1.90A {Thermus thermophilus} PDB: 3t12_A* 3t1q_A* 3t1t_A* 3t1v_A* Length = 198

 Score = 77.1 bits (190), Expect = 7e-18
 Identities = 35/181 (19%), Positives = 59/181 (32%), Gaps = 19/181 (10%)

Query: 2   IGDSAVGKSQLLAR--------FARDEFSLDSKA--TIGVEFQTKTL-VIHHKNVKAQIW 50
            G    GK+  L             +  SL ++   T+  +F    +  +     +  ++
Sbjct: 20  YGPGLSGKTTNLKWIYSKVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLY 79

Query: 51  DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLE-----ELRGHADKNIIIM 105
              GQ  Y A      RG  G + V D    +   N              G    ++ I+
Sbjct: 80  TVPGQVFYNASRKLILRGVDGIVFVADSAPNRLRANAESMRNMRENLAEYGLTLDDVPIV 139

Query: 106 LVGNKSDLETLRAVPTEDAKEFAEKEGLCFM-ETSALESTNVELAFLTVLTEIYRIVSKK 164
           +  NK DL    A+P E  +   + EG   + E  A E   V      V   +   V+  
Sbjct: 140 IQVNKRDLP--DALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVAGG 197

Query: 165 A 165
           +
Sbjct: 198 S 198

>1zd9_A ADP-ribosylation factor-like 10B; transport protein, GDP-binding, membrane trafficking, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2al7_A* 2h18_A* Length = 188

 Score = 73.8 bits (182), Expect = 8e-17
 Identities = 40/157 (25%), Positives = 67/157 (42%), Gaps = 20/157 (12%)

Query: 1   LIG-DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           L+G   + GK+  +   A  +F+ D   T+G  F  +   I   NV  ++WD  GQ R+R
Sbjct: 27  LVGLQYS-GKTTFVNVIASGQFNEDMIPTVG--FNMRK--ITKGNVTIKLWDIGGQPRFR 81

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRA 118
           ++   Y RG    + + D   ++  +     L  L      + I ++++GNK DL    A
Sbjct: 82  SMWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPG--A 139

Query: 119 VPTEDAKEFAEKEGL--------CFMETSALESTNVE 147
           +  +   E  EK  L        C    S  E  N++
Sbjct: 140 LDEK---ELIEKMNLSAIQDREICCYSISCKEKDNID 173

>2b6h_A ADP-ribosylation factor 5; membrane trafficking, GDP, structural genomics, structural G consortium, SGC, protein transport; HET: GDP; 1.76A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z6x_A* 3aq4_A* Length = 192

 Score = 67.3 bits (165), Expect = 2e-14
 Identities = 37/156 (23%), Positives = 70/156 (44%), Gaps = 19/156 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E    +  TIG  F  +T  + +KN+   +WD  GQ++ R 
Sbjct: 34  MVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVET--VEYKNICFTVWDVGGQDKIRP 88

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y++   G + V D   R+     A  L+++    + ++ ++++  NK D+    A+
Sbjct: 89  LWRHYFQNTQGLIFVVDSNDRERVQESADELQKMLQEDELRDAVLLVFANKQDMPN--AM 146

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
           P     E  +K GL            T A + T + 
Sbjct: 147 PVS---ELTDKLGLQHLRSRTWYVQATCATQGTGLY 179

>1upt_A ARL1, ADP-ribosylation factor-like protein 1; hydrolase/protein-binding, complex (GTPase/golgin), golgin-245, GRIP, golgin, GTPase, G-protein; HET: GTP; 1.7A {Homo sapiens} SCOP: c.37.1.8 PDB: 1r4a_A* Length = 171

 Score = 65.7 bits (161), Expect = 7e-14
 Identities = 39/156 (25%), Positives = 63/156 (40%), Gaps = 19/156 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E    +  TIG  F  +T  + +KN+K Q+WD  G    R 
Sbjct: 12  ILGLDGAGKTTILYRLQVGEVV-TTIPTIG--FNVET--VTYKNLKFQVWDLGGLTSIRP 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
               YY      + V D   R         L  +    + +  I+++  NK D+E   A+
Sbjct: 67  YWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQ--AM 124

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
            +    E A   GL           +TSA + T ++
Sbjct: 125 TSS---EMANSLGLPALKDRKWQIFKTSATKGTGLD 157

>1zj6_A ADP-ribosylation factor-like protein 5; ARL, GTP-binding, transport protein; HET: G3D; 2.00A {Homo sapiens} SCOP: c.37.1.8 Length = 187

 Score = 65.0 bits (159), Expect = 2e-13
 Identities = 34/153 (22%), Positives = 61/153 (39%), Gaps = 20/153 (13%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ +L +F+ +E    +  TIG     +   I   N +  +WD  GQE  R+  +
Sbjct: 25  DNA-GKTTILYQFSMNEVV-HTSPTIG--SNVEE--IVINNTRFLMWDIGGQESLRSSWN 78

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            YY      ++V D T R+        L ++  H D +   +++  NK D++    +   
Sbjct: 79  TYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVA 136

Query: 123 DAKEFAEKEGL--------CFMETSALESTNVE 147
              E ++   L              AL    + 
Sbjct: 137 ---EISQFLKLTSIKDHQWHIQACCALTGEGLC 166

>1moz_A ARL1, ADP-ribosylation factor-like protein 1; GTP-binding, protein binding; HET: GDP; 3.17A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 183

 Score = 64.6 bits (158), Expect = 3e-13
 Identities = 34/156 (21%), Positives = 64/156 (41%), Gaps = 19/156 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E    +K TIG  F  +T  + +KN+K  +WD  GQ   R 
Sbjct: 23  ILGLDGAGKTTILYRLQIGEVV-TTKPTIG--FNVET--LSYKNLKLNVWDLGGQTSIRP 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
               YY      + V D T +      ++ L  +    + ++  +++  NK D     A+
Sbjct: 78  YWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG--AL 135

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
                 E +++  L          + +SA++   + 
Sbjct: 136 SAS---EVSKELNLVELKDRSWSIVASSAIKGEGIT 168

>1r8s_A ADP-ribosylation factor 1; protein transport/exchange factor, protein transport-exchang complex; HET: GDP; 1.46A {Bos taurus} SCOP: c.37.1.8 PDB: 1re0_A* 1s9d_A* 1u81_A* 1r8q_A* 1rrf_A* 1rrg_A* 1hur_A* 1o3y_A* 1j2j_A* 2j59_A* 1mr3_F* 2k5u_A* 3lrp_A* 3tjz_A* 3rd1_A* 2ksq_A* 2a5d_A* 2a5f_A* 2j5x_A* 1e0s_A* ... Length = 164

 Score = 63.7 bits (156), Expect = 3e-13
 Identities = 35/153 (22%), Positives = 64/153 (41%), Gaps = 20/153 (13%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ +L +    E    +  TIG  F  +T  + +KN+   +WD  GQ++ R +  
Sbjct: 9   DAA-GKTTILYKLKLGEIV-TTIPTIG--FNVET--VEYKNISFTVWDVGGQDKIRPLWR 62

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            Y++   G + V D   R+  +     L  +    + ++ ++++  NK DL    A+   
Sbjct: 63  HYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN--AMNAA 120

Query: 123 DAKEFAEKEGL--------CFMETSALESTNVE 147
              E  +K GL            T A     + 
Sbjct: 121 ---EITDKLGLHSLRHRNWYIQATCATSGDGLY 150

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major} Length = 189

 Score = 64.2 bits (157), Expect = 3e-13
 Identities = 33/153 (21%), Positives = 60/153 (39%), Gaps = 20/153 (13%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ +L R    +    +  T+G     +T  + +KN+  ++WD  GQ   R    
Sbjct: 31  DNA-GKTSILYRLHLGDVV-TTVPTVG--VNLET--LQYKNISFEVWDLGGQTGVRPYWR 84

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            Y+      + V D T R         L  L    + +  ++++  NK DL    A    
Sbjct: 85  CYFSDTDAVIYVVDSTDRDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPD--AASEA 142

Query: 123 DAKEFAEKEGL--------CFMETSALESTNVE 147
              E AE+ G+          +++S+     + 
Sbjct: 143 ---EIAEQLGVSSIMNRTWTIVKSSSKTGDGLV 172

>2h57_A ADP-ribosylation factor-like protein 6; GTP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GTP; 2.00A {Homo sapiens} Length = 190

 Score = 63.8 bits (156), Expect = 5e-13
 Identities = 31/156 (19%), Positives = 60/156 (38%), Gaps = 22/156 (14%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVT 62
           D++ GK+ ++ +         +   TIG  F  +       ++   ++D +GQ RYR + 
Sbjct: 30  DNS-GKTTIINKLKPSNAQSQNILPTIG--FSIEK--FKSSSLSFTVFDMSGQGRYRNLW 84

Query: 63  SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGH---ADKNIIIMLVGNKSDLETLRAV 119
             YY+     + V D + R         L+ L  H     + I I+   NK DL    AV
Sbjct: 85  EHYYKEGQAIIFVIDSSDRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD--AV 142

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
            +    + ++   L            + A++   ++
Sbjct: 143 TSV---KVSQLLCLENIKDKPWHICASDAIKGEGLQ 175

>1fzq_A ADP-ribosylation factor-like protein 3; protein-GDP complex without magnesium, ARF family, RAS superfamily, G-domain, signaling protein; HET: MES GDP; 1.70A {Mus musculus} SCOP: c.37.1.8 PDB: 3bh7_A* 3bh6_A* Length = 181

 Score = 63.4 bits (155), Expect = 6e-13
 Identities = 41/153 (26%), Positives = 62/153 (40%), Gaps = 20/153 (13%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ LL + A ++ S     T G  F  K+  +  +  K  +WD  GQ + R    
Sbjct: 25  DNA-GKTTLLKQLASEDIS-HITPTQG--FNIKS--VQSQGFKLNVWDIGGQRKIRPYWR 78

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
           +Y+      + V D   R+ F+   + L EL        + +++  NK DL T  A P  
Sbjct: 79  SYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLT--AAPAS 136

Query: 123 DAKEFAEKEGL--------CFMETSALESTNVE 147
              E AE   L             SAL    V+
Sbjct: 137 ---EIAEGLNLHTIRDRVWQIQSCSALTGEGVQ 166

>1ksh_A ARF-like protein 2; small GTPase, small GTP-binding protein, ARF family; HET: CME GDP; 1.80A {Mus musculus} SCOP: c.37.1.8 PDB: 1ksg_A* 1ksj_A* 3doe_A* 3dof_A* Length = 186

 Score = 63.4 bits (155), Expect = 6e-13
 Identities = 36/156 (23%), Positives = 59/156 (37%), Gaps = 19/156 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  ++       T+G  F  KT  + H+  K  IWD  GQ+  R+
Sbjct: 23  MLGLDNAGKTTILKKFNGEDVD-TISPTLG--FNIKT--LEHRGFKLNIWDVGGQKSLRS 77

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
               Y+    G + V D   RQ   +  R L+ L          +++  NK DL    A+
Sbjct: 78  YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPG--AL 135

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
                    E   L             SA+   ++ 
Sbjct: 136 SCN---AIQEALELDSIRSHHWRIQGCSAVTGEDLL 168

>2h17_A ADP-ribosylation factor-like protein 5A; GDP, GTPase, membrane trafficking, structural genomics consortium, SGC, transport protein; HET: GDP; 1.70A {Homo sapiens} PDB: 2h16_A* 1z6y_A* 1yzg_A* Length = 181

 Score = 63.0 bits (154), Expect = 9e-13
 Identities = 34/153 (22%), Positives = 61/153 (39%), Gaps = 20/153 (13%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ +L +F+ +E    +  TIG     +   I   N +  +WD  GQE  R+  +
Sbjct: 30  DNA-GKTTILYQFSMNEVV-HTSPTIG--SNVEE--IVINNTRFLMWDIGGQESLRSSWN 83

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            YY      ++V D T R+        L ++  H D +   +++  NK D++    +   
Sbjct: 84  TYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVA 141

Query: 123 DAKEFAEKEGL--------CFMETSALESTNVE 147
              E ++   L              AL    + 
Sbjct: 142 ---EISQFLKLTSIKDHQWHIQACCALTGEGLC 171

>3llu_A RAS-related GTP-binding protein C; structural genomics consortium, SGC, cytoplasm, nucleotide-binding, nucleus, phosphoprotein; HET: GNP; 1.40A {Homo sapiens} PDB: 2q3f_A* Length = 196

 Score = 61.9 bits (150), Expect = 3e-12
 Identities = 35/177 (19%), Positives = 67/177 (37%), Gaps = 26/177 (14%)

Query: 1   LIGDSAVGKS----QLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE 56
           L+G    GKS     +  + + +E +L  ++T  +       + +   V  QIWD  GQ 
Sbjct: 25  LMGLRRSGKSSIQKVVFHKMSPNE-TLFLESTNKIYKDD---ISNSSFVNFQIWDFPGQM 80

Query: 57  RYRAVTS---AYYRGAVGAMLVYDITKR--QSFDNVARWLEELRGHADKNIIIMLVGNKS 111
            +   T      +RG    + V D      ++   +   + +     + ++   +  +K 
Sbjct: 81  DFFDPTFDYEMIFRGTGALIYVIDAQDDYMEALTRLHITVSKAYKV-NPDMNFEVFIHKV 139

Query: 112 DL-------ETLRAVPTEDAKEFA----EKEGLCFMETSALESTNVELAFLTVLTEI 157
           D        ET R +      + A    EK  L F  TS  + + +  AF  V+ ++
Sbjct: 140 DGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYDHS-IFEAFSKVVQKL 195

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} Length = 307

 Score = 62.7 bits (152), Expect = 4e-12
 Identities = 35/227 (15%), Positives = 84/227 (37%), Gaps = 28/227 (12%)

Query: 1   LIGDSAVGKS----QLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE 56
           L+G S  GKS     + + ++  + +    ATI VE      +    N+   +WD  GQ+
Sbjct: 8   LMGRSGSGKSSMRSIIFSNYSAFD-TRRLGATIDVEHSH---LRFLGNMTLNLWDCGGQD 63

Query: 57  RYRAVT-----SAYYRGAVGAMLVYDITKRQSFDNVARW---LEELRGHADKNIIIMLVG 108
            +            ++     + V+D+   +   ++  +   L++LR ++  +  I ++ 
Sbjct: 64  VFMENYFTKQKDHIFQMVQVLIHVFDVESTEVLKDIEIFAKALKQLRKYS-PDAKIFVLL 122

Query: 109 NKSDL--ETLRAVPTEDAKEFAEKE-------GLCFMETSALESTNVELAFLTVLTEIYR 159
           +K DL     R    +   +   +         L    TS  + +  +     V + I  
Sbjct: 123 HKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWDESLYKAWSQIVCSLIPN 182

Query: 160 IVSKKALTANDESESGGSSSLL--KATNIVVPGQEPESGRRSYNCCT 204
           + + ++     +        +L  + T +V+     E+   +++   
Sbjct: 183 MSNHQSNLKKFKEIMNALEIILFERTTFLVICSSNGENSNENHDSSD 229

>1m2o_B GTP-binding protein SAR1, GTP binding protein; zinc-finger, beta barrel, VWA domain, gelsolin domain,; HET: GNP; 2.50A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 2qtv_B* Length = 190

 Score = 58.4 bits (142), Expect = 4e-11
 Identities = 32/131 (24%), Positives = 53/131 (40%), Gaps = 12/131 (9%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ LL     D  +   + T      ++ L     N+K   +D  G  + R +  
Sbjct: 32  DNA-GKTTLLHMLKNDRLA-TLQPTWH--PTSEELA--IGNIKFTTFDLGGHIQARRLWK 85

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            Y+    G + + D    + FD     L+ L   A+ K++  +++GNK D     AV   
Sbjct: 86  DYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEA 143

Query: 123 DAKEFAEKEGL 133
              E     GL
Sbjct: 144 ---ELRSALGL 151

>1f6b_A SAR1; gtpases, N-terminal helix, Mg-containing complex, protein transport; HET: GDP; 1.70A {Cricetulus griseus} SCOP: c.37.1.8 PDB: 2fmx_A* 2fa9_A* 2gao_A* Length = 198

 Score = 57.7 bits (140), Expect = 1e-10
 Identities = 31/146 (21%), Positives = 50/146 (34%), Gaps = 12/146 (8%)

Query: 4   DSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS 63
           D+A GK+ LL     D        T+     ++   +    +    +D  G  + R V  
Sbjct: 34  DNA-GKTTLLHMLKDDRLGQHV-PTLH--PTSEE--LTIAGMTFTTFDLGGHIQARRVWK 87

Query: 64  AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTE 122
            Y     G + + D    +        L+ L       N+ I+++GNK D     A+  E
Sbjct: 88  NYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEE 145

Query: 123 DAKEFAEKEGLCFMETSALESTNVEL 148
                 E  GL    T     +  EL
Sbjct: 146 ---RLREMFGLYGQTTGKGSVSLKEL 168

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens} Length = 329

 Score = 56.4 bits (136), Expect = 7e-10
 Identities = 35/156 (22%), Positives = 65/156 (41%), Gaps = 19/156 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E    +  TIG  F  +T  + +KN+   +WD  GQ++ R 
Sbjct: 170 MVGLDAAGKTTILYKLKLGEIV-TTIPTIG--FNVET--VEYKNISFTVWDVGGQDKIRP 224

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y++   G + V D   R+  +     L  +    + ++ ++++  NK DL    A+
Sbjct: 225 LWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPN--AM 282

Query: 120 PTEDAKEFAEKEGL--------CFMETSALESTNVE 147
                 E  +K GL            T A     + 
Sbjct: 283 NAA---EITDKLGLHSLRHRNWYIQATCATSGDGLY 315

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae} Length = 193

 Score = 54.0 bits (130), Expect = 2e-09
 Identities = 26/140 (18%), Positives = 47/140 (33%), Gaps = 17/140 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G    GK+ LL     D     +  +             +      + D  G  + R 
Sbjct: 53  IAGPQNSGKTSLLTLLTTDSVR-PTVVSQE-PLSAAD----YDGSGVTLVDFPGHVKLRY 106

Query: 61  VTSAYYRGAVGAM--LVYDI---TKRQSFDNVARWLEEL----RGHADKNIIIMLVGNKS 111
             S Y +     +  L++ +      +     A +L ++        +  I I++  NKS
Sbjct: 107 KLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKS 166

Query: 112 DLETLRAVPTEDAKEFAEKE 131
           +L T  A P    K+  E E
Sbjct: 167 ELFT--ARPPSKIKDALESE 184

>2fh5_B SR-beta, signal recognition particle receptor beta subunit; endomembrane targeting, GTPase, GAP, longin domain, SEDL, transport protein; HET: GTP; 2.45A {Mus musculus} SCOP: c.37.1.8 PDB: 2go5_2 Length = 214

 Score = 54.0 bits (130), Expect = 2e-09
 Identities = 31/163 (19%), Positives = 63/163 (38%), Gaps = 16/163 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYR 59
            +G    GK+ L  R    ++  D++ +I     +    ++ ++     + D  G E  R
Sbjct: 12  FVGLCDSGKTLLFVRLLTGQYR-DTQTSIT--DSSAIYKVNNNRGNSLTLIDLPGHESLR 68

Query: 60  A-VTSAYYRGAVGAMLVYDITKRQSF-DNVARWLEELRGHAD---KNIIIMLVGNKSDLE 114
             +   +   A   + V D    Q    +VA +L ++   +     +  +++  NK D+ 
Sbjct: 69  FQLLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIA 128

Query: 115 TLRAVPTEDAKEFAEKEGLCFMET-----SALESTNVELAFLT 152
              A   +  ++  EKE      T     S L+S++   A L 
Sbjct: 129 M--AKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQLG 169

>1nrj_B SR-beta, signal recognition particle receptor beta subunit; transmembrane, endoplasmic reticulum, GTP-binding; HET: GTP; 1.70A {Saccharomyces cerevisiae} SCOP: c.37.1.8 Length = 218

 Score = 54.0 bits (130), Expect = 2e-09
 Identities = 28/140 (20%), Positives = 48/140 (34%), Gaps = 17/140 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G    GK+ LL     D        T+    Q       +      + D  G  + R 
Sbjct: 17  IAGPQNSGKTSLLTLLTTDSVR----PTVV--SQEPLSAADYDGSGVTLVDFPGHVKLRY 70

Query: 61  VTSAYYRGAVGAM--LVYDI---TKRQSFDNVARWLEEL----RGHADKNIIIMLVGNKS 111
             S Y +     +  L++ +      +     A +L ++        +  I I++  NKS
Sbjct: 71  KLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKS 130

Query: 112 DLETLRAVPTEDAKEFAEKE 131
           +L T  A P    K+  E E
Sbjct: 131 ELFT--ARPPSKIKDALESE 148

>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 = 42.9 bits (100), Expect = 4e-05
 Identities = 30/167 (17%), Positives = 58/167 (34%), Gaps = 43/167 (25%)

Query: 37  TLVIHHKNVKAQIWDTAGQERYRAVTSAY---YRGAVGAMLVYDITKR-------QSFD- 85
           TL+   + +  +  +   +  Y+ + S      R       +Y I +R       Q F  
Sbjct: 70  TLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMY-IEQRDRLYNDNQVFAK 128

Query: 86  -NVAR---------WLEELRGHADKNIII--ML-VGNKSDL--ETLRAVPTEDAKEFA-- 128
            NV+R          L ELR    KN++I  +L  G K+ +  +   +   +   +F   
Sbjct: 129 YNVSRLQPYLKLRQALLELRPA--KNVLIDGVLGSG-KTWVALDVCLSYKVQCKMDFKIF 185

Query: 129 -EKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESES 174
                 C    + LE          +L ++   +     + +D S +
Sbjct: 186 WLNLKNCNSPETVLE----------MLQKLLYQIDPNWTSRSDHSSN 222

>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* Length = 476

 Score = 39.1 bits (92), Expect = 5e-04
 Identities = 14/98 (14%), Positives = 27/98 (27%), Gaps = 9/98 (9%)

Query: 74  LVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL 133
            + D+   +  D +    E    H     +   V NK D            +  A+  G 
Sbjct: 318 YLLDLGTERLDDELTEIRELKAAHPAAKFLT--VANKLDRAA---NADALIRAIADGTGT 372

Query: 134 CFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDE 171
             +  SAL    ++     +   +  +V          
Sbjct: 373 EVIGISALNGDGIDT----LKQHMGDLVKNLDKLHEAS 406

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	206
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	100.0
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	100.0
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	100.0
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	100.0
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	100.0
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	100.0
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	100.0
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	100.0
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	100.0
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	100.0
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	100.0
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	100.0
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	100.0
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	100.0
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	100.0
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	100.0
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	100.0
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	100.0
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	100.0
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	100.0
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	100.0
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	100.0
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	100.0
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	100.0
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	100.0
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	100.0
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	100.0
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	100.0
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	100.0
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	100.0
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	100.0
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	100.0
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	100.0
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	100.0
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	100.0
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	100.0
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	100.0
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	100.0
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	100.0
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	100.0
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	100.0
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	100.0
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	100.0
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	100.0
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	100.0
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	100.0
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	100.0
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	100.0
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	100.0
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	100.0
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	100.0
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	100.0
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	100.0
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	100.0
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	100.0
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	100.0
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	100.0
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	100.0
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	100.0
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	100.0
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	100.0
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	100.0
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.98
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.98
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.98
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.98
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.97
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.97
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.97
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.97
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.97
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.97
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.97
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.97
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.97
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.97
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.97
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	99.97
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.97
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.97
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.97
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.97
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	99.96
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	99.96
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	99.96
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	99.96
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	99.96
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	99.96
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	99.96
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	99.96
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	99.96
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.96
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	99.96
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	99.96
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	99.96
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	99.96
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.92
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	99.95
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.95
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	99.95
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.95
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.94
2fh5_B	214	SR-beta, signal recognition particle receptor beta	99.94
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.94
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	99.94
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	99.94
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.93
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.93
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	99.93
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	99.93
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	99.93
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	99.93
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	99.93
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	99.92
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	99.92
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	99.92
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	99.92
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	99.92
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	99.92
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	99.91
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	99.9
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	99.9
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	99.9
1nrj_B	218	SR-beta, signal recognition particle receptor beta	99.89
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	99.89
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	99.89
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	99.89
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.89
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.88
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	99.88
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.87
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	99.86
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	99.86
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	99.86
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	99.86
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	99.86
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	99.85
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	99.85
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	99.85
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	99.85
1wb1_A	482	Translation elongation factor SELB; selenocysteine	99.84
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	99.84
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	99.84
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	99.84
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	99.84
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	99.84
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	99.84
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	99.83
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	99.83
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	99.83
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	99.83
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	99.82
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	99.82
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	99.82
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	99.82
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	99.81
2ged_A	193	SR-beta, signal recognition particle receptor beta	99.81
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	99.81
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	99.81
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	99.81
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	99.81
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	99.8
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	99.79
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	99.78
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	99.78
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	99.78
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	99.77
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	99.77
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	99.77
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	99.77
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	99.77
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	99.77
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	99.77
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	99.76
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	99.76
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	99.76
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	99.75
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	99.75
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	99.74
3def_A	262	T7I23.11 protein; chloroplast, TOC33, GTPase, hydr	99.74
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	99.73
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	99.73
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	99.72
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	99.72
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	99.72
1h65_A	270	Chloroplast outer envelope protein OEP34; GTPase,	99.71
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	99.7
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	99.68
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	99.68
1wxq_A	397	GTP-binding protein; structural genomics, riken st	99.67
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	99.63
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	99.63
3vqt_A	548	RF-3, peptide chain release factor 3; translation,	99.62
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	99.61
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	99.6
2hf9_A	226	Probable hydrogenase nickel incorporation protein	99.59
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	99.56
2qpt_A	550	EH domain-containing protein-2; protein-nucleotide	99.54
1n0u_A	842	EF-2, elongation factor 2; G-protein, CIS-proline,	99.54
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	99.53
3j25_A	638	Tetracycline resistance protein TETM; antibiotic r	99.5
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	99.49
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	99.49
4a9a_A	376	Ribosome-interacting GTPase 1; DRG-DFRP complex, r	99.49
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	99.45
4fn5_A	709	EF-G 1, elongation factor G 1; translation, transl	99.43
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	99.42
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	99.42
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	99.32
2ohf_A	396	Protein OLA1, GTP-binding protein 9; ATPase, GTPas	99.25
1ni3_A	392	YCHF GTPase, YCHF GTP-binding protein; structural	99.23
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	99.19
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	99.07
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.96
2j37_W	504	Signal recognition particle 54 kDa protein (SRP54)	98.96
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.9
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.86
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.79
2qag_B	427	Septin-6, protein NEDD5; cell cycle, cell division	98.76
1tq4_A	413	IIGP1, interferon-inducible GTPase; interferon gam	98.74
3sop_A	270	Neuronal-specific septin-3; hydrolase; HET: GDP; 2	98.58
3dm5_A	443	SRP54, signal recognition 54 kDa protein; protein-	98.55
3kl4_A	433	SRP54, signal recognition 54 kDa protein; signal r	98.36
2v3c_C	432	SRP54, signal recognition 54 kDa protein; nucleoti	98.36
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	98.34
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.29
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	98.27
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	98.26
1j8m_F	297	SRP54, signal recognition 54 kDa protein; signalin	98.24
3e70_C	328	DPA, signal recognition particle receptor; FTSY, S	98.04
1f5n_A	592	Interferon-induced guanylate-binding protein 1; GB	98.01
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.98
3szr_A	608	Interferon-induced GTP-binding protein MX1; interf	97.95
2yhs_A	503	FTSY, cell division protein FTSY; cell cycle, prot	97.65
1bif_A	469	6-phosphofructo-2-kinase/ fructose-2,6-bisphospha;	97.53
3q5d_A	447	Atlastin-1; G protein, GTPase, GDP/GTP binding, hy	97.46
2xxa_A	433	Signal recognition particle protein; protein trans	97.42
1zu4_A	320	FTSY; GTPase, signal recognition particle, SRP, re	97.25
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	97.18
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	97.12
2ffh_A	425	Protein (FFH); SRP54, signal recognition particle,	97.11
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	97.06
1ye8_A	178	Protein THEP1, hypothetical UPF0334 kinase-like pr	96.96
1kgd_A	180	CASK, peripheral plasma membrane CASK; maguk, guan	96.96
1lvg_A	198	Guanylate kinase, GMP kinase; transferase; HET: AD	96.89
1zp6_A	191	Hypothetical protein ATU3015; alpha-beta protein.,	96.82
3a00_A	186	Guanylate kinase, GMP kinase; domain movement, dim	96.78
3tr0_A	205	Guanylate kinase, GMP kinase; purines, pyrimidines	96.78
1znw_A	207	Guanylate kinase, GMP kinase; ATP:GMP-phosphotrans	96.76
4dzz_A	206	Plasmid partitioning protein PARF; deviant walker	96.74
4gp7_A	171	Metallophosphoesterase; polynucleotide kinase phos	96.74
1s96_A	219	Guanylate kinase, GMP kinase; E.coli, dimer, SAD,	96.72
1z6g_A	218	Guanylate kinase; structural genomics, SGC, struct	96.67
3tif_A	235	Uncharacterized ABC transporter ATP-binding prote;	96.63
1htw_A	158	HI0065; nucleotide-binding fold, structural genomi	96.61
3ney_A	197	55 kDa erythrocyte membrane protein; structural ge	96.59
2pcj_A	224	ABC transporter, lipoprotein-releasing system ATP-	96.58
3c8u_A	208	Fructokinase; YP_612366.1, putative fructose trans	96.57
2onk_A	240	Molybdate/tungstate ABC transporter, ATP-binding p	96.56
3ec2_A	180	DNA replication protein DNAC; helicase loader, rep	96.55
3tau_A	208	Guanylate kinase, GMP kinase; structural genomics,	96.55
2bdt_A	189	BH3686; alpha-beta protein, structural genomics, P	96.53
1sgw_A	214	Putative ABC transporter; structural genomics, P p	96.51
1b0u_A	262	Histidine permease; ABC transporter, transport pro	96.49
1kag_A	173	SKI, shikimate kinase I; transferase, structural g	96.47
3gfo_A	275	Cobalt import ATP-binding protein CBIO 1; structur	96.47
1fnn_A	389	CDC6P, cell division control protein 6; ORC1, AAA	96.46
1g6h_A	257	High-affinity branched-chain amino acid transport	96.46
2cbz_A	237	Multidrug resistance-associated protein 1; ABC pro	96.45
4g1u_C	266	Hemin import ATP-binding protein HMUV; membrane tr	96.44
3co5_A	143	Putative two-component system transcriptional RES	96.43
1sxj_E	354	Activator 1 40 kDa subunit; clamp loader, processi	96.42
2j41_A	207	Guanylate kinase; GMP, GMK, transferase, ATP-bindi	96.42
2olj_A	263	Amino acid ABC transporter; ABC domain, ATPase, hy	96.42
2pze_A	229	Cystic fibrosis transmembrane conductance regulat;	96.41
1vpl_A	256	ABC transporter, ATP-binding protein; TM0544, stru	96.41
2qor_A	204	Guanylate kinase; phosphotransferase, purine metab	96.4
1ji0_A	240	ABC transporter; ATP binding protein, structural g	96.4
4eun_A	200	Thermoresistant glucokinase; putative sugar kinase	96.39
2qi9_C	249	Vitamin B12 import ATP-binding protein BTUD; inner	96.39
1mv5_A	243	LMRA, multidrug resistance ABC transporter ATP-bin	96.39
2i3b_A	189	HCR-ntpase, human cancer-related ntpase; AAA, ross	96.38
2d2e_A	250	SUFC protein; ABC-ATPase, SUF protein, 310-helix,	96.37
2ff7_A	247	Alpha-hemolysin translocation ATP-binding protein	96.37
3lw7_A	179	Adenylate kinase related protein (ADKA-like); AMP,	96.37
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	96.36
2bbw_A	246	Adenylate kinase 4, AK4; nucleotide kinase, nucleo	96.35
2zu0_C	267	Probable ATP-dependent transporter SUFC; iron-sulf	96.34
2eyu_A	261	Twitching motility protein PILT; pilus retraction	96.34
1ly1_A	181	Polynucleotide kinase; PNK, phosphatase, transfera	96.34
2ihy_A	279	ABC transporter, ATP-binding protein; ATPase, ABC	96.33
1ex7_A	186	Guanylate kinase; substrate-induced FIT, domain mo	96.32
3cwq_A	209	Para family chromosome partitioning protein; alpha	96.32
3kb2_A	173	SPBC2 prophage-derived uncharacterized protein YOR	96.3
2chg_A	226	Replication factor C small subunit; DNA-binding pr	96.3
2ghi_A	260	Transport protein; multidrug resistance protein, M	96.29
2nq2_C	253	Hypothetical ABC transporter ATP-binding protein H	96.29
3b85_A	208	Phosphate starvation-inducible protein; PHOH2, ATP	96.28
2yz2_A	266	Putative ABC transporter ATP-binding protein TM_0;	96.27
2ixe_A	271	Antigen peptide transporter 1; ABC ATPase, hydrola	96.27
3asz_A	211	Uridine kinase; cytidine phosphorylation, transfer	96.27
1np6_A	174	Molybdopterin-guanine dinucleotide biosynthesis pr	96.27
1knq_A	175	Gluconate kinase; ALFA/beta structure, transferase	96.26
2ehv_A	251	Hypothetical protein PH0186; KAIC, RECA ATPase, un	96.26
4a74_A	231	DNA repair and recombination protein RADA; hydrola	96.23
2pjz_A	263	Hypothetical protein ST1066; ATP binding protein,	96.15
3t61_A	202	Gluconokinase; PSI-biology, structural genomics, p	96.14
1qhx_A	178	CPT, protein (chloramphenicol phosphotransferase);	96.12
2v9p_A	305	Replication protein E1; AAA+ molecular motor, DNA	96.12
3aez_A	312	Pantothenate kinase; transferase, homodimer, COA b	96.09
3lnc_A	231	Guanylate kinase, GMP kinase; ALS collaborative cr	96.09
3ea0_A	245	ATPase, para family; alpha-beta-alpha sandwich, st	96.07
3u61_B	324	DNA polymerase accessory protein 44; AAA+, ATP hyd	96.06
3uie_A	200	Adenylyl-sulfate kinase 1, chloroplastic; rossmann	96.05
2kjq_A	149	DNAA-related protein; solution structure, NESG, st	96.03
3te6_A	318	Regulatory protein SIR3; heterochromatin, gene sil	96.0
3vaa_A	199	Shikimate kinase, SK; structural genomics, center	95.98
2x8a_A	274	Nuclear valosin-containing protein-like; nuclear p	95.98
1nks_A	194	Adenylate kinase; thermophilic, transferase; HET:	95.97
3tui_C	366	Methionine import ATP-binding protein METN; ABC-tr	95.97
1z47_A	355	CYSA, putative ABC-transporter ATP-binding protein	95.96
3fvq_A	359	Fe(3+) IONS import ATP-binding protein FBPC; nucle	95.96
2bbs_A	290	Cystic fibrosis transmembrane conductance regulato	95.95
3jvv_A	356	Twitching mobility protein; hexameric P-loop ATPas	95.95
1kht_A	192	Adenylate kinase; phosphotransferase, signaling pr	95.94
2yyz_A	359	Sugar ABC transporter, ATP-binding protein; sugar	95.91
2it1_A	362	362AA long hypothetical maltose/maltodextrin trans	95.9
1ixz_A	254	ATP-dependent metalloprotease FTSH; AAA domain fol	95.9
1jjv_A	206	Dephospho-COA kinase; P-loop nucleotide-binding fo	95.89
1xjc_A	169	MOBB protein homolog; structural genomics, midwest	95.89
2rhm_A	193	Putative kinase; P-loop containing nucleoside trip	95.89
3rlf_A	381	Maltose/maltodextrin import ATP-binding protein M;	95.87
2jeo_A	245	Uridine-cytidine kinase 1; UCK, transferase, ATP-b	95.85
3b9q_A	302	Chloroplast SRP receptor homolog, alpha subunit CP	95.85
1f2t_A	149	RAD50 ABC-ATPase; DNA double-strand break repair,	95.85
3cm0_A	186	Adenylate kinase; ATP-binding, cytoplasm, nucleoti	95.85
3kta_A	182	Chromosome segregation protein SMC; structural mai	95.85
1g29_1	372	MALK, maltose transport protein MALK; ATPase, acti	95.84
1in4_A	334	RUVB, holliday junction DNA helicase RUVB; AAA+-cl	95.84
1cke_A	227	CK, MSSA, protein (cytidine monophosphate kinase);	95.84
2jaq_A	205	Deoxyguanosine kinase; transferase, deoxyribonucle	95.83
1v43_A	372	Sugar-binding transport ATP-binding protein; ATPas	95.83
2if2_A	204	Dephospho-COA kinase; alpha-beta protein, structur	95.81
1rj9_A	304	FTSY, signal recognition protein; SRP-GTPase domai	95.81
2pt7_A	330	CAG-ALFA; ATPase, protein-protein complex, type IV	95.79
1jbk_A	195	CLPB protein; beta barrel, chaperone; 1.80A {Esche	95.77
2gza_A	361	Type IV secretion system protein VIRB11; ATPase, h	95.74
2qt1_A	207	Nicotinamide riboside kinase 1; non-protein kinase	95.72
1xwi_A	322	SKD1 protein; VPS4B, AAA ATPase, protein transport	95.72
2ewv_A	372	Twitching motility protein PILT; pilus retraction	95.71
2ze6_A	253	Isopentenyl transferase; crown GALL tumor, cytokin	95.68
3trf_A	185	Shikimate kinase, SK; amino acid biosynthesis, tra	95.68
3nh6_A	306	ATP-binding cassette SUB-family B member 6, mitoc;	95.67
1p9r_A	418	General secretion pathway protein E; bacterial typ	95.67
2w0m_A	235	SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus	95.67
2f1r_A	171	Molybdopterin-guanine dinucleotide biosynthesis pr	95.66
1via_A	175	Shikimate kinase; structural genomics, transferase	95.65
2oap_1	511	GSPE-2, type II secretion system protein; hexameri	95.64
2plr_A	213	DTMP kinase, probable thymidylate kinase; TMP-bind	95.63
1lw7_A	365	Transcriptional regulator NADR; NMN, NMN adenylyl	95.62
3d31_A	348	Sulfate/molybdate ABC transporter, ATP-binding pro	95.62
1iy2_A	278	ATP-dependent metalloprotease FTSH; AAA domain fol	95.62
3iij_A	180	Coilin-interacting nuclear ATPase protein; alpha a	95.61
1gvn_B	287	Zeta; postsegregational killing system, plasmid; 1	95.61
1tev_A	196	UMP-CMP kinase; ploop, NMP binding region, LID reg	95.6
3fb4_A	216	Adenylate kinase; psychrophIle, phosphotransferase	95.6
1rz3_A	201	Hypothetical protein rbstp0775; MCSG, structural g	95.59
1sq5_A	308	Pantothenate kinase; P-loop, transferase; HET: PAU	95.59
3dl0_A	216	Adenylate kinase; phosphotransferase, zinc coordin	95.57
2yvu_A	186	Probable adenylyl-sulfate kinase; transferase, str	95.57
3sr0_A	206	Adenylate kinase; phosphoryl transfer analogue, AL	95.54
3tqc_A	321	Pantothenate kinase; biosynthesis of cofactors, pr	95.5
3pfi_A	338	Holliday junction ATP-dependent DNA helicase RUVB;	95.49
1y63_A	184	LMAJ004144AAA protein; structural genomics, protei	95.49
3gd7_A	390	Fusion complex of cystic fibrosis transmembrane co	95.48
2og2_A	359	Putative signal recognition particle receptor; nuc	95.48
4ido_A	457	Atlastin-1; GTPase, GTP/GDP binding, hydrolase; HE	95.45
2w58_A	202	DNAI, primosome component (helicase loader); ATP-b	95.43
1n0w_A	243	DNA repair protein RAD51 homolog 1; DNA repair, ho	95.41
2cdn_A	201	Adenylate kinase; phosphoryl transfer, associative	95.41
2cvh_A	220	DNA repair and recombination protein RADB; filamen	95.4
3umf_A	217	Adenylate kinase; rossmann fold, transferase; 2.05	95.39
1oxx_K	353	GLCV, glucose, ABC transporter, ATP binding protei	95.39
1zd8_A	227	GTP:AMP phosphotransferase mitochondrial; ATP:AMP	95.39
1cr0_A	296	DNA primase/helicase; RECA-type protein fold, tran	95.38
3end_A	307	Light-independent protochlorophyllide reductase ir	95.38
3a4m_A	260	L-seryl-tRNA(SEC) kinase; P-loop motif, walker A m	95.37
1lv7_A	257	FTSH; alpha/beta domain, four helix bundle, hydrol	95.37
2c95_A	196	Adenylate kinase 1; transferase, AP4A, nucleotide	95.36
1wcv_1	257	SOJ, segregation protein; ATPase, bacterial, chrom	95.36
2v54_A	204	DTMP kinase, thymidylate kinase; nucleotide biosyn	95.35
1aky_A	220	Adenylate kinase; ATP:AMP phosphotransferase, myok	95.34
2pbr_A	195	DTMP kinase, thymidylate kinase; transferase, nucl	95.33
1qhl_A	227	Protein (cell division protein MUKB); SMC, chromos	95.33
2z0h_A	197	DTMP kinase, thymidylate kinase; ATP-binding, nucl	95.33
1e6c_A	173	Shikimate kinase; phosphoryl transfer, ADP, shikim	95.33
3bos_A	242	Putative DNA replication factor; P-loop containing	95.32
2bwj_A	199	Adenylate kinase 5; phosphoryl transfer reaction,	95.31
2pez_A	179	Bifunctional 3'-phosphoadenosine 5'- phosphosulfat	95.3
1nij_A	318	Hypothetical protein YJIA; structural genomics, P-	95.29
2p65_A	187	Hypothetical protein PF08_0063; CLPB, malaria, str	95.28
1zak_A	222	Adenylate kinase; ATP:AMP-phosphotransferase, tran	95.27
2wwf_A	212	Thymidilate kinase, putative; transferase, malaria	95.27
2vp4_A	230	Deoxynucleoside kinase; ATP-binding, DNA synthesis	95.26
3qf7_A	365	RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.	95.26
2iyv_A	184	Shikimate kinase, SK; transferase, aromatic amino	95.25
1gtv_A	214	TMK, thymidylate kinase; transferase, transferase	95.22
2pt5_A	168	Shikimate kinase, SK; aromatic amino acid biosynth	95.22
1ukz_A	203	Uridylate kinase; transferase; HET: ADP AMP; 1.90A	95.21
2xb4_A	223	Adenylate kinase; ATP-binding, nucleotide-binding,	95.21
4e22_A	252	Cytidylate kinase; P-loop, CMP/ATP binding, transf	95.19
1odf_A	290	YGR205W, hypothetical 33.3 kDa protein in ADE3-Ser	95.18
1qf9_A	194	UMP/CMP kinase, protein (uridylmonophosphate/cytid	95.17
1e4v_A	214	Adenylate kinase; transferase(phosphotransferase);	95.16
1nn5_A	215	Similar to deoxythymidylate kinase (thymidylate K;	95.15
3tlx_A	243	Adenylate kinase 2; structural genomics, structura	95.13
2r62_A	268	Cell division protease FTSH homolog; ATPase domain	95.11
2npi_A	460	Protein CLP1; CLP1-PCF11 complex, ATP binding, ter	95.11
2vli_A	183	Antibiotic resistance protein; transferase, tunica	95.04
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	95.03
2p5t_B	253	PEZT; postsegregational killing system, phosphoryl	95.0
1m7g_A	211	Adenylylsulfate kinase; APS kinase, transferase, s	94.97
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.95
1njg_A	250	DNA polymerase III subunit gamma; rossman-like fol	94.95
3qks_A	203	DNA double-strand break repair RAD50 ATPase; RECA-	94.94
2obl_A	347	ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O	94.92
1tue_A	212	Replication protein E1; helicase, replication, E1E	94.92
1zuh_A	168	Shikimate kinase; alpha-beta protein, transferase;	94.91
1svm_A	377	Large T antigen; AAA+ fold, viral protein; HET: AT	94.9
4eaq_A	229	DTMP kinase, thymidylate kinase; structural genomi	94.89
3h4m_A	285	Proteasome-activating nucleotidase; ATPase, PAN, A	94.88
3be4_A	217	Adenylate kinase; malaria, cryptosporidium parvum	94.88
3euj_A	483	Chromosome partition protein MUKB, linker; MUKB, M	94.88
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.85
3b9p_A	297	CG5977-PA, isoform A; AAA ATPase, ATP-binding, nuc	94.84
1l8q_A	324	Chromosomal replication initiator protein DNAA; AA	94.81
2qz4_A	262	Paraplegin; AAA+, SPG7, protease, ADP, structural	94.79
3nwj_A	250	ATSK2; P loop, shikimate, nucleoside monophosphate	94.77
1ltq_A	301	Polynucleotide kinase; phosphatase, alpha/beta, P-	94.76
1ak2_A	233	Adenylate kinase isoenzyme-2; nucleoside monophosp	94.75
1nlf_A	279	Regulatory protein REPA; replicative DNA helicase	94.75
1vht_A	218	Dephospho-COA kinase; structural genomics, transfe	94.75
2ph1_A	262	Nucleotide-binding protein; alpha-beta protein, st	94.7
3t15_A	293	Ribulose bisphosphate carboxylase/oxygenase activ	94.69
3cf0_A	301	Transitional endoplasmic reticulum ATPase; AAA, P9	94.65
1uf9_A	203	TT1252 protein; P-loop, nucleotide binding domain,	94.63
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.61
3n70_A	145	Transport activator; sigma-54, ntpase, PSI, MCSG,	94.6
1pzn_A	349	RAD51, DNA repair and recombination protein RAD51,	94.58
2dr3_A	247	UPF0273 protein PH0284; RECA superfamily ATPase, h	94.58
1sxj_C	340	Activator 1 40 kDa subunit; clamp loader, processi	94.56
2px0_A	296	Flagellar biosynthesis protein FLHF; SRP GTPase, f	94.52
3bk7_A	607	ABC transporter ATP-binding protein; ABC ATPase, i	94.45
2qby_A	386	CDC6 homolog 1, cell division control protein 6 ho	94.43
3ozx_A	538	RNAse L inhibitor; ATP binding cassette protein, h	94.42
3b5x_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.41
3qkt_A	339	DNA double-strand break repair RAD50 ATPase; RECA-	94.41
1yqt_A	538	RNAse L inhibitor; ATP-binding cassette, ribosome	94.39
3b60_A	582	Lipid A export ATP-binding/permease protein MSBA;	94.37
2dpy_A	438	FLII, flagellum-specific ATP synthase; beta barrel	94.32
3r20_A	233	Cytidylate kinase; structural genomics, seattle st	94.32
1ofh_A	310	ATP-dependent HSL protease ATP-binding subunit HSL	94.32
3syl_A	309	Protein CBBX; photosynthesis, rubisco activase, AA	94.29
1vma_A	306	Cell division protein FTSY; TM0570, structural gen	94.26
3zvl_A	416	Bifunctional polynucleotide phosphatase/kinase; hy	94.25
1d2n_A	272	N-ethylmaleimide-sensitive fusion protein; hexamer	94.25
2v1u_A	387	Cell division control protein 6 homolog; DNA repli	94.21
3gmt_A	230	Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucle	94.19
2grj_A	192	Dephospho-COA kinase; TM1387, EC 2.7.1.24, dephosp	94.19
3j16_B	608	RLI1P; ribosome recycling, translation, eukarya, r	94.08
1uj2_A	252	Uridine-cytidine kinase 2; alpha/beta mononucleoti	94.08
4fcw_A	311	Chaperone protein CLPB; AAA domain; HET: ADP; 2.35	94.06
3ake_A	208	Cytidylate kinase; CMP kinase, CMP complex, open c	94.03
1g3q_A	237	MIND ATPase, cell division inhibitor; alpha-beta-a	94.01
2qgz_A	308	Helicase loader, putative primosome component; str	93.98
1sxj_D	353	Activator 1 41 kDa subunit; clamp loader, processi	93.98
2f6r_A	281	COA synthase, bifunctional coenzyme A synthase; 18	93.96
3q9l_A	260	Septum site-determining protein MIND; ATPase, bact	93.93
1w5s_A	412	Origin recognition complex subunit 2 ORC2; replica	93.89
2z4s_A	440	Chromosomal replication initiator protein DNAA; AA	93.85
4b4t_K	428	26S protease regulatory subunit 6B homolog; hydrol	93.84
2yl4_A	595	ATP-binding cassette SUB-family B member 10, mitoc	93.83
3eie_A	322	Vacuolar protein sorting-associated protein 4; AAA	93.83
3k9g_A	267	PF-32 protein; ssgcid, SBRI, decode biostructures,	93.79
4a82_A	578	Cystic fibrosis transmembrane conductance regulat;	93.79
3qf4_B	598	Uncharacterized ABC transporter ATP-binding prote	93.75
4b4t_M	434	26S protease regulatory subunit 6A; hydrolase, AAA	93.69
3uk6_A	368	RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding	93.67
2qmh_A	205	HPR kinase/phosphorylase; V267F mutation, ATP-bind	93.67
1e69_A	322	Chromosome segregation SMC protein; structural mai	93.65
3crm_A	323	TRNA delta(2)-isopentenylpyrophosphate transferase	93.64
3lda_A	400	DNA repair protein RAD51; DNA binding protein, ATP	93.63
2o5v_A	359	DNA replication and repair protein RECF; ABC ATPas	93.62
1tf7_A	525	KAIC; homohexamer, hexamer, circadian clock protei	93.61
3qf4_A	587	ABC transporter, ATP-binding protein; multidrug tr	93.55
1hyq_A	263	MIND, cell division inhibitor (MIND-1); MINC, FTSZ	93.52
3d3q_A	340	TRNA delta(2)-isopentenylpyrophosphate transferase	93.51
4b4t_L	437	26S protease subunit RPT4; hydrolase, AAA-atpases,	93.5
1q3t_A	236	Cytidylate kinase; nucleotide monophosphate kinase	93.49
2dhr_A	499	FTSH; AAA+ protein, hexameric Zn metalloprotease,	93.46

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=100.00  E-value=1.3e-41  Score=249.84  Aligned_cols=160  Identities=38%  Similarity=0.700  Sum_probs=140.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.+|++.++....+..++..+.+.||||+|+++|..++..+++.++++|+|||+++
T Consensus        18 lvGd~~VGKTsLi~r~~~~~f~~~~~~Tig~d~~~k~~~~~~~~v~l~iwDtaGqe~~~~l~~~~~~~a~~~ilv~di~~   97 (216)
T 4dkx_A           18 FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGLERFRSLIPSYIRDSAAAVVVYDITN   97 (216)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCC----------CEEEEEECSSCEEEEEEECCSCTTTCGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCcCHHHHHHHHHhCCCCCCcCCccceEEEEEEEEecceEEEEEEEECCCchhhhhHHHHHhccccEEEEEeecch
Confidence            58999999999999999999999999999999988888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +++|+.+..|+..+......++|++||+||+|+...+.+..+++..+++.++++|++|||++|.||+++|..|++.+...
T Consensus        98 ~~Sf~~i~~~~~~i~~~~~~~~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~  177 (216)
T 4dkx_A           98 VNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGM  177 (216)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC---
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhh
Confidence            99999999999999877778899999999999988889999999999999999999999999999999999999887654

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=100.00  E-value=5.6e-37  Score=226.81  Aligned_cols=168  Identities=62%  Similarity=0.975  Sum_probs=140.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+..++..+++.+|++|+|||+++
T Consensus        18 v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vilV~D~~~   97 (223)
T 3cpj_B           18 LIGDSGVGKSNLLSRFTKNEFNMDSKSTIGVEFATRTLEIEGKRIKAQIWDTAGQERYRAITSAYYRGAVGALIVYDISK   97 (223)
T ss_dssp             EESCTTSSHHHHHHHHHHCCCCC------CCSEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGTTTCCEEEEEEC-CC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCccchhhhHHHHhccCCEEEEEEeCCC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......++|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|.+|.+.+.+.
T Consensus        98 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  177 (223)
T 3cpj_B           98 SSSYENCNHWLSELRENADDNVAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQK  177 (223)
T ss_dssp             HHHHHHHHHHHHHHHHHCC--CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998876656899999999999987677888899999999999999999999999999999999999888


Q ss_pred             hhhhhccc
Q 040835          161 VSKKALTA  168 (206)
Q Consensus       161 ~~~~~~~~  168 (206)
                      ...+....
T Consensus       178 ~~~~~~~~  185 (223)
T 3cpj_B          178 VSKHQMDL  185 (223)
T ss_dssp             C-------
T ss_pred             hhhcccCc
Confidence            77766654

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=100.00  E-value=9e-36  Score=217.66  Aligned_cols=167  Identities=51%  Similarity=0.805  Sum_probs=152.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~vilv~d~~~   92 (206)
T 2bcg_Y           13 LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD   92 (206)
T ss_dssp             EEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEeCCChHHHHHHHHHhccCCCEEEEEEECcC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|.++.+.+.+.
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  172 (206)
T 2bcg_Y           93 QESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKES  172 (206)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988876666899999999999987777888899999999999999999999999999999999999887


Q ss_pred             hhhhhcc
Q 040835          161 VSKKALT  167 (206)
Q Consensus       161 ~~~~~~~  167 (206)
                      .......
T Consensus       173 ~~~~~~~  179 (206)
T 2bcg_Y          173 MSQQNLN  179 (206)
T ss_dssp             CCHHHHH
T ss_pred             Hhhcccc
Confidence            6665443

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=100.00  E-value=1.2e-34  Score=211.44  Aligned_cols=161  Identities=38%  Similarity=0.560  Sum_probs=143.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        19 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   97 (206)
T 2bov_A           19 MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITE   97 (206)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEcCCChhhhHHHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999988877777766544 4556778888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|.++++.+.+
T Consensus        98 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~  177 (206)
T 2bov_A           98 MESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA  177 (206)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999999998887655 3579999999999998777788899999999999999999999999999999999999987


Q ss_pred             Hhh
Q 040835          160 IVS  162 (206)
Q Consensus       160 ~~~  162 (206)
                      ...
T Consensus       178 ~~~  180 (206)
T 2bov_A          178 RKM  180 (206)
T ss_dssp             HHH
T ss_pred             ccc
Confidence            643

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=100.00  E-value=4.7e-35  Score=213.80  Aligned_cols=165  Identities=39%  Similarity=0.659  Sum_probs=145.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (207)
T 1vg8_A           13 ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTA   92 (207)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHhHHHHHhCCcEEEEEEECCC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETLRAVPTEDAKEFAE-KEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.++..+..|+..+.....    .+.|+++|+||+|+. .+....++...++. ..+++++++||+++.|++++|++|.+
T Consensus        93 ~~s~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  171 (207)
T 1vg8_A           93 PNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR  171 (207)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcccccCCCCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999888765432    468999999999997 35667788888887 56889999999999999999999999


Q ss_pred             HHHHHhhhhhc
Q 040835          156 EIYRIVSKKAL  166 (206)
Q Consensus       156 ~i~~~~~~~~~  166 (206)
                      .+.+.......
T Consensus       172 ~~~~~~~~~~~  182 (207)
T 1vg8_A          172 NALKQETEVEL  182 (207)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHhcccccc
Confidence            99887665443

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=8.4e-34  Score=206.63  Aligned_cols=165  Identities=44%  Similarity=0.711  Sum_probs=149.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        31 lvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~  110 (201)
T 2ew1_A           31 LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITC  110 (201)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|.++.+.+.+.
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~  190 (201)
T 2ew1_A          111 EESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  190 (201)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998877667899999999999987778888899999999999999999999999999999999999876


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      .....
T Consensus       191 ~~~~~  195 (201)
T 2ew1_A          191 ARQNT  195 (201)
T ss_dssp             HC---
T ss_pred             Hhhcc
Confidence            55443

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=100.00  E-value=1.7e-33  Score=203.31  Aligned_cols=163  Identities=52%  Similarity=0.875  Sum_probs=145.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        26 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  105 (191)
T 2a5j_A           26 IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR  105 (191)
T ss_dssp             EESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCcccceeEEEEEEECCEEEEEEEEECCCchhhhhhHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999988888888888887888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.+|.+.+.+.
T Consensus       106 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  185 (191)
T 2a5j_A          106 RETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRK  185 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998876667899999999999987677888899999999999999999999999999999999999876


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ..+
T Consensus       186 ~~~  188 (191)
T 2a5j_A          186 IQQ  188 (191)
T ss_dssp             HHT
T ss_pred             HHh
Confidence            554

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=100.00  E-value=2.5e-33  Score=204.14  Aligned_cols=164  Identities=41%  Similarity=0.732  Sum_probs=150.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   92 (203)
T 1zbd_A           13 IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGLERYRTITTAYYRGAMGFILMYDITN   92 (203)
T ss_dssp             EECSTTSSHHHHHHHHHTCCCCSCCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTGGGCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCcCCccceeEEEEEEEECCeEEEEEEEECCCchhhcchHHHhhcCCCEEEEEEECcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|.+|.+.+.+.
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  172 (203)
T 1zbd_A           93 EESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEK  172 (203)
T ss_dssp             HHHHHHHHHHHHHHHHHSCSSCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988776656899999999999987778888999999999999999999999999999999999999887


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ....
T Consensus       173 ~~~~  176 (203)
T 1zbd_A          173 MSES  176 (203)
T ss_dssp             HHHT
T ss_pred             HHhh
Confidence            6554

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=100.00  E-value=4.5e-34  Score=204.77  Aligned_cols=164  Identities=47%  Similarity=0.789  Sum_probs=120.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (183)
T 2fu5_C           13 LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN   92 (183)
T ss_dssp             EECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCcccceeEEEEEEECCEEEEEEEEcCCCChhhhhhHHHHHhcCCEEEEEEECcC
Confidence            58999999999999999988887788887877777778888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|.++.+.+.+.
T Consensus        93 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~  172 (183)
T 2fu5_C           93 EKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAK  172 (183)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988876656899999999999987677888999999999999999999999999999999999999877


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ..+.
T Consensus       173 ~~~~  176 (183)
T 2fu5_C          173 MDKN  176 (183)
T ss_dssp             HHHH
T ss_pred             hhcc
Confidence            6554

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=100.00  E-value=3.5e-33  Score=202.12  Aligned_cols=163  Identities=51%  Similarity=0.816  Sum_probs=150.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        21 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  100 (196)
T 3tkl_A           21 LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD  100 (196)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSCCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGCTTHHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCcccceEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHHhhCCEEEEEEECcC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++.+.+.+.
T Consensus       101 ~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~  180 (196)
T 3tkl_A          101 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR  180 (196)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999998887767899999999999988788888999999999999999999999999999999999999876


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ...
T Consensus       181 ~~~  183 (196)
T 3tkl_A          181 MGP  183 (196)
T ss_dssp             C--
T ss_pred             hcc
Confidence            543

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=100.00  E-value=2.4e-33  Score=201.40  Aligned_cols=165  Identities=48%  Similarity=0.770  Sum_probs=150.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        15 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   94 (186)
T 2bme_A           15 VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   94 (186)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHHhcCCEEEEEEECcC
Confidence            58999999999999999999988888888888887888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|.++.+.+.+.
T Consensus        95 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  174 (186)
T 2bme_A           95 RETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNK  174 (186)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999888776667899999999999977677888899999999999999999999999999999999999887


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      .....
T Consensus       175 ~~~~~  179 (186)
T 2bme_A          175 IESGE  179 (186)
T ss_dssp             HHSCC
T ss_pred             hhhcC
Confidence            65543

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=100.00  E-value=1.9e-33  Score=204.68  Aligned_cols=161  Identities=52%  Similarity=0.809  Sum_probs=139.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        34 vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~  113 (201)
T 2hup_A           34 LVGDASVGKTCVVQRFKTGAFSERQGSTIGVDFTMKTLEIQGKRVKLQIWDTAGQERFRTITQSYYRSANGAILAYDITK  113 (201)
T ss_dssp             EEECTTSSHHHHHHHHHHSCC----------CEEEEEEEETTEEEEEEEECCTTCGGGHHHHHHHHTTCSEEEEEEETTB
T ss_pred             EECcCCCCHHHHHHHHhhCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHHhhCCEEEEEEECCC
Confidence            58999999999999999999888888887777777788888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..+++ +++++||+++.|++++|.+|.+.+.+
T Consensus       114 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~  193 (201)
T 2hup_A          114 RSSFLSVPHWIEDVRKYAGSNIVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIM  193 (201)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999998876667899999999999987677888999999999999 99999999999999999999999876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       194 ~~  195 (201)
T 2hup_A          194 RH  195 (201)
T ss_dssp             HT
T ss_pred             hc
Confidence            54

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=100.00  E-value=4.1e-33  Score=198.74  Aligned_cols=159  Identities=51%  Similarity=0.871  Sum_probs=145.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        20 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   99 (179)
T 1z0f_A           20 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   99 (179)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCeEEEEEEEECCCChHhhhhHHHHhccCCEEEEEEeCcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|+++.+.+.+
T Consensus       100 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          100 RSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            9999999999998887766789999999999998767788899999999999999999999999999999999988754

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=100.00  E-value=5.2e-33  Score=200.94  Aligned_cols=163  Identities=66%  Similarity=1.027  Sum_probs=149.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||.+.+...+..+++.+|++|+|+|+++
T Consensus        30 v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~vi~v~D~~~  109 (193)
T 2oil_A           30 LIGESGVGKTNLLSRFTRNEFSHDSRTTIGVEFSTRTVMLGTAAVKAQIWDTAGLERYRAITSAYYRGAVGALLVFDLTK  109 (193)
T ss_dssp             EESSTTSSHHHHHHHHHHSCCCSSCCCCSSEEEEEEEEEETTEEEEEEEEEESCCCTTCTTHHHHHTTCCEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECCC
Confidence            58999999999999999999988888888888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|.+|.+.+.+.
T Consensus       110 ~~s~~~~~~~l~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (193)
T 2oil_A          110 HQTYAVVERWLKELYDHAEATIVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAK  189 (193)
T ss_dssp             HHHHHTHHHHHHHHHTTSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988876667899999999999987677888899999999999999999999999999999999999876


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ..+
T Consensus       190 ~~~  192 (193)
T 2oil_A          190 VSK  192 (193)
T ss_dssp             HHT
T ss_pred             hhc
Confidence            543

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=100.00  E-value=5.3e-33  Score=200.34  Aligned_cols=161  Identities=45%  Similarity=0.776  Sum_probs=147.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+..++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        27 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  106 (189)
T 2gf9_A           27 LIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTVYRHDKRIKLQIWDTAGQERYRTITTAYYRGAMGFLLMYDIAN  106 (189)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCSCCCCCCCEEEEEEEEETTEEEEEEEEECCSCCSSCCSGGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCcCCceeEEEEEEEEEECCeEEEEEEEeCCCcHHHhhhHHHhccCCCEEEEEEECCC
Confidence            58999999999999999999888888888888877778888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|+++.+.+.+.
T Consensus       107 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          107 QESFAAVQDWATQIKTYSWDNAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEK  186 (189)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988876656899999999999987777888899999999999999999999999999999999998765


Q ss_pred             h
Q 040835          161 V  161 (206)
Q Consensus       161 ~  161 (206)
                      .
T Consensus       187 ~  187 (189)
T 2gf9_A          187 M  187 (189)
T ss_dssp             H
T ss_pred             h
Confidence            4

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=100.00  E-value=6.4e-33  Score=198.23  Aligned_cols=160  Identities=44%  Similarity=0.786  Sum_probs=145.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus        17 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   96 (181)
T 2efe_B           17 LLGDVGAGKSSLVLRFVKDQFVEFQESTIGAAFFSQTLAVNDATVKFEIWDTAGQERYHSLAPMYYRGAAAAIIVFDVTN   96 (181)
T ss_dssp             EECCTTSCHHHHHHHHHHCCCTTTSCCCSCCSEEEEEEEETTEEEEEEEEECCCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCcCCCCceeEEEEEEEEECCEEEEEEEEeCCCChhhhhhhHHHhccCCEEEEEEECCC
Confidence            58999999999999999999988888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|.+|.+.+.+.
T Consensus        97 ~~s~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  176 (181)
T 2efe_B           97 QASFERAKKWVQELQAQGNPNMVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRV  176 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC--
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            99999999999998877666899999999999987677888999999999999999999999999999999999877544

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=100.00  E-value=3.4e-33  Score=203.21  Aligned_cols=165  Identities=48%  Similarity=0.784  Sum_probs=139.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        30 v~G~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  109 (200)
T 2o52_A           30 VIGSAGTGKSCLLHQFIENKFKQDSNHTIGVEFGSRVVNVGGKTVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS  109 (200)
T ss_dssp             EEESTTSSHHHHHHHHHC------------CCEEEEEEEETTEEEEEEEECCTTHHHHSCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHhCCCCccCCCcccceeEEEEEEECCeeeEEEEEcCCCcHhHHHHHHHHhccCCEEEEEEECcC
Confidence            58999999999999999999888888888888877888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......++|+++|+||+|+...+.+...+...++...+++++++||+++.|++++|.++++.+.+.
T Consensus       110 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~  189 (200)
T 2o52_A          110 RETYNSLAAWLTDARTLASPNIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNK  189 (200)
T ss_dssp             HHHHHTHHHHHHHHHHHTCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999988776667899999999999987677888899999999999999999999999999999999999887


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      .....
T Consensus       190 ~~~~~  194 (200)
T 2o52_A          190 IDSGE  194 (200)
T ss_dssp             HHTTS
T ss_pred             HhcCC
Confidence            65543

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=100.00  E-value=7.7e-33  Score=197.63  Aligned_cols=163  Identities=48%  Similarity=0.747  Sum_probs=147.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+..++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        14 v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   93 (181)
T 3tw8_B           14 IIGDSGVGKSSLLLRFADNTFSGSYITTIGVDFKIRTVEINGEKVKLQIWDTAGQERFRTITSTYYRGTHGVIVVYDVTS   93 (181)
T ss_dssp             EECCTTSCHHHHHHHHCSCC---CCTTTBSEEEEEEEEEETTEEEEEEEEEETTGGGCSSCCGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCccCCCceeEEEEEEEEECCEEEEEEEEcCCCchhhhhhHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+.... .+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|+++.+.+.+.
T Consensus        94 ~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  172 (181)
T 3tw8_B           94 AESFVNVKRWLHEINQNC-DDVCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRA  172 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHC-TTSEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            999999999999887755 5799999999999987778888999999999999999999999999999999999999887


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ..++
T Consensus       173 ~~~~  176 (181)
T 3tw8_B          173 KKDN  176 (181)
T ss_dssp             HHHH
T ss_pred             hhhh
Confidence            6654

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=100.00  E-value=8.5e-33  Score=195.40  Aligned_cols=157  Identities=46%  Similarity=0.772  Sum_probs=144.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus        11 v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (170)
T 1r2q_A           11 LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITN   90 (170)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEeCCCcHHhhhhhHHhccCCCEEEEEEECCC
Confidence            58999999999999999999888888888888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+......++|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|++|.+.+
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A           91 EESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            99999999999988776667899999999999977677888899999999999999999999999999999998764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=100.00  E-value=1.6e-32  Score=197.34  Aligned_cols=162  Identities=33%  Similarity=0.531  Sum_probs=140.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+ +.....+.+++..+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus         9 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   87 (189)
T 4dsu_A            9 VVGADGVGKSALTIQLIQNHFVDEYDPTIE-DSYRKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN   87 (189)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCCCCCCTTCC-EEEEEEEEETTEEEEEEEEECCCC---CTTHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCCch-heEEEEEEECCcEEEEEEEECCCcHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            589999999999999999988777777754 4445666778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ..+.|+++|+||+|+.. +....++...++..++++++++||+++.|++++|.++.+.+.+
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  166 (189)
T 4dsu_A           88 TKSFEDIHHYREQIKRVKDSEDVPMVLVGNKCDLPS-RTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRK  166 (189)
T ss_dssp             HHHHHHHHHHHHHHHHHTTCSCCCEEEEEECTTSSS-CSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccCcc-cccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999999988887643 35799999999999974 6677888999999999999999999999999999999999987


Q ss_pred             Hhhhh
Q 040835          160 IVSKK  164 (206)
Q Consensus       160 ~~~~~  164 (206)
                      ...+.
T Consensus       167 ~~~~~  171 (189)
T 4dsu_A          167 HKEKM  171 (189)
T ss_dssp             HHHHH
T ss_pred             hhhhc
Confidence            75543

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1e-33  Score=204.46  Aligned_cols=162  Identities=46%  Similarity=0.766  Sum_probs=149.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+..++..+.+.+||+||++.+...+..+++.+|++|+|||+++
T Consensus        28 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  107 (191)
T 3dz8_A           28 IIGNSSVGKTSFLFRYADDTFTPAFVSTVGIDFKVKTVYRHEKRVKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN  107 (191)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTCCCEEEEETTTEEEEEEEETTTTEEEEEECHHHHHHCHHHHHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHhcCCCCcccCCCeeeEEEEEEEEECCEEEEEEEEeCCChHHHHHHHHHHHccCCEEEEEEECcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+++.+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++++.+.+.
T Consensus       108 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  187 (191)
T 3dz8_A          108 EESFNAVQDWATQIKTYSWDNAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDK  187 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999999887667899999999999987788889999999999999999999999999999999999998876


Q ss_pred             hh
Q 040835          161 VS  162 (206)
Q Consensus       161 ~~  162 (206)
                      ..
T Consensus       188 ~~  189 (191)
T 3dz8_A          188 MS  189 (191)
T ss_dssp             C-
T ss_pred             cc
Confidence            44

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=1.6e-32  Score=201.16  Aligned_cols=166  Identities=45%  Similarity=0.783  Sum_probs=148.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        25 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  104 (213)
T 3cph_A           25 LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQLWDTAGQERFRTITTAYYRGAMGIILVYDVTD  104 (213)
T ss_dssp             EECSTTSSHHHHHHHHHHCCCCCSSSCCCSCCEEEEEEEETTEEEEEEEECCTTGGGGTCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCcccceEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999888888888888887888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+. .+....++...++..++++++++||+++.|++++|.+|.+.+.+.
T Consensus       105 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  183 (213)
T 3cph_A          105 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  183 (213)
T ss_dssp             HHHHHTHHHHHHHHHHHTTTCSEEEEEEECTTCS-SCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCc-ccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999998887665679999999999994 466778888999999999999999999999999999999998877


Q ss_pred             hhhhhcc
Q 040835          161 VSKKALT  167 (206)
Q Consensus       161 ~~~~~~~  167 (206)
                      .......
T Consensus       184 ~~~~~~~  190 (213)
T 3cph_A          184 IDSNKLV  190 (213)
T ss_dssp             HHTTSCC
T ss_pred             Hhhhhcc
Confidence            6554433

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=100.00  E-value=2.2e-32  Score=193.34  Aligned_cols=157  Identities=42%  Similarity=0.738  Sum_probs=145.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|++..+...+.++.+.++......+.+....+.+|||||.+.+...+..+++.+|++|+|+|+++
T Consensus        11 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (170)
T 1z0j_A           11 LLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITK   90 (170)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCceeEEEEEEEEEECCeEEEEEEEcCCCchhhhcccHhhCcCCCEEEEEEECcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+........|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|.++.+.+
T Consensus        91 ~~s~~~~~~~~~~l~~~~~~~~~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A           91 EETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            99999999999998877667899999999999987777888899999999999999999999999999999998765

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=100.00  E-value=1.3e-32  Score=194.41  Aligned_cols=157  Identities=45%  Similarity=0.746  Sum_probs=143.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         8 v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (170)
T 1ek0_A            8 LLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPXYYRNAQAALVVYDVTK   87 (170)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCChhhhhhhhhhhccCcEEEEEEecCC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC---CCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL---RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~---~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...   +.+..++...++...+++++++||+++.|++++|+++.+.+
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A           88 PQSFIKARHWVKELHEQASKDIIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            999999999999888766678999999999999654   66788888999999999999999999999999999998654

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=100.00  E-value=3.6e-33  Score=197.52  Aligned_cols=158  Identities=41%  Similarity=0.685  Sum_probs=137.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        11 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (170)
T 1z08_A           11 LLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITD   90 (170)
T ss_dssp             EECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCcCCCCccceEEEEEEEEECCEEEEEEEEECCCcHhhhhhHHHHhccCCEEEEEEECcC
Confidence            58999999999999999998888888888888777777888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|+++.+.+.
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A           91 EDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            999999999998887665567999999999999877788888999999999999999999999999999999998875

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=100.00  E-value=7.2e-33  Score=195.89  Aligned_cols=159  Identities=48%  Similarity=0.805  Sum_probs=138.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|++..+...+.++.+.++....+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus         8 v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (170)
T 1g16_A            8 LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   87 (170)
T ss_dssp             EEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHhCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCCChhhhhhHHHHhccCCEEEEEEECCC
Confidence            58999999999999999999888888887877777777777778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++|+||+|+. .+....++...++..++++++++||+++.|++++|.++.+.+.++
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A           88 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECccCC-cCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            9999999999998887766789999999999994 456778889999999999999999999999999999999988764

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=100.00  E-value=6.9e-33  Score=200.33  Aligned_cols=160  Identities=43%  Similarity=0.777  Sum_probs=139.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        31 vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~iilV~D~~~  110 (192)
T 2il1_A           31 IIGSRGVGKTSLMERFTDDTFCEACKSTVGVDFKIKTVELRGKKIRLQIWDTAGQERFNSITSAYYRSAKGIILVYDITK  110 (192)
T ss_dssp             EECSTTSSHHHHHHHHCC--------CCTTEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcCCCCccceeEEEEEEEECCeEEEEEEEeCCCcHHHHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++... +++++++||+++.|++++|.+|.+.+.+
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~  190 (192)
T 2il1_A          111 KETFDDLPKWMKMIDKYASEDAELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK  190 (192)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            999999999998888776668999999999999877788888889998885 8899999999999999999999998865


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      +
T Consensus       191 ~  191 (192)
T 2il1_A          191 K  191 (192)
T ss_dssp             T
T ss_pred             h
Confidence            3

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=100.00  E-value=9e-33  Score=203.25  Aligned_cols=164  Identities=41%  Similarity=0.696  Sum_probs=144.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe----------EEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK----------NVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++.          .+.+.+|||||++.+...+..+++.+|
T Consensus        30 vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d  109 (217)
T 2f7s_A           30 ALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAM  109 (217)
T ss_dssp             EESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCcCCCCceeEEEEEEEEEECCccccccccCceeEEEEEEECCCcHhHHhHHHHHhcCCC
Confidence            5899999999999999999887777777777766666666655          788999999999999999999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      ++|+|||++++.++..+..|+..+..... .++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++
T Consensus       110 ~iilV~D~~~~~s~~~~~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l  189 (217)
T 2f7s_A          110 GFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKA  189 (217)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHH
T ss_pred             EEEEEEECcCHHHHHHHHHHHHHHHHhcCcCCCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCCHHHH
Confidence            99999999999999999999887765543 57999999999999876778889999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhh
Q 040835          150 FLTVLTEIYRIVSKK  164 (206)
Q Consensus       150 ~~~l~~~i~~~~~~~  164 (206)
                      |.+|.+.+.+.....
T Consensus       190 ~~~l~~~i~~~~~~~  204 (217)
T 2f7s_A          190 VETLLDLIMKRMEQC  204 (217)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhhcC
Confidence            999999998876554

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.8e-32  Score=195.79  Aligned_cols=160  Identities=46%  Similarity=0.747  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|++..+. ..+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|++
T Consensus        15 v~G~~~~GKssli~~l~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~   94 (180)
T 2g6b_A           15 LVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVT   94 (180)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETT
T ss_pred             EECcCCCCHHHHHHHHHhCCCCCCCcCCceeeEEEEEEEEECCEEEEEEEEeCCCcHHHHHHHHHHccCCCEEEEEEECC
Confidence            5899999999999999998885 356677777777777778888899999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++.++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++.+.+.+
T Consensus        95 ~~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (180)
T 2g6b_A           95 NKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR  174 (180)
T ss_dssp             CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            99999999999998887666789999999999998777888889999999999999999999999999999999988765


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       175 ~  175 (180)
T 2g6b_A          175 R  175 (180)
T ss_dssp             -
T ss_pred             H
Confidence            4

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=100.00  E-value=1.4e-32  Score=194.08  Aligned_cols=158  Identities=36%  Similarity=0.624  Sum_probs=144.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        10 v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   89 (168)
T 1z2a_A           10 VVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD   89 (168)
T ss_dssp             EECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCceEEEEEEEEEEECCEEEEEEEEcCCCcHhHHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... .+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++|+++.+.+.+
T Consensus        90 ~~s~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A           90 RESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             HHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            999999999998887655 579999999999998767788889999999999999999999999999999999988753

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=100.00  E-value=3.9e-32  Score=193.05  Aligned_cols=162  Identities=28%  Similarity=0.363  Sum_probs=131.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh--hhhhhHhHhcCCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--YRAVTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~~~~~~~~d~~i~v~d~   78 (206)
                      |+|++|||||||+++|.+..+...+. +.+.+.....+.+++..+.+.+|||||++.  +..+...+++.+|++++|||+
T Consensus         9 i~G~~~vGKSsl~~~l~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~D~~g~~~~~~~~~~~~~~~~~~~~i~v~d~   87 (175)
T 2nzj_A            9 LLGDPGVGKTSLASLFAGKQERDLHE-QLGEDVYERTLTVDGEDTTLVVVDTWEAEKLDKSWSQESCLQGGSAYVIVYSI   87 (175)
T ss_dssp             EECCTTSSHHHHHHHHHCC-----CC-CSSSSEEEEEEEETTEEEEEEEECCC-------CHHHHHTTTSCSEEEEEEET
T ss_pred             EECCCCccHHHHHHHHhcCCCccccC-ccccceeEEEEEECCEEEEEEEEecCCCCccchhhhHHhhcccCCEEEEEEEC
Confidence            58999999999999999988765544 456677777778888889999999999987  566677889999999999999


Q ss_pred             CChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           79 TKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        79 ~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +++.++..+..|+..+.... ..++|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++.+.+
T Consensus        88 ~~~~s~~~~~~~~~~l~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  167 (175)
T 2nzj_A           88 ADRGSFESASELRIQLRRTHQADHVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQL  167 (175)
T ss_dssp             TCHHHHHHHHHHHHHHHHCC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHHHhhccCCCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHH
Confidence            99999999999988887653 35799999999999987777888888899999999999999999999999999999998


Q ss_pred             HHHhhh
Q 040835          158 YRIVSK  163 (206)
Q Consensus       158 ~~~~~~  163 (206)
                      ......
T Consensus       168 ~~~~~~  173 (175)
T 2nzj_A          168 RLRRRD  173 (175)
T ss_dssp             HHHHC-
T ss_pred             HHhhcc
Confidence            765443

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.1e-32  Score=199.18  Aligned_cols=159  Identities=44%  Similarity=0.751  Sum_probs=145.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|++..+...+.++.+.++....+.+++....+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        28 vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilV~d~~~  107 (192)
T 2fg5_A           28 LLGDTGVGKSSIVCRFVQDHFDHNISPTIGASFMTKTVPCGNELHKFLIWDTAGQERFHSLAPMYYRGSAAAVIVYDITK  107 (192)
T ss_dssp             EEECTTSSHHHHHHHHHHCCCCTTCCCCSSEEEEEEEEECSSSEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCcCCCcceeEEEEEEEeCCEEEEEEEEcCCCchhhHhhhHHhhccCCEEEEEEeCCC
Confidence            58999999999999999999887888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|++|.+.+.+
T Consensus       108 ~~s~~~~~~~~~~i~~~~~~~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          108 QDSFYTLKKWVKELKEHGPENIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             THHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHHHHHHhCCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            9999999999999887766689999999999998767788899999999999999999999999999999999887643

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=100.00  E-value=4.2e-32  Score=195.91  Aligned_cols=164  Identities=40%  Similarity=0.684  Sum_probs=145.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeE-EEEEEECCe---------EEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQ-TKTLVIHHK---------NVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~---------~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      |+|++|||||||+++|++..+...+.++.+.++. ...+..++.         .+.+.+|||||++.+...+..+++.+|
T Consensus        16 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d   95 (195)
T 3bc1_A           16 ALGDSGVGKTSVLYQYTDGKFNSKFITTVGIDFREKRVVYRANGPDGAVGRGQRIHLQLWDTAGLERFRSLTTAFFRDAM   95 (195)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEECTTSCCCSSCCCEEEEEEEEEECCSGGGHHHHHHTTTTCS
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcCcccccceeeeeEEEEEecCCcccccccCcEEEEEEEeCCCcHHHHHHHHHHHcCCC
Confidence            5899999999999999999888888888777776 555555554         789999999999999999999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      ++|+|+|++++.++..+..|+..+..... .+.|+++|+||+|+...+.+..+++..++...+++++++||+++.|++++
T Consensus        96 ~~i~v~d~~~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l  175 (195)
T 3bc1_A           96 GFLLLFDLTNEQSFLNVRNWISQLQMHAYSENPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHA  175 (195)
T ss_dssp             EEEEEEETTCHHHHHTHHHHHHHHHHHSSSSSCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHH
T ss_pred             EEEEEEECCCHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCCHHHH
Confidence            99999999999999999999988876654 67999999999999876778888999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhhh
Q 040835          150 FLTVLTEIYRIVSKK  164 (206)
Q Consensus       150 ~~~l~~~i~~~~~~~  164 (206)
                      |.+|.+.+.+...+.
T Consensus       176 ~~~l~~~~~~~~~~~  190 (195)
T 3bc1_A          176 IEMLLDLIMKRMERS  190 (195)
T ss_dssp             HHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhhhc
Confidence            999999998765543

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=5.2e-32  Score=195.69  Aligned_cols=160  Identities=45%  Similarity=0.766  Sum_probs=145.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        20 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   99 (195)
T 1x3s_A           20 IIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR   99 (195)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCccCCCccceEEEEEEEEECCeEEEEEEEeCCCchhhhhhhHHHhccCCEEEEEEECcC
Confidence            58999999999999999999988888888888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ..++|+++|+||+|+.. +.+..++...++...+++++++||+++.|++++|.+|.+.+.+
T Consensus       100 ~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  178 (195)
T 1x3s_A          100 RDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ  178 (195)
T ss_dssp             HHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhcCcCCCcEEEEEECCcCcc-cccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999887654 35789999999999954 5677888999999999999999999999999999999998875


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       179 ~~  180 (195)
T 1x3s_A          179 TP  180 (195)
T ss_dssp             SG
T ss_pred             hh
Confidence            43

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=100.00  E-value=4.6e-32  Score=194.25  Aligned_cols=158  Identities=33%  Similarity=0.488  Sum_probs=143.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ......++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        23 v~G~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  101 (183)
T 3kkq_A           23 VVGDGGVGKSALTIQFFQKIFVDDYDPTIEDSY-LKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTD  101 (183)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCCcccee-EEEEEeCCcEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            589999999999999999988888888877666 5677788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccC-CCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSAL-ESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~-~~~~v~~~~~~l~~~i~  158 (206)
                      +.++..+..|+..+... ...++|+++|+||+|+...+.+..+++..++..++++++++||+ ++.|++++|.++.+.+.
T Consensus       102 ~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~  181 (183)
T 3kkq_A          102 KASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR  181 (183)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHh
Confidence            99999999998887653 34678999999999998778889999999999999999999999 99999999999998876


Q ss_pred             H
Q 040835          159 R  159 (206)
Q Consensus       159 ~  159 (206)
                      +
T Consensus       182 ~  182 (183)
T 3kkq_A          182 Q  182 (183)
T ss_dssp             H
T ss_pred             h
Confidence            5

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=100.00  E-value=1.6e-32  Score=195.68  Aligned_cols=159  Identities=40%  Similarity=0.711  Sum_probs=144.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        19 v~G~~~~GKssli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   98 (179)
T 2y8e_A           19 FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTVRLQLWDTAGQERFRSLIPSYIRDSTVAVVVYDITN   98 (179)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGSHHHHHTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCceeeEEEEEEEEECCeEEEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCC
Confidence            58999999999999999999888888888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|+++.+.+.+
T Consensus        99 ~~s~~~~~~~~~~i~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  177 (179)
T 2y8e_A           99 TNSFHQTSKWIDDVRTERGSDVIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPG  177 (179)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC-
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            9999999999988877655689999999999998777888888999999999999999999999999999999876543

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=100.00  E-value=2.2e-32  Score=195.62  Aligned_cols=160  Identities=32%  Similarity=0.447  Sum_probs=142.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+.++ ...+..++..+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        11 ~~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (181)
T 3t5g_A           11 ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTS   89 (181)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCCccccE-EEEEEECCEEEEEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECCC
Confidence            589999999999999999888888888877766 5667788888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+.... ..++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|.++++.+.+
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~  169 (181)
T 3t5g_A           90 IKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK  169 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHC----CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            999999999998876543 3579999999999998778889999999999999999999999999999999999998876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       170 ~~  171 (181)
T 3t5g_A          170 MD  171 (181)
T ss_dssp             C-
T ss_pred             hc
Confidence            53

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=100.00  E-value=4.5e-32  Score=195.48  Aligned_cols=159  Identities=40%  Similarity=0.694  Sum_probs=141.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-hhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-AVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+. ..+..+++.+|++|+|+|++
T Consensus        25 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~d~iilv~D~~  104 (189)
T 1z06_A           25 VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT  104 (189)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCCcceEEEEEEEEECCEEEEEEEEECCCchhhhhhhhHHHhcCCCEEEEEEECc
Confidence            58999999999999999999988888888888888888888888999999999999998 88999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCC---CCHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALES---TNVELAFLTVLT  155 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~---~~v~~~~~~l~~  155 (206)
                      ++.++..+..|+..+.... ..+.|+++|+||+|+...+.+..++...++...+++++++||+++   .|++++|.+|.+
T Consensus       105 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~  184 (189)
T 1z06_A          105 NMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAH  184 (189)
T ss_dssp             CHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC-
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHH
Confidence            9999999999998887654 467999999999999877788889999999999999999999999   999999999988


Q ss_pred             HHHH
Q 040835          156 EIYR  159 (206)
Q Consensus       156 ~i~~  159 (206)
                      .+.+
T Consensus       185 ~i~~  188 (189)
T 1z06_A          185 KLKS  188 (189)
T ss_dssp             ----
T ss_pred             HHhh
Confidence            7643

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=100.00  E-value=5e-32  Score=193.39  Aligned_cols=160  Identities=32%  Similarity=0.522  Sum_probs=142.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        14 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   92 (181)
T 2fn4_A           14 VVGGGGVGKSALTIQFIQSYFVSDYDPTIEDSYT-KICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIND   92 (181)
T ss_dssp             EEECTTSSHHHHHHHHHHSSCCSSCCTTCCEEEE-EEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCcCccccCCCcCceEE-EEEEECCEEEEEEEEECCCchhhHHHHHHHHhhCCEEEEEEeCCC
Confidence            5899999999999999999888888888776655 566778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.. ....+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|++|.+.+.+
T Consensus        93 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  172 (181)
T 2fn4_A           93 RQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK  172 (181)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999888743 334679999999999998777888889999999999999999999999999999999999876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       173 ~~  174 (181)
T 2fn4_A          173 YQ  174 (181)
T ss_dssp             HT
T ss_pred             hh
Confidence            54

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=100.00  E-value=1.4e-32  Score=199.71  Aligned_cols=158  Identities=41%  Similarity=0.703  Sum_probs=133.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        33 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~d~~~  112 (199)
T 2p5s_A           33 LAGDAAVGKSSFLMRLCKNEFRENISATLGVDFQMKTLIVDGERTVLQLWDTAGQERFRSIAKSYFRKADGVLLLYDVTC  112 (199)
T ss_dssp             EESSTTSSHHHHHHHHHHCCCC----------CEEEEEEETTEEEEEEEEECTTCTTCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHhCCCCccCCCCccceeEEEEEEECCEEEEEEEEECCCCcchhhhHHHHHhhCCEEEEEEECCC
Confidence            58999999999999999999887788888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC------cCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE------TLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+......++|+++|+||+|+.      ..+.+..++...++..++++++++||+++.|++++|.+++
T Consensus       113 ~~s~~~~~~~~~~i~~~~~~~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~el~~~l~  192 (199)
T 2p5s_A          113 EKSFLNIREWVDMIEDAAHETVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLA  192 (199)
T ss_dssp             HHHHHTHHHHHHHHHHHC---CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhcCCCCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHH
Confidence            9999999999998887665689999999999985      3467788889999999999999999999999999999999


Q ss_pred             HHHH
Q 040835          155 TEIY  158 (206)
Q Consensus       155 ~~i~  158 (206)
                      +.+.
T Consensus       193 ~~i~  196 (199)
T 2p5s_A          193 REVK  196 (199)
T ss_dssp             HHHT
T ss_pred             HHHH
Confidence            8774

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=100.00  E-value=3e-32  Score=192.68  Aligned_cols=160  Identities=25%  Similarity=0.329  Sum_probs=128.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh-hhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA-VTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|.+........++.+.+.....+.+++..+.+.+||++|++.+.. .+..+++.+|++++|+|++
T Consensus         7 ivG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~d~~i~v~d~~   86 (169)
T 3q85_A            7 LVGESGVGKSTLAGTFGGLQGDHAHEMENSEDTYERRIMVDKEEVTLIVYDIWEQGDAGGWLQDHCLQTGDAFLIVFSVT   86 (169)
T ss_dssp             EECSTTSSHHHHHHHHHCC------------CEEEEEEEETTEEEEEEEECCCCC--------CHHHHHCSEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHhccCcccccCCCcCCeeeEEEEECCeEEEEEEEECCCccccchhhhhhhhccCCEEEEEEECC
Confidence            589999999999999998777666666666777777788888899999999999988876 6777889999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++..+..|+..+..... .++|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++++.+.
T Consensus        87 ~~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~  166 (169)
T 3q85_A           87 DRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIR  166 (169)
T ss_dssp             CHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHhcccCCCCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHH
Confidence            99999999999988876553 47999999999999877888999999999999999999999999999999999999876


Q ss_pred             HH
Q 040835          159 RI  160 (206)
Q Consensus       159 ~~  160 (206)
                      .+
T Consensus       167 ~~  168 (169)
T 3q85_A          167 LR  168 (169)
T ss_dssp             HT
T ss_pred             hc
Confidence            54

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=1.1e-32  Score=199.94  Aligned_cols=156  Identities=29%  Similarity=0.387  Sum_probs=135.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.+.. ..+..++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   91 (199)
T 2gf0_A           13 VFGAGGVGKSSLVLRFVKGTFRDTYIPTIEDTYR-QVISCDKSVCTLQITDTTGSHQFPAMQRLSISKGHAFILVFSVTS   91 (199)
T ss_dssp             EEECTTSSHHHHHHHHHHSCCCCTTSCCCCEEEE-EEEEETTEEEEEEEEECCGGGSCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCcHHHHHHHHHcCCCCCcccCcccccee-EEEEECCEEEEEEEEeCCChHHhHHHHHHhhccCCEEEEEEECcC
Confidence            5899999999999999999888777777665443 455667888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++..+..|+..+.....  .+.|+++|+||+|+.. +.+..++...++..++++++++||+++.|++++|+++++.+.
T Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  170 (199)
T 2gf0_A           92 KQSLEELGPIYKLIVQIKGSVEDIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLET  170 (199)
T ss_dssp             HHHHHTTHHHHHHHHHHHSCGGGSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCS
T ss_pred             HHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHh
Confidence            9999988888777665432  4689999999999975 566788888999999999999999999999999999987654

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=100.00  E-value=1.3e-31  Score=190.75  Aligned_cols=158  Identities=38%  Similarity=0.656  Sum_probs=138.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        12 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   91 (177)
T 1wms_A           12 LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDD   91 (177)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCceeeeEEEEEEEECCEEEEEEEEeCCCchhhhhhHHHHHhcCCEEEEEEECcC
Confidence            58999999999999999999888888888888878888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-HcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLETLRAVPTEDAKEFAE-KEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~----~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.++..+..|+..+.....    .+.|+++|+||+|+. .+.+..+++..++. ..+++++++||+++.|++++|+++++
T Consensus        92 ~~s~~~~~~~~~~~~~~~~~~~~~~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  170 (177)
T 1wms_A           92 SQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR  170 (177)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHccccccCCCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHH
Confidence            9999999999888765543    578999999999997 46678888888888 55789999999999999999999999


Q ss_pred             HHHH
Q 040835          156 EIYR  159 (206)
Q Consensus       156 ~i~~  159 (206)
                      .+++
T Consensus       171 ~~~~  174 (177)
T 1wms_A          171 RVLA  174 (177)
T ss_dssp             HHHT
T ss_pred             HHHh
Confidence            8864

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=100.00  E-value=3.5e-32  Score=197.17  Aligned_cols=160  Identities=25%  Similarity=0.327  Sum_probs=136.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh-hhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA-VTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|.+........++.+.+.....+.+++..+.+.+|||+|++.+.. ++..+++.+|++|+|||++
T Consensus        28 vvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~g~~~~~~~~~~~~~~~~d~~ilv~d~~  107 (195)
T 3cbq_A           28 LVGESGVGKSTLAGTFGGLQGDSAHEPENPEDTYERRIMVDKEEVTLVVYDIWEQGDAGGWLRDHCLQTGDAFLIVFSVT  107 (195)
T ss_dssp             EECSTTSSHHHHHHHTCCEECCGGGTTTSCTTEEEEEEEETTEEEEEEEECCCCCSGGGHHHHHHHHHHCSEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHhccCCccCCCCcccceEEEEEEECCEEEEEEEEecCCCccchhhhHHHhhccCCEEEEEEECC
Confidence            589999999999999986544333444545566666777888899999999999987765 7788899999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++.++..+..|+..+..... .++|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++++.+.
T Consensus       108 ~~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~  187 (195)
T 3cbq_A          108 DRRSFSKVPETLLRLRAGRPHHDLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIR  187 (195)
T ss_dssp             CHHHHHTHHHHHHHHHHHSTTSCCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHH
Confidence            99999999999988876543 57999999999999877778888999999999999999999999999999999998876


Q ss_pred             HH
Q 040835          159 RI  160 (206)
Q Consensus       159 ~~  160 (206)
                      +.
T Consensus       188 ~~  189 (195)
T 3cbq_A          188 LR  189 (195)
T ss_dssp             TT
T ss_pred             Hh
Confidence            43

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=100.00  E-value=1.1e-32  Score=196.54  Aligned_cols=160  Identities=36%  Similarity=0.574  Sum_probs=140.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++ ..+.+.+|||||++.+...+..+++.+|++|+|+|++
T Consensus        11 v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   90 (178)
T 2hxs_A           11 VLGDGASGKTSLTTCFAQETFGKQYKQTIGLDFFLRRITLPGNLNVTLQIWDIGGQTIGGKMLDKYIYGAQGVLLVYDIT   90 (178)
T ss_dssp             EECCTTSSHHHHHHHHHGGGTTHHHHHTTTSSEEEEEEEETTTEEEEEEEEECTTCCTTCTTHHHHHTTCSEEEEEEETT
T ss_pred             EECcCCCCHHHHHHHHHhCcCCCCCCCceeEEEEEEEEEeCCCCEEEEEEEECCCCccccchhhHHHhhCCEEEEEEECC
Confidence            589999999999999999988777778877777777777766 6789999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC--CCCc-EEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD--KNII-IMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~--~~~p-~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++.++..+..|+..+.....  ...| +++|+||+|+...+.+..++...++..++++++++||+++.|++++|.++.+.
T Consensus        91 ~~~s~~~~~~~~~~i~~~~~~~~~~~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~  170 (178)
T 2hxs_A           91 NYQSFENLEDWYTVVKKVSEESETQPLVALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAE  170 (178)
T ss_dssp             CHHHHHTHHHHHHHHHHHHHHHTCCCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHhcccCCCCeEEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHH
Confidence            99999999999888766431  2345 89999999998767788889999999999999999999999999999999988


Q ss_pred             HHHH
Q 040835          157 IYRI  160 (206)
Q Consensus       157 i~~~  160 (206)
                      +.+.
T Consensus       171 ~~~~  174 (178)
T 2hxs_A          171 ILGI  174 (178)
T ss_dssp             HTTC
T ss_pred             HHhh
Confidence            7543

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=100.00  E-value=1.9e-31  Score=191.64  Aligned_cols=155  Identities=19%  Similarity=0.338  Sum_probs=135.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++ +. .....+.+++..+.+.+|||+|++.+.     +++.+|++++|||+++
T Consensus        25 ivG~~~vGKSsL~~~~~~~~~~~~~~~t-~~-~~~~~~~~~~~~~~l~i~Dt~G~~~~~-----~~~~~~~~i~v~d~~~   97 (184)
T 3ihw_A           25 IVGNLSSGKSALVHRYLTGTYVQEESPE-GG-RFKKEIVVDGQSYLLLIRDEGGPPELQ-----FAAWVDAVVFVFSLED   97 (184)
T ss_dssp             EECCTTSCHHHHHHHHHHSSCCCCCCTT-CE-EEEEEEEETTEEEEEEEEECSSSCCHH-----HHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCcCCC-cc-eEEEEEEECCEEEEEEEEECCCChhhh-----eecCCCEEEEEEECcC
Confidence            5899999999999999999988777776 33 334677888889999999999998776     7788999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCC--CcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL--ETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~--~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +.++..+..|+..+..... .+.|+++|+||+|+  ...+.+..+++..++..++ ++++++||+++.|++++|.++++.
T Consensus        98 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~  177 (184)
T 3ihw_A           98 EISFQTVYNYFLRLCSFRNASEVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQK  177 (184)
T ss_dssp             HHHHHHHHHHHHHHHTTSCGGGSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHH
Confidence            9999999999999887653 57899999999998  3557788999999999997 899999999999999999999999


Q ss_pred             HHHHhh
Q 040835          157 IYRIVS  162 (206)
Q Consensus       157 i~~~~~  162 (206)
                      +.+.+.
T Consensus       178 i~~~~~  183 (184)
T 3ihw_A          178 VVALRK  183 (184)
T ss_dssp             HHHHC-
T ss_pred             HHHHhc
Confidence            887643

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=100.00  E-value=4.4e-32  Score=195.35  Aligned_cols=156  Identities=29%  Similarity=0.458  Sum_probs=135.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+ .....+++..+.+.+|||+|++.+..+ ..+++.+|++|+|||+++
T Consensus        26 vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~-~~~~~~~~~~ilv~d~~~  103 (187)
T 3c5c_A           26 ILGRRGAGKSALTVKFLTKRFISEYDPNLEDTY-SSEETVDHQPVHLRVMDTADLDTPRNC-ERYLNWAHAFLVVYSVDS  103 (187)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CCCT-HHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCcHHHHHHHHHhCCCCcccCCCcccee-eEEEEECCEEEEEEEEECCCCCcchhH-HHHHhhCCEEEEEEECCC
Confidence            589999999999999999998888888877655 345677888899999999999988774 678999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEecc-CCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSA-LESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa-~~~~~v~~~~~~l~~~  156 (206)
                      ++++..+..|+..+....   ..++|+++|+||+|+...+.+..+++..++..++++++++|| +++.|++++|..+++.
T Consensus       104 ~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~  183 (187)
T 3c5c_A          104 RQSFDSSSSYLELLALHAKETQRSIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVRE  183 (187)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHHCCCCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhhccCCCCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHHHHHHHH
Confidence            999999999998887653   257999999999999877788899999999999999999999 8999999999999988


Q ss_pred             HH
Q 040835          157 IY  158 (206)
Q Consensus       157 i~  158 (206)
                      +.
T Consensus       184 i~  185 (187)
T 3c5c_A          184 AR  185 (187)
T ss_dssp             HH
T ss_pred             Hh
Confidence            75

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=100.00  E-value=2.8e-31  Score=193.03  Aligned_cols=158  Identities=38%  Similarity=0.686  Sum_probs=139.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeE------------------------------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKN------------------------------------   44 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------------------   44 (206)
                      |+|++|||||||+++|++..+...+.++.+.++....+.+++..                                    
T Consensus        12 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   91 (208)
T 3clv_A           12 LLGESSVGKSSIVLRLTKDTFHENTNTTIGASFCTYVVNLNDINIKNNSNNEKNNNINSINDDNNVIITNQHNNYNENLC   91 (208)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSSCCCCCSCEEEEEEEETTC-------------------------------CCCTTTC
T ss_pred             EECCCCCCHHHHHHHHHhCcCCCCcCccccceeEEEEEEecCccccccccccccccccccccccccccccccccccCccc
Confidence            58999999999999999999888888888877777766666544                                    


Q ss_pred             -EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           45 -VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        45 -~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                       ..+.+|||||++.+...+..+++.+|++|+|+|++++.++..+..|+..+....  +.|+++|+||+| ...+....++
T Consensus        92 ~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~~~s~~~~~~~~~~i~~~~--~~piilv~NK~D-~~~~~~~~~~  168 (208)
T 3clv_A           92 NIKFDIWDTAGQERYASIVPLYYRGATCAIVVFDISNSNTLDRAKTWVNQLKISS--NYIIILVANKID-KNKFQVDILE  168 (208)
T ss_dssp             EEEEEEEECTTGGGCTTTHHHHHTTCSEEEEEEETTCHHHHHHHHHHHHHHHHHS--CCEEEEEEECTT-CC-CCSCHHH
T ss_pred             eeEEEEEECCCcHHHHHHHHHHhcCCCEEEEEEECCCHHHHHHHHHHHHHHHhhC--CCcEEEEEECCC-cccccCCHHH
Confidence             889999999999999999999999999999999999999999999998887765  399999999999 5456778899


Q ss_pred             HHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          124 AKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       124 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                      +..++...+++++++||+++.|++++|.+|.+.+.+..
T Consensus       169 ~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~~  206 (208)
T 3clv_A          169 VQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKNI  206 (208)
T ss_dssp             HHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHhc
Confidence            99999999999999999999999999999999887653

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=100.00  E-value=1.1e-31  Score=189.16  Aligned_cols=158  Identities=37%  Similarity=0.576  Sum_probs=137.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|+|||||+++|++..+...+.++.+... ...+.+++..+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus         9 v~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   87 (168)
T 1u8z_A            9 MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITE   87 (168)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCccCCCCCCCcceEE-EEEEEECCEEEEEEEEECCCcchhHHHHHHHhhcCCEEEEEEECCC
Confidence            589999999999999999988777777766544 3456678888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+..... .++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|+++.+.+.+
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  167 (168)
T 1u8z_A           88 MESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHh
Confidence            9999999999888876553 579999999999998767788899999999999999999999999999999999988753

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=100.00  E-value=9.8e-32  Score=194.44  Aligned_cols=159  Identities=26%  Similarity=0.483  Sum_probs=141.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        28 ~vG~~~~GKSsl~~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  106 (194)
T 3reg_A           28 VVGDGAVGKTCLLLAFSKGEIPTAYVPTVFENFS-HVMKYKNEEFILHLWDTAGQEEYDRLRPLSYADSDVVLLCFAVNN  106 (194)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEEE-EEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCccCCeeeeeeE-EEEEECCEEEEEEEEECCCcHHHHHHhHhhccCCcEEEEEEECCC
Confidence            5899999999999999999988888888776655 456778888999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc--CCCCCHHHHHHHHHHcCCe-EEEeccCCCCCHHHHHHHHHHH
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET--LRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~--~~~~~~~~~~~~~~~~~~~-~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +.++..+ ..|+..+.... .+.|+++|+||+|+..  .+.+..+++..++..+++. ++++||+++.|++++|.++++.
T Consensus       107 ~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~  185 (194)
T 3reg_A          107 RTSFDNISTKWEPEIKHYI-DTAKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDC  185 (194)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTSEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHH
Confidence            9999987 67888887654 5799999999999964  3667889999999999998 9999999999999999999998


Q ss_pred             HHHHh
Q 040835          157 IYRIV  161 (206)
Q Consensus       157 i~~~~  161 (206)
                      +.+..
T Consensus       186 i~~~~  190 (194)
T 3reg_A          186 IFSNK  190 (194)
T ss_dssp             HHCSC
T ss_pred             HHhcC
Confidence            87653

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=100.00  E-value=3.2e-32  Score=198.15  Aligned_cols=160  Identities=31%  Similarity=0.496  Sum_probs=138.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+ .....+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        29 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  107 (201)
T 3oes_A           29 ILGYRCVGKTSLAHQFVEGEFSEGYDPTVENTY-SKIVTLGKDEFHLHLVDTAGQDEYSILPYSFIIGVHGYVLVYSVTS  107 (201)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSCCCCCSEEEE-EEEEC----CEEEEEEEECCCCTTCCCCGGGTTTCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCCCCCccceEE-EEEEEECCEEEEEEEEECCCccchHHHHHHHHhcCCEEEEEEeCCC
Confidence            589999999999999999999888888866655 4555666777899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+...+.+...+...++..++++++++||+++.|++++|.+|.+.+.+
T Consensus       108 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~  187 (201)
T 3oes_A          108 LHSFQVIESLYQKLHEGHGKTRVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIAR  187 (201)
T ss_dssp             HHHHHHHHHHHHHHHC-----CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            999999999999887653 3578999999999998778889999999999999999999999999999999999998876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       188 ~~  189 (201)
T 3oes_A          188 VE  189 (201)
T ss_dssp             C-
T ss_pred             hh
Confidence            54

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=100.00  E-value=1.8e-31  Score=188.15  Aligned_cols=158  Identities=27%  Similarity=0.361  Sum_probs=118.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+...... .++.+.+. ...+.+++..+.+.+||++|++.+...+..+++.+|++++|+|+++
T Consensus         7 ~vG~~~~GKSsli~~l~~~~~~~~-~~~~~~~~-~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   84 (166)
T 3q72_A            7 LLGAPGVGKSALARIFGGVEDGPE-AEAAGHTY-DRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTD   84 (166)
T ss_dssp             EEESTTSSHHHHHHHHCCC-----------CEE-EEEEEETTEEEEEEEEECC---------------CCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHcCccccCC-CCccccce-EEEEEECCEEEEEEEEECCCCccchhhhhhhhhhCCEEEEEEECCC
Confidence            589999999999999998766433 33444444 4566778889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|+++.+.+.+
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  164 (166)
T 3q72_A           85 KGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL  164 (166)
T ss_dssp             HHHHHHHHHHHHHHHHCC---CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHh
Confidence            999999999998887653 3679999999999998878889999999999999999999999999999999999998876


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       165 ~  165 (166)
T 3q72_A          165 R  165 (166)
T ss_dssp             H
T ss_pred             c
Confidence            4

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=100.00  E-value=5.8e-32  Score=198.75  Aligned_cols=159  Identities=25%  Similarity=0.437  Sum_probs=139.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.||||+|++.+..++..+++.+|++|+|||+++
T Consensus        32 vvG~~~vGKSsL~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  110 (214)
T 3q3j_B           32 LVGDVQCGKTAMLQVLAKDCYPETYVPTVFENY-TACLETEEQRVELSLWDTSGSPYYDNVRPLCYSDSDAVLLCFDISR  110 (214)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEEC--CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCcCCeeeeeE-EEEEEECCEEEEEEEEECCCCHhHHHHHHHHcCCCeEEEEEEECcC
Confidence            589999999999999999999888888877665 3556677778999999999999999999999999999999999999


Q ss_pred             hhhHHH-HHHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCC-
Q 040835           81 RQSFDN-VARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTN-  145 (206)
Q Consensus        81 ~~s~~~-~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~-  145 (206)
                      ++++.. +..|+..+.... .+.|+++|+||+|+..+            +.+..+++..++..+++ +++++||+++.| 
T Consensus       111 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~  189 (214)
T 3q3j_B          111 PETVDSALKKWRTEILDYC-PSTRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKS  189 (214)
T ss_dssp             THHHHHHHTHHHHHHHHHC-TTSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCccc
Confidence            999998 688999888765 57999999999999653            67889999999999999 999999999998 


Q ss_pred             HHHHHHHHHHHHHHHh
Q 040835          146 VELAFLTVLTEIYRIV  161 (206)
Q Consensus       146 v~~~~~~l~~~i~~~~  161 (206)
                      |+++|.++++.+....
T Consensus       190 v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          190 IHSIFRTASMLCLNKP  205 (214)
T ss_dssp             HHHHHHHHHHHHHC--
T ss_pred             HHHHHHHHHHHHhccC
Confidence            9999999999887553

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=100.00  E-value=2.3e-32  Score=199.43  Aligned_cols=164  Identities=31%  Similarity=0.532  Sum_probs=108.5

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCCccccceeeEEEEEEECCe--EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDSKATIGVEFQTKTLVIHHK--NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~   76 (206)
                      |+|++|||||||+++|++.  .+...+.++.+.++....+.+++.  .+.+.+|||||++.+...+..+++.+|++|+|+
T Consensus        25 v~G~~~~GKssli~~l~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~  104 (208)
T 2yc2_C           25 VVGEATVGKSALISMFTSKGSKFLKDYAMTSGVEVVVAPVTIPDTTVSVELFLLDTAGSDLYKEQISQYWNGVYYAILVF  104 (208)
T ss_dssp             EC----------------------------------CEEEECTTSSEEEEEEEEETTTTHHHHHHHSTTCCCCCEEEEEE
T ss_pred             EECCCCCCHHHHHHHHHhCCCcccCCCCCccceEEEEEEEEECCcccEEEEEEEECCCcHHHHHHHHHHHhhCcEEEEEE
Confidence            5899999999999999998  777777777776666667777766  789999999999999999999999999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCc-CCCCCHHHHHHHHHHcCCeEEEeccCC-CCCHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHAD---KNIIIMLVGNKSDLET-LRAVPTEDAKEFAEKEGLCFMETSALE-STNVELAFL  151 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~~---~~~p~ivv~nK~D~~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~-~~~v~~~~~  151 (206)
                      |++++.++..+..|+..+.....   .++|+++|+||+|+.. .+.+..+++..++..++++++++||++ +.|++++|.
T Consensus       105 d~~~~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~  184 (208)
T 2yc2_C          105 DVSSMESFESCKAWFELLKSARPDRERPLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFL  184 (208)
T ss_dssp             ETTCHHHHHHHHHHHHHHHHHCSCTTSCCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-------CHHHH
T ss_pred             ECCCHHHHHHHHHHHHHHHHhhcccccCCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcCHHHHHH
Confidence            99999999999999999887665   5899999999999976 677888999999999999999999999 999999999


Q ss_pred             HHHHHHHHHhhhh
Q 040835          152 TVLTEIYRIVSKK  164 (206)
Q Consensus       152 ~l~~~i~~~~~~~  164 (206)
                      ++.+.+.+...++
T Consensus       185 ~i~~~~~~~~~~~  197 (208)
T 2yc2_C          185 SIATTFYRNYEDK  197 (208)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhh
Confidence            9999988776554

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=100.00  E-value=7.2e-32  Score=192.74  Aligned_cols=161  Identities=38%  Similarity=0.650  Sum_probs=128.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.++ +....+.+||+||++.+...+..+++.+|++|+|+|++
T Consensus        13 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   92 (182)
T 1ky3_A           13 ILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVT   92 (182)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHhCcCCcccCCccceEEEEEEEEEcCCcEEEEEEEECCCChHhhhhhHHHhhcCCEEEEEEECC
Confidence            58999999999999999999888888887777777777666 55688999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC----CCCcEEEEEeCCCCC-cCCCCCHHHHHHHHH-HcCCeEEEeccCCCCCHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD----KNIIIMLVGNKSDLE-TLRAVPTEDAKEFAE-KEGLCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~----~~~p~ivv~nK~D~~-~~~~~~~~~~~~~~~-~~~~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      ++.++..+..|+..+.....    .+.|+++|+||+|+. ..+.+..++...++. ..+++++++||+++.|++++|+++
T Consensus        93 ~~~s~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l  172 (182)
T 1ky3_A           93 NASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI  172 (182)
T ss_dssp             CHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHH
T ss_pred             ChHHHHHHHHHHHHHHHHhcccCcCCCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHH
Confidence            99999999999988765542    678999999999994 445567888888888 457899999999999999999999


Q ss_pred             HHHHHHHh
Q 040835          154 LTEIYRIV  161 (206)
Q Consensus       154 ~~~i~~~~  161 (206)
                      .+.+.+.+
T Consensus       173 ~~~~~~~~  180 (182)
T 1ky3_A          173 ARSALQQN  180 (182)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHhh
Confidence            99988764

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=100.00  E-value=2.8e-31  Score=190.45  Aligned_cols=160  Identities=38%  Similarity=0.562  Sum_probs=141.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+... ...+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus        23 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  101 (187)
T 2a9k_A           23 MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITE  101 (187)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCSCCTTCCEEE-EEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhhCCCCCcCCCccceEE-EEEEEECCEEEEEEEEECCCCcccHHHHHHHhccCCEEEEEEECcC
Confidence            589999999999999999988777777766544 3456677888899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+..... .++|+++|+||+|+...+.+..+++..++..++++++++||+++.|++++|++|.+.+.+
T Consensus       102 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  181 (187)
T 2a9k_A          102 MESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRA  181 (187)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCTTCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999888876553 479999999999998767788899999999999999999999999999999999999876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      .+
T Consensus       182 ~~  183 (187)
T 2a9k_A          182 RK  183 (187)
T ss_dssp             HH
T ss_pred             hh
Confidence            54

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=100.00  E-value=2.5e-31  Score=189.63  Aligned_cols=158  Identities=21%  Similarity=0.352  Sum_probs=133.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+.. +.++.+.. ....+.+++..+.+.+|||+|++.     ..+++.+|++|+|||+++
T Consensus        12 ~vG~~~vGKTsli~~l~~~~~~~-~~~t~~~~-~~~~~~~~~~~~~l~i~Dt~G~~~-----~~~~~~~d~~ilv~D~~~   84 (178)
T 2iwr_A           12 VLGDARSGKSSLIHRFLTGSYQV-LEKTESEQ-YKKEMLVDGQTHLVLIREEAGAPD-----AKFSGWADAVIFVFSLED   84 (178)
T ss_dssp             EECCGGGCHHHHHHHHHHSCCCC-CSSCSSSE-EEEEEEETTEEEEEEEEECSSSCC-----HHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCC-cCCCccee-EEEEEEECCEEEEEEEEECCCCch-----hHHHHhCCEEEEEEECcC
Confidence            58999999999999999998876 66676644 356677788889999999999876     457888999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc---CCCCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH---ADKNIIIMLVGNKSDLE--TLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~---~~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+...   ...++|+++|+||+|+.  ..+.+..+++..++... +++++++||+++.|++++|.++.
T Consensus        85 ~~s~~~~~~~~~~i~~~~~~~~~~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~  164 (178)
T 2iwr_A           85 ENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVA  164 (178)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSSCCCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHhcCCCCCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHH
Confidence            99999999876655443   23579999999999993  45678888899998886 68999999999999999999999


Q ss_pred             HHHHHHhhhhh
Q 040835          155 TEIYRIVSKKA  165 (206)
Q Consensus       155 ~~i~~~~~~~~  165 (206)
                      +.+.+......
T Consensus       165 ~~~~~~~~~~~  175 (178)
T 2iwr_A          165 QKVVTLRKQQQ  175 (178)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHhhhh
Confidence            99988766543

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=100.00  E-value=1.7e-32  Score=201.04  Aligned_cols=162  Identities=31%  Similarity=0.545  Sum_probs=135.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++.+..++..+++.+|++|+|||+++
T Consensus        14 i~G~~~~GKTsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~d~~~   92 (212)
T 2j0v_A           14 TVGDGAVGKTCMLICYTSNKFPTDYIPTVFDNF-SANVAVDGQIVNLGLWDTAGQEDYSRLRPLSYRGADIFVLAFSLIS   92 (212)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCSSCCCE-EEEEECSSCEEEEEEECCCCCCCCCC--CGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCccCCCccceeE-EEEEEECCEEEEEEEEECCCcHHHHHHHHhhccCCCEEEEEEECCC
Confidence            589999999999999999988877778776554 3456677788999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--------CCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRA--------VPTEDAKEFAEKEGL-CFMETSALESTNVELAF  150 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~  150 (206)
                      ++++..+. .|+..+.... .+.|+++|+||+|+...+.        +..+++..++..+++ +++++||+++.|++++|
T Consensus        93 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~  171 (212)
T 2j0v_A           93 KASYENVLKKWMPELRRFA-PNVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVF  171 (212)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHH
Confidence            99999886 7988887765 4799999999999865332        367888899999986 89999999999999999


Q ss_pred             HHHHHHHHHHhhhh
Q 040835          151 LTVLTEIYRIVSKK  164 (206)
Q Consensus       151 ~~l~~~i~~~~~~~  164 (206)
                      +++++.+.+...++
T Consensus       172 ~~l~~~~~~~~~~~  185 (212)
T 2j0v_A          172 DTAIKVVLQPPRRK  185 (212)
T ss_dssp             HHHHHHHHCC----
T ss_pred             HHHHHHHhhhhhhc
Confidence            99999987654433

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=100.00  E-value=1.1e-31  Score=189.24  Aligned_cols=157  Identities=30%  Similarity=0.492  Sum_probs=138.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.... ..+.+++..+.+.+||+||++.+...+..+++.+|++++|+|+++
T Consensus         8 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   86 (167)
T 1c1y_A            8 VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSYR-KQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITA   86 (167)
T ss_dssp             EECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCCccceEE-EEEEECCEEEEEEEEECCChHHHHHHHHHHhccCCEEEEEEECCC
Confidence            5899999999999999999888778777665543 456667778999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +.++..+..|+..+.... ..+.|+++|+||+|+...+.+..+++..++..+ +++++++||+++.|++++|+++.+.+.
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (167)
T 1c1y_A           87 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHHHHHhhCcCCCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHHh
Confidence            999999988988876643 357999999999999877778888999999988 789999999999999999999998763

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=100.00  E-value=1.7e-31  Score=188.00  Aligned_cols=158  Identities=30%  Similarity=0.461  Sum_probs=139.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+.. ....+.+++....+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus         8 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~l~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (167)
T 1kao_A            8 VLGSGGVGKSALTVQFVTGTFIEKYDPTIEDF-YRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVN   86 (167)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSCCCTTCCEE-EEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCcccCCCCccee-EEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCCC
Confidence            58999999999999999998887777775543 35667778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ..+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|+++.+.+.+
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  166 (167)
T 1kao_A           87 QQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMNY  166 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            999999999888876654 3579999999999997777888889999999999999999999999999999999988753

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=100.00  E-value=3.2e-31  Score=192.07  Aligned_cols=160  Identities=34%  Similarity=0.475  Sum_probs=141.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+||+||++. ...+..+++.+|++|+|||+++
T Consensus        33 v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~-~~~~~~~~~~~d~iilv~D~~~  110 (196)
T 2atv_A           33 IFGRAGVGKSALVVRFLTKRFIWEYDPTLESTY-RHQATIDDEVVSMEILDTAGQED-TIQREGHMRWGEGFVLVYDITD  110 (196)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCCC-CHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCCCCCceE-EEEEEECCEEEEEEEEECCCCCc-ccchhhhhccCCEEEEEEECcC
Confidence            589999999999999999998888888866554 45567788889999999999987 7778889999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCC-CHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~~~~~l~~~i~  158 (206)
                      +++++.+..|+..+.... ..++|+++|+||+|+...+.+..++...++..++++++++||+++. |++++|+++++.+.
T Consensus       111 ~~s~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~  190 (196)
T 2atv_A          111 RGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVR  190 (196)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhhCCCCCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHH
Confidence            999999999988877643 3579999999999998777888899999999999999999999999 99999999999987


Q ss_pred             HHhh
Q 040835          159 RIVS  162 (206)
Q Consensus       159 ~~~~  162 (206)
                      +...
T Consensus       191 ~~~~  194 (196)
T 2atv_A          191 RRRM  194 (196)
T ss_dssp             HHHC
T ss_pred             hhcc
Confidence            7643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=100.00  E-value=4.2e-31  Score=192.09  Aligned_cols=160  Identities=29%  Similarity=0.498  Sum_probs=133.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||||++.+..++..++..+|++|+|||+++
T Consensus        25 ~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~  103 (201)
T 2q3h_A           25 LVGDGAVGKTSLVVSYTTNGYPTEYIPTAFDNF-SAVVSVDGRPVRLQLCDTAGQDEFDKLRPLCYTNTDIFLLCFSVVS  103 (201)
T ss_dssp             EECSTTSSHHHHHHHHHC--------CCSSEEE-EEEEEETTEEEEEEEEECCCSTTCSSSGGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCHHHHHHhHhhcCCCcEEEEEEECCC
Confidence            589999999999999999988777777765444 4556678888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .++|+++|+||+|+..            .+.+..++...++..+++ +++++||+++.|+
T Consensus       104 ~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  182 (201)
T 2q3h_A          104 PSSFQNVSEKWVPEIRCHC-PKAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNL  182 (201)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-SSSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCH
Confidence            99999986 6988887755 4799999999999864            356778889999999887 8999999999999


Q ss_pred             HHHHHHHHHHHHHHhh
Q 040835          147 ELAFLTVLTEIYRIVS  162 (206)
Q Consensus       147 ~~~~~~l~~~i~~~~~  162 (206)
                      +++|.++++.+.+...
T Consensus       183 ~~l~~~l~~~~~~~~~  198 (201)
T 2q3h_A          183 KEVFDAAIVAGIQYSD  198 (201)
T ss_dssp             HHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhcccc
Confidence            9999999999887654

>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=99.98  E-value=6.3e-31  Score=192.47  Aligned_cols=159  Identities=28%  Similarity=0.351  Sum_probs=132.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCC--CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-hhhhhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDEF--SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-YRAVTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d   77 (206)
                      |+|.+|||||||+++|++...  ...+ ++++.++....+.+++..+.+.+|||+|.+. +..+...+++.+|++|+|||
T Consensus        42 lvG~~~vGKSSLl~r~~~~~~~~~~~~-~~~g~d~~~~~i~~~~~~~~l~~~Dt~g~~~~~~~l~~~~~~~a~~~ilVyd  120 (211)
T 2g3y_A           42 LIGEQGVGKSTLANIFAGVHDSMDSDC-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYS  120 (211)
T ss_dssp             EECCTTSSHHHHHHHHHCCCCTTCCC----CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHHHHHCCCCCCSEEEEEEE
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCCCcC-CccceeeEEEEEEECCeeeEEEEeecCCCcchhhhHHHHHHhhCCEEEEEEE
Confidence            589999999999999997443  3333 3456666667778888889999999999876 45566778899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           78 ITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        78 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++++.+|+.+..|+..+.... ..++|+++|+||+|+...+.+..++...++..+++++++|||+++.||+++|.++++.
T Consensus       121 vt~~~sf~~~~~~~~~l~~~~~~~~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~  200 (211)
T 2g3y_A          121 ITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQ  200 (211)
T ss_dssp             TTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHHhCCCCCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHH
Confidence            999999999999988776543 3579999999999997767788888888888999999999999999999999999998


Q ss_pred             HHHH
Q 040835          157 IYRI  160 (206)
Q Consensus       157 i~~~  160 (206)
                      +...
T Consensus       201 i~~~  204 (211)
T 2g3y_A          201 VRLR  204 (211)
T ss_dssp             HHHH
T ss_pred             HHHh
Confidence            7543

>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=99.98  E-value=8.7e-31  Score=189.40  Aligned_cols=156  Identities=28%  Similarity=0.501  Sum_probs=137.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+||+||++.+...+..+++.+|++|+|+|+++
T Consensus        23 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~  101 (194)
T 2atx_A           23 VVGDGAVGKTCLLMSYANDAFPEEYVPTVFDHY-AVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN  101 (194)
T ss_dssp             EEECTTSSHHHHHHHHHHSSCCCSCCCSSCCCE-EEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccccee-EEEEEECCEEEEEEEEECCCCcchhHHHHHhcCCCCEEEEEEECCC
Confidence            589999999999999999988877777766554 3456667778999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      ++++..+. .|+..+.... .++|+++|+||+|+...            +.+..++...++..+++ +++++||+++.|+
T Consensus       102 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  180 (194)
T 2atx_A          102 PASFQNVKEEWVPELKEYA-PNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGL  180 (194)
T ss_dssp             HHHHHHHHHTHHHHHHHHS-TTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCH
Confidence            99999887 7988887754 47999999999999643            46778889999999997 8999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIY  158 (206)
Q Consensus       147 ~~~~~~l~~~i~  158 (206)
                      +++|+++.+.++
T Consensus       181 ~~l~~~l~~~i~  192 (194)
T 2atx_A          181 KTVFDEAIIAIL  192 (194)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHh
Confidence            999999998875

>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=99.98  E-value=2.5e-31  Score=190.79  Aligned_cols=157  Identities=29%  Similarity=0.506  Sum_probs=136.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+..+ ...+.+++..+.+.+|||||++.|...+..+++.+|++|+|+|+++
T Consensus        12 v~G~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   90 (184)
T 1m7b_A           12 VVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   90 (184)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCChhhhhhHHhhcCCCcEEEEEEECCC
Confidence            589999999999999999998877778766555 3456677788999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcC-CeEEEeccC-CCCC
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEG-LCFMETSAL-ESTN  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~-~~~~~~Sa~-~~~~  145 (206)
                      ++++..+ ..|+..+.... .+.|+++|+||+|+...            +.+..+++..++..++ ++++++||+ ++.|
T Consensus        91 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~g  169 (184)
T 1m7b_A           91 PETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENS  169 (184)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHH
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcC
Confidence            9999988 67988887654 57999999999999642            5678888999999887 789999999 6899


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIYR  159 (206)
Q Consensus       146 v~~~~~~l~~~i~~  159 (206)
                      ++++|..+++.+++
T Consensus       170 i~~l~~~i~~~~l~  183 (184)
T 1m7b_A          170 VRDIFHVATLACVN  183 (184)
T ss_dssp             HHHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHHhc
Confidence            99999999988764

>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=99.98  E-value=3.6e-31  Score=189.84  Aligned_cols=158  Identities=28%  Similarity=0.490  Sum_probs=137.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+... ...+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        10 ~~G~~~~GKssl~~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   88 (186)
T 1mh1_A           10 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVS   88 (186)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCSSCCCCSCCEE-EEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCcCCccccee-EEEEEECCEEEEEEEEECCCCHhHHHHHHHhccCCcEEEEEEECCC
Confidence            589999999999999999888777777765444 4556778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .+.|+++|+||+|+...            +.+..++...++..+++ +++++||+++.|+
T Consensus        89 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi  167 (186)
T 1mh1_A           89 PASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL  167 (186)
T ss_dssp             HHHHHHHHHTHHHHHHHHS-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             hhhHHHHHHHHHHHHHHhC-CCCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCH
Confidence            99999887 6888887665 37999999999998642            46778888899999987 9999999999999


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYRI  160 (206)
Q Consensus       147 ~~~~~~l~~~i~~~  160 (206)
                      +++|.++.+.+.+.
T Consensus       168 ~~l~~~l~~~~~~~  181 (186)
T 1mh1_A          168 KTVFDEAIRAVLCP  181 (186)
T ss_dssp             HHHHHHHHHHHSCC
T ss_pred             HHHHHHHHHHHhcc
Confidence            99999999887643

>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=99.97  E-value=3e-30  Score=185.94  Aligned_cols=161  Identities=36%  Similarity=0.544  Sum_probs=129.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+... ...+..++..+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        26 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  104 (190)
T 3con_A           26 VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN  104 (190)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC-----------CTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCccccCCccceEE-EEEEEECCEEEEEEEEECCChHHHHHHHHHhhCcCCEEEEEEECcC
Confidence            589999999999999999888777777655443 4566677888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ..++..+..|+..+..... .++|+++|+||+|+.. +....+++..++..++++++++||+++.|++++|.+|.+.+.+
T Consensus       105 ~~s~~~~~~~~~~i~~~~~~~~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  183 (190)
T 3con_A          105 SKSFADINLYREQIKRVKDSDDVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQ  183 (190)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            9999999999888776542 5799999999999876 5667888999999999999999999999999999999999877


Q ss_pred             Hhhh
Q 040835          160 IVSK  163 (206)
Q Consensus       160 ~~~~  163 (206)
                      .+.+
T Consensus       184 ~~~~  187 (190)
T 3con_A          184 YRMK  187 (190)
T ss_dssp             HC--
T ss_pred             HHHh
Confidence            6443

>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=99.97  E-value=5.6e-31  Score=192.26  Aligned_cols=157  Identities=29%  Similarity=0.511  Sum_probs=137.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||||++.|...+..+++.+|++|+|||+++
T Consensus        33 vvG~~~vGKSsLi~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~ilv~D~~~  111 (205)
T 1gwn_A           33 VVGDSQCGKTALLHVFAKDCFPENYVPTVFENY-TASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR  111 (205)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCSEEEE-EEEEESSSSEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCcCCccceeE-EEEEEECCEEEEEEEEeCCCcHhhhHHHHhhccCCCEEEEEEECCC
Confidence            589999999999999999999877778866555 3456667778999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccC-CCCC
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSAL-ESTN  145 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~-~~~~  145 (206)
                      +.++..+ ..|+..+.... .+.|+++|+||+|+..            .+.+..+++..++..++ ++++++||+ ++.|
T Consensus       112 ~~s~~~~~~~~~~~i~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~g  190 (205)
T 1gwn_A          112 PETLDSVLKKWKGEIQEFC-PNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENS  190 (205)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHH
T ss_pred             HHHHHHHHHHHHHHHHHHC-CCCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcC
Confidence            9999988 67988887654 5799999999999964            25678888999999887 699999999 6899


Q ss_pred             HHHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIYR  159 (206)
Q Consensus       146 v~~~~~~l~~~i~~  159 (206)
                      ++++|..+++.+++
T Consensus       191 v~~lf~~l~~~~l~  204 (205)
T 1gwn_A          191 VRDIFHVATLACVN  204 (205)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHhh
Confidence            99999999998774

>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=99.97  E-value=8.1e-31  Score=192.57  Aligned_cols=159  Identities=32%  Similarity=0.512  Sum_probs=118.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        39 vvG~~~vGKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  117 (214)
T 2j1l_A           39 LVGDGGCGKTSLLMVFADGAFPESYTPTVFERY-MVNLQVKGKPVHLHIWDTAGQDDYDRLRPLFYPDASVLLLCFDVTS  117 (214)
T ss_dssp             EEECTTSSHHHHHHHHHC-------CCCCCEEE-EEEEEETTEEEEEEEEEC---------------CEEEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHcCCCCCCCCCccceeE-EEEEEECCEEEEEEEEECCCchhhhHHHHHHhccCCEEEEEEECcC
Confidence            589999999999999999888777777755433 4556778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .++|+++|+||+|+...            +.+..++...++..+++ +++++||+++.|+
T Consensus       118 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  196 (214)
T 2j1l_A          118 PNSFDNIFNRWYPEVNHFC-KKVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNV  196 (214)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-SSCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCH
Confidence            99999886 6888887654 57999999999999653            35677888999999997 8999999999999


Q ss_pred             HHHHHHHHHHHHHHh
Q 040835          147 ELAFLTVLTEIYRIV  161 (206)
Q Consensus       147 ~~~~~~l~~~i~~~~  161 (206)
                      +++|.++++.+++..
T Consensus       197 ~el~~~l~~~~~~~~  211 (214)
T 2j1l_A          197 HAVFQEAAEVALSSR  211 (214)
T ss_dssp             HHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHhh
Confidence            999999999987654

>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=99.97  E-value=2.4e-30  Score=188.23  Aligned_cols=157  Identities=28%  Similarity=0.486  Sum_probs=137.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.+..+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        30 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  108 (201)
T 2gco_A           30 IVGDGACGKTCLLIVFSKDQFPEVYVPTVFENYI-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSIDS  108 (201)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCSSCCCSSCCCCE-EEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCcCCcccCCcccceEE-EEEEECCEEEEEEEEECCCchhHHHHHHHhcCCCCEEEEEEECCC
Confidence            5899999999999999999988877787766654 346678888999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      ++++..+ ..|+..+.... .+.|+++|+||+|+...            +.+..++...++...+. +++++||+++.|+
T Consensus       109 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  187 (201)
T 2gco_A          109 PDSLENIPEKWTPEVKHFC-PNVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGV  187 (201)
T ss_dssp             HHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCH
Confidence            9999988 67888777654 47999999999999653            45778888999999988 8999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|.++.+.+++
T Consensus       188 ~~l~~~i~~~~l~  200 (201)
T 2gco_A          188 REVFEMATRAGLQ  200 (201)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988753

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.97  E-value=1.2e-30  Score=184.75  Aligned_cols=156  Identities=31%  Similarity=0.406  Sum_probs=135.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.+.. .....++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus         8 v~G~~~~GKssli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (172)
T 2erx_A            8 VFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYR-QVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITS   86 (172)
T ss_dssp             EECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEEE-EEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCCccccEE-EEEEECCEEEEEEEEECCCchhhHHHHHHhcccCCEEEEEEECcC
Confidence            5899999999999999998887777777665443 445667788899999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.+++.+..|+..+.....  .+.|+++|+||+|+...+.+...+...++..++++++++||+++.|++++|+++.+.+
T Consensus        87 ~~~~~~~~~~~~~i~~~~~~~~~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A           87 RQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             HHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHHhCCCCCCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            9999888888877765432  4789999999999987677888888999999999999999999999999999998754

>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=99.97  E-value=4.6e-30  Score=180.40  Aligned_cols=156  Identities=35%  Similarity=0.570  Sum_probs=136.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|+|||||+++|++..+...+.++.+... ...+..++..+.+.+||+||++.+...+..++..+|++++|+|+++
T Consensus         8 v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (166)
T 2ce2_X            8 VVGAGGVGKSALTIQLIQNHFVDECDPTIEDSY-RKQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN   86 (166)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCCCSSCCHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCcCccccCCccceEE-EEEEEECCEEEEEEEEECCCchhhhHHHHHhhccCCEEEEEEECCC
Confidence            589999999999999999988777777655433 4556677888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCC-CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~-~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ..++..+..|+..+..... .+.|+++++||+|+.. +....++...++..++++++++||+++.|++++|.++.+.+.
T Consensus        87 ~~~~~~~~~~~~~i~~~~~~~~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X           87 TKSFEDIHQYREQIKRVKDSDDVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             HHHHHHHHHHHHHHHHHHTCSCCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            9999999999988776542 4799999999999876 566788899999999999999999999999999999998875

>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=99.97  E-value=2.4e-31  Score=195.77  Aligned_cols=161  Identities=30%  Similarity=0.501  Sum_probs=139.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC-eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH-KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|++..+...+.++.+.+.......... ..+.+.+|||||++.+...+..++..+|++|+|+|++
T Consensus        16 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~   95 (218)
T 4djt_A           16 LIGDGGVGKTTYINRVLDGRFEKNYNATVGAVNHPVTFLDDQGNVIKFNVWDTAGQEKKAVLKDVYYIGASGAILFFDVT   95 (218)
T ss_dssp             EECCTTSSHHHHHCBCTTCSTTCEEETTTTEEEEEEEEEBTTSCEEEEEEEEECSGGGTSCCCHHHHTTCSEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceeeEEEEEEeCCCcEEEEEEEecCCchhhchHHHHHhhcCCEEEEEEeCC
Confidence            589999999999999999888877778877766666555443 3488999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++.++..+..|+..+......++|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|.++.+.+..
T Consensus        96 ~~~s~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  175 (218)
T 4djt_A           96 SRITCQNLARWVKEFQAVVGNEAPIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTG  175 (218)
T ss_dssp             CHHHHHTHHHHHHHHHHHHCSSSCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHC
T ss_pred             CHHHHHHHHHHHHHHHHhcCCCCCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhc
Confidence            99999999999999887766679999999999998767888888889999999999999999999999999999988865


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       176 ~~  177 (218)
T 4djt_A          176 RP  177 (218)
T ss_dssp             CT
T ss_pred             cc
Confidence            53

>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=99.97  E-value=5.3e-30  Score=187.26  Aligned_cols=157  Identities=29%  Similarity=0.485  Sum_probs=131.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        30 vvG~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  108 (207)
T 2fv8_A           30 VVGDGACGKTCLLIVFSKDEFPEVYVPTVFENYV-ADIEVDGKQVELALWDTAGQEDYDRLRPLSYPDTDVILMCFSVDS  108 (207)
T ss_dssp             EEECTTSSHHHHHHHHHHSSCC-------CCEEE-EEEEETTEEEEEEEEECTTCTTCTTTGGGGCTTCCEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCcCCCcccceEE-EEEEECCEEEEEEEEECCCcHHHHHHHHhhcCCCCEEEEEEECCC
Confidence            5899999999999999999988777777665554 346678888999999999999999999999999999999999999


Q ss_pred             hhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+ ..|+..+.... .+.|+++|+||+|+...            +.+..++...++...+. +++++||+++.|+
T Consensus       109 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  187 (207)
T 2fv8_A          109 PDSLENIPEKWVPEVKHFC-PNVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGV  187 (207)
T ss_dssp             HHHHHHHHHTHHHHHHHHS-TTCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCH
Confidence            9999888 67888877654 57999999999999653            45677888899999887 8999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|.+|.+.+++
T Consensus       188 ~el~~~l~~~i~~  200 (207)
T 2fv8_A          188 REVFETATRAALQ  200 (207)
T ss_dssp             HHHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHHH
Confidence            9999999998764

>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=99.97  E-value=8.4e-30  Score=184.18  Aligned_cols=160  Identities=28%  Similarity=0.365  Sum_probs=130.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-hhhhhHhHhcCCcEEEEEee
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-YRAVTSAYYRGAVGAMLVYD   77 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-~~~~~~~~~~~~d~~i~v~d   77 (206)
                      |+|++|||||||+++|++..  +...+ ++++.+.....+.+++..+.+.+|||+|.+. +..++..+++.+|++|+|||
T Consensus        11 lvG~~~vGKSsL~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~l~~~Dt~~~~~~~~~~~~~~~~~~~~~i~v~d   89 (192)
T 2cjw_A           11 LIGEQGVGKSTLANIFAGVHDSMDSDX-EVLGEDTYERTLMVDGESATIILLDMWENKGENEWLHDHCMQVGDAYLIVYS   89 (192)
T ss_dssp             EECSTTSSHHHHHHHHHHHSCCC-----GGGCTTEEEEEEEETTEEEEEEEECCCCC----CTTGGGHHHHCSEEEEEEE
T ss_pred             EECCCCCCHHHHHHHHhcCcCCcCccc-cccceeEEEEEEEECCeEEEEEEEEeccCcchhhhHHHhhcccCCEEEEEEE
Confidence            58999999999999999633  33333 3346666667778888889999999999776 45567788899999999999


Q ss_pred             CCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835           78 ITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus        78 ~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +++++++..+..|+..+.... ..++|+++|+||+|+...+.+..++...++..++++++++||+++.||+++|.++.+.
T Consensus        90 v~~~~s~~~~~~~~~~l~~~~~~~~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~  169 (192)
T 2cjw_A           90 ITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQ  169 (192)
T ss_dssp             TTCHHHHHHHHHHHHHHHHHTTTSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHHHHhhCCCCCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHHHHHHHH
Confidence            999999999999988776543 3579999999999997667788888888888889999999999999999999999998


Q ss_pred             HHHHh
Q 040835          157 IYRIV  161 (206)
Q Consensus       157 i~~~~  161 (206)
                      +....
T Consensus       170 ~~~~~  174 (192)
T 2cjw_A          170 VRLRR  174 (192)
T ss_dssp             HHHHH
T ss_pred             HHhhc
Confidence            86543

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.97  E-value=3.7e-33  Score=202.78  Aligned_cols=159  Identities=52%  Similarity=0.838  Sum_probs=134.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.+.....+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        38 vvG~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  117 (199)
T 3l0i_B           38 LIGDSGVGKSCLLLRFADDTYTESYISTIGVDFKIRTIELDGKTIKLQIWDTAGQERFRTITSSYYRGAHGIIVVYDVTD  117 (199)
T ss_dssp             EECCTTSCCTTTTTSSBCCCCCCHHHHHHCCSEEEEEEEETTEEEEEEEECCTTCTTCCCCSCC--CCCSEEEECC-CCC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCcCCcccceEEEEEEEECCEEEEEEEEECCCcHhHHHHHHHHhhcCCEEEEEEECCC
Confidence            58999999999999999998888878888888888888888888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+......+.|+++|+||+|+...+.+..++...++..++++++++||+++.|++++|.+|.+.+.+
T Consensus       118 ~~s~~~~~~~~~~i~~~~~~~~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~~  196 (199)
T 3l0i_B          118 QESFNNVKQWLQEIDRYASENVNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKK  196 (199)
T ss_dssp             SHHHHHHHHHHHHHHSCC-CCSEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTTT
T ss_pred             HHHHHHHHHHHHHHHHhccCCCCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            9999999999999987776789999999999998767777777888999999999999999999999999999876643

>2f9l_A RAB11B, member RAS oncogene family; RAB11B GTPase, vesicle transport, hydrolase; HET: GDP; 1.55A {Homo sapiens} SCOP: c.37.1.8 PDB: 2f9m_A* 1yzk_A* 2hv8_A* 2gzd_A* 2gzh_A* 2d7c_A* 3bfk_A*

Probab=99.97  E-value=5.4e-29  Score=180.82  Aligned_cols=164  Identities=71%  Similarity=1.111  Sum_probs=144.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.+.....+.+++..+.+.+||++|++.+...+..+++.++++++|+|+++
T Consensus        10 lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (199)
T 2f9l_A           10 LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAK   89 (199)
T ss_dssp             EESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEECCCchhhhhhhHHHHhcCCEEEEEEECcC
Confidence            58999999999999999999888888888888877888889988999999999999998889999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ..++..+..|+..+......+.|+++++||+|+...+....++++.++...++.++++|++++.|++++|+++.+.+.+.
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~  169 (199)
T 2f9l_A           90 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRI  169 (199)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            99998888898877665445789999999999987677788889999999999999999999999999999999999876


Q ss_pred             hhhh
Q 040835          161 VSKK  164 (206)
Q Consensus       161 ~~~~  164 (206)
                      ...+
T Consensus       170 ~~~~  173 (199)
T 2f9l_A          170 VSQK  173 (199)
T ss_dssp             HHTS
T ss_pred             Hhhc
Confidence            5443

>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=99.97  E-value=8.2e-31  Score=193.38  Aligned_cols=160  Identities=31%  Similarity=0.525  Sum_probs=141.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.++.+.+.......+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        20 v~G~~~~GKSsli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   99 (221)
T 3gj0_A           20 LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTS   99 (221)
T ss_dssp             EEECTTSSHHHHHTTBHHHHHTCEEETTTTEEEEEEEEEETTEEEEEEEEEECSGGGTSCCCHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCCCCCccceeEEEEEEEECCEEEEEEEEeCCChHHHhHHHHHHHhcCCEEEEEEECCC
Confidence            58999999999999988888777778888889988888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+.... .++|+++|+||+|+..... . .+...++...+++++++||+++.|++++|.++.+.+...
T Consensus       100 ~~s~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          100 RVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKV-K-AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             HHHHHTHHHHHHHHHHHS-TTCCEEEEEECTTSSSCSS-C-GGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTC
T ss_pred             HHHHHHHHHHHHHHHHhC-CCCCEEEEEECCccccccc-c-HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            999999999999988765 4799999999999965332 2 256677888899999999999999999999999988766


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ...
T Consensus       177 ~~~  179 (221)
T 3gj0_A          177 PNL  179 (221)
T ss_dssp             TTC
T ss_pred             ccc
Confidence            443

>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=99.97  E-value=1.3e-30  Score=188.64  Aligned_cols=159  Identities=22%  Similarity=0.258  Sum_probs=128.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------ccccceeeEEEEE-EECCeEEEEEEEeCCCchhhhhhhHhHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------KATIGVEFQTKTL-VIHHKNVKAQIWDTAGQERYRAVTSAYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------~~~~~~~~~~~~~-~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~   68 (206)
                      |+|++|||||||++.+.+ .+...+           .++.+.++....+ .+++..+.+.+|||||++.+...+..+++.
T Consensus        19 vvG~~~~GKssL~~~l~~-~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~   97 (198)
T 3t1o_A           19 YYGPGLSGKTTNLKWIYS-KVPEGRKGEMVSLATEDERTLFFDFLPLDIGEVKGFKTRFHLYTVPGQVFYNASRKLILRG   97 (198)
T ss_dssp             EECSTTSSHHHHHHHHHH-TSCGGGBCCCEEEECSSCEEEEEEECCSSCCCSSSCEEEEEEEECCSCCSCSHHHHHHTTT
T ss_pred             EECCCCCCHHHHHHHHHh-hccccccccccccccccccceeeeecccccccccCCceEEEEEeCCChHHHHHHHHHHHhc
Confidence            589999999999976665 443332           2344444433333 455678899999999999999999999999


Q ss_pred             CcEEEEEeeCC------ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccC
Q 040835           69 AVGAMLVYDIT------KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSAL  141 (206)
Q Consensus        69 ~d~~i~v~d~~------~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~  141 (206)
                      +|++|+|||++      +.+++..+..|+..+.. ...++|+++|+||+|+..  ....+++..++..+++ +++++||+
T Consensus        98 ~d~~i~v~D~~~~~~~~~~~s~~~l~~~l~~~~~-~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~Sa~  174 (198)
T 3t1o_A           98 VDGIVFVADSAPNRLRANAESMRNMRENLAEYGL-TLDDVPIVIQVNKRDLPD--ALPVEMVRAVVDPEGKFPVLEAVAT  174 (198)
T ss_dssp             CCEEEEEEECCGGGHHHHHHHHHHHHHHHHHTTC-CTTSSCEEEEEECTTSTT--CCCHHHHHHHHCTTCCSCEEECBGG
T ss_pred             CCEEEEEEECCcchhhHhHHHHHHHHHHHHhhcc-ccCCCCEEEEEEchhccc--ccCHHHHHHHHHhcCCceEEEEecC
Confidence            99999999999      55677778888877633 236799999999999965  4778899999999999 99999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhhh
Q 040835          142 ESTNVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i~~~~~~  163 (206)
                      ++.|++++|.++.+.+.+...+
T Consensus       175 ~~~gv~~l~~~l~~~i~~~~~~  196 (198)
T 3t1o_A          175 EGKGVFETLKEVSRLVLARVAG  196 (198)
T ss_dssp             GTBTHHHHHHHHHHHHHHHHC-
T ss_pred             CCcCHHHHHHHHHHHHHHHhhc
Confidence            9999999999999999887643

>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=99.97  E-value=5.7e-31  Score=188.23  Aligned_cols=156  Identities=31%  Similarity=0.546  Sum_probs=120.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|+|||||+++|....+...+.++.+..+. ..+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        13 v~G~~~~GKssl~~~~~~~~~~~~~~~t~~~~~~-~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   91 (182)
T 3bwd_D           13 TVGDGAVGKTCLLISYTSNTFPTDYVPTVFDNFS-ANVVVNGATVNLGLWDTAGQEDYNRLRPLSYRGADVFILAFSLIS   91 (182)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCC----------CB-CCCC-------CEEECCCC-CTTTTTGGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCeeeeeEE-EEEEECCEEEEEEEEECCCChhhhhhHHhhccCCCEEEEEEECCC
Confidence            5899999999999999998887777776554432 223445567788899999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCC----------CCHHHHHHHHHHcCC-eEEEeccCCCCCHHH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRA----------VPTEDAKEFAEKEGL-CFMETSALESTNVEL  148 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~----------~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~  148 (206)
                      +.++..+. .|+..+.... .+.|+++|+||+|+...+.          +..++...++..+++ +++++||+++.|+++
T Consensus        92 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~  170 (182)
T 3bwd_D           92 KASYENVSKKWIPELKHYA-PGVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKG  170 (182)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHH
Confidence            99999987 6988887765 4799999999999864333          467888899999986 899999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          149 AFLTVLTEIY  158 (206)
Q Consensus       149 ~~~~l~~~i~  158 (206)
                      +|+++.+.++
T Consensus       171 l~~~l~~~i~  180 (182)
T 3bwd_D          171 VFDAAIRVVL  180 (182)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHHh
Confidence            9999998764

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.97  E-value=1.8e-30  Score=188.28  Aligned_cols=156  Identities=18%  Similarity=0.300  Sum_probs=124.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|++..+.. .+.++.+.....    ++...+.+.+|||||++.+...+..+++.+|++|+|||++
T Consensus        22 v~G~~~~GKSsl~~~l~~~~~~~~~~~~t~~~~~~~----~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~   97 (199)
T 4bas_A           22 MCGLDNSGKTTIINQVKPAQSSSKHITATVGYNVET----FEKGRVAFTVFDMGGAKKFRGLWETYYDNIDAVIFVVDSS   97 (199)
T ss_dssp             EECCTTSCHHHHHHHHSCCC----CCCCCSSEEEEE----EEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHhcCCCcccccccccceeEEE----EEeCCEEEEEEECCCCHhHHHHHHHHHhcCCEEEEEEECC
Confidence            58999999999999999999887 677777754433    2345688999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC--------CCCcEEEEEeCCCCCcCCCCCHHHHHHH------HHHcCCeEEEeccCCCCC
Q 040835           80 KRQSFDNVARWLEELRGHAD--------KNIIIMLVGNKSDLETLRAVPTEDAKEF------AEKEGLCFMETSALESTN  145 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~--------~~~p~ivv~nK~D~~~~~~~~~~~~~~~------~~~~~~~~~~~Sa~~~~~  145 (206)
                      +++++..+..|+..+.....        .++|+++|+||+|+.....  .+++...      +...+++++++||+++.|
T Consensus        98 ~~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~g  175 (199)
T 4bas_A           98 DHLRLCVVKSEIQAMLKHEDIRRELPGGGRVPFLFFANKMDAAGAKT--AAELVEILDLTTLMGDHPFVIFASNGLKGTG  175 (199)
T ss_dssp             CGGGHHHHHHHHHHHHTSHHHHSBCTTSCBCCEEEEEECTTSTTCCC--HHHHHHHHTHHHHHTTSCEEEEECBTTTTBT
T ss_pred             cHHHHHHHHHHHHHHHhChhhhhcccccCCCCEEEEEECcCCCCCCC--HHHHHHHhcchhhccCCeeEEEEeeCCCccC
Confidence            99999999888888765421        2799999999999975322  2222211      134677899999999999


Q ss_pred             HHHHHHHHHHHHHHHhh
Q 040835          146 VELAFLTVLTEIYRIVS  162 (206)
Q Consensus       146 v~~~~~~l~~~i~~~~~  162 (206)
                      |+++|++|.+.+.+...
T Consensus       176 v~~l~~~l~~~~~~~~~  192 (199)
T 4bas_A          176 VHEGFSWLQETASRQSG  192 (199)
T ss_dssp             HHHHHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHHHhc
Confidence            99999999999887643

>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=99.97  E-value=4.6e-30  Score=187.20  Aligned_cols=155  Identities=28%  Similarity=0.488  Sum_probs=132.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.++.+ ......+.+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus        35 vvG~~~~GKSsLi~~l~~~~~~~~~~~t~~-~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  113 (204)
T 4gzl_A           35 VVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVS  113 (204)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCC-CCCCSE-EEEEEEEECC-CEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHHhCCCCCCcCCeec-ceeEEEEEECCEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEECCC
Confidence            589999999999999999988877777754 3444566677788889999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLR------------AVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .+.|+++|+||+|+....            .+..++...++...+. +++++||++++|+
T Consensus       114 ~~s~~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi  192 (204)
T 4gzl_A          114 PASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL  192 (204)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-SSCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHhC-CCCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCH
Confidence            99999987 7888887765 679999999999986432            3677888899999886 5999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++|+++++.+
T Consensus       193 ~~l~~~l~~~~  203 (204)
T 4gzl_A          193 KTVFDEAIRAV  203 (204)
T ss_dssp             HHHHHHHHHTT
T ss_pred             HHHHHHHHHHh
Confidence            99999998754

>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=99.96  E-value=7.6e-30  Score=179.43  Aligned_cols=152  Identities=19%  Similarity=0.355  Sum_probs=118.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+.. +.||.+...  ..+  ......+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus         5 ~~G~~~~GKssl~~~l~~~~~~~-~~~t~~~~~--~~~--~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   79 (164)
T 1r8s_A            5 MVGLDAAGKTTILYKLKLGEIVT-TIPTIGFNV--ETV--EYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND   79 (164)
T ss_dssp             EECSTTSSHHHHHHHHHHHCSSC-CCCCSSCCE--EEE--ECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCcCc-ccCcCceeE--EEE--EECCEEEEEEEcCCChhhHHHHHHHhccCCEEEEEEECCC
Confidence            58999999999999999887754 456655332  223  3345889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+... ...+.|+++|+||+|+...  ...++......     ..+++++++||+++.|++++|+++.
T Consensus        80 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  157 (164)
T 1r8s_A           80 RERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLS  157 (164)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhchhhcCCeEEEEEECcCCcCC--CCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHH
Confidence            99999998888877553 2357999999999999652  22333322221     1345799999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       158 ~~i~~  162 (164)
T 1r8s_A          158 NQLRN  162 (164)
T ss_dssp             HHC--
T ss_pred             HHHhh
Confidence            87654

>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=99.96  E-value=5e-29  Score=180.94  Aligned_cols=149  Identities=21%  Similarity=0.257  Sum_probs=116.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+. .+.+|.+.+.  ..+.+++  +.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        30 lvG~~~vGKSsLi~~l~~~~~~-~~~~t~~~~~--~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~D~~~  104 (198)
T 1f6b_A           30 FLGLDNAGKTTLLHMLKDDRLG-QHVPTLHPTS--EELTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCAD  104 (198)
T ss_dssp             EEEETTSSHHHHHHHHSCC-------CCCCCSC--EEEEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCC-ccCCCCCcee--EEEEECC--EEEEEEECCCcHhhHHHHHHHHhcCCEEEEEEECCC
Confidence            5899999999999999988764 4556655543  3444554  789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----------------cCCeEEEeccCC
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----------------EGLCFMETSALE  142 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~Sa~~  142 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+..  .+..+++.+++..                 .+++++++||++
T Consensus       105 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  182 (198)
T 1f6b_A          105 HERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLK  182 (198)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTT
T ss_pred             HHHHHHHHHHHHHHHhCcccCCCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCC
Confidence            999999999988876542 35799999999999964  5567777776652                 245799999999


Q ss_pred             CCCHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTE  156 (206)
Q Consensus       143 ~~~v~~~~~~l~~~  156 (206)
                      ++|++++|+++.+.
T Consensus       183 g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          183 RQGYGEGFRWMAQY  196 (198)
T ss_dssp             TBSHHHHHHHHHTT
T ss_pred             CCCHHHHHHHHHHh
Confidence            99999999999754

>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=99.96  E-value=2.4e-29  Score=177.97  Aligned_cols=152  Identities=22%  Similarity=0.329  Sum_probs=120.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+. .+.++.+...  ..+.++  ...+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        12 v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   86 (171)
T 1upt_A           12 ILGLDGAGKTTILYRLQVGEVV-TTIPTIGFNV--ETVTYK--NLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCD   86 (171)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCC-CCCCCSSEEE--EEEEET--TEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCC-CcCCcCccce--EEEEEC--CEEEEEEECCCChhhhHHHHHHhccCCEEEEEEECCC
Confidence            5899999999999999998874 3455655433  334444  5789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+.... ..+.|+++|+||+|+....  ...++....     ...+++++++||+++.|++++|+++.
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  164 (171)
T 1upt_A           87 RDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAM--TSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLV  164 (171)
T ss_dssp             CTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhchhhCCCEEEEEEECCCCcCCC--CHHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHH
Confidence            999998888887765542 2579999999999996532  223332222     22356899999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       165 ~~i~~  169 (171)
T 1upt_A          165 ETLKS  169 (171)
T ss_dssp             HHHHT
T ss_pred             HHHhh
Confidence            88754

>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=99.96  E-value=8.3e-29  Score=178.26  Aligned_cols=153  Identities=22%  Similarity=0.423  Sum_probs=122.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+.++..  +  ....+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        27 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~~~--~--~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~  102 (188)
T 1zd9_A           27 LVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--I--TKGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAAD  102 (188)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--E--EETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCccCCCCceeEEE--E--EeCCEEEEEEECCCCHhHHHHHHHHHccCCEEEEEEECCC
Confidence            58999999999999999998887777877766543  2  2346789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+...  ...++......     ..+++++++||+++.|++++|++|.
T Consensus       103 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~  180 (188)
T 1zd9_A          103 QEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI  180 (188)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhCcccCCCCEEEEEECCCCccC--CCHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHH
Confidence            999999988888776532 257999999999999642  22333322221     2345799999999999999999998


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       181 ~~~~~  185 (188)
T 1zd9_A          181 QHSKS  185 (188)
T ss_dssp             HTCC-
T ss_pred             HHHHh
Confidence            76643

>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=99.96  E-value=6.6e-28  Score=174.06  Aligned_cols=157  Identities=71%  Similarity=1.123  Sum_probs=141.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+...+.++.+.++....+.+++..+.+.+||++|.+.+...+..+++.++++++|+|.++
T Consensus        34 lvG~~g~GKSTLl~~l~~~~~~~~~~~t~~~~~~~~~i~~~g~~~~~~i~Dt~g~~~~~~~~~~~~~~~~~~i~v~d~~~  113 (191)
T 1oix_A           34 LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGLERYRAITSAYYRGAVGALLVYDIAK  113 (191)
T ss_dssp             EEECTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEEEEEEETTEEEEEEEEEECSCCSSSCCCHHHHTTCCEEEEEEETTC
T ss_pred             EECcCCCCHHHHHHHHhcCCCCCCCCCccceEEEEEEEEECCEEEEEEEEECCCCcchhhhhHHHhhcCCEEEEEEECcC
Confidence            58999999999999999999988888888888888888888988999999999999988889999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ..+++.+..|+..+......+.|+++++||+|+...+.....+++.++...++.++++|++++.|++++|+++.+.+
T Consensus       114 ~~s~~~~~~~~~~~~~~~~~~~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          114 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHhcCCCCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            99998888888877655445789999999999977667778889999999999999999999999999999998765

>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=99.96  E-value=2.5e-28  Score=175.30  Aligned_cols=153  Identities=24%  Similarity=0.348  Sum_probs=123.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++.. ...+.+|.+...  ..+.++  ...+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        23 v~G~~~~GKssl~~~l~~~~-~~~~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   97 (186)
T 1ksh_A           23 MLGLDNAGKTTILKKFNGED-VDTISPTLGFNI--KTLEHR--GFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSAD   97 (186)
T ss_dssp             EECSTTSSHHHHHHHHTTCC-CSSCCCCSSEEE--EEEEET--TEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCC-CCcccccCccce--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEECcC
Confidence            58999999999999999888 566667766443  334443  5789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+.... ..+.|+++|+||+|+...  ...++..+...     ..+++++++||+++.|++++|+++.
T Consensus        98 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  175 (186)
T 1ksh_A           98 RQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGA--LSCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLL  175 (186)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhChhcCCCcEEEEEeCccCCCC--CCHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHH
Confidence            999999988888776542 357999999999999653  23344333322     2356899999999999999999999


Q ss_pred             HHHHHH
Q 040835          155 TEIYRI  160 (206)
Q Consensus       155 ~~i~~~  160 (206)
                      +.+.+.
T Consensus       176 ~~i~~~  181 (186)
T 1ksh_A          176 DDISSR  181 (186)
T ss_dssp             HHHHTC
T ss_pred             HHHHhc
Confidence            887654

>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=99.96  E-value=2.6e-28  Score=175.88  Aligned_cols=153  Identities=21%  Similarity=0.332  Sum_probs=123.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC-CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDE-FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|.+|||||||+++|++.. +...+.++.+.  ....+.++  +..+.+|||||++.+...+..+++.+|++|+|+|++
T Consensus        26 v~G~~~~GKSsli~~l~~~~~~~~~~~~t~~~--~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~  101 (190)
T 2h57_A           26 CLGLDNSGKTTIINKLKPSNAQSQNILPTIGF--SIEKFKSS--SLSFTVFDMSGQGRYRNLWEHYYKEGQAIIFVIDSS  101 (190)
T ss_dssp             EEECTTSSHHHHHHHTSCGGGCCSSCCCCSSE--EEEEEECS--SCEEEEEEECCSTTTGGGGGGGGGGCSEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCcCCccce--eEEEEEEC--CEEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECC
Confidence            58999999999999999987 45556666553  33344443  478999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCC---CCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHAD---KNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~---~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++.++..+..|+..+.....   .+.|+++|+||+|+..  ....+++.....     ..+++++++||+++.|++++|+
T Consensus       102 ~~~s~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~  179 (190)
T 2h57_A          102 DRLRMVVAKEELDTLLNHPDIKHRRIPILFFANKMDLRD--AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVD  179 (190)
T ss_dssp             CHHHHHHHHHHHHHHHHSTTTTTSCCCEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHhChhhccCCCeEEEEEeCcCccc--CCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHH
Confidence            99999999888888766543   4799999999999964  334556665553     2357899999999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      +|.+.+.+
T Consensus       180 ~l~~~i~~  187 (190)
T 2h57_A          180 WLQDQIQT  187 (190)
T ss_dssp             HHHHHC--
T ss_pred             HHHHHHHH
Confidence            99987643

>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=99.96  E-value=2.2e-28  Score=176.40  Aligned_cols=149  Identities=21%  Similarity=0.273  Sum_probs=122.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+. .+.++.+.+  ...+.+++  ..+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        28 ~vG~~~vGKSsli~~l~~~~~~-~~~~t~~~~--~~~~~~~~--~~~~i~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  102 (190)
T 1m2o_B           28 FLGLDNAGKTTLLHMLKNDRLA-TLQPTWHPT--SEELAIGN--IKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAAD  102 (190)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCC-CCCCCCSCE--EEEEEETT--EEEEEEECCCSGGGTTSGGGGCTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCC-ccccCCCCC--eEEEEECC--EEEEEEECCCCHHHHHHHHHHHhcCCEEEEEEECCC
Confidence            5899999999999999998874 445565553  34455554  789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH------------cCCeEEEeccCCCCCHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK------------EGLCFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~------------~~~~~~~~Sa~~~~~v~  147 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+..  ....+++.+....            .+++++++||+++.|++
T Consensus       103 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~  180 (190)
T 1m2o_B          103 PERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYL  180 (190)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHH
T ss_pred             hHHHHHHHHHHHHHHcchhhcCCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHH
Confidence            999999999988876542 35799999999999965  4566666665442            34679999999999999


Q ss_pred             HHHHHHHHH
Q 040835          148 LAFLTVLTE  156 (206)
Q Consensus       148 ~~~~~l~~~  156 (206)
                      ++|+++.+.
T Consensus       181 ~l~~~l~~~  189 (190)
T 1m2o_B          181 EAFQWLSQY  189 (190)
T ss_dssp             HHHHHHHTT
T ss_pred             HHHHHHHhh
Confidence            999998753

>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=99.96  E-value=4.5e-28  Score=174.17  Aligned_cols=152  Identities=21%  Similarity=0.377  Sum_probs=119.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+++.+. .+.+|.+.+..  .+.++  +..+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        21 v~G~~~~GKssl~~~l~~~~~~-~~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   95 (187)
T 1zj6_A           21 IVGLDNAGKTTILYQFSMNEVV-HTSPTIGSNVE--EIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTD   95 (187)
T ss_dssp             EEESTTSSHHHHHHHHHTTSCE-EEECCSCSSCE--EEEET--TEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCC-cCcCCCccceE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhcCCCEEEEEEeCCC
Confidence            5899999999999999988776 55666564433  33443  4789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+..  ....+++.....     ..+++++++||+++.|++++|++++
T Consensus        96 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  173 (187)
T 1zj6_A           96 RERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMM  173 (187)
T ss_dssp             TTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhchhhCCCeEEEEEECCCCcC--CCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHH
Confidence            999999999988876642 25799999999999964  334455544432     2356899999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+..
T Consensus       174 ~~~~~  178 (187)
T 1zj6_A          174 SRLKI  178 (187)
T ss_dssp             HHHCC
T ss_pred             HHHHH
Confidence            87643

>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=99.96  E-value=1.3e-27  Score=186.17  Aligned_cols=157  Identities=27%  Similarity=0.472  Sum_probs=137.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|+|||||+++|+++.+...+.++.+..+ ...+.+++..+.+.+|||||++.+...+..+++.+|++|+|||+++
T Consensus       160 i~G~~~~GKssli~~~~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~  238 (332)
T 2wkq_A          160 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGLEDYDRLRPLSYPQTDVFLICFSLVS  238 (332)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCCSCCCCSEEEE-EEEEEETTEEEEEEEEEECCCGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCChHHHHHHHHhCCCCcccCCccccee-EEEEEECCEEEEEEEEeCCCchhhhHHHHHhccCCCEEEEEEeCCC
Confidence            589999999999999999988777777765444 4556778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcC------------CCCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETL------------RAVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~------------~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .++|+++|+||+|+...            +.+..++...++...++ +++++||+++.|+
T Consensus       239 ~~s~~~~~~~~~~~~~~~~-~~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi  317 (332)
T 2wkq_A          239 PASFHHVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL  317 (332)
T ss_dssp             HHHHHHHHHTHHHHHHHHC-TTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHhhC-CCCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCH
Confidence            99999887 6888877655 37999999999998542            56788889999999997 8999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|..+.+.++.
T Consensus       318 ~~l~~~l~~~~~~  330 (332)
T 2wkq_A          318 KTVFDEAIRAVLC  330 (332)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999988764

>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=99.96  E-value=5.3e-28  Score=173.10  Aligned_cols=152  Identities=24%  Similarity=0.346  Sum_probs=118.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+ ..+.++.+.+.  ..+.++  .+.+.+|||||++.+...+..+++.+|++++|+|+++
T Consensus        21 ivG~~~vGKSsL~~~l~~~~~-~~~~~t~g~~~--~~~~~~--~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   95 (181)
T 1fzq_A           21 LLGLDNAGKTTLLKQLASEDI-SHITPTQGFNI--KSVQSQ--GFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSAD   95 (181)
T ss_dssp             EEESTTSSHHHHHHHHCCSCC-EEEEEETTEEE--EEEEET--TEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCC-CcccCcCCeEE--EEEEEC--CEEEEEEECCCCHHHHHHHHHHhCCCCEEEEEEECcC
Confidence            589999999999999998765 33456656432  334444  5789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+... ...+.|+++|+||+|+....  ..+++.....     ..+++++++||++++|++++|+++.
T Consensus        96 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  173 (181)
T 1fzq_A           96 RKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVC  173 (181)
T ss_dssp             GGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhChhhcCCCEEEEEECcCcccCC--CHHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHH
Confidence            99999998888776543 23579999999999996532  2333332221     2245799999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       174 ~~~~~  178 (181)
T 1fzq_A          174 KNVNA  178 (181)
T ss_dssp             HTC--
T ss_pred             HHHHh
Confidence            87754

>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=99.96  E-value=2e-28  Score=175.15  Aligned_cols=149  Identities=21%  Similarity=0.394  Sum_probs=120.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+ ..+.++.+....  .+.++  +..+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        26 v~G~~~~GKSsli~~l~~~~~-~~~~~t~~~~~~--~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~D~~~  100 (181)
T 2h17_A           26 IVGLDNAGKTTILYQFSMNEV-VHTSPTIGSNVE--EIVIN--NTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTD  100 (181)
T ss_dssp             EEEETTSSHHHHHHHHHTTSC-EEEECCSSSSCE--EEEET--TEEEEEEEESSSGGGTCGGGGGGTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCC-CccCCcCceeeE--EEEEC--CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCC
Confidence            589999999999999999887 455566665543  33343  3789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+..  ....+++.....     ..+++++++||+++.|++++|++|.
T Consensus       101 ~~s~~~~~~~~~~~~~~~~~~~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~  178 (181)
T 2h17_A          101 RERISVTREELYKMLAHEDLRKAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMM  178 (181)
T ss_dssp             TTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTT--CCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhChhhCCCeEEEEEECCCccc--CCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHH
Confidence            999999988888776542 35799999999999964  233444444432     2355899999999999999999987


Q ss_pred             HH
Q 040835          155 TE  156 (206)
Q Consensus       155 ~~  156 (206)
                      +.
T Consensus       179 ~~  180 (181)
T 2h17_A          179 SR  180 (181)
T ss_dssp             TC
T ss_pred             hh
Confidence            64

>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=99.96  E-value=3.8e-29  Score=180.73  Aligned_cols=151  Identities=21%  Similarity=0.373  Sum_probs=113.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+. .+.||.+..  ...+..  ..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        34 v~G~~~vGKSsLi~~l~~~~~~-~~~~t~~~~--~~~~~~--~~~~~~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~  108 (192)
T 2b6h_A           34 MVGLDAAGKTTILYKLKLGEIV-TTIPTIGFN--VETVEY--KNICFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND  108 (192)
T ss_dssp             EEESTTSSHHHHHHHHCSSCCE-EEEEETTEE--EEEEEE--TTEEEEEEECC-----CTTHHHHHHTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCcc-ccCCcCcee--EEEEEE--CCEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCC
Confidence            5899999999999999988775 345555532  223333  45789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+...  ...+++.....     ..+++++++||+++.|++++|+++.
T Consensus       109 ~~s~~~~~~~l~~~~~~~~~~~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~  186 (192)
T 2b6h_A          109 RERVQESADELQKMLQEDELRDAVLLVFANKQDMPNA--MPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLS  186 (192)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHhcccccCCCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHH
Confidence            999999988888775532 357999999999999642  22333322211     1245799999999999999999999


Q ss_pred             HHHH
Q 040835          155 TEIY  158 (206)
Q Consensus       155 ~~i~  158 (206)
                      +.+.
T Consensus       187 ~~i~  190 (192)
T 2b6h_A          187 HELS  190 (192)
T ss_dssp             HHTT
T ss_pred             HHHh
Confidence            8763

>2zej_A Dardarin, leucine-rich repeat kinase 2; parkinson'S disease, LRRK2, ROC, GTPase, ROCO, ATP-B disease mutation, GTP-binding, GTPase activation; HET: GDP; 2.00A {Homo sapiens} PDB: 3d6t_B*

Probab=99.96  E-value=4.4e-29  Score=179.14  Aligned_cols=158  Identities=22%  Similarity=0.405  Sum_probs=115.9

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCCccccceeeEEEEEEE---CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDSKATIGVEFQTKTLVI---HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLV   75 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   75 (206)
                      |+|++|||||||+++|.+.  .+...+.+|.+.++....+.+   ++..+.+.+|||+|++.+..++..+++.++++++|
T Consensus         7 ivG~~gvGKStLl~~l~~~~~~~~~~~~~t~g~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v   86 (184)
T 2zej_A            7 IVGNTGSGKTTLLQQLMKTKKSDLGMQSATVGIDVKDWPIQIRDKRKRDLVLNVWDFAGREEFYSTHPHFMTQRALYLAV   86 (184)
T ss_dssp             EESCTTSSHHHHHHHHTCC-----------CSEEEEEEEC---------CEEEEEEECSHHHHHTTSHHHHHHSEEEEEE
T ss_pred             EECCCCCCHHHHHHHHhcCCCccCCCcceeccEEeEEeeeccccCCCCceEEEEEecCCCHHHHHhhHHHccCCcEEEEE
Confidence            5899999999999999985  455556677776665554433   23567899999999999999999999999999999


Q ss_pred             eeCCCh-hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC---HHHHHHHHHHcCCe----EEEeccCCCC-CH
Q 040835           76 YDITKR-QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP---TEDAKEFAEKEGLC----FMETSALEST-NV  146 (206)
Q Consensus        76 ~d~~~~-~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~---~~~~~~~~~~~~~~----~~~~Sa~~~~-~v  146 (206)
                      +|++++ .++..+..|+..+.... .+.|+++|+||+|+...+.+.   .+....++..++++    ++++||+++. ++
T Consensus        87 ~d~~~~~~s~~~~~~~~~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~  165 (184)
T 2zej_A           87 YDLSKGQAEVDAMKPWLFNIKARA-SSSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDAL  165 (184)
T ss_dssp             EEGGGCHHHHHTHHHHHHHHHHHC-TTCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHH
T ss_pred             EeCCcchhHHHHHHHHHHHHHhhC-CCCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEecccCchhH
Confidence            999997 47888899998876654 478999999999986422221   22334555556776    9999999996 89


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      ++++..+.+.+.+
T Consensus       166 ~~l~~~i~~~~~~  178 (184)
T 2zej_A          166 AKLRKTIINESLN  178 (184)
T ss_dssp             HHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHhc
Confidence            9999988877654

>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=99.92  E-value=1.5e-30  Score=189.60  Aligned_cols=155  Identities=28%  Similarity=0.508  Sum_probs=129.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+...+.++.+... ...+.+++..+.+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        35 v~G~~~~GKSsli~~l~~~~~~~~~~~t~~~~~-~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~d~iilv~D~~~  113 (204)
T 3th5_A           35 VVGDGAVGKTCLLISYTTNAFPGEYIPTVFDNY-SANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVFLICFSLVS  113 (204)
Confidence            689999999999999999888777766654433 3445566677888999999999999999999999999999999999


Q ss_pred             hhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCC------------CCCHHHHHHHHHHcCC-eEEEeccCCCCCH
Q 040835           81 RQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLR------------AVPTEDAKEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~------------~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      +.++..+. .|+..+.... .++|+++|+||+|+....            .+..++...++..+++ +++++||+++.|+
T Consensus       114 ~~s~~~~~~~~~~~l~~~~-~~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi  192 (204)
T 3th5_A          114 PASFENVRAKWYPEVRHHC-PNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL  192 (204)
Confidence            99998886 7877776654 379999999999996432            4555677788888887 8999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++|+++.+.+
T Consensus       193 ~~l~~~l~~~i  203 (204)
T 3th5_A          193 KTVFDEAIRAV  203 (204)
Confidence            99999998765

>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=99.95  E-value=1.4e-27  Score=170.78  Aligned_cols=154  Identities=21%  Similarity=0.354  Sum_probs=119.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+ ..+.++.+...  ..+.++  +..+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        23 v~G~~~~GKssli~~l~~~~~-~~~~~t~~~~~--~~~~~~--~~~~~i~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~   97 (183)
T 1moz_A           23 ILGLDGAGKTTILYRLQIGEV-VTTKPTIGFNV--ETLSYK--NLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTD   97 (183)
T ss_dssp             EEEETTSSHHHHHHHTCCSEE-EEECSSTTCCE--EEEEET--TEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCc-CccCCcCccce--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCC
Confidence            589999999999999998777 45556656443  333443  4789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+..  ....+++......     .+++++++||+++.|++++|+++.
T Consensus        98 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  175 (183)
T 1moz_A           98 KDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG--ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLI  175 (183)
T ss_dssp             TTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT--CCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHcChhhCCCeEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHH
Confidence            999999999888876543 36799999999999864  2334444443322     234799999999999999999999


Q ss_pred             HHHHHHh
Q 040835          155 TEIYRIV  161 (206)
Q Consensus       155 ~~i~~~~  161 (206)
                      +.+.+++
T Consensus       176 ~~~~~~q  182 (183)
T 1moz_A          176 DVIKEEQ  182 (183)
T ss_dssp             HHHHHHH
T ss_pred             HHHHhcc
Confidence            9887653

>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=99.95  E-value=3.8e-28  Score=175.94  Aligned_cols=154  Identities=20%  Similarity=0.229  Sum_probs=116.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhh---HhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVT---SAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~---~~~~~~~d~~i~v~   76 (206)
                      |+|++|||||||++++.+. +..........+.......+ ++..+.+.+|||+|++.|....   ..+++.+|++|+||
T Consensus        25 ~vG~~~vGKTsLi~~l~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~i~v~  103 (196)
T 3llu_A           25 LMGLRRSGKSSIQKVVFHK-MSPNETLFLESTNKIYKDDISNSSFVNFQIWDFPGQMDFFDPTFDYEMIFRGTGALIYVI  103 (196)
T ss_dssp             EEESTTSSHHHHHHHHHSC-CCGGGGGGCCCCCSCEEEEECCTTSCCEEEEECCSSCCTTCTTCCHHHHHHTCSEEEEEE
T ss_pred             EECCCCCCHHHHHHHHHhc-CCCcceeeeccccceeeeeccCCCeeEEEEEECCCCHHHHhhhhhcccccccCCEEEEEE
Confidence            5899999999999988774 33332222222222222233 2566889999999999987776   89999999999999


Q ss_pred             eCCCh--hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc-------CCCCCHHHHHHHHH----HcCCeEEEeccCCC
Q 040835           77 DITKR--QSFDNVARWLEELRGHADKNIIIMLVGNKSDLET-------LRAVPTEDAKEFAE----KEGLCFMETSALES  143 (206)
Q Consensus        77 d~~~~--~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~-------~~~~~~~~~~~~~~----~~~~~~~~~Sa~~~  143 (206)
                      |++++  +++..+..|+..+.... .+.|+++|+||+|+..       .+.+..++...++.    ..+++++++||++ 
T Consensus       104 d~~~~~~~~~~~~~~~l~~~~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-  181 (196)
T 3llu_A          104 DAQDDYMEALTRLHITVSKAYKVN-PDMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-  181 (196)
T ss_dssp             ETTSCCHHHHHHHHHHHHHHHHHC-TTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-
T ss_pred             ECCCchHHHHHHHHHHHHHHHhcC-CCCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-
Confidence            99997  67777777777764433 5799999999999743       23344455667777    6688999999999 


Q ss_pred             CCHHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTEI  157 (206)
Q Consensus       144 ~~v~~~~~~l~~~i  157 (206)
                      .||+++|..+++.+
T Consensus       182 ~~v~~~f~~l~~~l  195 (196)
T 3llu_A          182 HSIFEAFSKVVQKL  195 (196)
T ss_dssp             THHHHHHHHHHHHT
T ss_pred             hhHHHHHHHHHHHh
Confidence            99999999998865

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=99.95  E-value=9.6e-29  Score=177.94  Aligned_cols=153  Identities=19%  Similarity=0.304  Sum_probs=119.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|....+.. +.+|.+...  ..+..+  ...+.+|||||++.+...+..+++.+|++|+|+|+++
T Consensus        27 v~G~~~~GKssli~~l~~~~~~~-~~~t~~~~~--~~~~~~--~~~~~~~Dt~G~~~~~~~~~~~~~~~d~ii~v~d~~~  101 (189)
T 2x77_A           27 MLGLDNAGKTSILYRLHLGDVVT-TVPTVGVNL--ETLQYK--NISFEVWDLGGQTGVRPYWRCYFSDTDAVIYVVDSTD  101 (189)
T ss_dssp             EEEETTSSHHHHHHHTCCSCCEE-ECSSTTCCE--EEEEET--TEEEEEEEECCSSSSCCCCSSSSTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCC-cCCCCceEE--EEEEEC--CEEEEEEECCCCHhHHHHHHHHhhcCCEEEEEEeCCC
Confidence            58999999999999998877643 455655433  333333  5789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++..+..|+..+.... ..+.|+++|+||+|+....  ..++.....     ...+++++++||+++.|++++|+++.
T Consensus       102 ~~s~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  179 (189)
T 2x77_A          102 RDRMGVAKHELYALLDEDELRKSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLV  179 (189)
T ss_dssp             CTTHHHHHHHHHHHHTCSTTTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHhhhhcCCCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHH
Confidence            999999888887765543 3579999999999996532  223332222     22345799999999999999999999


Q ss_pred             HHHHHH
Q 040835          155 TEIYRI  160 (206)
Q Consensus       155 ~~i~~~  160 (206)
                      +.+.+.
T Consensus       180 ~~i~~~  185 (189)
T 2x77_A          180 ERLREQ  185 (189)
T ss_dssp             HHHHHT
T ss_pred             HHHHhc
Confidence            888654

>2wji_A Ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GNP; 1.90A {Methanocaldococcus jannaschii} PDB: 2wjj_A* 2wjh_A*

Probab=99.95  E-value=5.7e-27  Score=165.28  Aligned_cols=148  Identities=18%  Similarity=0.179  Sum_probs=109.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh------hhhHhHhc--CCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR------AVTSAYYR--GAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~   72 (206)
                      |+|++|||||||+++|.+..+.....++.+.......+..++  ..+.+|||||++.+.      .+...++.  .+|++
T Consensus         8 lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   85 (165)
T 2wji_A            8 LIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYNG--EKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   85 (165)
T ss_dssp             EECSTTSSHHHHHHHHHCCSSSCC-----CCCCCEEEEEETT--EEEEEEECCCCSCSSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCeeccCCCCcceeeeEEEEEECC--cEEEEEECCCcccCCCcchhHHHHHHHHhcCCCCEE
Confidence            589999999999999999776555545444444444444443  679999999987764      34456664  89999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      ++|+|+++.+.   ...|+..+..   .++|+++|+||+|+...+.+.. +...++..++++++++||++++|++++|.+
T Consensus        86 i~v~D~~~~~~---~~~~~~~~~~---~~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~  158 (165)
T 2wji_A           86 VNIVDATALER---NLYLTLQLME---MGANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKA  158 (165)
T ss_dssp             EEEEETTCHHH---HHHHHHHHHH---TTCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHH
T ss_pred             EEEecCCchhH---hHHHHHHHHh---cCCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHH
Confidence            99999998643   3446666654   3689999999999864344332 367788888999999999999999999999


Q ss_pred             HHHHH
Q 040835          153 VLTEI  157 (206)
Q Consensus       153 l~~~i  157 (206)
                      +.+.+
T Consensus       159 l~~~~  163 (165)
T 2wji_A          159 ISIAV  163 (165)
T ss_dssp             HHHHT
T ss_pred             HHHHh
Confidence            98754

>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=99.94  E-value=2.3e-26  Score=170.36  Aligned_cols=162  Identities=20%  Similarity=0.175  Sum_probs=113.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc------hhh---hhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ------ERY---RAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~------~~~---~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+++|++..+.....+..+..........  ....+.+|||||.      +..   ...+..++..+|+
T Consensus        34 vvG~~~vGKSsLin~l~~~~~~~~~~~~~t~~~~~~~~~~--~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~d~  111 (228)
T 2qu8_A           34 LSGAPNVGKSSFMNIVSRANVDVQSYSFTTKNLYVGHFDH--KLNKYQIIDTPGLLDRAFENRNTIEMTTITALAHINGV  111 (228)
T ss_dssp             EECSTTSSHHHHHHHHTTTCEEEECC-----CEEEEEEEE--TTEEEEEEECTTTTTSCGGGCCHHHHHHHHHHHTSSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCccCCCCCcceeeeeeeeec--CCCeEEEEECCCCcCcccchhhhHHHHHHHHhhccccE
Confidence            5899999999999999998774322222122222222222  2367999999998      331   1223456788999


Q ss_pred             EEEEeeCCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH---HHHHHHHHcC--CeEEEeccCCCC
Q 040835           72 AMLVYDITKRQSFD--NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE---DAKEFAEKEG--LCFMETSALEST  144 (206)
Q Consensus        72 ~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~---~~~~~~~~~~--~~~~~~Sa~~~~  144 (206)
                      +|+|+|++++.++.  ....|+..+.... .+.|+++|+||+|+...+.+...   ....++...+  ++++++||+++.
T Consensus       112 ~i~v~d~~~~~s~~~~~~~~~~~~l~~~~-~~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~  190 (228)
T 2qu8_A          112 ILFIIDISEQCGLTIKEQINLFYSIKSVF-SNKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGV  190 (228)
T ss_dssp             EEEEEETTCTTSSCHHHHHHHHHHHHTCC--CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCT
T ss_pred             EEEEEecccccCcchHHHHHHHHHHHHhh-cCCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCC
Confidence            99999999987754  2345666665432 37999999999999765666554   4566667776  899999999999


Q ss_pred             CHHHHHHHHHHHHHHHhhhhh
Q 040835          145 NVELAFLTVLTEIYRIVSKKA  165 (206)
Q Consensus       145 ~v~~~~~~l~~~i~~~~~~~~  165 (206)
                      |++++|.+|.+.+.+.+...+
T Consensus       191 gi~~l~~~l~~~i~~~~~~~~  211 (228)
T 2qu8_A          191 GVEQAKITACELLKNDQAESI  211 (228)
T ss_dssp             THHHHHHHHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHHHHHHHHHH
Confidence            999999999999987765543

>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=99.94  E-value=8.7e-27  Score=170.86  Aligned_cols=153  Identities=15%  Similarity=0.189  Sum_probs=108.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe-EEEEEEEeCCCchhhhh-hhHhHhcCCcEEEEEeeC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK-NVKAQIWDTAGQERYRA-VTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~   78 (206)
                      |+|++|||||||+++|++..+...+.++ +....  .+.+++. .+.+.+|||||++.+.. ++..+++.+|++|+|+|+
T Consensus        12 vvG~~~~GKTsli~~l~~~~~~~~~~~~-~~~~~--~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~i~v~d~   88 (214)
T 2fh5_B           12 FVGLCDSGKTLLFVRLLTGQYRDTQTSI-TDSSA--IYKVNNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDS   88 (214)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCBCCCC-SCEEE--EEECSSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEET
T ss_pred             EECCCCCCHHHHHHHHhCCCcccccCCc-ceeeE--EEEecCCCccEEEEEECCCChhHHHHHHHHHHhhCCEEEEEEEC
Confidence            5899999999999999998887666543 33333  3455543 68899999999999987 788899999999999999


Q ss_pred             CChh-hHHHHHH-HHHHHHh--cCCCCCcEEEEEeCCCCCcCCCCCH--HHHHHHHH-----------------------
Q 040835           79 TKRQ-SFDNVAR-WLEELRG--HADKNIIIMLVGNKSDLETLRAVPT--EDAKEFAE-----------------------  129 (206)
Q Consensus        79 ~~~~-s~~~~~~-~~~~~~~--~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~~~~-----------------------  129 (206)
                      ++.. ++..... |...+..  ....++|+++|+||+|+........  +.+.....                       
T Consensus        89 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~s~~~~~~~~~~~~  168 (214)
T 2fh5_B           89 AAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAMAKSAKLIQQQLEKELNTLRVTRSAAPSTLDSSSTAPAQL  168 (214)
T ss_dssp             TTHHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHCC------------CCCS
T ss_pred             CCcCHHHHHHHHHHHHHHhhhhhcccCCCEEEEEECCCCCCcccHHHHHHHHHHHHHHHhccchhccccccCCccccccc
Confidence            9854 4555544 4444433  2235799999999999965332110  11111111                       


Q ss_pred             ----------Hc--CCeEEEeccCCC------CCHHHHHHHHHHH
Q 040835          130 ----------KE--GLCFMETSALES------TNVELAFLTVLTE  156 (206)
Q Consensus       130 ----------~~--~~~~~~~Sa~~~------~~v~~~~~~l~~~  156 (206)
                                .+  +++|++|||+++      .||+++|++|.+.
T Consensus       169 ~~~~~~~~~~~~~~~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          169 GKKGKEFEFSQLPLKVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             SCTTSCCCGGGSSSCEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cCCCCCcccccCCCcEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence                      11  567999999999      9999999999865

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.94  E-value=1.3e-27  Score=183.28  Aligned_cols=155  Identities=18%  Similarity=0.201  Sum_probs=116.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC---CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh---hhHhHhcCCcEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL---DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA---VTSAYYRGAVGAML   74 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~---~~~~~~~~~d~~i~   74 (206)
                      ++|..|||||||++++.++....   ...+|++..+..    ++ ..+.++||||+|+++|..   .+..++++++++|+
T Consensus         4 llGdsgvGKTSLl~~~~~~~~~~~~~~~~~Tig~~~~~----v~-~~v~LqIWDTAGQErf~~~~l~~~~yyr~a~~~Il   78 (331)
T 3r7w_B            4 LMGVRRCGKSSICKVVFHNMQPLDTLYLESTSNPSLEH----FS-TLIDLAVMELPGQLNYFEPSYDSERLFKSVGALVY   78 (331)
T ss_dssp             EECSTTSSTTHHHHHHHSCCCSGGGTTCCCCCSCCCEE----EC-SSSCEEEEECCSCSSSCCCSHHHHHHHTTCSEEEE
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCccceecCeeeeeeEE----Ec-cEEEEEEEECCCchhccchhhhhhhhccCCCEEEE
Confidence            58999999999999888654322   245666666653    22 348899999999999964   46899999999999


Q ss_pred             EeeCCCh--hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC-------CCCCHHHHHHHHHH----cCCeEEEeccC
Q 040835           75 VYDITKR--QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL-------RAVPTEDAKEFAEK----EGLCFMETSAL  141 (206)
Q Consensus        75 v~d~~~~--~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~-------~~~~~~~~~~~~~~----~~~~~~~~Sa~  141 (206)
                      |||++++  +.+.....|+..+.... +++|+++++||+|+..+       +.+..++.+++++.    +++++|+|||+
T Consensus        79 V~Ditd~~~~~~~~l~~~l~~~~~~~-~~ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAk  157 (331)
T 3r7w_B           79 VIDSQDEYINAITNLAMIIEYAYKVN-PSINIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIF  157 (331)
T ss_dssp             ECCCSSCTTHHHHHHHHHHHHHHHHC-TTCEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSS
T ss_pred             EEECCchHHHHHHHHHHHHHHHhhcC-CCCcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccC
Confidence            9999997  33444444455544433 57999999999999653       23455556667765    67899999999


Q ss_pred             CCCCHHHHHHHHHHHHHHHhh
Q 040835          142 ESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      + .+|.++|..+++.+....+
T Consensus       158 d-~nV~eAFs~iv~~li~~~~  177 (331)
T 3r7w_B          158 D-HSIYEAFSRIVQKLIPELS  177 (331)
T ss_dssp             S-SHHHHHHHHHHTTSSTTHH
T ss_pred             C-CcHHHHHHHHHHHHHhhHH
Confidence            8 5899999999988765544

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=99.94  E-value=3.4e-26  Score=176.42  Aligned_cols=154  Identities=20%  Similarity=0.305  Sum_probs=120.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC---CCccccceeeEEEEEEECCeEEEEEEEeCCCchhh-----hhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL---DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-----RAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-----~~~~~~~~~~~d~~   72 (206)
                      |+|++|||||||+++|+++....   .+.+|.+....  .+.+++ .+.+.+|||||++.+     ...+..+++.+|++
T Consensus         8 lvG~~~vGKSSLi~~l~~~~~~~~~~~~~~Ti~~~~~--~~~~~~-~~~l~i~Dt~G~~~~~~~~~~~~~~~~~~~ad~v   84 (307)
T 3r7w_A            8 LMGRSGSGKSSMRSIIFSNYSAFDTRRLGATIDVEHS--HLRFLG-NMTLNLWDCGGQDVFMENYFTKQKDHIFQMVQVL   84 (307)
T ss_dssp             EECCTTSSHHHHHHHHHSCCCTGGGGGCCCCCSEEEE--EEEETT-TEEEEEEEECCSHHHHHHHHTTTHHHHHTTCSEE
T ss_pred             EECCCCCCHHHHHHHHHhCCCCccccCcCCccceEEE--EEEeCC-ceEEEEEECCCcHHHhhhhhhhHHHHHhccCCEE
Confidence            58999999999999999874322   23444444333  334434 688999999999988     67888999999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCc--CCC----CCHHHHHHHHHHcC---CeEEEeccC
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLET--LRA----VPTEDAKEFAEKEG---LCFMETSAL  141 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~--~~~----~~~~~~~~~~~~~~---~~~~~~Sa~  141 (206)
                      |+|||++++++++.+..|...+....  ..++|+++++||+|+..  .+.    +..+++..++..+|   ++++++||+
T Consensus        85 i~V~D~t~~~s~~~l~~~~~~l~~l~~~~~~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~  164 (307)
T 3r7w_A           85 IHVFDVESTEVLKDIEIFAKALKQLRKYSPDAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIW  164 (307)
T ss_dssp             EEEEETTCSCHHHHHHHHHHHHHHHHHHCTTCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTT
T ss_pred             EEEEECCChhhHHHHHHHHHHHHHHHHhCCCCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeec
Confidence            99999999999998877755544322  35799999999999864  233    44577888888887   789999999


Q ss_pred             CCCCHHHHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLTEIY  158 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i~  158 (206)
                      + .++.++|..+++.+.
T Consensus       165 ~-~~i~e~~~~iv~~li  180 (307)
T 3r7w_A          165 D-ESLYKAWSQIVCSLI  180 (307)
T ss_dssp             S-SHHHHHHHHHHHTTC
T ss_pred             C-ChHHHHHHHHHHHHc
Confidence            9 889999999887653

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=99.94  E-value=2.4e-26  Score=163.59  Aligned_cols=152  Identities=16%  Similarity=0.153  Sum_probs=113.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|++..+...+.++.+.+.....+.+++  ..+.+|||||++.+...+..++..+|++|+|+|+++
T Consensus        13 v~G~~~~GKssl~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~d~~i~v~d~~~   90 (178)
T 2lkc_A           13 IMGHVDHGKTTLLDAIRHSKVTEQEAGGITQHIGAYQVTVND--KKITFLDTPGHEAFTTMRARGAQVTDIVILVVAADD   90 (178)
T ss_dssp             EESCTTTTHHHHHHHHHTTCSSCSSCCSSSTTCCCCEEEETT--EEEEESCCCSSSSSSCSCCSSCCCCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhCCccccCCCCceeEeeeEEEEEeCC--ceEEEEECCCCHHHHHHHHHHHhhCCEEEEEEECCC
Confidence            589999999999999999988777666655555555555655  457899999999999989899999999999999988


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-------C--CeEEEeccCCCCCHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-------G--LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-------~--~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +...... .++..+.   ..++|+++|+||+|+...   ..++........       +  ++++++||+++.|++++|+
T Consensus        91 ~~~~~~~-~~l~~~~---~~~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~  163 (178)
T 2lkc_A           91 GVMPQTV-EAINHAK---AANVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLE  163 (178)
T ss_dssp             CCCHHHH-HHHHHHG---GGSCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHH
T ss_pred             CCcHHHH-HHHHHHH---hCCCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHH
Confidence            4221111 1222222   246899999999998642   233333333322       2  4799999999999999999


Q ss_pred             HHHHHHHHHh
Q 040835          152 TVLTEIYRIV  161 (206)
Q Consensus       152 ~l~~~i~~~~  161 (206)
                      ++.+.+...+
T Consensus       164 ~l~~~~~~~~  173 (178)
T 2lkc_A          164 MILLVSEMEE  173 (178)
T ss_dssp             HHHHHHHHTT
T ss_pred             HHHHhhhhhc
Confidence            9998776543

>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=99.93  E-value=2e-26  Score=165.66  Aligned_cols=154  Identities=20%  Similarity=0.206  Sum_probs=112.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC-----------chhhhhhhHhHhcC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG-----------QERYRAVTSAYYRG-   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G-----------~~~~~~~~~~~~~~-   68 (206)
                      |+|++|||||||+++|++..+...+.++.+.  ........    .+.+|||||           ++.+...+..+++. 
T Consensus         6 v~G~~~~GKSsli~~l~~~~~~~~~~~~~t~--~~~~~~~~----~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   79 (190)
T 2cxx_A            6 FAGRSNVGKSTLIYRLTGKKVRRGKRPGVTR--KIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDN   79 (190)
T ss_dssp             EEEBTTSSHHHHHHHHHSCCCSSSSSTTCTT--SCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhCcCCccCCCCCccc--eeEEEecC----CEEEEECCCccccccCCHHHHHHHHHHHHHHHHhh
Confidence            5899999999999999999887666665433  33333333    689999999           67777777778776 


Q ss_pred             CcEEEEEeeCCChhhHHHH-HHHHHH---------HHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe----
Q 040835           69 AVGAMLVYDITKRQSFDNV-ARWLEE---------LRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC----  134 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~-~~~~~~---------~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~----  134 (206)
                      ++++++++++.+..++..+ ..|...         +......++|+++|+||+|+...+   .++...++..++++    
T Consensus        80 ~~~~~~v~~v~d~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~  156 (190)
T 2cxx_A           80 AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRELDIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEI  156 (190)
T ss_dssp             GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHHTTCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGH
T ss_pred             hccCCEEEEEEcchhhhhHHHhhhccCccHHHHHHHHHHHhcCCceEEEeehHhccCcH---HHHHHHHHHHhhhhhhcc
Confidence            6666666666666666655 455432         122223579999999999986533   56678888888864    


Q ss_pred             ---EEEeccCCCCCHHHHHHHHHHHHHHHhhh
Q 040835          135 ---FMETSALESTNVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       135 ---~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~  163 (206)
                         ++++||+++.|++++|+++.+.+.+...+
T Consensus       157 ~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~~  188 (190)
T 2cxx_A          157 DKVFIPISAKFGDNIERLKNRIFEVIRERQGR  188 (190)
T ss_dssp             HHHEEECCTTTCTTHHHHHHHHHHHHHHC---
T ss_pred             CCcEEEEecCCCCCHHHHHHHHHHhcchhhcc
Confidence               79999999999999999999988766544

>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=99.93  E-value=1.3e-27  Score=179.93  Aligned_cols=156  Identities=30%  Similarity=0.418  Sum_probs=113.0

Q ss_pred             CccCC---------CCCHHHHHHHHhc---CCCCCCCcccc-ceeeEEEE--------------EEECCeEEEEEEEe--
Q 040835            1 LIGDS---------AVGKSQLLARFAR---DEFSLDSKATI-GVEFQTKT--------------LVIHHKNVKAQIWD--   51 (206)
Q Consensus         1 v~G~~---------~~GKTtLl~~l~~---~~~~~~~~~~~-~~~~~~~~--------------~~~~~~~~~~~i~D--   51 (206)
                      |+|.+         |||||||+++|++   ..+...+.+++ +.++....              ..+++..+.+.|||  
T Consensus        24 lvG~~~~~~~~~~~~vGKSsLi~~l~~~~~~~~~~~~~~t~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~~~l~i~D~~  103 (255)
T 3c5h_A           24 VVGLSGTEKEKGQCGIGKSCLCNRFVRPSADEFHLDHTSVLSTSDFGGRVVNNDHFLYWGEVSRSLEDCVECKMHIVEQT  103 (255)
T ss_dssp             EEESCCCTTTTTTCCCSHHHHHHHHHCCSTTTCCSCCCCEECHHHHTSTTTTTCSEEEEEEEC---------CEEEEEEC
T ss_pred             EECCCccccccCCCCcCHHHHHHHHHhccCCccccccCCcccccccceeEeecccccccccccccccCCcEEEEEEEEcc
Confidence            57888         9999999999999   55655555543 22221111              12345678899999  


Q ss_pred             ---------------------CCCchhhhhhhHhHhc---------------------CCcEEEEEeeCCCh--hhHHHH
Q 040835           52 ---------------------TAGQERYRAVTSAYYR---------------------GAVGAMLVYDITKR--QSFDNV   87 (206)
Q Consensus        52 ---------------------~~G~~~~~~~~~~~~~---------------------~~d~~i~v~d~~~~--~s~~~~   87 (206)
                                           ++|++.|..++..+++                     ++|++|+|||++++  .+++.+
T Consensus       104 ~~~D~~~~~~~~~~~~~~~~~~~g~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ad~vilV~D~t~~~~~s~~~~  183 (255)
T 3c5h_A          104 EFIDDQTFQPHRSTALQPYIKRAAATKLASAEKLMYFCTDQLGLEQDFEQKQMPDGKLLVDGFLLGIDVSRGMNRNFDDQ  183 (255)
T ss_dssp             CCEETTTCSBTTGGGCCCHHHHHTCSEEECTTCBCCCCGGGTTCGGGSCCCBCGGGEEECCEEEEEEECBC----CHHHH
T ss_pred             ccccccccccccccccccccccchhhhhhhhhhhhhhccccccccccccccccccccccCCEEEEEEECCCCchhhHHHH
Confidence                                 5566666666666766                     79999999999998  899999


Q ss_pred             HHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           88 ARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        88 ~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ..|+..+... ...++|+++|+||+|+...+.+  ++...++.. .+++++++||+++.|++++|.+|.+.+.
T Consensus       184 ~~~l~~i~~~~~~~~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l~  254 (255)
T 3c5h_A          184 LKFVSNLYNQLAKTKKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLID  254 (255)
T ss_dssp             HHHHHHHHHHHHHTTCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHhccCCCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHhc
Confidence            9999888654 2357999999999998643333  566777766 4889999999999999999999988763

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=99.93  E-value=4.7e-27  Score=182.79  Aligned_cols=152  Identities=19%  Similarity=0.342  Sum_probs=113.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|++..+... .+|.+....  .  +....+.+.||||||++.+..++..+++.+|++|+|||+++
T Consensus       170 ivG~~~vGKSsLl~~l~~~~~~~~-~pT~~~~~~--~--~~~~~~~l~i~Dt~G~~~~~~~~~~~~~~ad~vilV~D~~~  244 (329)
T 3o47_A          170 MVGLDAAGKTTILYKLKLGEIVTT-IPTIGFNVE--T--VEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND  244 (329)
T ss_dssp             EEESTTSSHHHHHHHTCSSCCEEE-EEETTEEEE--E--EEETTEEEEEEECC-----CCSHHHHHTTEEEEEEEEETTC
T ss_pred             EECCCCccHHHHHHHHhCCCCCCc-ccccceEEE--E--EecCcEEEEEEECCCCHhHHHHHHHHhccCCEEEEEEECCc
Confidence            589999999999999998886433 345444332  2  33345789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+.... ..++|+++|+||+|+....  ..+++......     .+++++++||+++.||+++|++|+
T Consensus       245 ~~s~~~~~~~~~~~~~~~~~~~~piilV~NK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~  322 (329)
T 3o47_A          245 RERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLS  322 (329)
T ss_dssp             SSSHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhhccCCCeEEEEEECccCCccc--CHHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHH
Confidence            999998888776664432 3579999999999996522  23333332221     245799999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +.+.+
T Consensus       323 ~~l~~  327 (329)
T 3o47_A          323 NQLRN  327 (329)
T ss_dssp             HHHTC
T ss_pred             HHHHh
Confidence            87753

>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=99.93  E-value=1e-25  Score=162.67  Aligned_cols=150  Identities=17%  Similarity=0.193  Sum_probs=102.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC----------chhhhhhhHhHhcCC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG----------QERYRAVTSAYYRGA-   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~-   69 (206)
                      |+|.+|||||||+++|++..+.....++.+.+........+.   .+.+|||||          .+.+...+..+++.+ 
T Consensus        28 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~t~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (195)
T 1svi_A           28 LAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIND---ELHFVDVPGYGFAKVSKSEREAWGRMIETYITTRE  104 (195)
T ss_dssp             EEEBTTSSHHHHHHHHHTC-------------CCEEEEEETT---TEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCT
T ss_pred             EECCCCCCHHHHHHHHhCCCCccccCCCCCceeeEEEEEECC---cEEEEECCCCCccccCHHHHHHHHHHHHHHHhhhh
Confidence            589999999999999999876555555555555544444433   589999999          777888888888777 


Q ss_pred             --cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--HHHHH-HHHHcCCeEEEeccCCCC
Q 040835           70 --VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--EDAKE-FAEKEGLCFMETSALEST  144 (206)
Q Consensus        70 --d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--~~~~~-~~~~~~~~~~~~Sa~~~~  144 (206)
                        |++++|+|++++.++.... ++..+..   .+.|+++|+||+|+...+.+..  +++.+ +....+++++++||+++.
T Consensus       105 ~~~~~i~v~d~~~~~~~~~~~-~~~~~~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  180 (195)
T 1svi_A          105 ELKAVVQIVDLRHAPSNDDVQ-MYEFLKY---YGIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKK  180 (195)
T ss_dssp             TEEEEEEEEETTSCCCHHHHH-HHHHHHH---TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCT
T ss_pred             cCCEEEEEEECCCCCCHHHHH-HHHHHHH---cCCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCC
Confidence              9999999999876665432 2222222   4689999999999975433321  22222 222236789999999999


Q ss_pred             CHHHHHHHHHHHH
Q 040835          145 NVELAFLTVLTEI  157 (206)
Q Consensus       145 ~v~~~~~~l~~~i  157 (206)
                      |++++|+++.+.+
T Consensus       181 gv~~l~~~l~~~l  193 (195)
T 1svi_A          181 GKDEAWGAIKKMI  193 (195)
T ss_dssp             THHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHh
Confidence            9999999998765

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=99.93  E-value=1.3e-25  Score=161.24  Aligned_cols=151  Identities=17%  Similarity=0.177  Sum_probs=114.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh------hhhHhHhc--CCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR------AVTSAYYR--GAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~   72 (206)
                      |+|++|||||||+++|++..+.....++.+.......+..+  +..+.+|||||++.+.      .++..++.  .+|++
T Consensus        12 lvG~~gvGKStL~~~l~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~   89 (188)
T 2wjg_A           12 LIGNPNVGKSTIFNALTGENVYIGNWPGVTVEKKEGEFEYN--GEKFKVVDLPGVYSLTANSIDEIIARDYIINEKPDLV   89 (188)
T ss_dssp             EECSTTSSHHHHHHHHHTTCEEEEECTTSCCEEEEEEEEET--TEEEEEEECCCCSCCSSSSHHHHHHHHHHHHHCCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCccccCCCCeeccceEEEEEeC--CcEEEEEECCCcCccccccHHHHHHHHHHhccCCCEE
Confidence            58999999999999999876554444544444444445444  4779999999987764      34556664  59999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      ++|+|.++   ++....|+..+..   .+.|+++++||+|+...+.+. .+...++..++++++++||+++.|++++|++
T Consensus        90 i~v~d~~~---~~~~~~~~~~~~~---~~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~  162 (188)
T 2wjg_A           90 VNIVDATA---LERNLYLTLQLME---MGANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKA  162 (188)
T ss_dssp             EEEEEGGG---HHHHHHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHH
T ss_pred             EEEecchh---HHHHHHHHHHHHh---cCCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHH
Confidence            99999986   4455667666654   468999999999986544433 3567788888999999999999999999999


Q ss_pred             HHHHHHHH
Q 040835          153 VLTEIYRI  160 (206)
Q Consensus       153 l~~~i~~~  160 (206)
                      +.+.+...
T Consensus       163 i~~~~~~~  170 (188)
T 2wjg_A          163 ISIAVKDK  170 (188)
T ss_dssp             HHHHHTTC
T ss_pred             HHHHHHhc
Confidence            99877543

>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=99.93  E-value=2.8e-25  Score=171.37  Aligned_cols=153  Identities=20%  Similarity=0.148  Sum_probs=117.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe-EEEEEEEeCCCchh----------hhhhhHhHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK-NVKAQIWDTAGQER----------YRAVTSAYYRGA   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~i~D~~G~~~----------~~~~~~~~~~~~   69 (206)
                      |+|.+|||||||+|+|++..+......+ +++........... ...+.+|||||...          +......+++.+
T Consensus        15 ivG~~nvGKSTLin~l~g~~~~i~s~~~-~tT~~~~~~~~~~~~~~~i~lvDTPG~~~~~~~~~l~~~~~~~~~~~l~~a   93 (308)
T 3iev_A           15 IVGKPNVGKSTLLNNLLGTKVSIISPKA-GTTRMRVLGVKNIPNEAQIIFLDTPGIYEPKKSDVLGHSMVEIAKQSLEEA   93 (308)
T ss_dssp             EECSTTSSHHHHHHHHHTSCCSCCCSSS-CCCCSCEEEEEEETTTEEEEEEECCCCCCCCTTCHHHHHHHHHHHHHHHHC
T ss_pred             EECCCCCcHHHHHHHHhCCCccccCCCC-CceeeEEEEEEecCCCCeEEEEECcCCCccccchhHHHHHHHHHHHHhhcC
Confidence            5899999999999999998876443222 22222222222223 57899999999743          335667788999


Q ss_pred             cEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCCCHH
Q 040835           70 VGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALESTNVE  147 (206)
Q Consensus        70 d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~  147 (206)
                      |++++|+|++++.+......|+..+..   .+.|+++|+||+|+.............+...++  .+++++||+++.|++
T Consensus        94 D~il~VvD~~~~~~~~~~~~~~~~l~~---~~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~  170 (308)
T 3iev_A           94 DVILFMIDATEGWRPRDEEIYQNFIKP---LNKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLD  170 (308)
T ss_dssp             SEEEEEEETTTBSCHHHHHHHHHHTGG---GCCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHH
T ss_pred             CEEEEEEeCCCCCCchhHHHHHHHHHh---cCCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHH
Confidence            999999999998877777777777665   368999999999997434555667777877775  789999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          148 LAFLTVLTEI  157 (206)
Q Consensus       148 ~~~~~l~~~i  157 (206)
                      ++|+++.+.+
T Consensus       171 ~L~~~l~~~l  180 (308)
T 3iev_A          171 ELVKTILKYL  180 (308)
T ss_dssp             HHHHHHHHHS
T ss_pred             HHHHHHHHhC
Confidence            9999998776

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=99.92  E-value=4.5e-25  Score=154.42  Aligned_cols=146  Identities=16%  Similarity=0.153  Sum_probs=101.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchh-------hhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------YRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~~   72 (206)
                      |+|++|+|||||+++|.+..+.. ...++.+.......+..++  ..+.+|||||...       +...+..+++.+|++
T Consensus         6 v~G~~~~GKSsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~   83 (161)
T 2dyk_A            6 IVGRPNVGKSSLFNRLLKKRSAVVADVPGVTRDLKEGVVETDR--GRFLLVDTGGLWSGDKWEKKIQEKVDRALEDAEVV   83 (161)
T ss_dssp             EECCTTSSHHHHHHHHHHCCC-----------CCEEEEEEETT--EEEEEEECGGGCSSSSCCHHHHHHHHHHTTTCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCeeeccCCCCceecceEEEEEeCC--ceEEEEECCCCCCccchHHHHHHHHHHHHHhCCEE
Confidence            58999999999999999887542 2233333344444444444  4789999999876       455567788999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|++++.+... ..+...+..   .+.|+++|+||+|+...    .++..+++ ..++ +++++||+++.|++++|+
T Consensus        84 i~v~d~~~~~~~~~-~~~~~~~~~---~~~p~ilv~nK~Dl~~~----~~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~  154 (161)
T 2dyk_A           84 LFAVDGRAELTQAD-YEVAEYLRR---KGKPVILVATKVDDPKH----ELYLGPLY-GLGFGDPIPTSSEHARGLEELLE  154 (161)
T ss_dssp             EEEEESSSCCCHHH-HHHHHHHHH---HTCCEEEEEECCCSGGG----GGGCGGGG-GGSSCSCEECBTTTTBSHHHHHH
T ss_pred             EEEEECCCcccHhH-HHHHHHHHh---cCCCEEEEEECcccccc----hHhHHHHH-hCCCCCeEEEecccCCChHHHHH
Confidence            99999998543321 112222222   36899999999999653    23334455 5677 799999999999999999


Q ss_pred             HHHHHH
Q 040835          152 TVLTEI  157 (206)
Q Consensus       152 ~l~~~i  157 (206)
                      ++.+.+
T Consensus       155 ~l~~~l  160 (161)
T 2dyk_A          155 AIWERL  160 (161)
T ss_dssp             HHHHHC
T ss_pred             HHHHhC
Confidence            998754

>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=99.92  E-value=9.7e-26  Score=160.06  Aligned_cols=147  Identities=21%  Similarity=0.231  Sum_probs=106.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh------h--hHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA------V--TSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~--~~~~~~~~d~   71 (206)
                      |+|++|||||||+++|.+..... ...++.+.......+.+++  ..+.+|||||++.+..      .  ...+++.+|+
T Consensus         9 ivG~~g~GKStLl~~l~~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~ad~   86 (172)
T 2gj8_A            9 IAGRPNAGKSSLLNALAGREAAIVTDIAGTTRDVLREHIHIDG--MPLHIIDTAGLREASDEVERIGIERAWQEIEQADR   86 (172)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCSCCCSSTTCCCSCEEEEEEETT--EEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSE
T ss_pred             EECCCCCCHHHHHHHHhCCCcceeeCCCCceeceeeEEEEECC--eEEEEEECCCcccchhHHHHHHHHHHHHHHHhCCE
Confidence            58999999999999999876432 2233334444455556655  4589999999864211      1  1246789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.++. ...|+..+......++|+++|+||+|+.....       .++...+.+++++||+++.|++++|.
T Consensus        87 ~i~v~D~~~~~s~~-~~~~~~~~~~~~~~~~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv~~l~~  158 (172)
T 2gj8_A           87 VLFMVDGTTTDAVD-PAEIWPEFIARLPAKLPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGVDVLRN  158 (172)
T ss_dssp             EEEEEETTTCCCCS-HHHHCHHHHHHSCTTCCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTHHHHHH
T ss_pred             EEEEEECCCCCCHH-HHHHHHHHHHhcccCCCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCHHHHHH
Confidence            99999999987765 34676666655545799999999999853211       11122467899999999999999999


Q ss_pred             HHHHHH
Q 040835          152 TVLTEI  157 (206)
Q Consensus       152 ~l~~~i  157 (206)
                      ++.+.+
T Consensus       159 ~l~~~~  164 (172)
T 2gj8_A          159 HLKQSM  164 (172)
T ss_dssp             HHHHHC
T ss_pred             HHHHHh
Confidence            998765

>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=99.92  E-value=3e-25  Score=168.03  Aligned_cols=147  Identities=20%  Similarity=0.210  Sum_probs=112.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh------hhhHhHhc--CCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR------AVTSAYYR--GAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~------~~~~~~~~--~~d~~   72 (206)
                      ++|++|||||||+|+|++........+  +.++......+.. ...+.+|||||+..+.      .+.+.++.  .+|++
T Consensus         8 lvG~~nvGKSTL~n~L~g~~~~v~~~p--g~tv~~~~~~~~~-~~~l~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~v   84 (272)
T 3b1v_A            8 LIGNPNSGKTSLFNLITGHNQRVGNWP--GVTVERKSGLVKK-NKDLEIQDLPGIYSMSPYSPEAKVARDYLLSQRADSI   84 (272)
T ss_dssp             EECCTTSSHHHHHHHHHCCCCCCCSSS--CCCCSCEEEECTT-CTTEEEEECCCCSCSSCSSHHHHHHHHHHHTTCCSEE
T ss_pred             EECCCCCCHHHHHHHHHCCCCcccCCC--CCcEEEEEEEEec-CCeEEEEECCCcCccCCCChHHHHHHHHHhcCCCCEE
Confidence            589999999999999999765444434  3444445555555 6789999999987764      45566665  69999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.+..   ..|...+..   .++|+++++||+|+...+.+. .+...++..++++++++||+++.|++++|.+
T Consensus        85 i~V~D~t~~e~~---~~~~~~l~~---~~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~  157 (272)
T 3b1v_A           85 LNVVDATNLERN---LYLTTQLIE---TGIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKK  157 (272)
T ss_dssp             EEEEEGGGHHHH---HHHHHHHHH---TCSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHH
T ss_pred             EEEecCCchHhH---HHHHHHHHh---cCCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHH
Confidence            999999986543   345555544   479999999999986434433 3567788888999999999999999999999


Q ss_pred             HHHHH
Q 040835          153 VLTEI  157 (206)
Q Consensus       153 l~~~i  157 (206)
                      +.+.+
T Consensus       158 i~~~~  162 (272)
T 3b1v_A          158 AAHTT  162 (272)
T ss_dssp             HHHSC
T ss_pred             HHHHH
Confidence            98654

>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=99.92  E-value=9.9e-25  Score=164.25  Aligned_cols=149  Identities=18%  Similarity=0.146  Sum_probs=112.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh------hhHhHh--cCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA------VTSAYY--RGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~~   72 (206)
                      |+|.+|||||||+++|++..+.....+.  .+.......+......+.+|||||...+..      +...++  ..+|++
T Consensus        10 lvG~~nvGKTsL~n~l~g~~~~~~~~pg--~tv~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~e~v~~~~~~~~~~d~i   87 (258)
T 3a1s_A           10 LAGCPNVGKTSLFNALTGTKQYVANWPG--VTVEKKEGVFTYKGYTINLIDLPGTYSLGYSSIDEKIARDYLLKGDADLV   87 (258)
T ss_dssp             EECCTTSSHHHHHHHHHTTCEEEEECTT--SCCEEEEEEEEETTEEEEEEECCCCSSCCSSSHHHHHHHHHHHHSCCSEE
T ss_pred             EECCCCCCHHHHHHHHHCCCCcccCCCC--ceEEEEEEEEEECCeEEEEEECCCcCccCCCCHHHHHHHHHHhhcCCCEE
Confidence            5899999999999999997765444443  344444444433457899999999876654      335555  589999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.++.   ..|...+..   .++|+++++||+|+...+.+. .+...++..++++++++||+++.|++++|++
T Consensus        88 i~V~D~t~~~~~---~~~~~~l~~---~~~pvilv~NK~Dl~~~~~i~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~  160 (258)
T 3a1s_A           88 ILVADSVNPEQS---LYLLLEILE---MEKKVILAMTAIDEAKKTGMK-IDRYELQKHLGIPVVFTSSVTGEGLEELKEK  160 (258)
T ss_dssp             EEEEETTSCHHH---HHHHHHHHT---TTCCEEEEEECHHHHHHTTCC-BCHHHHHHHHCSCEEECCTTTCTTHHHHHHH
T ss_pred             EEEeCCCchhhH---HHHHHHHHh---cCCCEEEEEECcCCCCccchH-HHHHHHHHHcCCCEEEEEeeCCcCHHHHHHH
Confidence            999999986543   235555544   369999999999986544443 2467888889999999999999999999999


Q ss_pred             HHHHHH
Q 040835          153 VLTEIY  158 (206)
Q Consensus       153 l~~~i~  158 (206)
                      +.+.+.
T Consensus       161 i~~~~~  166 (258)
T 3a1s_A          161 IVEYAQ  166 (258)
T ss_dssp             HHHHHH
T ss_pred             HHHHhh
Confidence            987653

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=99.92  E-value=9.3e-26  Score=186.11  Aligned_cols=156  Identities=23%  Similarity=0.279  Sum_probs=117.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEE------EEE--CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKT------LVI--HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~------~~~--~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+++|++..+.....++.+.++....      +.+  ++..+.+.+||+||++.+...+..+++.+|++
T Consensus        46 lvG~~~vGKSSLl~~l~~~~~~~~~~~t~g~~~~~~~~~~~~~v~~~~~~~~~~~~i~Dt~G~e~~~~~~~~~l~~~d~i  125 (535)
T 3dpu_A           46 LIGDGMAGKTSLLKQLIGETFDPKESQTHGLNVVTKQAPNIKGLENDDELKECLFHFWDFGGQEIMHASHQFFMTRSSVY  125 (535)
T ss_dssp             EESSSCSSHHHHHHHHHC-----------CCCEEEEEGGGSGGGTTCSTTTTCEEEEECCCSCCTTTTTCHHHHHSSEEE
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCCCCCccceEEEEeccccccceeecCCCceEEEEEEECCcHHHHHHHHHHHccCCcEE
Confidence            5899999999999999999988778888777666432      111  23468899999999999999999999999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.   +.+..|+..+.... .+.|+++|+||+|+...+.+..++...++...+++++++||+++.|++++|..
T Consensus       126 i~V~D~s~~---~~~~~~~~~l~~~~-~~~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~  201 (535)
T 3dpu_A          126 MLLLDSRTD---SNKHYWLRHIEKYG-GKSPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKS  201 (535)
T ss_dssp             EEEECGGGG---GGHHHHHHHHHHHS-SSCCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----CTTHHHH
T ss_pred             EEEEeCCCc---hhHHHHHHHHHHhC-CCCCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCHHHHHHH
Confidence            999999875   44567877777665 46999999999999877778888889998889999999999999999999999


Q ss_pred             HHHHHHHH
Q 040835          153 VLTEIYRI  160 (206)
Q Consensus       153 l~~~i~~~  160 (206)
                      +.+.+.+.
T Consensus       202 l~~~~~~~  209 (535)
T 3dpu_A          202 LKSAVLHP  209 (535)
T ss_dssp             HHHHHTCT
T ss_pred             HHHHHhcc
Confidence            99877553

>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=99.92  E-value=2.9e-25  Score=166.96  Aligned_cols=147  Identities=16%  Similarity=0.156  Sum_probs=109.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----------hhHhHh--cC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----------VTSAYY--RG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~   68 (206)
                      |+|.+|||||||+|+|++........++.+.......+..++  ..+.+|||||...+..          +...++  ..
T Consensus         6 lvG~~n~GKSTL~n~L~g~~~~v~~~pg~Tv~~~~~~~~~~~--~~~~lvDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~   83 (256)
T 3iby_A            6 LIGNPNCGKTTLFNALTNANQRVGNWPGVTVEKKTGEFLLGE--HLIEITDLPGVYSLVANAEGISQDEQIAAQSVIDLE   83 (256)
T ss_dssp             EEESTTSSHHHHHHHHHTTSEEEEECTTSSSEEEEEEEEETT--EEEEEEECCCCSSCC------CHHHHHHHHHHHHSC
T ss_pred             EECCCCCCHHHHHHHHHCCCCCccCCCCceEEEEEEEEEECC--eEEEEEeCCCcccccccccCCCHHHHHHHHHHhhCC
Confidence            589999999999999999876555555544444444555544  4789999999866543          456677  89


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      +|++|+|+|+++.+....+.   ..+..   .+.|+++++||+|+...+... .....+....+++++++||+++.|+++
T Consensus        84 ~d~vi~VvDas~~~~~~~l~---~~l~~---~~~pvilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~e  156 (256)
T 3iby_A           84 YDCIINVIDACHLERHLYLT---SQLFE---LGKPVVVALNMMDIAEHRGIS-IDTEKLESLLGCSVIPIQAHKNIGIPA  156 (256)
T ss_dssp             CSEEEEEEEGGGHHHHHHHH---HHHTT---SCSCEEEEEECHHHHHHTTCE-ECHHHHHHHHCSCEEECBGGGTBSHHH
T ss_pred             CCEEEEEeeCCCchhHHHHH---HHHHH---cCCCEEEEEEChhcCCcCCcH-HHHHHHHHHcCCCEEEEECCCCCCHHH
Confidence            99999999999865544333   23333   479999999999986433322 224567778899999999999999999


Q ss_pred             HHHHHHHH
Q 040835          149 AFLTVLTE  156 (206)
Q Consensus       149 ~~~~l~~~  156 (206)
                      +|.++.+.
T Consensus       157 l~~~i~~~  164 (256)
T 3iby_A          157 LQQSLLHC  164 (256)
T ss_dssp             HHHHHHTC
T ss_pred             HHHHHHhh
Confidence            99999764

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=99.91  E-value=4.9e-24  Score=153.62  Aligned_cols=149  Identities=18%  Similarity=0.221  Sum_probs=106.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC----------chhhhhhhHhHhcCC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG----------QERYRAVTSAYYRGA-   69 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~~~~~~~-   69 (206)
                      |+|.+|||||||+++|++.... ...++.+.+........+   ..+.+|||||          .+.+...+..+++.+ 
T Consensus        28 v~G~~~~GKSsli~~l~~~~~~-~~~~~~~~t~~~~~~~~~---~~~~i~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~  103 (195)
T 3pqc_A           28 FVGRSNVGKSSLLNALFNRKIA-FVSKTPGKTRSINFYLVN---SKYYFVDLPGYGYAKVSKKERMLWKRLVEDYFKNRW  103 (195)
T ss_dssp             EEEBTTSSHHHHHHHHHTSCCS-CCCSSCCCCCCEEEEEET---TTEEEEECCCBSSSCCCHHHHHHHHHHHHHHHHHCT
T ss_pred             EECCCCCCHHHHHHHHHcCccc-cccCCCCCccCeEEEEEC---CcEEEEECCCCccccCChhhHHHHHHHHHHHHhcCc
Confidence            5899999999999999998743 333444544444333333   3578999999          667777777777766 


Q ss_pred             --cEEEEEeeCCChhhH--HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHc-CCeEEEeccCC
Q 040835           70 --VGAMLVYDITKRQSF--DNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEKE-GLCFMETSALE  142 (206)
Q Consensus        70 --d~~i~v~d~~~~~s~--~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~-~~~~~~~Sa~~  142 (206)
                        |++++|+|+++..+.  ..+..|+..      .+.|+++|+||+|+.....  ...+++..++... +++++++||++
T Consensus       104 ~~~~vi~v~d~~~~~~~~~~~~~~~~~~------~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  177 (195)
T 3pqc_A          104 SLQMVFLLVDGRIPPQDSDLMMVEWMKS------LNIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVT  177 (195)
T ss_dssp             TEEEEEEEEETTSCCCHHHHHHHHHHHH------TTCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTT
T ss_pred             CceEEEEEecCCCCCCHHHHHHHHHHHH------cCCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCC
Confidence              999999999875433  223334332      2689999999999864222  2234455566554 47899999999


Q ss_pred             CCCHHHHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTEIYR  159 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~~  159 (206)
                      +.|++++|+++.+.+.+
T Consensus       178 ~~gv~~l~~~l~~~l~~  194 (195)
T 3pqc_A          178 GEGISELLDLISTLLKE  194 (195)
T ss_dssp             CTTHHHHHHHHHHHHC-
T ss_pred             CCCHHHHHHHHHHHhhc
Confidence            99999999999987743

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=99.90  E-value=4.1e-24  Score=157.46  Aligned_cols=156  Identities=17%  Similarity=0.136  Sum_probs=105.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC-CeEEEEEEEeCCC----------chhhhhhhHhHhcC-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH-HKNVKAQIWDTAG----------QERYRAVTSAYYRG-   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~i~D~~G----------~~~~~~~~~~~~~~-   68 (206)
                      |+|.+|+|||||+++|++...........+.+......... .....+.+|||||          .+.+......++.. 
T Consensus        34 v~G~~~~GKSslin~l~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~~~  113 (223)
T 4dhe_A           34 FAGRSNAGKSTAINVLCNQKRLAFASKTPGRTQHINYFSVGPAAEPVAHLVDLPGYGYAEVPGAAKAHWEQLLSSYLQTR  113 (223)
T ss_dssp             EEESCHHHHHHHHHHHTTCSSSSCTTCCCCSCCCEEEEEESCTTSCSEEEEECCCCCSSCCCSTHHHHHHHHHHHHHHHC
T ss_pred             EEcCCCCCHHHHHHHHhCCCcceeecCCCCcccceEEEEecCCCCCcEEEEcCCCCCcccCChhhHHHHHHHHHHHHhcC
Confidence            58999999999999999987322222222344444444444 4457799999999          35556666667665 


Q ss_pred             --CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHH-------cCCeEEE
Q 040835           69 --AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TEDAKEFAEK-------EGLCFME  137 (206)
Q Consensus        69 --~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~-------~~~~~~~  137 (206)
                        +|++|+|+|+++..+. ....|+..+..   .++|+++|+||+|+.......  .+++......       .+.++++
T Consensus       114 ~~~d~vi~v~d~~~~~~~-~~~~~~~~l~~---~~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~  189 (223)
T 4dhe_A          114 PQLCGMILMMDARRPLTE-LDRRMIEWFAP---TGKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQL  189 (223)
T ss_dssp             TTEEEEEEEEETTSCCCH-HHHHHHHHHGG---GCCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEE
T ss_pred             cCcCEEEEEEeCCCCCCH-HHHHHHHHHHh---cCCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEE
Confidence              7889999999875432 22334444444   468999999999986422211  1222222222       4568999


Q ss_pred             eccCCCCCHHHHHHHHHHHHHHH
Q 040835          138 TSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       138 ~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +||+++.|++++|.+|.+.+...
T Consensus       190 ~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          190 FSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             EBTTTTBSHHHHHHHHHHHHC--
T ss_pred             eecCCCcCHHHHHHHHHHhcCcc
Confidence            99999999999999999887544

>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=99.90  E-value=1e-23  Score=160.00  Aligned_cols=150  Identities=19%  Similarity=0.131  Sum_probs=111.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh------hhHhHh--cCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA------VTSAYY--RGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~------~~~~~~--~~~d~~   72 (206)
                      |+|++|||||||+++|++..+.....++.+.......+...+  ..+.+|||||...+..      ....++  ..+|++
T Consensus         8 lvG~~g~GKTTL~n~l~g~~~~~~~~~~~t~~~~~~~~~~~~--~~~~l~DtpG~~~~~~~~~~~~~~~~~~~~~~~d~v   85 (271)
T 3k53_A            8 LVGNPNVGKTTIFNALTGLRQHVGNWPGVTVEKKEGIMEYRE--KEFLVVDLPGIYSLTAHSIDELIARNFILDGNADVI   85 (271)
T ss_dssp             EEECSSSSHHHHHHHHHTTCEEEEECTTSSCEEEEEEEEETT--EEEEEEECCCCSCCCSSCHHHHHHHHHHHTTCCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCcccCCCCCeEEEeeEEEEEECC--ceEEEEeCCCccccccCCHHHHHHHHhhhccCCcEE
Confidence            589999999999999999877544555544444444444443  4589999999877655      455666  789999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|+++.+   ....|...+....  ..|+++++||+|+...+.... ....+.+.++++++++||+++.|++++|..
T Consensus        86 i~v~D~~~~~---~~~~~~~~~~~~~--~~p~ilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~  159 (271)
T 3k53_A           86 VDIVDSTCLM---RNLFLTLELFEME--VKNIILVLNKFDLLKKKGAKI-DIKKMRKELGVPVIPTNAKKGEGVEELKRM  159 (271)
T ss_dssp             EEEEEGGGHH---HHHHHHHHHHHTT--CCSEEEEEECHHHHHHHTCCC-CHHHHHHHHSSCEEECBGGGTBTHHHHHHH
T ss_pred             EEEecCCcch---hhHHHHHHHHhcC--CCCEEEEEEChhcCcccccHH-HHHHHHHHcCCcEEEEEeCCCCCHHHHHHH
Confidence            9999999863   2233333444321  389999999999754233222 267788888999999999999999999999


Q ss_pred             HHHHHH
Q 040835          153 VLTEIY  158 (206)
Q Consensus       153 l~~~i~  158 (206)
                      +.+.+.
T Consensus       160 i~~~~~  165 (271)
T 3k53_A          160 IALMAE  165 (271)
T ss_dssp             HHHHHH
T ss_pred             HHHHHh
Confidence            987753

>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=99.90  E-value=2.6e-24  Score=163.42  Aligned_cols=148  Identities=15%  Similarity=0.156  Sum_probs=106.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----------hhHhHh--cC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----------VTSAYY--RG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----------~~~~~~--~~   68 (206)
                      |+|.+|+|||||+|+|++..+.....++.+.......+.  ..+..+.+|||||...+..          .+..++  ..
T Consensus         8 lvG~~n~GKSTLin~l~g~~~~v~~~~g~t~~~~~~~~~--~~~~~~~liDtpG~~~~~~~~~~~~~~e~i~~~~~~~~~   85 (274)
T 3i8s_A            8 LIGNPNSGKTTLFNQLTGSRQRVGNWAGVTVERKEGQFS--TTDHQVTLVDLPGTYSLTTISSQTSLDEQIACHYILSGD   85 (274)
T ss_dssp             EEECTTSSHHHHHHHHHTTCEEEEECTTSSSEEEEEEEE--CSSCEEEEEECCCCSCSCC----CCHHHHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHhCCCcccCCCCCeeEEEEEEEEE--eCCCceEEEECcCCCccccccccCCHHHHHHHHHHhhcC
Confidence            589999999999999999876444444433333333333  3346789999999876552          233333  79


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      +|++|+|+|+++.+....+.   ..+...   ++|+++|+||+|+...+... .....+...++++++++||+++.|+++
T Consensus        86 ~d~ii~VvD~~~~~~~~~~~---~~l~~~---~~p~ivv~NK~Dl~~~~~~~-~~~~~l~~~lg~~~i~~SA~~g~gi~e  158 (274)
T 3i8s_A           86 ADLLINVVDASNLERNLYLT---LQLLEL---GIPCIVALNMLDIAEKQNIR-IEIDALSARLGCPVIPLVSTRGRGIEA  158 (274)
T ss_dssp             CSEEEEEEEGGGHHHHHHHH---HHHHHH---TCCEEEEEECHHHHHHTTEE-ECHHHHHHHHTSCEEECCCGGGHHHHH
T ss_pred             CCEEEEEecCCChHHHHHHH---HHHHhc---CCCEEEEEECccchhhhhHH-HHHHHHHHhcCCCEEEEEcCCCCCHHH
Confidence            99999999999865543333   333332   69999999999986433321 235677788899999999999999999


Q ss_pred             HHHHHHHHH
Q 040835          149 AFLTVLTEI  157 (206)
Q Consensus       149 ~~~~l~~~i  157 (206)
                      +|.++.+.+
T Consensus       159 l~~~i~~~~  167 (274)
T 3i8s_A          159 LKLAIDRYK  167 (274)
T ss_dssp             HHHHHHTCC
T ss_pred             HHHHHHHHH
Confidence            999887654

>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=99.89  E-value=2.8e-24  Score=157.86  Aligned_cols=136  Identities=19%  Similarity=0.278  Sum_probs=100.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC---CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcC----CcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD---SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG----AVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~~i   73 (206)
                      |+|++|+|||||+++|.+..+...   +.++.+.         ......+.+|||||++.+...+..+++.    +|++|
T Consensus        17 ~~G~~g~GKTsl~~~l~~~~~~~~~~~~~~~~~~---------~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i   87 (218)
T 1nrj_B           17 IAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSAA---------DYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLI   87 (218)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCCBCCCSSCEEET---------TGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEE
T ss_pred             EECCCCCCHHHHHHHHhcCCCCCeeeecCceEEE---------EeeCceEEEEECCCcHHHHHHHHHHHHhccccCCEEE
Confidence            589999999999999999876542   3333222         1245678999999999998888888877    89999


Q ss_pred             EEeeCC-ChhhHHHHHHHHHHHHhc----CCCCCcEEEEEeCCCCCcCCCCC------HHHHHHHHHHcCCeEEEeccCC
Q 040835           74 LVYDIT-KRQSFDNVARWLEELRGH----ADKNIIIMLVGNKSDLETLRAVP------TEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus        74 ~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                      +|+|++ ++.++..+..|+..+...    ...++|+++|+||+|+...+.+.      .+++..++...+++++++|+++
T Consensus        88 ~v~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~  167 (218)
T 1nrj_B           88 FMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKI  167 (218)
T ss_dssp             EEEETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHC-----
T ss_pred             EEEECCCChHHHHHHHHHHHHHHhcccccccCCCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcccccccccc
Confidence            999999 888888888887776543    33579999999999997655433      4456677777778899999998


Q ss_pred             CCC
Q 040835          143 STN  145 (206)
Q Consensus       143 ~~~  145 (206)
                      +.+
T Consensus       168 ~~~  170 (218)
T 1nrj_B          168 NEE  170 (218)
T ss_dssp             ---
T ss_pred             ccc
Confidence            865

>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=99.89  E-value=1.3e-23  Score=161.36  Aligned_cols=148  Identities=18%  Similarity=0.165  Sum_probs=102.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchh--------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++..+.... .+..+...  ...........+.+|||||...        +......+++.+|+
T Consensus        12 ivG~~nvGKSTLln~l~g~~~~ivs~~~~tTr~~--i~~i~~~~~~~l~l~DTpG~~~~~~~l~~~~~~~~~~~l~~ad~   89 (301)
T 1wf3_A           12 IVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKR--LRGILTEGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNA   89 (301)
T ss_dssp             EECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSC--EEEEEEETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSE
T ss_pred             EECCCCCCHHHHHHHHhCCceeeecCCCCceeEE--EEEEEEeCCcEEEEecCccccchhhHHHHHHHHHHHHHHhcCCE
Confidence            5899999999999999998875432 22211121  1111223357899999999765        45566778999999


Q ss_pred             EEEEeeCCChhhHHHHHHHH-HHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCHHH
Q 040835           72 AMLVYDITKRQSFDNVARWL-EELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNVEL  148 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~-~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~  148 (206)
                      +++|+|++++.+..  ..|+ ..+.... .++|+++|+||+|+.....    +.......+  ..+++++||+++.|+++
T Consensus        90 il~VvD~~~~~~~~--~~~i~~~l~~~~-~~~p~ilV~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~iSA~~g~gv~~  162 (301)
T 1wf3_A           90 VVWVVDLRHPPTPE--DELVARALKPLV-GKVPILLVGNKLDAAKYPE----EAMKAYHELLPEAEPRMLSALDERQVAE  162 (301)
T ss_dssp             EEEEEETTSCCCHH--HHHHHHHHGGGT-TTSCEEEEEECGGGCSSHH----HHHHHHHHTSTTSEEEECCTTCHHHHHH
T ss_pred             EEEEEECCCCCChH--HHHHHHHHHhhc-CCCCEEEEEECcccCCchH----HHHHHHHHhcCcCcEEEEeCCCCCCHHH
Confidence            99999998764433  3343 3444432 4699999999999864221    123333333  34799999999999999


Q ss_pred             HHHHHHHHH
Q 040835          149 AFLTVLTEI  157 (206)
Q Consensus       149 ~~~~l~~~i  157 (206)
                      +|+.+.+.+
T Consensus       163 l~~~l~~~l  171 (301)
T 1wf3_A          163 LKADLLALM  171 (301)
T ss_dssp             HHHHHHTTC
T ss_pred             HHHHHHHhc
Confidence            999987654

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=99.89  E-value=1.5e-22  Score=159.12  Aligned_cols=156  Identities=19%  Similarity=0.246  Sum_probs=112.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh---------hhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR---------AVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+++|.+........+..+.......+...  ...+.+|||||...+.         .....+...+|+
T Consensus       172 lvG~~gvGKSTLin~L~~~~~~~~~~~~~t~~~~~~~~~~~--~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad~  249 (357)
T 2e87_A          172 IAGHPNVGKSTLLKALTTAKPEIASYPFTTRGINVGQFEDG--YFRYQIIDTPGLLDRPISERNEIEKQAILALRYLGNL  249 (357)
T ss_dssp             EECSTTSSHHHHHHHHCSSCCEEECCTTCSSCEEEEEEEET--TEEEEEEECTTTSSSCSTTSCHHHHHHHHGGGGTCSE
T ss_pred             EECCCCCCHHHHHHHHhCCCCccCCCCCeeeceeEEEEEec--CceEEEEeCCCccccchhhhhHHHHHHHHHHHhcCCE
Confidence            58999999999999999876432222222222222222222  4678999999974321         112244567999


Q ss_pred             EEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           72 AMLVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        72 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      +++|+|+++..  ++.....|+..+..... +.|+++|+||+|+.....  .++...++...+++++++||++|+|++++
T Consensus       250 illV~D~s~~~~~~~~~~~~~~~~i~~~~~-~~piilV~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~iSA~~g~gi~~l  326 (357)
T 2e87_A          250 IIYIFDPSEHCGFPLEEQIHLFEEVHGEFK-DLPFLVVINKIDVADEEN--IKRLEKFVKEKGLNPIKISALKGTGIDLV  326 (357)
T ss_dssp             EEEEECTTCTTSSCHHHHHHHHHHHHHHTT-TSCEEEEECCTTTCCHHH--HHHHHHHHHHTTCCCEECBTTTTBTHHHH
T ss_pred             EEEEEeCCccccCCHHHHHHHHHHHHHhcC-CCCEEEEEECcccCChHH--HHHHHHHHHhcCCCeEEEeCCCCcCHHHH
Confidence            99999998876  67777788888776543 799999999999864222  24456666777899999999999999999


Q ss_pred             HHHHHHHHHHHh
Q 040835          150 FLTVLTEIYRIV  161 (206)
Q Consensus       150 ~~~l~~~i~~~~  161 (206)
                      |+++.+.+....
T Consensus       327 ~~~i~~~l~~~~  338 (357)
T 2e87_A          327 KEEIIKTLRPLA  338 (357)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHH
Confidence            999999886543

>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=99.89  E-value=2.4e-23  Score=168.52  Aligned_cols=151  Identities=17%  Similarity=0.151  Sum_probs=92.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhh--------HhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVT--------SAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++.... ....++.+.+.....+.+++  ..+.+|||||.+.+...+        ..+++.+|+
T Consensus       238 ivG~~nvGKSSLln~L~~~~~a~vs~~~gtT~d~~~~~i~~~g--~~l~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~  315 (476)
T 3gee_A          238 IAGKPNAGKSTLLNTLLGQERAIVSHMPGTTRDYIEECFIHDK--TMFRLTDTAGLREAGEEIEHEGIRRSRMKMAEADL  315 (476)
T ss_dssp             EECCTTSSHHHHHHHCC------------------CEEEEETT--EEEEEEC--------------------CCCSSCSE
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCCceEEEEEEEEEECC--eEEEEEECCCCCcchhHHHHHHHHHHHhhcccCCE
Confidence            5899999999999999997643 22233323333334444444  679999999987765433        346789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +|+|+|++++.++..+..+...+....  ++|+++|+||+|+......   ....+......+++++||+++.|++++|+
T Consensus       316 vl~VvD~s~~~s~~~~~~~~~~l~~l~--~~piIvV~NK~Dl~~~~~~---~~~~l~~~~~~~~i~vSAktg~GI~eL~~  390 (476)
T 3gee_A          316 ILYLLDLGTERLDDELTEIRELKAAHP--AAKFLTVANKLDRAANADA---LIRAIADGTGTEVIGISALNGDGIDTLKQ  390 (476)
T ss_dssp             EEEEEETTTCSSGGGHHHHHHHHHHCT--TSEEEEEEECTTSCTTTHH---HHHHHHHHHTSCEEECBTTTTBSHHHHHH
T ss_pred             EEEEEECCCCcchhhhHHHHHHHHhcC--CCCEEEEEECcCCCCccch---hHHHHHhcCCCceEEEEECCCCCHHHHHH
Confidence            999999999877653333333333332  6999999999999653332   22334443246899999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      ++.+.+.
T Consensus       391 ~i~~~~~  397 (476)
T 3gee_A          391 HMGDLVK  397 (476)
T ss_dssp             HHTHHHH
T ss_pred             HHHHHHh
Confidence            9988775

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.89  E-value=5.1e-23  Score=165.82  Aligned_cols=154  Identities=18%  Similarity=0.165  Sum_probs=108.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCc----------hhhhhhhH-hHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----------ERYRAVTS-AYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~----------~~~~~~~~-~~~~~   68 (206)
                      |+|.+|||||||+|+|++.... ....++.+.+.....+..++  ..+.+|||||+          +.|..... .+++.
T Consensus       180 lvG~~nvGKSSLin~l~~~~~~~~~~~~gtT~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~  257 (436)
T 2hjg_A          180 LIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ--QEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR  257 (436)
T ss_dssp             EECSTTSSHHHHHHHHHTSTTEEEC---------CCEEEEETT--EEEEETTHHHHTCBTTBCCCCSHHHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHhCCCceeecCCCCceeeeeEEEEEECC--eEEEEEECCCcCcCccccchHHHHHHHHHHHHHHh
Confidence            5899999999999999998763 22223323333333444444  45899999997          55554443 47889


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-HHHH----cCCeEEEeccCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE-FAEK----EGLCFMETSALES  143 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~~Sa~~~  143 (206)
                      +|++|+|+|++++.+.... .|+..+..   .++|+++++||+|+...+....++... +...    .+++++++||++|
T Consensus       258 ad~~llv~D~~~~~s~~~~-~~~~~~~~---~~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg  333 (436)
T 2hjg_A          258 SEVVAVVLDGEEGIIEQDK-RIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTK  333 (436)
T ss_dssp             CSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTC
T ss_pred             CCEEEEEEcCCcCCcHHHH-HHHHHHHH---cCCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccC
Confidence            9999999999998776654 46655554   469999999999997655544333332 2222    3679999999999


Q ss_pred             CCHHHHHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTEIYRI  160 (206)
Q Consensus       144 ~~v~~~~~~l~~~i~~~  160 (206)
                      .|++++|..+.+.+.+.
T Consensus       334 ~~v~~l~~~i~~~~~~~  350 (436)
T 2hjg_A          334 KRIHTLMPAIIKASENH  350 (436)
T ss_dssp             TTGGGHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHHHHh
Confidence            99999999999877654

>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=99.88  E-value=9.1e-23  Score=165.22  Aligned_cols=155  Identities=18%  Similarity=0.150  Sum_probs=111.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCC----------chhhhhhhH-hHhcC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG----------QERYRAVTS-AYYRG   68 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G----------~~~~~~~~~-~~~~~   68 (206)
                      ++|.+|+|||||+++|++.... ....++.+.+.....+..++  ..+.+|||||          ++.|...+. .+++.
T Consensus       200 ivG~~~vGKSslin~l~~~~~~~~~~~~gtt~~~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~e~~~~~~~~~~~~~  277 (456)
T 4dcu_A          200 LIGRPNVGKSSLVNAMLGEERVIVSNVAGTTRDAVDTSFTYNQ--QEFVIVDTAGMRKKGKVYETTEKYSVLRALKAIDR  277 (456)
T ss_dssp             EECSTTSSHHHHHHHHHTSTTEEECC------CTTSEEEEETT--EEEEETTGGGTTTBTTBCCCCSHHHHHHHHHHHHH
T ss_pred             EecCCCCCHHHHHHHHhCCCccccCCCCCeEEEEEEEEEEECC--ceEEEEECCCCCcCcccchHHHHHHHHHHHHHHhh
Confidence            5899999999999999976532 22233323333333444444  4789999999          566766555 47899


Q ss_pred             CcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-----CCeEEEeccCCC
Q 040835           69 AVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-----GLCFMETSALES  143 (206)
Q Consensus        69 ~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~~  143 (206)
                      +|++|+|+|+++... +....|...+..   .++|+++|+||+|+...+....++..+.+...     +++++++||+++
T Consensus       278 ad~~llviD~~~~~~-~~~~~~~~~~~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g  353 (456)
T 4dcu_A          278 SEVVAVVLDGEEGII-EQDKRIAGYAHE---AGKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTK  353 (456)
T ss_dssp             CSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTC
T ss_pred             CCEEEEEEeCCCCcC-HHHHHHHHHHHH---cCCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCC
Confidence            999999999987543 223345454544   46999999999999876666667777766655     579999999999


Q ss_pred             CCHHHHHHHHHHHHHHHh
Q 040835          144 TNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       144 ~~v~~~~~~l~~~i~~~~  161 (206)
                      .|++++|..+.+.+.+..
T Consensus       354 ~gv~~l~~~i~~~~~~~~  371 (456)
T 4dcu_A          354 KRIHTLMPAIIKASENHS  371 (456)
T ss_dssp             TTGGGHHHHHHHHHHHHT
T ss_pred             cCHHHHHHHHHHHHHHhc
Confidence            999999999998775543

>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=99.88  E-value=6.4e-23  Score=159.67  Aligned_cols=154  Identities=18%  Similarity=0.176  Sum_probs=112.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----hhhhhHhHh---cCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----YRAVTSAYY---RGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~~~~---~~~d~~i   73 (206)
                      |+|.+|||||||+++|++........+..+.......+.++. ...+.+|||||...    +..+...++   ..+|++|
T Consensus       163 lvG~~nvGKSTLln~L~~~~~~i~~~~ftTl~p~~g~v~~~~-~~~~~l~DtPG~i~~a~~~~~l~~~fl~~i~~~d~ll  241 (342)
T 1lnz_A          163 LVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETDD-GRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIV  241 (342)
T ss_dssp             EESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECSS-SCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEE
T ss_pred             eeCCCCCCHHHHHHHHHcCCCccccCCccccCceEEEEEeCC-CceEEEecCCCCcccccccchhHHHHHHHHHhccEEE
Confidence            589999999999999998754322222112222222333332 25789999999643    333444454   4599999


Q ss_pred             EEeeCCC---hhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCCCH
Q 040835           74 LVYDITK---RQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALESTNV  146 (206)
Q Consensus        74 ~v~d~~~---~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v  146 (206)
                      +|+|+++   +.++..+..|+..+..+..  ..+|+++|+||+|+..    ..+....+...+.  .+++++||++++|+
T Consensus       242 ~VvD~s~~~~~~~~~~~~~~~~eL~~~~~~l~~~p~ilV~NK~Dl~~----~~e~~~~l~~~l~~~~~v~~iSA~tg~gi  317 (342)
T 1lnz_A          242 HVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE----AAENLEAFKEKLTDDYPVFPISAVTREGL  317 (342)
T ss_dssp             EEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT----HHHHHHHHHHHCCSCCCBCCCSSCCSSTT
T ss_pred             EEEECCcccccChHHHHHHHHHHHHHhhhhhcCCCEEEEEECccCCC----CHHHHHHHHHHhhcCCCEEEEECCCCcCH
Confidence            9999998   7788888889888877642  4799999999999864    2245566777766  68999999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      ++++.+|.+.+.+
T Consensus       318 ~eL~~~l~~~l~~  330 (342)
T 1lnz_A          318 RELLFEVANQLEN  330 (342)
T ss_dssp             HHHHHHHHHHHTS
T ss_pred             HHHHHHHHHHHhh
Confidence            9999999987743

>1mky_A Probable GTP-binding protein ENGA; GTPase, DER, KH-domain, tandem G-domains, ligand binding protein; HET: GDP; 1.90A {Thermotoga maritima} SCOP: c.37.1.8 c.37.1.8 d.52.5.1

Probab=99.87  E-value=3.8e-22  Score=160.86  Aligned_cols=147  Identities=19%  Similarity=0.251  Sum_probs=98.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchh---------hhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER---------YRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~---------~~~~~~~~~~~~d   70 (206)
                      |+|.+|||||||+|+|++..... ...+.++.+.....+..++  ..+.+|||||.+.         +...+..+++.+|
T Consensus         6 ivG~pnvGKStL~nrl~~~~~~~v~~~~g~T~d~~~~~~~~~~--~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~~ad   83 (439)
T 1mky_A            6 IVGRPNVGKSTLFNKLVKKKKAIVEDEEGVTRDPVQDTVEWYG--KTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREAD   83 (439)
T ss_dssp             EECCTTSSHHHHHHHHHC--------------CCSEEEEEETT--EEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCS
T ss_pred             EECCCCCCHHHHHHHHhCCCCceecCCCCCccceeeEEEEECC--eEEEEEECCCccccccchHHHHHHHHHHHHHHhCC
Confidence            58999999999999999887532 2333333334444444444  4689999999653         3455677899999


Q ss_pred             EEEEEeeCCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH-HHHHHHcCC-eEEEeccCCCCCH
Q 040835           71 GAMLVYDITKRQSFDN--VARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA-KEFAEKEGL-CFMETSALESTNV  146 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~-~~~~~~~~~-~~~~~Sa~~~~~v  146 (206)
                      ++|+|+|++++.+...  +..|+.   .   .++|+++|+||+|+...  . ..+. .++. ..++ +++++||++|.|+
T Consensus        84 ~il~V~D~~~~~~~~d~~i~~~l~---~---~~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv  153 (439)
T 1mky_A           84 LVLFVVDGKRGITKEDESLADFLR---K---STVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHNINL  153 (439)
T ss_dssp             EEEEEEETTTCCCHHHHHHHHHHH---H---HTCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBSH
T ss_pred             EEEEEEECCCCCCHHHHHHHHHHH---H---cCCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCCH
Confidence            9999999987644322  233332   2   26899999999998531  0 1222 3333 4566 7899999999999


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|+++.+.+.+
T Consensus       154 ~~L~~~i~~~l~~  166 (439)
T 1mky_A          154 DTMLETIIKKLEE  166 (439)
T ss_dssp             HHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccc
Confidence            9999999988764

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=99.86  E-value=6.9e-23  Score=163.40  Aligned_cols=151  Identities=18%  Similarity=0.142  Sum_probs=107.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh-------hHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV-------TSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-------~~~~~~~~d~~   72 (206)
                      |+|..|+|||||+++|++..+.. ...+..+.......+..... ..+.+|||||++.+...       ...++..+|++
T Consensus        39 IvG~~~vGKSTLin~L~~~~~~~~~~~~gtT~d~~~~~~~~~~~-~~l~liDTpG~~d~~~l~~~~~~~~~~~l~~aD~v  117 (423)
T 3qq5_A           39 VAGRRNVGKSSFMNALVGQNVSIVSDYAGTTTDPVYKSMELHPI-GPVTLVDTPGLDDVGELGRLRVEKARRVFYRADCG  117 (423)
T ss_dssp             EECSCSTTTTTTTTSSCC-------------CCCCEEEEEETTT-EEEEEEECSSTTCCCTTCCCCHHHHHHHHTSCSEE
T ss_pred             EECCCCCCHHHHHHHHHcCCCCccCCCCCeeeeeEEEEEEECCC-CeEEEEECcCCCcccchhHHHHHHHHHHHhcCCEE
Confidence            58999999999999999987642 22333333444444454433 37899999998776543       45688999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      |+|+|++..   .....|+..+...   ++|+++|+||+|+...+..  +....+...++++++++||+++.|++++|++
T Consensus       118 llVvD~~~~---~~~~~~l~~l~~~---~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg~gI~eL~~~  189 (423)
T 3qq5_A          118 ILVTDSAPT---PYEDDVVNLFKEM---EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQKKGFDDIGKT  189 (423)
T ss_dssp             EEECSSSCC---HHHHHHHHHHHHT---TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCTTSTTTHHHH
T ss_pred             EEEEeCCCh---HHHHHHHHHHHhc---CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCCCCHHHHHHH
Confidence            999999433   3345566666553   6999999999999764443  5566677777899999999999999999999


Q ss_pred             HHHHHHHH
Q 040835          153 VLTEIYRI  160 (206)
Q Consensus       153 l~~~i~~~  160 (206)
                      +.+.+.+.
T Consensus       190 L~~~l~~~  197 (423)
T 3qq5_A          190 ISEILPGD  197 (423)
T ss_dssp             HHHHSCCC
T ss_pred             HHHhhhhh
Confidence            99877433

>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=99.86  E-value=2.5e-22  Score=162.72  Aligned_cols=148  Identities=23%  Similarity=0.249  Sum_probs=107.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCch-hhhh--------hhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE-RYRA--------VTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~~~~--------~~~~~~~~~d   70 (206)
                      |+|.+|||||||+|+|++.... ....+.++.+.....+.+++  ..+.+|||||.+ .+..        ....+++.+|
T Consensus       248 ivG~pnvGKSSLln~L~~~~~a~vs~~~gTT~d~~~~~i~~~g--~~~~l~DTaG~~~~~~~~ve~~gi~~~~~~~~~aD  325 (482)
T 1xzp_A          248 IVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVIRG--ILFRIVDTAGVRSETNDLVERLGIERTLQEIEKAD  325 (482)
T ss_dssp             EECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEETT--EEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCS
T ss_pred             EECcCCCcHHHHHHHHHCCCCCccCCCCCeeeeeEEEEEecCC--eEEEEEECCCccccchhhHHHHHHHHHHHHhhccc
Confidence            5899999999999999997643 22233334444444555554  568999999987 5432        2456789999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAF  150 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  150 (206)
                      ++|+|+|++++.++.... ++..+     .++|+++|+||+|+...  ...+++..+.. .+.+++++||+++.|++++|
T Consensus       326 ~vl~VvD~s~~~s~~~~~-il~~l-----~~~piivV~NK~DL~~~--~~~~~~~~~~~-~~~~~i~iSAktg~Gi~eL~  396 (482)
T 1xzp_A          326 IVLFVLDASSPLDEEDRK-ILERI-----KNKRYLVVINKVDVVEK--INEEEIKNKLG-TDRHMVKISALKGEGLEKLE  396 (482)
T ss_dssp             EEEEEEETTSCCCHHHHH-HHHHH-----TTSSEEEEEEECSSCCC--CCHHHHHHHHT-CSTTEEEEEGGGTCCHHHHH
T ss_pred             EEEEEecCCCCCCHHHHH-HHHHh-----cCCCEEEEEECcccccc--cCHHHHHHHhc-CCCcEEEEECCCCCCHHHHH
Confidence            999999999887665433 22322     36899999999999642  34455544432 44689999999999999999


Q ss_pred             HHHHHHHHH
Q 040835          151 LTVLTEIYR  159 (206)
Q Consensus       151 ~~l~~~i~~  159 (206)
                      .+|.+.+..
T Consensus       397 ~~l~~~~~~  405 (482)
T 1xzp_A          397 ESIYRETQE  405 (482)
T ss_dssp             HHHHHHTHH
T ss_pred             HHHHHHHhh
Confidence            999998764

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=99.86  E-value=1.5e-22  Score=163.08  Aligned_cols=148  Identities=18%  Similarity=0.169  Sum_probs=97.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch--------hhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE--------RYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~--------~~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++..+... ..+.+.+...........+..+.+|||||++        .+...+..+++.+|++
T Consensus         8 ivG~~nvGKStL~n~l~~~~~~~v-~~~~g~T~d~~~~~~~~~~~~~~l~DT~G~~~~~~~~~~~~~~~~~~~~~~ad~i   86 (436)
T 2hjg_A            8 IVGRPNVGKSTIFNRIAGERISIV-EDTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVI   86 (436)
T ss_dssp             EECSTTSSHHHHHHHHEEEECC------------CEEEECTTCSSCCEEEC---------CHHHHHHHHHHHHHHHCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCceee-cCCCCCccceEEEEEEECCceEEEEECCCCCCcchhHHHHHHHHHHHHHHhCCEE
Confidence            589999999999999999776432 2334556555555566667789999999985        5667778889999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|+.++.+...  .++..+..  ..++|+++++||+|+.....    +..++. ..++ +++++||++|.|++++++
T Consensus        87 l~vvD~~~~~~~~d--~~~~~~l~--~~~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~  157 (436)
T 2hjg_A           87 IFMVNGREGVTAAD--EEVAKILY--RTKKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLD  157 (436)
T ss_dssp             EEEEETTTCSCHHH--HHHHHHHT--TCCSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHHHHH
T ss_pred             EEEEeCCCCCCHHH--HHHHHHHH--HcCCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHHHHH
Confidence            99999988765433  23333222  25789999999999864221    111222 3455 789999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      ++.+.+.
T Consensus       158 ~i~~~l~  164 (436)
T 2hjg_A          158 AVAEHFK  164 (436)
T ss_dssp             HHHHTGG
T ss_pred             HHHHhcC
Confidence            9987764

>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=99.86  E-value=5.5e-22  Score=152.44  Aligned_cols=151  Identities=18%  Similarity=0.135  Sum_probs=99.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch-h--------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE-R--------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-~--------~~~~~~~~~~~~d~   71 (206)
                      |+|++|||||||+|+|++..+....... +.+.......+......+.+|||||.. .        +......+++.+|+
T Consensus        13 IvG~~nvGKSTLln~L~g~~~~i~s~~~-~tTr~~~~gi~~~~~~~i~~iDTpG~~~~~~~~l~~~~~~~~~~~l~~~D~   91 (301)
T 1ega_A           13 IVGRPNVGKSTLLNKLLGQKISITSRKA-QTTRHRIVGIHTEGAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVEL   91 (301)
T ss_dssp             EECSSSSSHHHHHHHHHTCSEEECCCCS-SCCSSCEEEEEEETTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEE
T ss_pred             EECCCCCCHHHHHHHHHCCCccccCCCC-CcceeeEEEEEEECCeeEEEEECcCCCccchhhHHHHHHHHHHHHHhcCCE
Confidence            5899999999999999998764322111 112111111122334678999999986 2        23334566789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~  150 (206)
                      +++|+|+++ -  .....|+.....  ..+.|+++++||+|+...+....+.+..+...++. .++++||+++.|+++++
T Consensus        92 vl~Vvd~~~-~--~~~~~~i~~~l~--~~~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~  166 (301)
T 1ega_A           92 VIFVVEGTR-W--TPDDEMVLNKLR--EGKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIA  166 (301)
T ss_dssp             EEEEEETTC-C--CHHHHHHHHHHH--SSSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHH
T ss_pred             EEEEEeCCC-C--CHHHHHHHHHHH--hcCCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHH
Confidence            999999976 2  222233322222  24689999999999864112122334555555665 69999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      +.+...+
T Consensus       167 ~~i~~~l  173 (301)
T 1ega_A          167 AIVRKHL  173 (301)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHhC
Confidence            9988654

>2qtf_A Protein HFLX, GTP-binding protein; beta-alpha-barrels, nucleotide-binding, nucleotide binding protein; 2.00A {Sulfolobus solfataricus P2} PDB: 2qth_A* 3kxi_A* 3kxl_A 3kxk_A

Probab=99.86  E-value=1.3e-20  Score=148.02  Aligned_cols=157  Identities=18%  Similarity=0.157  Sum_probs=104.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc---------hhhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ---------ERYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~---------~~~~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++..+.....+..+.+.....+.+++  ..+.+|||+|.         +.|... ...+..+|+
T Consensus       184 lvG~~naGKSTLln~L~~~~~~~~~~~~~T~d~~~~~i~~~g--~~v~l~DT~G~i~~lp~~lve~f~~t-l~~~~~aD~  260 (364)
T 2qtf_A          184 IVGYTNSGKTSLFNSLTGLTQKVDTKLFTTMSPKRYAIPINN--RKIMLVDTVGFIRGIPPQIVDAFFVT-LSEAKYSDA  260 (364)
T ss_dssp             EECBTTSSHHHHHHHHHCC-----------CCSCEEEEEETT--EEEEEEECCCBCSSCCGGGHHHHHHH-HHGGGGSSE
T ss_pred             EECCCCCCHHHHHHHHHCCCccccCCcccccCCEEEEEEECC--EEEEEEeCCCchhcCCHHHHHHHHHH-HHHHHhCCE
Confidence            589999999999999999876433333323334445566665  56799999996         223333 335788999


Q ss_pred             EEEEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHHHc---CCeEEEeccCCCCC
Q 040835           72 AMLVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV-PTEDAKEFAEKE---GLCFMETSALESTN  145 (206)
Q Consensus        72 ~i~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~~~---~~~~~~~Sa~~~~~  145 (206)
                      +++|+|++++.  ....+..|...+......+.|+++|+||+|+...... ....+..++..+   +.+++++||+++.|
T Consensus       261 il~VvD~s~~~~~~~~~~~~~~~~L~~l~~~~~p~ilV~NK~Dl~~~~~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~g  340 (364)
T 2qtf_A          261 LILVIDSTFSENLLIETLQSSFEILREIGVSGKPILVTLNKIDKINGDLYKKLDLVEKLSKELYSPIFDVIPISALKRTN  340 (364)
T ss_dssp             EEEEEETTSCHHHHHHHHHHHHHHHHHHTCCSCCEEEEEECGGGCCSCHHHHHHHHHHHHHHHCSCEEEEEECBTTTTBS
T ss_pred             EEEEEECCCCcchHHHHHHHHHHHHHHhCcCCCCEEEEEECCCCCCchHHHHHHHHHHHHHHhcCCCCcEEEEECCCCcC
Confidence            99999999876  4555555655555544357899999999998642210 011233334544   23689999999999


Q ss_pred             HHHHHHHHHHHHHHH
Q 040835          146 VELAFLTVLTEIYRI  160 (206)
Q Consensus       146 v~~~~~~l~~~i~~~  160 (206)
                      ++++++++.+.+...
T Consensus       341 i~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          341 LELLRDKIYQLATQL  355 (364)
T ss_dssp             HHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHhccc
Confidence            999999998876554

>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=99.85  E-value=3.3e-20  Score=148.04  Aligned_cols=154  Identities=17%  Similarity=0.111  Sum_probs=106.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEE-------EEE------------ECCeEEEEEEEeCCCchhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTK-------TLV------------IHHKNVKAQIWDTAGQERYRAV   61 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~-------~~~------------~~~~~~~~~i~D~~G~~~~~~~   61 (206)
                      ++|.+|+|||||+++|++.......... ..+....       ...            .......+.+|||||++.|...
T Consensus        13 vvG~~~~GKSTLi~~L~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiDtPGh~~~~~~   91 (403)
T 3sjy_A           13 VVGHVDHGKTTLVQAITGIWTSKKLGYA-ETNIGVCESCKKPEAYVTEPSCKSCGSDDEPKFLRRISFIDAPGHEVLMAT   91 (403)
T ss_dssp             EECSTTSSHHHHHHHHHSCCCCSSSEEE-EEEEEECTTSCTTTTEESSSCCGGGTCCSCCEEEEEEEEEECCCCGGGHHH
T ss_pred             EECCCCCCHHHHHHHHhCcccccccCcc-ccceeeccccccccceecccccccccccccccccceEEEEECCCcHHHHHH
Confidence            5899999999999999985443211100 0000000       000            0112378999999999999999


Q ss_pred             hHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHc---CCeEE
Q 040835           62 TSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEKE---GLCFM  136 (206)
Q Consensus        62 ~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~---~~~~~  136 (206)
                      ....+..+|++|+|+|+++..++.....|+..+....  ..|+++++||+|+......  ..+++.++....   +++++
T Consensus        92 ~~~~~~~~D~~ilVvda~~~~~~~qt~~~~~~~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii  169 (403)
T 3sjy_A           92 MLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPII  169 (403)
T ss_dssp             HHHHHTTCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEE
T ss_pred             HHHHHhhCCEEEEEEECCCCCCcHHHHHHHHHHHHcC--CCCEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEEE
Confidence            9999999999999999998766666677766665543  2589999999998642211  112222333222   56899


Q ss_pred             EeccCCCCCHHHHHHHHHHHH
Q 040835          137 ETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       137 ~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++||+++.|+++++++|.+.+
T Consensus       170 ~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          170 PVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             ECBTTTTBSHHHHHHHHHHHS
T ss_pred             EEECCCCcChHHHHHHHHHhC
Confidence            999999999999999988755

>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=99.85  E-value=9.3e-21  Score=141.13  Aligned_cols=154  Identities=12%  Similarity=0.121  Sum_probs=98.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc--cceeeEEEEEEECCeEEEEEEEeCCCc-----------hhhhhhhHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT--IGVEFQTKTLVIHHKNVKAQIWDTAGQ-----------ERYRAVTSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~i~D~~G~-----------~~~~~~~~~~~~   67 (206)
                      |+|.+|||||||+|+|++..+.....++  .+..........+  ...+.+|||||.           +.+...+..+++
T Consensus        34 lvG~~g~GKStlin~l~g~~~~~~~~~~~~~t~~~~~~~~~~~--~~~i~liDTpG~~~~~~~~~~~~~~~~~~~~~~~~  111 (239)
T 3lxx_A           34 LVGKTGAGKSATGNSILGRKVFHSGTAAKSITKKCEKRSSSWK--ETELVVVDTPGIFDTEVPNAETSKEIIRCILLTSP  111 (239)
T ss_dssp             EECCTTSSHHHHHHHHHTSCCSCC-------CCSCEEEEEEET--TEEEEEEECCSCC-----CHHHHHHHHHHHHHTTT
T ss_pred             EECCCCCCHHHHHHHHcCCCcCccCCCCCceeeeEEEEEEEeC--CceEEEEECCCccCCCCCHHHHHHHHHHHHHhcCC
Confidence            5899999999999999998886655542  2333333334443  357899999993           344555556677


Q ss_pred             CCcEEEEEeeCCChhh--HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC------HHHHHHHHHHcCCeEEEec
Q 040835           68 GAVGAMLVYDITKRQS--FDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP------TEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s--~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~------~~~~~~~~~~~~~~~~~~S  139 (206)
                      .+|++|+|+|+++...  ...+..+...+...  ...|+++|+||+|+.....+.      .+.+..+...++..++.++
T Consensus       112 ~~~~~l~v~d~~~~~~~~~~~l~~~~~~~~~~--~~~~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~  189 (239)
T 3lxx_A          112 GPHALLLVVPLGRYTEEEHKATEKILKMFGER--ARSFMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALN  189 (239)
T ss_dssp             CCSEEEEEEETTCCSSHHHHHHHHHHHHHHHH--HGGGEEEEEECGGGC------------CHHHHHHHHHHSSSEEECC
T ss_pred             CCcEEEEEeeCCCCCHHHHHHHHHHHHHhhhh--ccceEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEE
Confidence            8999999999875332  22222232222221  246999999999986533332      2457788888888888887


Q ss_pred             cCCC-----CCHHHHHHHHHHHHH
Q 040835          140 ALES-----TNVELAFLTVLTEIY  158 (206)
Q Consensus       140 a~~~-----~~v~~~~~~l~~~i~  158 (206)
                      ...+     .++.++|..+.+.+.
T Consensus       190 ~~~~~~~~~~~v~~ll~~i~~~~~  213 (239)
T 3lxx_A          190 NKATGAEQEAQRAQLLGLIQRVVR  213 (239)
T ss_dssp             TTCCHHHHHHHHHHHHHHHHHHHH
T ss_pred             CCCCccccHHHHHHHHHHHHHHHH
Confidence            6644     567777776666553

>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=99.85  E-value=2.1e-20  Score=149.36  Aligned_cols=152  Identities=20%  Similarity=0.175  Sum_probs=96.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC---CCCCCcc--ccceeeEEEEEEE-------------C--C----eEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDE---FSLDSKA--TIGVEFQTKTLVI-------------H--H----KNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~i~D~~G~~   56 (206)
                      ++|+.++|||||+++|++..   +..+..+  |+...+....+..             +  +    ....+.+|||||++
T Consensus        13 iiG~~d~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~   92 (408)
T 1s0u_A           13 MVGHVDHGKTSLTKALTGVWTDRHSEELRRGISIRLGYADCEIRKCPQCGTYTTKPRCPNCLAETEFLRRVSFVDSPGHE   92 (408)
T ss_dssp             EESCTTSSHHHHHHHHHSCCCCC-------CCCCCCEEEEEEEEECTTTCCEESSSBCTTSCCBCEEEEEEEEEECSSHH
T ss_pred             EEcCCCCCHHHHHHHHhCCccccCcccccCCcEEEecccccccccccccccccccccccccCcccccccEEEEEECCCHH
Confidence            58999999999999999643   2233333  3222222222211             1  1    13789999999999


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCCh----hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHH
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKR----QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEK  130 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~  130 (206)
                      .|.......+..+|++|+|+|++++    .+.+.+..    +....  ..|+++++||+|+.....  ...+++.+++..
T Consensus        93 ~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~l~--~~~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~  166 (408)
T 1s0u_A           93 TLMATMLSGASLMDGAILVIAANEPCPQPQTKEHLMA----LEILG--IDKIIIVQNKIDLVDEKQAEENYEQIKEFVKG  166 (408)
T ss_dssp             HHHHHHHTTCSCCSEEEEEEETTSCSSCHHHHHHHHH----HHHTT--CCCEEEEEECTTSSCTTTTTTHHHHHHHHHTT
T ss_pred             HHHHHHHHhHhhCCEEEEEEECCCCCCCchhHHHHHH----HHHcC--CCeEEEEEEccCCCCHHHHHHHHHHHHHHHhh
Confidence            9988777778889999999999954    34433332    22221  257999999999965433  234556666665


Q ss_pred             c---CCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          131 E---GLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       131 ~---~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +   +++++++||+++.|+++++++|.+.+.
T Consensus       167 ~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i~  197 (408)
T 1s0u_A          167 TIAENAPIIPISAHHEANIDVLLKAIQDFIP  197 (408)
T ss_dssp             STTTTCCEEEC------CHHHHHHHHHHHSC
T ss_pred             cCCCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence            3   578999999999999999999886543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=99.85  E-value=9.6e-21  Score=156.81  Aligned_cols=152  Identities=20%  Similarity=0.255  Sum_probs=105.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCC-----CC------ccccceeeEEEEEEE-----CCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSL-----DS------KATIGVEFQTKTLVI-----HHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~-----~~------~~~~~~~~~~~~~~~-----~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      |+|+.++|||||+++|+...  +..     ..      ....+.++......+     ++..+.+.||||||+..|...+
T Consensus         9 IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGiTi~~~~~~~~~~~~~g~~~~l~liDTPGh~dF~~ev   88 (599)
T 3cb4_D            9 IIAHIDHGKSTLSDRIIQICGGLSDREMEAQVLDSMDLERERGITIKAQSVTLDYKASDGETYQLNFIDTPGHVDFSYEV   88 (599)
T ss_dssp             EECCC----CCHHHHHHHHTTC--------------------------CEEEEEEECTTSCEEEEEEEECCCCGGGHHHH
T ss_pred             EECCCCCCHHHHHHHHHHhcCCcccccccccccccchhhhcccceeeeeEEEEEEecCCCCeEEEEEEECCCchHHHHHH
Confidence            58999999999999998632  110     00      111233443333333     3446889999999999999999


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCe---EEEec
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLC---FMETS  139 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~---~~~~S  139 (206)
                      ..+++.+|++|+|+|++++........|.....    .++|+++++||+|+...+  ..+...++...+++.   ++++|
T Consensus        89 ~~~l~~aD~aILVVDa~~gv~~qt~~~~~~~~~----~~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~vS  162 (599)
T 3cb4_D           89 SRSLAACEGALLVVDAGQGVEAQTLANCYTAME----MDLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDATDAVRCS  162 (599)
T ss_dssp             HHHHHHCSEEEEEEETTTCCCTHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCTTCEEEC
T ss_pred             HHHHHHCCEEEEEEECCCCCCHHHHHHHHHHHH----CCCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcceEEEee
Confidence            999999999999999998776666666665543    368999999999996422  233345666666764   89999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~~i~  158 (206)
                      |+++.|++++|+++.+.+.
T Consensus       163 Aktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          163 AKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             TTTCTTHHHHHHHHHHHSC
T ss_pred             cccCCCchhHHHHHhhcCC
Confidence            9999999999999987654

>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=99.84  E-value=1.2e-20  Score=153.36  Aligned_cols=149  Identities=17%  Similarity=0.141  Sum_probs=103.1

Q ss_pred             CccCCCCCHHHHHHHHhcCC-------CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDE-------FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i   73 (206)
                      ++|..++|||||+++|++..       ...+..+.++.......+..+  ...+.+|||||++.|.......+..+|++|
T Consensus        24 iiG~~d~GKSTLi~~L~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~--~~~i~iiDtPGh~~~~~~~~~~~~~aD~~i  101 (482)
T 1wb1_A           24 IFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLE--NYRITLVDAPGHADLIRAVVSAADIIDLAL  101 (482)
T ss_dssp             EEECTTSSHHHHHHHHHTTC--------------------CCCEEEET--TEEEEECCCSSHHHHHHHHHHHTTSCCEEE
T ss_pred             EECCCCChHHHHHHHHHCCCcccccccccccccCccEEecceEEEEEC--CEEEEEEECCChHHHHHHHHHHHhhCCEEE
Confidence            58999999999999999876       222222222222222223333  367999999999999888889999999999


Q ss_pred             EEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHc----CCeEEEeccCCCC
Q 040835           74 LVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEKE----GLCFMETSALEST  144 (206)
Q Consensus        74 ~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~----~~~~~~~Sa~~~~  144 (206)
                      +|+|+++   +.+.+.+.    .+..   .++|+++++||+|+.....  ...+++..++...    +++++++||++++
T Consensus       102 lVvda~~g~~~qt~e~l~----~~~~---~~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~  174 (482)
T 1wb1_A          102 IVVDAKEGPKTQTGEHML----ILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGF  174 (482)
T ss_dssp             EEEETTTCSCHHHHHHHH----HHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCT
T ss_pred             EEEecCCCccHHHHHHHH----HHHH---cCCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEECcCCC
Confidence            9999987   33333322    2222   3588899999999864211  1123455555555    5789999999999


Q ss_pred             CHHHHHHHHHHHHH
Q 040835          145 NVELAFLTVLTEIY  158 (206)
Q Consensus       145 ~v~~~~~~l~~~i~  158 (206)
                      |+++++++|.+.+.
T Consensus       175 gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          175 GVDELKNLIITTLN  188 (482)
T ss_dssp             THHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhc
Confidence            99999999988775

>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=99.84  E-value=2.4e-20  Score=154.19  Aligned_cols=152  Identities=22%  Similarity=0.277  Sum_probs=106.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCC-----CCc------cccceeeEEE--EEEE---CCeEEEEEEEeCCCchhhhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSL-----DSK------ATIGVEFQTK--TLVI---HHKNVKAQIWDTAGQERYRAVT   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~-----~~~------~~~~~~~~~~--~~~~---~~~~~~~~i~D~~G~~~~~~~~   62 (206)
                      |+|+.++|||||+++|+...  +..     ...      ...+.++...  .+.+   ++..+.+.+|||||+..|...+
T Consensus        11 IiGh~d~GKTTLi~rLl~~tg~i~~~~~~~~~~D~~~~ErerGITI~~~~~~~~~~~~dg~~~~inliDTPGh~dF~~ev   90 (600)
T 2ywe_A           11 IIAHVDHGKSTLADRLLEYTGAISEREKREQLLDTLDVERERGITVKMQAVRMFYKAKDGNTYKLHLIDTPGHVDFSYEV   90 (600)
T ss_dssp             EECC--CCHHHHHHHHHHHHTC-----------------------CCCCSEEEEEECTTSCEEEEEEECCCCSGGGHHHH
T ss_pred             EECCCCCCHHHHHHHHHhccCCcccccccccccccchhhhcccceeeeeEEEEEEEcCCCCeEEEEEEECCCcHhHHHHH
Confidence            58999999999999998631  110     000      0112222211  1111   3446889999999999999888


Q ss_pred             HhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC---eEEEec
Q 040835           63 SAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL---CFMETS  139 (206)
Q Consensus        63 ~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~---~~~~~S  139 (206)
                      ...++.+|++|+|+|++++........|.....    .++|+++++||+|+....  ......++...+++   .++++|
T Consensus        91 ~r~l~~aD~aILVVDa~~gv~~qt~~~~~~a~~----~~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~~vi~vS  164 (600)
T 2ywe_A           91 SRALAACEGALLLIDASQGIEAQTVANFWKAVE----QDLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPEEAILAS  164 (600)
T ss_dssp             HHHHHTCSEEEEEEETTTBCCHHHHHHHHHHHH----TTCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGGGCEECB
T ss_pred             HHHHHhCCEEEEEEECCCCccHHHHHHHHHHHH----CCCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcccEEEEE
Confidence            999999999999999999877776666765443    468999999999986422  22334555666676   489999


Q ss_pred             cCCCCCHHHHHHHHHHHHH
Q 040835          140 ALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       140 a~~~~~v~~~~~~l~~~i~  158 (206)
                      |+++.|++++|+++++.+.
T Consensus       165 Aktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          165 AKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             TTTTBSHHHHHHHHHHHSC
T ss_pred             eecCCCchHHHHHHHHhcc
Confidence            9999999999999987664

>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=99.84  E-value=5.2e-21  Score=144.23  Aligned_cols=156  Identities=15%  Similarity=0.107  Sum_probs=99.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCC-CCCCccc-cceeeEEEEEEECCeEEEEEEEeCCCchhhh-----------hhhHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEF-SLDSKAT-IGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-----------AVTSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~-~~~~~~~-~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-----------~~~~~~~~   67 (206)
                      |+|.+|||||||+++|++... .....++ .+..........+  +..+.||||||...+.           .....+++
T Consensus        27 lvG~~g~GKStl~n~l~~~~~~~~~~~~~~~t~~~~~~~~~~~--~~~i~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~  104 (260)
T 2xtp_A           27 LVGKTGTGKSAAGNSILRKQAFESKLGSQTLTKTCSKSQGSWG--NREIVIIDTPDMFSWKDHCEALYKEVQRCYLLSAP  104 (260)
T ss_dssp             EEECTTSCHHHHHHHHHTSCCSCCCTTSCCCCCSCEEEEEEET--TEEEEEEECCGGGGSSCCCHHHHHHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCCceeeeeEEEEEEeC--CCEEEEEECcCCCCCCCCHHHHHHHHHHHHHhcCC
Confidence            589999999999999998773 3333332 2333333333333  4678999999976542           22234678


Q ss_pred             CCcEEEEEeeCCChhhH-HHHHHHHHHHHhcCCCCCcEEEEEe-CCCCCcCCCCCH-------HHHHHHHHHcCCe---E
Q 040835           68 GAVGAMLVYDITKRQSF-DNVARWLEELRGHADKNIIIMLVGN-KSDLETLRAVPT-------EDAKEFAEKEGLC---F  135 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~-~~~~~~~~~~~~~~~~~~p~ivv~n-K~D~~~~~~~~~-------~~~~~~~~~~~~~---~  135 (206)
                      .+|++|+|+|+++.... ..+..++..+.... ...|.++++| |+|+.. ..+..       .++..+...++..   +
T Consensus       105 ~~d~il~V~d~~~~~~~~~~~~~~l~~~~~~~-~~~~~i~vv~nK~Dl~~-~~~~~~i~~~~~~~~~~~~~~~~~~~~~~  182 (260)
T 2xtp_A          105 GPHVLLLVTQLGRYTSQDQQAAQRVKEIFGED-AMGHTIVLFTHKEDLNG-GSLMDYMHDSDNKALSKLVAACGGRICAF  182 (260)
T ss_dssp             CCSEEEEEEETTCCCHHHHHHHHHHHHHHCGG-GGGGEEEEEECGGGGTT-CCHHHHHHHCCCHHHHHHHHHTTTCEEEC
T ss_pred             CCcEEEEEEeCCCCCHHHHHHHHHHHHHhCch-hhccEEEEEEcccccCC-ccHHHHHHhcchHHHHHHHHHhCCeEEEe
Confidence            99999999999862221 22233333332211 2456666666 999964 22211       2244466666543   2


Q ss_pred             --EEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          136 --METSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       136 --~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                        +++||+++.|++++|.++.+.+...
T Consensus       183 ~~~~~SA~~~~gv~~l~~~i~~~~~~~  209 (260)
T 2xtp_A          183 NNRAEGSNQDDQVKELMDCIEDLLMEK  209 (260)
T ss_dssp             CTTCCHHHHHHHHHHHHHHHHHHHHHT
T ss_pred             cCcccccccHHHHHHHHHHHHHHHHhC
Confidence              7899999999999999999887653

>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=99.84  E-value=2e-21  Score=156.80  Aligned_cols=147  Identities=18%  Similarity=0.211  Sum_probs=94.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhh--------HhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVT--------SAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~--------~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++..+.. ...++.+.+.....+.+++  ..+.+|||||...+....        ..++..+|+
T Consensus       229 ivG~~nvGKSSLln~L~~~~~a~v~~~~gtT~d~~~~~i~~~g--~~v~liDT~G~~~~~~~ve~~gi~~~~~~~~~aD~  306 (462)
T 3geh_A          229 IVGRPNVGKSSLLNAWSQSDRAIVTDLPGTTRDVVESQLVVGG--IPVQVLDTAGIRETSDQVEKIGVERSRQAANTADL  306 (462)
T ss_dssp             EEECTTSSHHHHHHHHHHHHBSCCSCCTTCCHHHHHHEEEETT--EEEEECC--------------------CCCCSCSE
T ss_pred             EEcCCCCCHHHHHHHHhCCCcccccCCCCeeEEEEEEEEEECC--EEEEEEECCccccchhHHHHHHHHHHhhhhhcCCE
Confidence            58999999999999999875532 2223333333333445554  568999999986654332        335788999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|+|++++.+... ..|+..+.     ..|+++|+||+|+.......  ....+.  .+.+++++||+++.|+++++.
T Consensus       307 vl~VvD~s~~~~~~~-~~i~~~l~-----~~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL~~  376 (462)
T 3geh_A          307 VLLTIDAATGWTTGD-QEIYEQVK-----HRPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSLET  376 (462)
T ss_dssp             EEEEEETTTCSCHHH-HHHHHHHT-----TSCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHHHH
T ss_pred             EEEEeccCCCCCHHH-HHHHHhcc-----CCcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHHHH
Confidence            999999998765443 34444442     37999999999986533322  111111  356899999999999999999


Q ss_pred             HHHHHHHH
Q 040835          152 TVLTEIYR  159 (206)
Q Consensus       152 ~l~~~i~~  159 (206)
                      ++.+.+..
T Consensus       377 ~i~~~~~~  384 (462)
T 3geh_A          377 AILEIVQT  384 (462)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHhc
Confidence            99887643

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=99.84  E-value=2.2e-21  Score=147.41  Aligned_cols=152  Identities=14%  Similarity=0.145  Sum_probs=85.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC--------ccccceeeEEEEEEECCeEEEEEEEeCCCch-------hhhhhh---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS--------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQE-------RYRAVT---   62 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~~~~~~---   62 (206)
                      |+|.+|+|||||+|+|++.......        .++.+.+.....+..++..+.+.+|||||..       .+..+.   
T Consensus        13 vvG~~g~GKSTLin~L~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~liDTpG~~d~~~~~~~~~~i~~~i   92 (274)
T 3t5d_A           13 VVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYI   92 (274)
T ss_dssp             EEECTTSSHHHHHHHHSSSCC---------------CCCEEEEEEECC--CCEEEEEEECCCCSCCSCCTTTTHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhCCCccccCCCCcccccCCceEEEEEEEEEecCCeEEEEEEEECCCccccccchhhHHHHHHHH
Confidence            5899999999999998887654433        3444444444444434455789999999962       233222   


Q ss_pred             ----HhHhc-------------CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHH
Q 040835           63 ----SAYYR-------------GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TED  123 (206)
Q Consensus        63 ----~~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~  123 (206)
                          ..++.             .+|+++++++.+..........++..+..    ++|+++|+||+|+....+..  .+.
T Consensus        93 ~~~~~~~l~~~~~~~r~~~~d~r~~~~l~~i~~~~~~~~~~d~~~l~~l~~----~~pvi~V~nK~D~~~~~e~~~~~~~  168 (274)
T 3t5d_A           93 DSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSGHGLKPLDIEFMKRLHE----KVNIIPLIAKADTLTPEECQQFKKQ  168 (274)
T ss_dssp             HHHHHHHHHHHHSSCCCSCCCCCCCEEEEEECSCCSSCCHHHHHHHHHHTT----TSCEEEEESSGGGSCHHHHHHHHHH
T ss_pred             HHHHHHHHHhhcccccccccCCceeEEEEEecCCCCCCCHHHHHHHHHHhc----cCCEEEEEeccCCCCHHHHHHHHHH
Confidence                33333             37899999987753222222334444433    69999999999985322211  123


Q ss_pred             HHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          124 AKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       124 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +.+.....+++++.+|+.+++|+++++.++.+.
T Consensus       169 i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~  201 (274)
T 3t5d_A          169 IMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  201 (274)
T ss_dssp             HHHHHHHTTCCCCCC-----------CHHHHHT
T ss_pred             HHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcC
Confidence            445556678999999999999999988877654

>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=99.84  E-value=7.8e-21  Score=154.86  Aligned_cols=147  Identities=16%  Similarity=0.116  Sum_probs=95.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------------------------ccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------------------------KATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|.+++|||||+++|+........                             ....+.++......+......+.|||
T Consensus        38 iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiD  117 (483)
T 3p26_A           38 VLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVD  117 (483)
T ss_dssp             EESCGGGTHHHHHHHHHHHTTSSCHHHHHHHCC------------------------CCSSCCCCEEEEECSSCEEEEEC
T ss_pred             EECCCCCCHHHHHHHHHHhcCCccHHHHHHHHHHHHhcCCCcchhhhhhccchhHhhcCcceEeeeEEEecCCceEEEEE
Confidence            5899999999999999865111000                             01113344334444555667899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHH------HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH--
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFD------NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED--  123 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~------~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~--  123 (206)
                      |||++.|......++..+|++|+|+|++++....      .....+..+...  ...|+++++||+|+...+....++  
T Consensus       118 TPG~~~f~~~~~~~~~~aD~~llVvDa~~g~~~~~~~~~~qt~e~~~~~~~~--~~~~iIvviNK~Dl~~~~~~~~~~i~  195 (483)
T 3p26_A          118 APGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASSL--GIHNLIIAMNKMDNVDWSQQRFEEIK  195 (483)
T ss_dssp             CCCCGGGHHHHHHHHTTCSEEEEEEECCC------CCCCHHHHHHHHHHHHT--TCCCEEEEEECGGGGTTCHHHHHHHH
T ss_pred             CCCcHHHHHHHHHhhhhCCEEEEEEECCCCccccccchhhhHHHHHHHHHHc--CCCcEEEEEECcCcccchHHHHHHHH
Confidence            9999999999999999999999999999864321      122222222222  125699999999986533333333  


Q ss_pred             --HHHHHHHc-----CCeEEEeccCCCCCHHHH
Q 040835          124 --AKEFAEKE-----GLCFMETSALESTNVELA  149 (206)
Q Consensus       124 --~~~~~~~~-----~~~~~~~Sa~~~~~v~~~  149 (206)
                        +..+....     +++++++||++++|++++
T Consensus       196 ~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          196 SKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             HHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             HHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence              33333333     357999999999999863

>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=99.83  E-value=2.5e-20  Score=149.03  Aligned_cols=152  Identities=21%  Similarity=0.196  Sum_probs=101.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC---CCCCCcc--ccceeeEEEEEEE-------------C--C----eEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDE---FSLDSKA--TIGVEFQTKTLVI-------------H--H----KNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---~~~~~~~--~~~~~~~~~~~~~-------------~--~----~~~~~~i~D~~G~~   56 (206)
                      ++|+.++|||||+++|++..   +..+..+  |+...+.......             +  +    ....+.+|||||++
T Consensus        15 iiG~~~~GKSTLi~~L~g~~~~~~~~e~~~giTi~~~~~~~~~~~~~~~~~y~~~~~~~~~g~~~~~~~~i~iiDtPGh~   94 (410)
T 1kk1_A           15 MVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHE   94 (410)
T ss_dssp             EECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHH
T ss_pred             EECCCCCCHHHHHHHHhCCccccChhhhcCCcEEEEeeeeeecccccccccccccccccccCcccccccEEEEEECCChH
Confidence            58999999999999999643   2222223  2222222222211             0  1    13789999999999


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCCh----hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHH
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKR----QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEK  130 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~----~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~  130 (206)
                      .|.......+..+|++|+|+|+++.    .+.+.+..    +....  ..|+++++||+|+.....  ...+++..++..
T Consensus        95 ~f~~~~~~~~~~~D~~ilVvda~~g~~~~qt~e~l~~----~~~~~--~~~iivviNK~Dl~~~~~~~~~~~~i~~~l~~  168 (410)
T 1kk1_A           95 ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMA----LQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEFIEG  168 (410)
T ss_dssp             HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHH----HHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTT
T ss_pred             HHHHHHHhhhhhCCEEEEEEECCCCCCChhHHHHHHH----HHHcC--CCcEEEEEECccCCCHHHHHHHHHHHHHHHHh
Confidence            9887777778889999999999864    33333332    22221  257999999999864221  122334455443


Q ss_pred             ---cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          131 ---EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       131 ---~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                         .+++++++||+++.|+++++++|.+.+.
T Consensus       169 ~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~~  199 (410)
T 1kk1_A          169 TVAENAPIIPISALHGANIDVLVKAIEDFIP  199 (410)
T ss_dssp             STTTTCCEEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             cCcCCCeEEEeeCCCCCCHHHHHHHHHHhCC
Confidence               3578999999999999999999886543

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=99.83  E-value=1.8e-20  Score=150.90  Aligned_cols=148  Identities=20%  Similarity=0.180  Sum_probs=99.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------------------------ccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------------------------KATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|.+++|||||+++|+...-....                             ....+.++......+......+.|||
T Consensus        22 iiG~~d~GKSTL~~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTid~~~~~~~~~~~~~~iiD  101 (439)
T 3j2k_7           22 FIGHVDAGKSTIGGQIMYLTGMVDKRTLEKYEREAKEKNRETWYLSWALDTNQEERDKGKTVEVGRAYFETEKKHFTILD  101 (439)
T ss_pred             EEeCCCCCHHHHHHHHHHHcCCCchHHHHHHHHHHHhccccchhhhhhhccchhHhhcCceEEEeEEEEecCCeEEEEEE
Confidence            5899999999999999654211110                             01123444444444555567899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhh---HH---HHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC------
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQS---FD---NVARWLEELRGHADKNII-IMLVGNKSDLETLRA------  118 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~~---~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~------  118 (206)
                      |||++.|.......+..+|++|+|+|+++...   +.   ...+.+..+..   .++| +++++||+|+.....      
T Consensus       102 TPGh~~f~~~~~~~~~~aD~~ilVVDa~~g~~e~~~~~~~qt~e~l~~~~~---~~v~~iIvviNK~Dl~~~~~~~~~~~  178 (439)
T 3j2k_7          102 APGHKSFVPNMIGGASQADLAVLVISARKGEFETGFEKGGQTREHAMLAKT---AGVKHLIVLINKMDDPTVNWSNERYE  178 (439)
T ss_pred             CCChHHHHHHHHhhHhhCCEEEEEEECCCCccccccCCCchHHHHHHHHHH---cCCCeEEEEeecCCCcccchHHHHHH
Confidence            99999999999999999999999999988532   11   12222222222   3566 999999999853111      


Q ss_pred             CCHHHHHHHHHHcC------CeEEEeccCCCCCHHHHHH
Q 040835          119 VPTEDAKEFAEKEG------LCFMETSALESTNVELAFL  151 (206)
Q Consensus       119 ~~~~~~~~~~~~~~------~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ...+++..++...+      ++++++||++|.|+++++.
T Consensus       179 ~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          179 ECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             HHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            11233445555554      4699999999999999765

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=99.83  E-value=8.9e-21  Score=149.31  Aligned_cols=144  Identities=10%  Similarity=0.033  Sum_probs=104.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+++|||||+++|+.      .    +.+.......+......+.+|||||+++|.......++.+|++|+|+| ++
T Consensus        26 iiG~~d~GKSTL~~~L~~------~----giTi~~~~~~~~~~~~~i~iiDtPGh~~f~~~~~~~~~~aD~ailVvd-~~   94 (370)
T 2elf_A           26 IIGTEKSGRTSLAANLGK------K----GTSSDITMYNNDKEGRNMVFVDAHSYPKTLKSLITALNISDIAVLCIP-PQ   94 (370)
T ss_dssp             EEESTTSSHHHHHHTTSE------E----EEESSSEEEEECSSSSEEEEEECTTTTTCHHHHHHHHHTCSEEEEEEC-TT
T ss_pred             EECCCCCCHHHHHHHHHh------C----CEEEEeeEEEEecCCeEEEEEECCChHHHHHHHHHHHHHCCEEEEEEc-CC
Confidence            589999999999999981      1    222222233344556679999999999998888888899999999999 54


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcE-EEEEe-CCCCCcCCCCCH--HHHHHHHHHcC---CeEEE--eccCC---CCCHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIII-MLVGN-KSDLETLRAVPT--EDAKEFAEKEG---LCFME--TSALE---STNVEL  148 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~-ivv~n-K~D~~~~~~~~~--~~~~~~~~~~~---~~~~~--~Sa~~---~~~v~~  148 (206)
                       .......+++..+..   .++|. ++++| |+|+ .......  +++..++..++   +++++  +||++   +.|+++
T Consensus        95 -g~~~qt~e~~~~~~~---~~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~  169 (370)
T 2elf_A           95 -GLDAHTGECIIALDL---LGFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDE  169 (370)
T ss_dssp             -CCCHHHHHHHHHHHH---TTCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHH
T ss_pred             -CCcHHHHHHHHHHHH---cCCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHH
Confidence             334445555555544   35676 88999 9998 4222111  34555554443   68999  99999   999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          149 AFLTVLTEIYRI  160 (206)
Q Consensus       149 ~~~~l~~~i~~~  160 (206)
                      +++.|.+.+...
T Consensus       170 L~~~l~~~~~~~  181 (370)
T 2elf_A          170 LKARINEVAEKI  181 (370)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHhhcccc
Confidence            999999887654

>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=99.83  E-value=9.7e-22  Score=154.52  Aligned_cols=159  Identities=15%  Similarity=0.215  Sum_probs=86.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCc--------cccceeeEEEEEEECCeEEEEEEEeCCCc-------hhhhhhhH-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSK--------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQ-------ERYRAVTS-   63 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~~~~~~-   63 (206)
                      |+|++|+|||||+++|++..... .+.        ++.+.......+..++..+.+.+|||||.       +.+..++. 
T Consensus        42 vvG~~g~GKSTLln~L~~~~~~~~~~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~l~i~DTpG~gd~~~~~e~~~~i~~~  121 (361)
T 2qag_A           42 VVGESGLGKSTLINSLFLTDLYPERVIPGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISY  121 (361)
T ss_dssp             ECCCTTSCHHHHHHHHTTCCC---------------CEEEEEEEEC----CEEEEEEEEC--------------CCTHHH
T ss_pred             EEcCCCCCHHHHHHHHhCCCCCCCCcccCCCcccCCceeEEEEEEEeecCCcccceEEEEeccccccCccHHHHHHHHHH
Confidence            58999999999999987754322 221        33333333333333455678999999998       55655554 


Q ss_pred             ------hHhcCC-------------cEEEEEeeCCChhhHHHHH-HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040835           64 ------AYYRGA-------------VGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--  121 (206)
Q Consensus        64 ------~~~~~~-------------d~~i~v~d~~~~~s~~~~~-~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--  121 (206)
                            .+++.+             ++++|+++.+ ..++..+. .|+..+    ..++|+++|+||+|+...+.+..  
T Consensus       122 i~~~~~~yl~~~~~~~r~~~~d~rv~~~vy~I~~~-~~~l~~~d~~~~~~l----~~~~piIlV~NK~Dl~~~~ev~~~k  196 (361)
T 2qag_A          122 IDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPF-GHGLKPLDVAFMKAI----HNKVNIVPVIAKADTLTLKERERLK  196 (361)
T ss_dssp             HHHHHHHHHHHHTCSCCC-CCCCCCCEEEEEECSS-SSSCCHHHHHHHHHT----CS-SCEEEEEECCSSSCHHHHHHHH
T ss_pred             HHHHHHHHHHHhhhhccccccCCceEEEEEEEecC-CCCcchhHHHHHHHh----ccCCCEEEEEECCCCCCHHHHHHHH
Confidence                  555433             3455555542 23343333 343333    25799999999999865333332  


Q ss_pred             HHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhhhhh
Q 040835          122 EDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKA  165 (206)
Q Consensus       122 ~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~~  165 (206)
                      +++..++..++++++++||+++.+ ++.|.++.+.+.+..+...
T Consensus       197 ~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~ip~~v  239 (361)
T 2qag_A          197 KRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKASIPFSV  239 (361)
T ss_dssp             HHHHHHTTCC-CCSCCCC----------CHHHHHHHHHTCSCEE
T ss_pred             HHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhcCCCCE
Confidence            456666667789999999999999 8999999998887665543

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=99.82  E-value=1.3e-20  Score=154.38  Aligned_cols=111  Identities=21%  Similarity=0.206  Sum_probs=77.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC---------------CCc-----cccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL---------------DSK-----ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~---------------~~~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+|.+|+|||||+++|+...-..               ..+     ...+.++......+.+....+.||||||+..|..
T Consensus        18 IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~i~liDTPG~~df~~   97 (528)
T 3tr5_A           18 IISHPDAGKTTLTEKLLLFGGAIQLAGTIKSRKAARHATSDWMELEKQRGISVTTSVMQFPYKDYLINLLDTPGHADFTE   97 (528)
T ss_dssp             EEECTTSSHHHHHHHHHHHTTCHHHHHHHHTC----CCHHHHHHHHHHHCCSSSSSEEEEEETTEEEEEECCCCSTTCCH
T ss_pred             EECCCCCcHHHHHHHHHhhcCCcccceeeeccccccceecccchhhhcCCeeEEEeEEEEEeCCEEEEEEECCCchhHHH
Confidence            58999999999999997211100               000     0012222222333334467899999999999999


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      .+..+++.+|++|+|+|+++.........|. .+..   .++|+++++||+|+..
T Consensus        98 ~~~~~l~~aD~allVvDa~~g~~~~t~~~~~-~~~~---~~iPiivviNK~Dl~~  148 (528)
T 3tr5_A           98 DTYRTLTAVDSALMVIDAAKGVEPRTIKLME-VCRL---RHTPIMTFINKMDRDT  148 (528)
T ss_dssp             HHHHGGGGCSEEEEEEETTTCSCHHHHHHHH-HHHT---TTCCEEEEEECTTSCC
T ss_pred             HHHHHHHhCCEEEEEEeCCCCCCHHHHHHHH-HHHH---cCCCEEEEEeCCCCcc
Confidence            9999999999999999999876655555443 2332   4689999999999853

>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=99.82  E-value=4.9e-20  Score=148.56  Aligned_cols=154  Identities=21%  Similarity=0.173  Sum_probs=99.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhh------------hHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV------------TSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~------------~~~~~~   67 (206)
                      |+|++|||||||+|+|++.... ....+..+.+.....+.+++.  .+.+|||+|...+...            ...++.
T Consensus       185 ivG~~gvGKSTLln~l~g~~~~~v~~~~gtT~d~~~~~i~~~g~--~~~l~Dt~G~~~~~~~~~~~~e~~~~~~~~~~i~  262 (439)
T 1mky_A          185 IVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFIDGR--KYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIE  262 (439)
T ss_dssp             EECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEETTE--EEEESSCSCC-----------CCSCCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhCCcccccCCCCCCcCCceEEEEEECCE--EEEEEECCCCccccccchhhHHHHHHHHHHHHHh
Confidence            5899999999999999987652 112222222222334555554  5789999997433221            134678


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-HHHH----cCCeEEEeccCC
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE-FAEK----EGLCFMETSALE  142 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-~~~~----~~~~~~~~Sa~~  142 (206)
                      .+|++++++|+++..+.... .+...+..   .++|+++++||+|+...+....++... +...    .+++++++||++
T Consensus       263 ~ad~vllv~d~~~~~~~~~~-~i~~~l~~---~~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~  338 (439)
T 1mky_A          263 KADVVVIVLDATQGITRQDQ-RMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADK  338 (439)
T ss_dssp             HCSEEEEEEETTTCCCHHHH-HHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTT
T ss_pred             hCCEEEEEEeCCCCCCHHHH-HHHHHHHH---cCCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCC
Confidence            89999999999876554432 22232332   468999999999986544333433332 2222    357899999999


Q ss_pred             CCCHHHHHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTEIYRI  160 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~~~  160 (206)
                      |.|++++|..+.+.+...
T Consensus       339 g~gv~~l~~~i~~~~~~~  356 (439)
T 1mky_A          339 GWNIDRMIDAMNLAYASY  356 (439)
T ss_dssp             TBSHHHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHHhh
Confidence            999999999998766543

>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=99.82  E-value=5e-21  Score=155.07  Aligned_cols=148  Identities=18%  Similarity=0.151  Sum_probs=98.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCC--------chhhhhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG--------QERYRAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G--------~~~~~~~~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++..+.... .+.+.+.........+....+.+|||||        ++.+...+..+++.+|++
T Consensus        28 lvG~~nvGKSTL~n~l~~~~~~~v~-~~~g~t~~~~~~~~~~~~~~~~liDT~G~~~~~~~~~~~~~~~~~~~~~~ad~i  106 (456)
T 4dcu_A           28 IVGRPNVGKSTIFNRIAGERISIVE-DTPGVTRDRIYSSAEWLNYDFNLIDTGGIDIGDEPFLAQIRQQAEIAMDEADVI  106 (456)
T ss_dssp             EECSSSSSHHHHHHHHEEEEEC------------CEEEECTTCSSCCEEECCCC------CCHHHHHHHHHHHHHHCSEE
T ss_pred             EECCCCCcHHHHHHHHhCCCCcccC-CCCCcceeEEEEEEEECCceEEEEECCCCCCcchHHHHHHHHHHHhhHhhCCEE
Confidence            5899999999999999998765332 3346666666666677778899999999        677888888999999999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCC-eEEEeccCCCCCHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGL-CFMETSALESTNVELAFL  151 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~-~~~~~Sa~~~~~v~~~~~  151 (206)
                      |+|+|..+..+.  ...|+..+..  ..++|+++|+||+|+....    ....++. ..+. .++++||.++.|+.++++
T Consensus       107 l~VvD~~~~~~~--~d~~l~~~l~--~~~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~  177 (456)
T 4dcu_A          107 IFMVNGREGVTA--ADEEVAKILY--RTKKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGLGDLLD  177 (456)
T ss_dssp             EEEEESSSCSCH--HHHHHHHHHT--TCCSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHH
T ss_pred             EEEEeCCCCCCh--HHHHHHHHHH--HcCCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccchHHHHH
Confidence            999998764332  2233333222  2579999999999985321    1111111 2233 478999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      .+.+.+.
T Consensus       178 ~i~~~l~  184 (456)
T 4dcu_A          178 AVAEHFK  184 (456)
T ss_dssp             HHHTTGG
T ss_pred             HHHhhcc
Confidence            9987653

>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=99.82  E-value=1.3e-19  Score=150.08  Aligned_cols=154  Identities=17%  Similarity=0.170  Sum_probs=101.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEEC----------------CeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIH----------------HKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|++++|||||+++|++..+.......+..+.........                .....+.+|||||++.|..++..
T Consensus        10 IvGh~d~GKTTLl~~L~~~~v~~~e~ggiT~~ig~~~~~~~~~~~~~~~~~~~~~v~~~~~~i~liDTPGhe~F~~~~~r   89 (594)
T 1g7s_A           10 VLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKR   89 (594)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCS
T ss_pred             EECCCCCcHHHHHHHHhcccCccccCCceecccCeEEEeechhhhhccccccccccccccCCEEEEECCCcHHHHHHHHH
Confidence            58999999999999999865533221111111111111110                11125899999999999998888


Q ss_pred             HhcCCcEEEEEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC-------------H---H---
Q 040835           65 YYRGAVGAMLVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP-------------T---E---  122 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~-------------~---~---  122 (206)
                      .++.+|++|+|+|+++   +.+++.+..    +..   .++|+++++||+|+.......             .   +   
T Consensus        90 ~~~~aD~aILVvDa~~Gv~~qT~e~l~~----l~~---~~vPiIVViNKiDl~~~~~~~~~~~~~e~sa~~~~~v~~~~~  162 (594)
T 1g7s_A           90 GGALADLAILIVDINEGFKPQTQEALNI----LRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLD  162 (594)
T ss_dssp             SSBSCSEEEEEEETTTCCCHHHHHHHHH----HHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHH
T ss_pred             HHhhCCEEEEEEECCCCccHhHHHHHHH----HHH---cCCeEEEEecccccccccccccCCchHHHHHHhHHHHHHHHH
Confidence            8999999999999998   555544432    222   468999999999986421100             0   0   


Q ss_pred             ----HHHHHHHHcC---------------CeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          123 ----DAKEFAEKEG---------------LCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       123 ----~~~~~~~~~~---------------~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                          +........+               ++++.+||+++.|++++++++...+....
T Consensus       163 e~i~ei~~~L~e~gl~~e~~~~l~~~~~~vpvv~vSA~tG~GI~eLl~~I~~~~~~~~  220 (594)
T 1g7s_A          163 TKVYELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYL  220 (594)
T ss_dssp             HHHHHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             HHHHHHHHHHHHcCcchHHHHHHHhccCcceEEEEeccCCCCchhHHHHHHhhccccc
Confidence                1111112222               37999999999999999999998776443

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=99.81  E-value=3.6e-22  Score=163.15  Aligned_cols=152  Identities=16%  Similarity=0.176  Sum_probs=106.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++++|||||+++|.+..+.....++++.++....+..+ ....+.+|||||++.|..++..++..+|++|+|+|+++
T Consensus         9 IvG~~~vGKTSLl~~L~~~~~~~~~~~giT~~i~~~~v~~~-~g~~i~~iDTPGhe~f~~~~~~~~~~aD~vILVVDa~d   87 (537)
T 3izy_P            9 IMGHVDHGKTTLLDKLRKTQVAAMEAGGITQHIGAFLVSLP-SGEKITFLDTPGHAAFSAMRARGTQVTDIVILVVAADD   87 (537)
T ss_dssp             EEESTTTTHHHHHHHHHHHHHHHSSSCCBCCCTTSCCBCSS-CSSCCBCEECSSSCCTTTSBBSSSBSBSSCEEECBSSS
T ss_pred             EECCCCCCHHHHHHHHhCCCcccccCCceeEEEeEEEEEeC-CCCEEEEEECCChHHHHHHHHHHHccCCEEEEEEECCC
Confidence            58999999999999999876655544444443333333221 23468999999999999999999999999999999998


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC-CCHHHHHHH---HHHc--CCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA-VPTEDAKEF---AEKE--GLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~-~~~~~~~~~---~~~~--~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      .........| ..+.   ..++|+++++||+|+..... ....+...+   +..+  .++++++||+++.|++++|+++.
T Consensus        88 g~~~qt~e~l-~~~~---~~~vPiIVViNKiDl~~~~~~~v~~~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~  163 (537)
T 3izy_P           88 GVMKQTVESI-QHAK---DAHVPIVLAINKCDKAEADPEKVKKELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATI  163 (537)
T ss_dssp             CCCHHHHHHH-HHHH---TTTCCEEECCBSGGGTTTSCCSSSSHHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHH
T ss_pred             CccHHHHHHH-HHHH---HcCCcEEEEEecccccccchHHHHHHHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHH
Confidence            6543333222 2222   34689999999999853221 111222211   1122  24799999999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      ..+
T Consensus       164 ~l~  166 (537)
T 3izy_P          164 ALA  166 (537)
T ss_dssp             HHH
T ss_pred             Hhh
Confidence            665

>2ged_A SR-beta, signal recognition particle receptor beta subunit; protein transport, G protein, proline isomerization, circular permutation; 2.20A {Saccharomyces cerevisiae}

Probab=99.81  E-value=2.8e-20  Score=133.88  Aligned_cols=108  Identities=22%  Similarity=0.327  Sum_probs=81.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC---CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcC----CcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD---SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRG----AVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~----~d~~i   73 (206)
                      |+|++|||||||+++|.+..+...   ..++.+         .+.....+.+|||||++.+...+..++..    +|++|
T Consensus        53 vvG~~g~GKSsll~~l~~~~~~~~~~~~~~~~~---------~~~~~~~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~i  123 (193)
T 2ged_A           53 IAGPQNSGKTSLLTLLTTDSVRPTVVSQEPLSA---------ADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLI  123 (193)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCC---------------------CCCCTTCSEEEETTCCBSSCCHHHHHHHHGGGEEEEE
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcccccCCCcee---------eeecCCeEEEEECCCCchHHHHHHHHHHhhcccCCEEE
Confidence            589999999999999999876441   122211         12245678999999999887777777765    89999


Q ss_pred             EEeeCC-ChhhHHHHHHHHHHHHhc----CCCCCcEEEEEeCCCCCcCC
Q 040835           74 LVYDIT-KRQSFDNVARWLEELRGH----ADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        74 ~v~d~~-~~~s~~~~~~~~~~~~~~----~~~~~p~ivv~nK~D~~~~~  117 (206)
                      +|+|++ +.+++..+..|+..+...    ...+.|+++|+||+|+...+
T Consensus       124 ~v~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ilv~nK~Dl~~~~  172 (193)
T 2ged_A          124 FMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFTAR  172 (193)
T ss_dssp             EEEETTCCHHHHHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTTCC
T ss_pred             EEEECCCCchhHHHHHHHHHHHHhhhhhccccCCCEEEEEEchHhcCCC
Confidence            999999 888998888887776543    23579999999999997533

>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=99.81  E-value=1.6e-20  Score=150.01  Aligned_cols=141  Identities=17%  Similarity=0.144  Sum_probs=99.6

Q ss_pred             CccCCCCCHHHHHHHHhcC--------CCCCCC-------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhH
Q 040835            1 LIGDSAVGKSQLLARFARD--------EFSLDS-------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAY   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--------~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   65 (206)
                      ++|.+++|||||+++|++.        .+....       ....+.++......+......+.+|||||++.|......+
T Consensus        16 iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~~d~~~~e~~~GiTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~   95 (405)
T 2c78_A           16 TIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITG   95 (405)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHhhhhhcCccccccchhhccCCHHHHHcCCCEEeeeeEeccCCeEEEEEECCChHHHHHHHHHH
Confidence            5899999999999999973        111100       0122344444445555556789999999999998888899


Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEE
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFM  136 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~  136 (206)
                      +..+|++|+|+|+++... .....|+..+..   .++| +++++||+|+......   ..+++..++..++     ++++
T Consensus        96 ~~~aD~~ilVvda~~g~~-~qt~~~l~~~~~---~~ip~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i  171 (405)
T 2c78_A           96 AAQMDGAILVVSAADGPM-PQTREHILLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVI  171 (405)
T ss_dssp             HTTCSSEEEEEETTTCCC-HHHHHHHHHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEE
T ss_pred             HHHCCEEEEEEECCCCCc-HHHHHHHHHHHH---cCCCEEEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEE
Confidence            999999999999988643 333455554444   3578 8899999998641111   1234556666665     6899


Q ss_pred             EeccCCCCC
Q 040835          137 ETSALESTN  145 (206)
Q Consensus       137 ~~Sa~~~~~  145 (206)
                      ++||+++.|
T Consensus       172 ~~SA~~g~~  180 (405)
T 2c78_A          172 RGSALLALE  180 (405)
T ss_dssp             ECCHHHHHH
T ss_pred             EccHHHhhh
Confidence            999999987

>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=99.81  E-value=4.2e-20  Score=147.14  Aligned_cols=153  Identities=18%  Similarity=0.122  Sum_probs=104.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC-------CCCC-------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDE-------FSLD-------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-------~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|+.++|||||+++|++..       +...       .....+.++......+......+.||||||++.|......++
T Consensus         8 iiG~~~~GKSTLi~~L~~~~~~~g~~~~~~~~~~d~~~~e~~~giTi~~~~~~~~~~~~~~~iiDtpG~~~f~~~~~~~~   87 (397)
T 1d2e_A            8 TIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGT   87 (397)
T ss_dssp             EESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTS
T ss_pred             EEeCCCCCHHHHHHHHhChhhhcCccccchhhhhhcCHHHHhcCcEEEeeeEEeccCCeEEEEEECCChHHHHHHHHhhH
Confidence            58999999999999999741       1100       001223444444444555567899999999999988888889


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC---CCHHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRA---VPTEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~---~~~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++|+|+|+++...... .+++..+..   .++| +++++||+|+.....   ...+++.+++..++     +++++
T Consensus        88 ~~aD~~ilVvda~~g~~~qt-~e~l~~~~~---~~vp~iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~  163 (397)
T 1d2e_A           88 APLDGCILVVAANDGPMPQT-REHLLLARQ---IGVEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIV  163 (397)
T ss_dssp             SCCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEE
T ss_pred             hhCCEEEEEEECCCCCCHHH-HHHHHHHHH---cCCCeEEEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEE
Confidence            99999999999998543222 222233333   3678 689999999864111   11235566777665     58999


Q ss_pred             eccCCCCC----------HHHHHHHHHHHH
Q 040835          138 TSALESTN----------VELAFLTVLTEI  157 (206)
Q Consensus       138 ~Sa~~~~~----------v~~~~~~l~~~i  157 (206)
                      +||+++.|          +.++++.+.+.+
T Consensus       164 ~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          164 GSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             CCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             eehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence            99999764          666766665543

>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=99.81  E-value=5.1e-20  Score=148.25  Aligned_cols=148  Identities=23%  Similarity=0.178  Sum_probs=99.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC------------Cccc-------------------cceeeEEEEEEECCeEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD------------SKAT-------------------IGVEFQTKTLVIHHKNVKAQI   49 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~------------~~~~-------------------~~~~~~~~~~~~~~~~~~~~i   49 (206)
                      ++|..++|||||+++|++......            ...+                   .+.++......+......+.+
T Consensus        29 iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~i~~~s~~~gt~~~~~~~~~~~d~~~~E~~rGiTi~~~~~~~~~~~~~~~i  108 (434)
T 1zun_B           29 TCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTAKRKFII  108 (434)
T ss_dssp             EECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECSSEEEEE
T ss_pred             EEECCCCCHHHHHHHHHhhcCCCchhhhhhhhhhhhccCccccchhhhhhhccChhHHHCCcEEEeeeeEeecCCceEEE
Confidence            589999999999999986531100            0011                   122222222233445578999


Q ss_pred             EeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC----CHHHHH
Q 040835           50 WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV----PTEDAK  125 (206)
Q Consensus        50 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~----~~~~~~  125 (206)
                      |||||++.|......++..+|++|+|+|++++.. ....+++..+....  ..|+++++||+|+......    ..++..
T Consensus       109 iDtpGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~-~qt~~~l~~~~~~~--~~~iIvviNK~Dl~~~~~~~~~~i~~~~~  185 (434)
T 1zun_B          109 ADTPGHEQYTRNMATGASTCDLAIILVDARYGVQ-TQTRRHSYIASLLG--IKHIVVAINKMDLNGFDERVFESIKADYL  185 (434)
T ss_dssp             EECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSC-HHHHHHHHHHHHTT--CCEEEEEEECTTTTTSCHHHHHHHHHHHH
T ss_pred             EECCChHHHHHHHHHHHhhCCEEEEEEECCCCCc-HHHHHHHHHHHHcC--CCeEEEEEEcCcCCcccHHHHHHHHHHHH
Confidence            9999999998888889999999999999998642 22334444333321  2369999999998642111    124456


Q ss_pred             HHHHHcC-----CeEEEeccCCCCCHHHHHH
Q 040835          126 EFAEKEG-----LCFMETSALESTNVELAFL  151 (206)
Q Consensus       126 ~~~~~~~-----~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .++..++     ++++++||+++.|+++++.
T Consensus       186 ~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~  216 (434)
T 1zun_B          186 KFAEGIAFKPTTMAFVPMSALKGDNVVNKSE  216 (434)
T ss_dssp             HHHHTTTCCCSEEEEEECCTTTCTTTSSCCT
T ss_pred             HHHHHhCCCccCceEEEEeccCCCCcccccc
Confidence            6666777     6799999999999998544

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=99.81  E-value=1.1e-19  Score=141.92  Aligned_cols=133  Identities=17%  Similarity=0.241  Sum_probs=105.2

Q ss_pred             ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC----------hhhHHHHHHHHHHHH
Q 040835           26 KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK----------RQSFDNVARWLEELR   95 (206)
Q Consensus        26 ~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~   95 (206)
                      .+|+|...  ..+.++  .+.+.+||++|++.+...|..++++++++|+|+|+++          ..++.....|+..+.
T Consensus       178 ~~T~Gi~~--~~~~~~--~~~l~iwDt~GQe~~r~~w~~yf~~a~~iIfV~dls~~d~~l~ed~~~nr~~e~~~~~~~i~  253 (353)
T 1cip_A          178 VKTTGIVE--THFTFK--DLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSIC  253 (353)
T ss_dssp             CCCCSEEE--EEEEET--TEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGGGGCEETTEEEEEHHHHHHHHHHHHH
T ss_pred             CceeceEE--EEEeeC--CeeEEEEeCCCchhhhHHHHHHHhcCCEEEEEEECccccccccccchhhhHHHHHHHHHHHH
Confidence            34555433  333333  5889999999999999999999999999999999999          456888888888776


Q ss_pred             hcC-CCCCcEEEEEeCCCCCcCC---------------CCCHHHHHHHHH-----------HcCCeEEEeccCCCCCHHH
Q 040835           96 GHA-DKNIIIMLVGNKSDLETLR---------------AVPTEDAKEFAE-----------KEGLCFMETSALESTNVEL  148 (206)
Q Consensus        96 ~~~-~~~~p~ivv~nK~D~~~~~---------------~~~~~~~~~~~~-----------~~~~~~~~~Sa~~~~~v~~  148 (206)
                      ... ..++|+++++||+|+...+               .+..+++..++.           ..++.+++|||+++.||++
T Consensus       254 ~~~~~~~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~  333 (353)
T 1cip_A          254 NNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQF  333 (353)
T ss_dssp             TCGGGTTSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHH
T ss_pred             cCccccCCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHH
Confidence            542 2579999999999984211               356778888876           3567899999999999999


Q ss_pred             HHHHHHHHHHHHhh
Q 040835          149 AFLTVLTEIYRIVS  162 (206)
Q Consensus       149 ~~~~l~~~i~~~~~  162 (206)
                      +|.++.+.+.+...
T Consensus       334 vF~~v~~~i~~~~l  347 (353)
T 1cip_A          334 VFDAVTDVIIKNNL  347 (353)
T ss_dssp             HHHHHHHHHHHHC-
T ss_pred             HHHHHHHHHHHHHH
Confidence            99999999876543

>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=99.80  E-value=3.2e-20  Score=149.38  Aligned_cols=150  Identities=20%  Similarity=0.218  Sum_probs=98.5

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCCC----------------------c-----cccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLDS----------------------K-----ATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~~----------------------~-----~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|..++|||||+++|+..  .+....                      +     ...+.++......+......+.|||
T Consensus        11 iiG~~~~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~giTi~~~~~~~~~~~~~~~iiD   90 (435)
T 1jny_A           11 VIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIID   90 (435)
T ss_dssp             EEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSCEEEECC
T ss_pred             EEeCCCCCHHHHHHHHHHHcCCcCHHHHhhhhhhhhhcCCcchhhhhhhccChHHHhcCceeEeeEEEEecCCeEEEEEE
Confidence            5899999999999999874  221110                      0     0112333333334445567899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhc----CCCCC-cEEEEEeCCCCCcCC------CCC
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGH----ADKNI-IIMLVGNKSDLETLR------AVP  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~----~~~~~-p~ivv~nK~D~~~~~------~~~  120 (206)
                      |||++.|......++..+|++|+|+|+++ .+++....|.......    ...++ |+++++||+|+....      ...
T Consensus        91 tpG~~~f~~~~~~~~~~aD~~ilVvDa~~-gsfe~~~~~~~qt~~~~~~~~~~~~~~iivviNK~Dl~~~~~~~~~~~~~  169 (435)
T 1jny_A           91 APGHRDFVKNMITGASQADAAILVVSAKK-GEYEAGMSVEGQTREHIILAKTMGLDQLIVAVNKMDLTEPPYDEKRYKEI  169 (435)
T ss_dssp             CSSSTTHHHHHHHTSSCCSEEEEEEECST-THHHHHHSTTCHHHHHHHHHHHTTCTTCEEEEECGGGSSSTTCHHHHHHH
T ss_pred             CCCcHHHHHHHHhhhhhcCEEEEEEECCC-CccccccccchHHHHHHHHHHHcCCCeEEEEEEcccCCCccccHHHHHHH
Confidence            99999999989999999999999999998 5565433222111111    11234 689999999986521      111


Q ss_pred             HHHHHHHHHHcC-----CeEEEeccCCCCCHHHHHH
Q 040835          121 TEDAKEFAEKEG-----LCFMETSALESTNVELAFL  151 (206)
Q Consensus       121 ~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .+++..++..++     ++++++||+++.|+.+++.
T Consensus       170 ~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          170 VDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             HHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             HHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            345666777665     6799999999999986654

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=99.79  E-value=2.3e-20  Score=155.41  Aligned_cols=146  Identities=16%  Similarity=0.155  Sum_probs=97.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc-----------------------------ccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA-----------------------------TIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|.+|+|||||+++|++.........                             ..|.++......+......+.|||
T Consensus       172 ivG~~n~GKSTLin~Ll~~~~~i~~~~i~~~~~~~~~~g~~~~~~a~~~d~~~~e~~~GiTid~~~~~~~~~~~~~~iiD  251 (611)
T 3izq_1          172 VLGHVDAGKSTLMGRLLYDLNIVNQSQLRKLQRESETMGKSSFKFAWIMDQTNEERERGVTVSICTSHFSTHRANFTIVD  251 (611)
T ss_dssp             EECCSSSCHHHHHHHHHSCSSCSCCHHHHHHHHHSSCSSSSCCSSSHHHHHHHHHHHTTTCCSCSCCEEECSSCEEEEEE
T ss_pred             EEECCCCCHHHHHHHHHHhcCCccHHHHHHHHhhhhhccccccceeeeeccchhhhhCCeeEeeeeEEEecCCceEEEEE
Confidence            589999999999999997643222110                             013333333333444567899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhh---H---HHHHHHHHHHHhcCCCC-CcEEEEEeCCCCCcCCCCC----
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQS---F---DNVARWLEELRGHADKN-IIIMLVGNKSDLETLRAVP----  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~-~p~ivv~nK~D~~~~~~~~----  120 (206)
                      |||++.|......++..+|++|+|+|++++..   +   ......+..+..   .+ .|+++++||+|+...+...    
T Consensus       252 TPG~e~f~~~~~~~~~~aD~~llVVDa~~g~~e~~~~~~~qt~e~l~~~~~---lgi~~iIVVvNKiDl~~~~~~~~~ei  328 (611)
T 3izq_1          252 APGHRDFVPNAIMGISQADMAILCVDCSTNAFESGFDLDGQTKEHMLLASS---LGIHNLIIAMNKMDNVDWSQQRFEEI  328 (611)
T ss_dssp             CCSSSCHHHHHTTTSSCCSEEEEEEECSHHHHHTTCCTTSHHHHHHHHHHT---TTCCEEEEEEECTTTTTTCHHHHHHH
T ss_pred             CCCCcccHHHHHHHHhhcCceEEEEECCCCcccccchhhhHHHHHHHHHHH---cCCCeEEEEEecccccchhHHHHHHH
Confidence            99999999888999999999999999987521   1   111222222222   23 4599999999986422222    


Q ss_pred             HHHHHHHHHHcC-----CeEEEeccCCCCCHHHH
Q 040835          121 TEDAKEFAEKEG-----LCFMETSALESTNVELA  149 (206)
Q Consensus       121 ~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~~  149 (206)
                      ..++..++...+     ++++++||++|.|+.++
T Consensus       329 ~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el  362 (611)
T 3izq_1          329 KSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  362 (611)
T ss_dssp             HHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSC
T ss_pred             HHHHHHHHHhhcccccCccEEeeecccCCCcccc
Confidence            223344444444     58999999999999876

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=99.78  E-value=3.1e-19  Score=137.56  Aligned_cols=144  Identities=17%  Similarity=0.210  Sum_probs=110.6

Q ss_pred             HHHhcCCCCCC-------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC-------
Q 040835           14 ARFARDEFSLD-------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT-------   79 (206)
Q Consensus        14 ~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~-------   79 (206)
                      .++....+.|.       ..+|+|...  ..+.+  ..+.+++||++|++.++..|..++++++++|+|+|++       
T Consensus       133 ~Ri~~~~Y~PT~~Dilr~r~~TiGi~~--~~~~~--~~v~l~iwDtgGQe~~R~~w~~yf~~~~~iIfV~dls~ydq~l~  208 (327)
T 3ohm_A          133 DRVADPSYLPTQQDVLRVRVPTTGIIE--YPFDL--QSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSEYDQVLV  208 (327)
T ss_dssp             HHHHSTTCCCCHHHHTTCCCCCCSEEE--EEEEE--TTEEEEEEEECCSHHHHTTGGGGCSSCSEEEEEEEGGGGGCBCS
T ss_pred             HHHhccCCCccccchhcccCceeeEEE--EEEEe--eceeeEEEEcCCchhHHHHHHHHhCCCCEEEEEEECcccccccc
Confidence            34555666665       556666433  23333  3588999999999999999999999999999999665       


Q ss_pred             ---ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCC----------------CCCHHHHHHHHH----------
Q 040835           80 ---KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLR----------------AVPTEDAKEFAE----------  129 (206)
Q Consensus        80 ---~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~----------  129 (206)
                         +..++.....|+..+.... ..++|+++++||+|+...+                ..+.+++..++.          
T Consensus       209 d~~~~nr~~es~~~~~~i~~~~~~~~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~  288 (327)
T 3ohm_A          209 ESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDS  288 (327)
T ss_dssp             SCTTSBHHHHHHHHHHHHHTSGGGTTCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTT
T ss_pred             ccccHhHHHHHHHHHHHHhhhhccCCceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccc
Confidence               5667777777777765443 2579999999999985322                457777877743          


Q ss_pred             HcCCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          130 KEGLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       130 ~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                      ..++.+++|||+++.||+.+|..+.+.+++..
T Consensus       289 ~~~i~~~~TsA~d~~nV~~vF~~v~~~Il~~~  320 (327)
T 3ohm_A          289 DKIIYSHFTCATDTENIRFVFAAVKDTILQLN  320 (327)
T ss_dssp             TSCEEEEECCTTCHHHHHHHHHHHHHHHHHTT
T ss_pred             cCCcEEEEEEeecCHHHHHHHHHHHHHHHHHh
Confidence            34567899999999999999999999998764

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=99.78  E-value=1.1e-19  Score=139.54  Aligned_cols=109  Identities=11%  Similarity=0.046  Sum_probs=74.0

Q ss_pred             EEEEEEeCCCch-------------hhhhhhHhHhcCCcEEE-EEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           45 VKAQIWDTAGQE-------------RYRAVTSAYYRGAVGAM-LVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        45 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ..+.+|||||..             .+......+++.++.+| +|+|+++..+......++..+.   ..+.|+++|+||
T Consensus       125 ~~l~lvDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~v~d~~~~~~~~~~~~~~~~~~---~~~~~~i~V~NK  201 (299)
T 2aka_B          125 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITK  201 (299)
T ss_dssp             CSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHC---TTCSSEEEEEEC
T ss_pred             CCceEEeCCCCCCCcCCCCCchHHHHHHHHHHHHHcCCCeEEEEEecCCcchhhhHHHHHHHHhC---CCCCeEEEEEEc
Confidence            578999999953             45566778888888776 6899987544333333444443   247899999999


Q ss_pred             CCCCcCCCCCHHHHHHHHHH--cC-CeEEEeccCCCCCHHHHHHHHHHH
Q 040835          111 SDLETLRAVPTEDAKEFAEK--EG-LCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       111 ~D~~~~~~~~~~~~~~~~~~--~~-~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      +|+........+.+......  .+ .+++++||+++.|++++|.++.+.
T Consensus       202 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~~  250 (299)
T 2aka_B          202 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  250 (299)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHHH
T ss_pred             cccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHHH
Confidence            99965433222222211001  12 367899999999999999998874

>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=99.78  E-value=2.1e-20  Score=151.56  Aligned_cols=150  Identities=17%  Similarity=0.144  Sum_probs=84.3

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCC----------------------CCc-----cccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSL----------------------DSK-----ATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~----------------------~~~-----~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|+.++|||||+++|+..  .+..                      ..+     ...+.++......+......+.|||
T Consensus        48 iiG~vd~GKSTLi~~Ll~~~g~~~~~~~~~~~~~~~~~G~~~~~~~~~~D~~~~er~~giTi~~~~~~~~~~~~~~~iiD  127 (467)
T 1r5b_A           48 FIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLD  127 (467)
T ss_dssp             EEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSSEEEEECC
T ss_pred             EEECCCCCHHHHHHHHHHHhCCCChHHHHHHHhHHHhcCCcchhhhhhcccchhhhhcCceEEeeeEEEecCCeEEEEEE
Confidence            5899999999999999752  1110                      000     0012222222222333357899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC------CCH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRA------VPT  121 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~------~~~  121 (206)
                      |||++.|.......+..+|++|+|+|+++..   +|+....|...+......++| +++++||+|+.....      ...
T Consensus       128 tPGh~~f~~~~~~~~~~aD~~ilVvDa~~g~~e~sf~~~~qt~e~l~~~~~~~vp~iivviNK~Dl~~~~~~~~~~~~i~  207 (467)
T 1r5b_A          128 APGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLARTQGINHLVVVINKMDEPSVQWSEERYKECV  207 (467)
T ss_dssp             CCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHHTTCSSEEEEEECTTSTTCSSCHHHHHHHH
T ss_pred             CCCcHHHHHHHHhhcccCCEEEEEEeCCcCccccccCCCCcHHHHHHHHHHcCCCEEEEEEECccCCCccccHHHHHHHH
Confidence            9999999888888899999999999999863   222111222222211124677 999999999853111      112


Q ss_pred             HHHHHHHHHc-------CCeEEEeccCCCCCHHHHH
Q 040835          122 EDAKEFAEKE-------GLCFMETSALESTNVELAF  150 (206)
Q Consensus       122 ~~~~~~~~~~-------~~~~~~~Sa~~~~~v~~~~  150 (206)
                      .++..++...       +++++++||+++.|+.+++
T Consensus       208 ~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~  243 (467)
T 1r5b_A          208 DKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  243 (467)
T ss_dssp             HHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHhcCCCccCCceEEeccccccccccccc
Confidence            3456666665       3569999999999998866

>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=99.77  E-value=1e-18  Score=127.28  Aligned_cols=148  Identities=17%  Similarity=0.184  Sum_probs=92.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch----------hhhhhhHhHh---c
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----------RYRAVTSAYY---R   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~~~~~~~~~---~   67 (206)
                      |+|++|||||||+++|++..+.....++.+.+.....+.+++   .+.+|||||..          .+......++   .
T Consensus        31 lvG~~g~GKSTLl~~l~g~~~~~~~~~~~G~~~~~~~~~~~~---~~~l~Dt~G~~~~~~~~~~~~~~~~~~~~~~~~~~  107 (210)
T 1pui_A           31 FAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVAD---GKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQ  107 (210)
T ss_dssp             EEECTTSSHHHHHTTTCCC-------------CCEEEEEEET---TEEEEECCCCC------CCHHHHHHHHHHHHHHCT
T ss_pred             EECCCCCCHHHHHHHHhCCCccccccCCCccceeeEEEEecC---CEEEEECcCCcccccCHHHHHHHHHHHHHHHHhhh
Confidence            589999999999999998774444445555554433333332   47899999973          2333333444   5


Q ss_pred             CCcEEEEEeeCCChhhHHH--HHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC--CCHHHHHHHHHHcC--CeEEEeccC
Q 040835           68 GAVGAMLVYDITKRQSFDN--VARWLEELRGHADKNIIIMLVGNKSDLETLRA--VPTEDAKEFAEKEG--LCFMETSAL  141 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~--~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~--~~~~~~~~~~~~~~--~~~~~~Sa~  141 (206)
                      .++++++++|++++.+...  +..|+   ..   .+.|+++++||+|+....+  .....+..++...+  +.++++|++
T Consensus       108 ~~~~~~~v~d~~~~~~~~~~~~~~~~---~~---~~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal  181 (210)
T 1pui_A          108 SLQGLVVLMDIRHPLKDLDQQMIEWA---VD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSL  181 (210)
T ss_dssp             TEEEEEEEEETTSCCCHHHHHHHHHH---HH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTT
T ss_pred             cccEEEEEEECCCCCchhHHHHHHHH---HH---cCCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeec
Confidence            7899999999987654322  22332   22   4688999999999753111  11234445555443  568899999


Q ss_pred             CCCCHHHHHHHHHHHH
Q 040835          142 ESTNVELAFLTVLTEI  157 (206)
Q Consensus       142 ~~~~v~~~~~~l~~~i  157 (206)
                      ++.|++++++++.+.+
T Consensus       182 ~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          182 KKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             TTBSHHHHHHHHHHHH
T ss_pred             CCCCHHHHHHHHHHHH
Confidence            9999999999988765

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=99.77  E-value=8e-19  Score=137.54  Aligned_cols=146  Identities=19%  Similarity=0.241  Sum_probs=104.3

Q ss_pred             HHHHhcCCCCCC-------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC-----
Q 040835           13 LARFARDEFSLD-------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK-----   80 (206)
Q Consensus        13 l~~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~-----   80 (206)
                      +.++....+.|.       ..+|+|...  ..+.++  .+.+.+|||+|++.+...|..++++++++|+|+|+++     
T Consensus       166 ~~ri~~~~Y~PT~~Dil~~r~~T~Gi~~--~~~~~~--~~~l~i~Dt~Gq~~~r~~w~~~f~~~~~iIfv~dls~~dq~l  241 (362)
T 1zcb_A          166 LDKLGVPDYIPSQQDILLARRPTKGIHE--YDFEIK--NVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSEFDQVL  241 (362)
T ss_dssp             HHHHTSTTCCCCHHHHHHCCCCCSSEEE--EEEEET--TEEEEEEEECC-------CTTSCTTCCEEEEEEETTCTTCEE
T ss_pred             HHHHhcCCCCCChhhhhhccCCccceEE--EEeeeC--CeEEEEEeccchhhhhhhHHHHhCCCCEEEEEEECccccccc
Confidence            455555555554       234555443  333443  5889999999999999999999999999999999999     


Q ss_pred             -----hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCC----------------CCCHHHHHHHHH---------
Q 040835           81 -----RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLR----------------AVPTEDAKEFAE---------  129 (206)
Q Consensus        81 -----~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~----------------~~~~~~~~~~~~---------  129 (206)
                           ..++.....|+..+.... ..++|+++++||+|+...+                ..+.+++..++.         
T Consensus       242 ~ed~~~n~~~es~~~~~~i~~~~~~~~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~  321 (362)
T 1zcb_A          242 MEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRD  321 (362)
T ss_dssp             TTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSS
T ss_pred             cccccccHHHHHHHHHHHHhcchhhCCCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcc
Confidence                 678888888888876542 3579999999999985311                256777777662         


Q ss_pred             --HcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          130 --KEGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       130 --~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                        ..++.+++|||+++.||+++|.++.+.+++...
T Consensus       322 ~~~~~~~~~~tSA~d~~nV~~vF~~v~~~i~~~~l  356 (362)
T 1zcb_A          322 QQQRPLYHHFTTAINTENIRLVFRDVKDTILHDNL  356 (362)
T ss_dssp             CC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             cCCCceEEEEEecCCchhHHHHHHHHHHHHHHHHH
Confidence              345789999999999999999999999876654

>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=99.77  E-value=6.4e-21  Score=154.60  Aligned_cols=146  Identities=17%  Similarity=0.228  Sum_probs=99.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.++|||||+++|....+.....+.++.+.....  +...+..+.+|||||++.|..++...+..+|++|+|+|+++
T Consensus         9 IvGhvd~GKTTLl~~L~~~~v~~~e~~GIT~~i~~~~--v~~~~~~i~~iDTPGhe~f~~~~~~~~~~aD~aILVVda~~   86 (501)
T 1zo1_I            9 IMGHVDHGKTSLLEYIRSTKVASGEAGGITQHIGAYH--VETENGMITFLDTPGHAAFTSMRARGAQATDIVVLVVAADD   86 (501)
T ss_dssp             EEESTTSSSHHHHHHHHHHHHSBTTBCCCCCCSSCCC--CCTTSSCCCEECCCTTTCCTTSBCSSSBSCSSEEEEEETTT
T ss_pred             EECCCCCCHHHHHHHHHcCCCccccCCCeeEeEEEEE--EEECCEEEEEEECCCcHHHHHHHHHHHhhCCEEEEEeeccc
Confidence            5899999999999999986554433332222222222  22234578999999999999988889999999999999987


Q ss_pred             h---hhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC--CCCCHH--HHHHHHHHcC--CeEEEeccCCCCCHHHHHH
Q 040835           81 R---QSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL--RAVPTE--DAKEFAEKEG--LCFMETSALESTNVELAFL  151 (206)
Q Consensus        81 ~---~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~--~~~~~~--~~~~~~~~~~--~~~~~~Sa~~~~~v~~~~~  151 (206)
                      .   .+.+.+    ..+..   .++|+++++||+|+...  ..+..+  +...++..++  ++++++||+++.|++++|+
T Consensus        87 g~~~qT~e~l----~~~~~---~~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle  159 (501)
T 1zo1_I           87 GVMPQTIEAI----QHAKA---AQVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLD  159 (501)
T ss_dssp             BSCTTTHHHH----HHHHH---TTCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHH
T ss_pred             CccHHHHHHH----HHHHh---cCceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhh
Confidence            4   333322    22222   46899999999998531  111100  0001112233  6899999999999999999


Q ss_pred             HHHH
Q 040835          152 TVLT  155 (206)
Q Consensus       152 ~l~~  155 (206)
                      ++..
T Consensus       160 ~I~~  163 (501)
T 1zo1_I          160 AILL  163 (501)
T ss_dssp             HTTT
T ss_pred             hhhh
Confidence            8864

>1azs_C GS-alpha; complex (lyase/hydrolase), hydrolase, signal transducing protein, cyclase, effector enzyme; HET: GSP FKP; 2.30A {Bos taurus} SCOP: a.66.1.1 c.37.1.8 PDB: 1azt_A* 3c14_C* 3c15_C* 3c16_C* 1cjt_C* 1cjk_C* 1cju_C* 1cjv_C* 1tl7_C* 1cs4_C* 1u0h_C* 2gvd_C* 2gvz_C* 3e8a_C* 3g82_C* 3maa_C* 1cul_C* 3sn6_A*

Probab=99.77  E-value=5.3e-18  Score=133.97  Aligned_cols=125  Identities=17%  Similarity=0.204  Sum_probs=99.5

Q ss_pred             EEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC----------hhhHHHHHHHHHHHHhcC-CCCCcEE
Q 040835           37 TLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK----------RQSFDNVARWLEELRGHA-DKNIIIM  105 (206)
Q Consensus        37 ~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~----------~~s~~~~~~~~~~~~~~~-~~~~p~i  105 (206)
                      .+.++  .+.+.||||+|++.+...|..++++++++|+|||+++          ..++.....|+..+.... ..++|++
T Consensus       211 ~~~~~--~v~l~iwDtaGQe~~r~~w~~yf~~a~~iIfV~dis~ydq~l~ed~~~ns~~e~~~~~~~i~~~~~~~~~pii  288 (402)
T 1azs_C          211 KFQVD--KVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVI  288 (402)
T ss_dssp             EEEET--TEEEEEEEECCSGGGGGGGGGGTTTCCEEEEEEETTGGGCBCTTTSCSBHHHHHHHHHHHHHTCTTCSSCCEE
T ss_pred             EeecC--CccceecccchhhhhhhhhHhhccCCCEEEEEEECcccccccccccccchHHHHHHHHHHHHhcccCCCCeEE
Confidence            34444  4889999999999999999999999999999999999          789999999998887653 3679999


Q ss_pred             EEEeCCCCCcCCC---C---------------------------CHHHHHHHH-----HH--------cCCeEEEeccCC
Q 040835          106 LVGNKSDLETLRA---V---------------------------PTEDAKEFA-----EK--------EGLCFMETSALE  142 (206)
Q Consensus       106 vv~nK~D~~~~~~---~---------------------------~~~~~~~~~-----~~--------~~~~~~~~Sa~~  142 (206)
                      ||+||+|+...+.   .                           ..+++..++     ..        .++.+++|||++
T Consensus       289 LvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~TSA~d  368 (402)
T 1azs_C          289 LFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVD  368 (402)
T ss_dssp             EEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEECCTTC
T ss_pred             EEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEEEEeec
Confidence            9999999843211   1                           134555553     21        245688999999


Q ss_pred             CCCHHHHHHHHHHHHHHHhhh
Q 040835          143 STNVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~~~~~~  163 (206)
                      +.||+++|.++.+.+++...+
T Consensus       369 ~~nV~~vF~~v~~~I~~~~l~  389 (402)
T 1azs_C          369 TENIRRVFNDCRDIIQRMHLR  389 (402)
T ss_dssp             HHHHHHHHHHHHHHHHHHHHH
T ss_pred             CcCHHHHHHHHHHHHHHHHHH
Confidence            999999999999988776544

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=99.77  E-value=2.1e-18  Score=134.69  Aligned_cols=121  Identities=20%  Similarity=0.213  Sum_probs=95.0

Q ss_pred             eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC----------ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCC
Q 040835           43 KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT----------KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKS  111 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~----------~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~  111 (206)
                      ..+.+.+|||+|++.+...|..++++++++|+|+|++          +..++.....|+..+.... ..++|+++++||+
T Consensus       181 ~~v~l~iwDtaGQe~~r~~~~~y~~~~~~iI~v~dis~ydq~l~e~~~~~s~~~~~~~~~~i~~~~~~~~~piiLvgNK~  260 (354)
T 2xtz_A          181 SGEVYRLFDVGGQRNERRKWIHLFEGVTAVIFCAAISEYDQTLFEDEQKNRMMETKELFDWVLKQPCFEKTSFMLFLNKF  260 (354)
T ss_dssp             ---EEEEEEECCSTTGGGGTGGGCTTEEEEEEEEEGGGTTCBCSSCTTSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECH
T ss_pred             cceeeEEEECCCchhhhHHHHHHhCCCCEEEEEEECcccccccccccchhHHHHHHHHHHHHHhccccCCCeEEEEEECc
Confidence            5789999999999999999999999999999999998          7788998888888876543 2579999999999


Q ss_pred             CCCcCCC--C-------------------CHHHHHHHHHH----------------cCCeEEEeccCCCCCHHHHHHHHH
Q 040835          112 DLETLRA--V-------------------PTEDAKEFAEK----------------EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus       112 D~~~~~~--~-------------------~~~~~~~~~~~----------------~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      |+..++.  +                   ..+++..++..                ..+.+++|||+++.||+++|.++.
T Consensus       261 DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~~nV~~vF~~v~  340 (354)
T 2xtz_A          261 DIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQKLVKKTFKLVD  340 (354)
T ss_dssp             HHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             chhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecchhHHHHHHHHH
Confidence            9843211  1                   13556666432                124578999999999999999999


Q ss_pred             HHHHHHhhh
Q 040835          155 TEIYRIVSK  163 (206)
Q Consensus       155 ~~i~~~~~~  163 (206)
                      +.+.+...+
T Consensus       341 ~~I~~~~l~  349 (354)
T 2xtz_A          341 ETLRRRNLL  349 (354)
T ss_dssp             HHHHHHHHH
T ss_pred             HHHHHHHHH
Confidence            998765443

>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=99.77  E-value=4e-19  Score=154.14  Aligned_cols=152  Identities=16%  Similarity=0.093  Sum_probs=100.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC-------CCC-------CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARDE-------FSL-------DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~-------~~~-------~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|++++|||||+++|++..       +..       ....+.|.++....+.++.....+.||||||++.|.......+
T Consensus       301 IIGhvDvGKSTLInrLt~~~~~~G~a~f~~~a~lD~~~~ErerGITIdva~v~f~~~~~kI~IIDTPGHedF~~~mi~ga  380 (1289)
T 3avx_A          301 TIGHVDHGKTTLTAAITTVLAKTYGGAARAFDQIDNAPEEKARGITINTSHVEYDTPTRHYAHVDCPGHADYVKNMITGA  380 (1289)
T ss_dssp             EEESTTSSHHHHHHHHHHHHHHHSCC---------------------CCSCEEEECSSCEEEEEECCCHHHHHHHHHHTS
T ss_pred             EEcCCCCCHHHHHHHHHhhhccccccccccccccccccccccCceeEEEEEEEEcCCCEEEEEEECCChHHHHHHHHHHH
Confidence            58999999999999998741       000       0112234444333344555567899999999999988888899


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEEE
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFME  137 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~  137 (206)
                      ..+|++|+|+|++++... ...+++..+..   .++| +++++||+|+......   ..+++..++..++     +++++
T Consensus       381 s~AD~aILVVDAtdGv~~-QTrEhL~ll~~---lgIP~IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~Ip  456 (1289)
T 3avx_A          381 AQMDGAILVVAATDGPMP-QTREHILLGRQ---VGVPYIIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVR  456 (1289)
T ss_dssp             CCCSEEEEEEETTTCSCT-THHHHHHHHHH---HTCSCEEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEE
T ss_pred             hhCCEEEEEEcCCccCcH-HHHHHHHHHHH---cCCCeEEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEE
Confidence            999999999999885422 23334444433   2578 7899999998642111   1245566777665     58999


Q ss_pred             eccCCC--------CCHHHHHHHHHHH
Q 040835          138 TSALES--------TNVELAFLTVLTE  156 (206)
Q Consensus       138 ~Sa~~~--------~~v~~~~~~l~~~  156 (206)
                      +||+++        .|+.++++.+.+.
T Consensus       457 vSAktG~ng~~~w~eGI~eLleaL~~~  483 (1289)
T 3avx_A          457 GSALKALEGDAEWEAKILELAGFLDSY  483 (1289)
T ss_dssp             CCSTTTTTCCHHHHHHHHHHHHHHHHT
T ss_pred             EEeccCCCCCccccccchhhHhHHhhh
Confidence            999999        3466666666543

>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=99.77  E-value=1.1e-19  Score=147.11  Aligned_cols=146  Identities=14%  Similarity=0.132  Sum_probs=97.0

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCC------------------C----c-----cccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLD------------------S----K-----ATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~------------------~----~-----~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|.+++|||||+++|++.  .+...                  +    +     ...+.++......+......+.|||
T Consensus        12 iiG~~~~GKSTLi~~Ll~~~~~~~~~~~~~~~~~~~~~g~~~~~~a~~~d~~~~er~~GiTi~~~~~~~~~~~~~~~iiD   91 (458)
T 1f60_A           12 VIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVID   91 (458)
T ss_dssp             EEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEEEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCcChHHHHHhhhhHHhcCCcchhhhhhhccchhHHhcCcEEEEEEEEEecCCceEEEEE
Confidence            5899999999999999864  11110                  0    0     0012222222223444567899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hHH---HHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCC----CC
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SFD---NVARWLEELRGHADKNII-IMLVGNKSDLETLRA----VP  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~~---~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~----~~  120 (206)
                      |||++.|......++..+|++|+|+|+++..   +|+   ...+++..+..   .++| +++++||+|+.....    ..
T Consensus        92 tPGh~~f~~~~~~~~~~aD~~ilVvda~~g~~~~sf~~~~qt~~~~~~~~~---~~v~~iivviNK~Dl~~~~~~~~~~i  168 (458)
T 1f60_A           92 APGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVKWDESRFQEI  168 (458)
T ss_dssp             CCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGTTCHHHHHHH
T ss_pred             CCCcHHHHHHHHhhhhhCCEEEEEEeCCcCccccccCcchhHHHHHHHHHH---cCCCeEEEEEEccccccCCHHHHHHH
Confidence            9999999988889999999999999999763   121   22222222222   3465 899999999863111    11


Q ss_pred             HHHHHHHHHHcC-----CeEEEeccCCCCCHHHH
Q 040835          121 TEDAKEFAEKEG-----LCFMETSALESTNVELA  149 (206)
Q Consensus       121 ~~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~~  149 (206)
                      .+++..++..++     ++++++||+++.|+.++
T Consensus       169 ~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~  202 (458)
T 1f60_A          169 VKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEA  202 (458)
T ss_dssp             HHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBC
T ss_pred             HHHHHHHHHHcCCCccCceEEEeecccCcCcccc
Confidence            234556666665     68999999999999754

>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=99.76  E-value=3.2e-18  Score=144.05  Aligned_cols=110  Identities=14%  Similarity=0.129  Sum_probs=76.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc----------------ccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA----------------TIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|+.|+|||||+++|++.........                ..+.++......+.+..+.+.+|||||+..|......
T Consensus        14 IiG~~gaGKTTLl~~L~~~~~~~~~~G~V~~g~~~~d~~~~e~~~giti~~~~~~~~~~~~~~nliDTpG~~~f~~~~~~   93 (665)
T 2dy1_A           14 LVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRG   93 (665)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHH
T ss_pred             EECCCCChHHHHHHHHHHhcCCCCccceecCCcccccCCHHHHhcCCeEEecceEEeeCCEEEEEEeCCCccchHHHHHH
Confidence            589999999999999995322111000                0122333333334444678999999999999988999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      +++.+|++++|+|+++...... ..++..+..   .++|+++++||+|+.
T Consensus        94 ~l~~ad~~ilVvD~~~g~~~qt-~~~~~~~~~---~~ip~ilv~NKiD~~  139 (665)
T 2dy1_A           94 ALEAADAALVAVSAEAGVQVGT-ERAWTVAER---LGLPRMVVVTKLDKG  139 (665)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEECGGGC
T ss_pred             HHhhcCcEEEEEcCCcccchhH-HHHHHHHHH---ccCCEEEEecCCchh
Confidence            9999999999999987543322 233333333   368999999999985

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=99.76  E-value=2e-18  Score=133.56  Aligned_cols=141  Identities=15%  Similarity=0.218  Sum_probs=106.9

Q ss_pred             HHhcCCCCCC-------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC--------
Q 040835           15 RFARDEFSLD-------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT--------   79 (206)
Q Consensus        15 ~l~~~~~~~~-------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~--------   79 (206)
                      ++....+.+.       ..+|+|.....    +....+.+++||++|++.+...|..++++++++|+|+|++        
T Consensus       128 Ri~~~~Y~PT~~Dil~~~~~TiGi~~~~----~~~~~v~l~iwDtaGQe~~R~~w~~yy~~a~~iIfV~diS~ydq~l~e  203 (340)
T 4fid_A          128 RIAMEDYVPTEEDLIHNRTKTTGIHEYD----FVVKDIPFHLIDVGGQRSERKXWVSFFSDVDCAIFVTSLAEYDMKLYE  203 (340)
T ss_dssp             HHSSTTCCCCHHHHHHSCCCCCSCEEEE----EESSSCEEEEEECCSCHHHHHHHHTTSCSCSEEEEEEEGGGTTCBCC-
T ss_pred             HHhcccCCccccceeecccceeeeEEEE----EEeeeeeeccccCCCcccccccHHHHhccCCEEEEEEECCcccccccc
Confidence            3444555555       55666644332    3345688999999999999999999999999999999998        


Q ss_pred             --ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcC---------------CCCCHHHHHHHHHH-c---------
Q 040835           80 --KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETL---------------RAVPTEDAKEFAEK-E---------  131 (206)
Q Consensus        80 --~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~---------------~~~~~~~~~~~~~~-~---------  131 (206)
                        +..++.....|+..+.... ..++|+++++||+|+...               .....+++..++.. .         
T Consensus       204 ~~~~nr~~es~~~~~~i~~~~~~~~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~  283 (340)
T 4fid_A          204 DGNTSRLTESIAVFKDIMTNEFLKGAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEM  283 (340)
T ss_dssp             -CCSBHHHHHHHHHHHHHHCGGGTTSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEES
T ss_pred             ccccchHHHHHHHHHHHhhhhccCCCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhh
Confidence              6778888888877765543 367999999999998421               01245555554432 2         


Q ss_pred             -----------------CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          132 -----------------GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       132 -----------------~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                                       .+.+++|||++..||+.+|..+.+.|++
T Consensus       284 ~~~~~~~~~~~~~~~~~~iy~h~TsA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          284 NISGADGTANIEGAVNEKVYTNPTNATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             CC--------------CEEEEEEECTTCHHHHHHHHHHHHHHHHH
T ss_pred             hccccccccccccccCcceEEEEEEeeCcHHHHHHHHHHHHHHHH
Confidence                             3678999999999999999999999998

>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=99.76  E-value=4.4e-18  Score=135.39  Aligned_cols=157  Identities=15%  Similarity=0.129  Sum_probs=105.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh----hhhhhH---hHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER----YRAVTS---AYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~----~~~~~~---~~~~~~d~~i   73 (206)
                      |+|++|||||||+++|++........+..+.......+..+. ...+.+||+||...    +..+..   ..+..++.++
T Consensus       162 LVG~~gAGKSTLL~~Lsg~~~~i~~~~ftTl~p~~G~V~~~~-~~~~~l~DtpGli~~a~~~~~L~~~fl~~~era~~lL  240 (416)
T 1udx_A          162 LVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSPNLGVVEVSE-EERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLL  240 (416)
T ss_dssp             EECCGGGCHHHHHHHHCSSCCEECCCTTCSSCCEEEEEECSS-SCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEE
T ss_pred             EECCCCCcHHHHHHHHHcCCccccCcccceecceeeEEEecC-cceEEEEeccccccchhhhhhhhHHHHHHHHHHHhhh
Confidence            589999999999999998643211111111222222333332 35689999999632    111222   2346799999


Q ss_pred             EEeeCCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           74 LVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        74 ~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|++ ...+..+..|...+..+..  ...|.++++||+|+...  ...+++.......+++++.+||++++|++++++
T Consensus       241 ~vvDls-~~~~~~ls~g~~el~~la~aL~~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~  317 (416)
T 1udx_A          241 YVLDAA-DEPLKTLETLRKEVGAYDPALLRRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPALKE  317 (416)
T ss_dssp             EEEETT-SCHHHHHHHHHHHHHHHCHHHHHSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHH
T ss_pred             EEeCCc-cCCHHHHHHHHHHHHHHhHHhhcCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHHHHH
Confidence            999998 5556666666655544321  35889999999998642  223344455555678999999999999999999


Q ss_pred             HHHHHHHHHh
Q 040835          152 TVLTEIYRIV  161 (206)
Q Consensus       152 ~l~~~i~~~~  161 (206)
                      ++.+.+.+..
T Consensus       318 ~i~~~l~~~~  327 (416)
T 1udx_A          318 ALHALVRSTP  327 (416)
T ss_dssp             HHHHHHHTSC
T ss_pred             HHHHHHHhcc
Confidence            9998886543

>3t34_A Dynamin-related protein 1A, linker, dynamin-relat 1A; dynamin-like protein 1A, GTPase, membrane fission, motor Pro; HET: GDP; 2.40A {Arabidopsis thaliana} PDB: 3t35_A*

Probab=99.75  E-value=9.6e-19  Score=137.69  Aligned_cols=110  Identities=11%  Similarity=0.020  Sum_probs=77.8

Q ss_pred             EEEEEEeCCCchhh-------------hhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERY-------------RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~-------------~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ..+.+|||||...+             ......++..+|++|+++|..+.....  ..|+..+......+.|+++|+||+
T Consensus       136 ~~l~lvDtPG~~~~~~~~q~~~~~~~~~~~~~~~i~~~d~iilvv~~~~~~~~~--~~~~~l~~~~~~~~~~~i~V~nK~  213 (360)
T 3t34_A          136 VNLTLIDLPGLTKVAVDGQSDSIVKDIENMVRSYIEKPNCIILAISPANQDLAT--SDAIKISREVDPSGDRTFGVLTKI  213 (360)
T ss_dssp             CSEEEEECCCBCSSCCTTCCSSHHHHHHHHHHHHHHSSSEEEEEEEETTSCGGG--CHHHHHHHHSCTTCTTEEEEEECG
T ss_pred             CCeEEEECCCCCcCCcCCCchhHHHHHHHHHHHHhhcCCeEEEEeecccCCcCC--HHHHHHHHHhcccCCCEEEEEeCC
Confidence            35899999997665             566778899999999999876543221  234444455555678999999999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      |+........+....+....+.+++.+++.++.++++.+..+...
T Consensus       214 Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~  258 (360)
T 3t34_A          214 DLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAAR  258 (360)
T ss_dssp             GGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHH
T ss_pred             ccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHH
Confidence            997544444444444444567889999999988888766554433

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=99.75  E-value=4.7e-19  Score=136.11  Aligned_cols=133  Identities=17%  Similarity=0.124  Sum_probs=106.8

Q ss_pred             HHHHHHhcCCCC-CCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChh-hHHHHH
Q 040835           11 QLLARFARDEFS-LDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQ-SFDNVA   88 (206)
Q Consensus        11 tLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~   88 (206)
                      +|+.+++.+.|. ..+.||++..+. ..  +.... .+.+||+  ++++..+++.+++++|++|+|+|++++. ++..+.
T Consensus        32 sl~~~~~~~~f~~~~~~pTiGd~~~-~~--~~~~~-~~~iwD~--qer~~~l~~~~~~~ad~vilV~D~~~~~~s~~~l~  105 (301)
T 1u0l_A           32 ERILCKLRGKFRLQNLKIYVGDRVE-YT--PDETG-SGVIENV--LHRKNLLTKPHVANVDQVILVVTVKMPETSTYIID  105 (301)
T ss_dssp             CEEEEEECGGGTTTTCCCCTTCEEE-EE--CCCSS-SEEEEEE--CCCSCEETTTTEESCCEEEEEECSSTTCCCHHHHH
T ss_pred             cEEEEEEcccccccCCCCCCccEEE-EE--EcCCC-eEEEEEE--ccccceeeccccccCCEEEEEEeCCCCCCCHHHHH
Confidence            566777778887 788899885443 22  22222 6899999  8899999999999999999999999987 688889


Q ss_pred             HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCCCHHHHHHHHH
Q 040835           89 RWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        89 ~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      .|+..+..   .++|+++|+||+|+...+.+  ++...++..++  ++++++||+++.|++++|..+.
T Consensus       106 ~~l~~~~~---~~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~  168 (301)
T 1u0l_A          106 KFLVLAEK---NELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLK  168 (301)
T ss_dssp             HHHHHHHH---TTCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHS
T ss_pred             HHHHHHHH---CCCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhc
Confidence            99987765   47999999999999642222  44667777777  8999999999999999998765

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=99.74  E-value=1.4e-17  Score=140.69  Aligned_cols=113  Identities=13%  Similarity=0.165  Sum_probs=79.8

Q ss_pred             EEEEEeCCCchh---hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           46 KAQIWDTAGQER---YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        46 ~~~i~D~~G~~~---~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      .+.||||||...   ....+..+++.+|++|+|+|++++.+......|...+..   .+.|+++|+||+|+.....++.+
T Consensus       175 ~l~LiDTPGl~~~~~~~~~~~~~i~~aD~vL~Vvda~~~~s~~e~~~l~~~l~~---~~~~iiiVlNK~Dl~~~~~~~~e  251 (695)
T 2j69_A          175 GIEIVDSPGLNDTEARNELSLGYVNNCHAILFVMRASQPCTLGERRYLENYIKG---RGLTVFFLVNAWDQVRESLIDPD  251 (695)
T ss_dssp             TEEEEECCCHHHHHTCHHHHTHHHHSSSEEEEEEETTSTTCHHHHHHHHHHTTT---SCCCEEEEEECGGGGGGGCSSTT
T ss_pred             CeEEEECCCCCchhhHHHHHHHHHHhCCEEEEEEeCCCccchhHHHHHHHHHHh---hCCCEEEEEECcccccccccChh
Confidence            589999999765   344566788999999999999988776666656544432   36789999999998643211111


Q ss_pred             ----------HHHH-----HHHH--------cCCeEEEeccC--------------CCCCHHHHHHHHHHHHHHHh
Q 040835          123 ----------DAKE-----FAEK--------EGLCFMETSAL--------------ESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       123 ----------~~~~-----~~~~--------~~~~~~~~Sa~--------------~~~~v~~~~~~l~~~i~~~~  161 (206)
                                .+..     +...        ...++|++||+              ++.|+++++..+.+.+....
T Consensus       252 e~e~l~~~~~~i~~~~~~~l~~~~~~~g~~~~~~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~~~  327 (695)
T 2j69_A          252 DVEELQASENRLRQVFNANLAEYCTVEGQNIYDERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTRER  327 (695)
T ss_dssp             CHHHHHHHHHHHHHHHHHHHGGGGBSSSCBCGGGTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHHTH
T ss_pred             hHHHHHHHHHHHHHHHHHHHHHhhcccccccCCCcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHHhH
Confidence                      1111     1111        12369999999              99999999999988776543

>3def_A T7I23.11 protein; chloroplast, TOC33, GTPase, hydrolase; HET: GDP; 1.96A {Arabidopsis thaliana} PDB: 3bb3_A* 3bb4_A* 2j3e_A*

Probab=99.74  E-value=5.6e-18  Score=127.76  Aligned_cols=119  Identities=13%  Similarity=0.061  Sum_probs=76.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhc---------CCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYR---------GAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~---------~~d   70 (206)
                      |+|.+|+|||||+++|++....... .+..+.......+..  .+..+.+|||||+..+......+++         .+|
T Consensus        41 lvG~~g~GKSSLin~l~~~~~~~~~~~~~~t~~~~~~~~~~--~~~~l~liDTpG~~~~~~~~~~~~~~i~~~l~~~~~~  118 (262)
T 3def_A           41 VLGKGGVGKSSTVNSLIGEQVVRVSPFQAEGLRPVMVSRTM--GGFTINIIDTPGLVEAGYVNHQALELIKGFLVNRTID  118 (262)
T ss_dssp             EEECTTSSHHHHHHHHHTSCCSCCCSSCC-CCCCEEEEEEE--TTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEEC
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCCcceeeEEEEEEE--CCeeEEEEECCCCCCcccchHHHHHHHHHHHhcCCCC
Confidence            5899999999999999998753222 222122223333333  3458999999998776554444332         789


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCC--CCcEEEEEeCCCCCcCCCCCH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADK--NIIIMLVGNKSDLETLRAVPT  121 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~--~~p~ivv~nK~D~~~~~~~~~  121 (206)
                      ++++|++++..........|+..+....+.  ..|+++|+||+|+...+....
T Consensus       119 ~il~V~~~d~~~~~~~~~~~~~~l~~~~~~~~~~~~ivv~nK~Dl~~~~~~~~  171 (262)
T 3def_A          119 VLLYVDRLDVYAVDELDKQVVIAITQTFGKEIWCKTLLVLTHAQFSPPDELSY  171 (262)
T ss_dssp             EEEEEEESSCSCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECTTCCCSTTCCH
T ss_pred             EEEEEEcCCCCCCCHHHHHHHHHHHHHhchhhhcCEEEEEeCcccCCCCCccH
Confidence            999999887644212224566666554332  248999999999864444443

>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=99.73  E-value=2.1e-17  Score=135.59  Aligned_cols=111  Identities=17%  Similarity=0.219  Sum_probs=73.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC--------------------CccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD--------------------SKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~--------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~   60 (206)
                      |+|++|+|||||+++|+...-...                    .....+.++......+.+....+.||||||+..|..
T Consensus        18 IiG~~~aGKTTL~~~Ll~~~g~i~~~g~v~~~~~~~~~~~D~~~~E~~rGiTi~~~~~~~~~~~~~i~liDTPG~~df~~   97 (529)
T 2h5e_A           18 IISHPDAGKTTITEKVLLFGQAIQTAGTVKGRGSNQHAKSDWMEMEKQRGISITTSVMQFPYHDCLVNLLDTPGHEDFSE   97 (529)
T ss_dssp             EEECTTSSHHHHHHHHHHSCC-------------------------------CCTTEEEEEETTEEEEEECCCCSTTCCH
T ss_pred             EECCCCChHHHHHHHHHhhcCCccccceeecCccccceeeccchhcccCCcceeeeEEEEEECCeEEEEEECCCChhHHH
Confidence            589999999999999996321110                    001112222222233334457899999999999988


Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      ....++..+|++|+|+|+++..... ...++..+.   ..++|+++++||+|+..
T Consensus        98 ~~~~~l~~aD~~IlVvDa~~g~~~~-t~~~~~~~~---~~~ipiivviNK~Dl~~  148 (529)
T 2h5e_A           98 DTYRTLTAVDCCLMVIDAAKGVEDR-TRKLMEVTR---LRDTPILTFMNKLDRDI  148 (529)
T ss_dssp             HHHHGGGGCSEEEEEEETTTCSCHH-HHHHHHHHT---TTTCCEEEEEECTTSCC
T ss_pred             HHHHHHHHCCEEEEEEeCCccchHH-HHHHHHHHH---HcCCCEEEEEcCcCCcc
Confidence            8888999999999999998764321 222222222   24789999999999853

>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=99.73  E-value=9.5e-19  Score=134.35  Aligned_cols=157  Identities=15%  Similarity=0.194  Sum_probs=82.3

Q ss_pred             CccCCCCCHHHHHHHHhcC-CCCCCC--------ccccceeeEEEEEEECCeEEEEEEEeCCCc-------hhhhhhhH-
Q 040835            1 LIGDSAVGKSQLLARFARD-EFSLDS--------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQ-------ERYRAVTS-   63 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~-~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~-------~~~~~~~~-   63 (206)
                      |+|++|+|||||+++|++. .+....        .++.............+....+.+||++|.       +.+..... 
T Consensus        23 lvG~nG~GKSTLl~~L~g~~~~~~~gi~~~g~~~~~t~~~~~~~~~~q~~~~~~~ltv~Dt~g~~~~~~~~e~~~~l~~~  102 (301)
T 2qnr_A           23 VVGESGLGKSTLINSLFLTDLYPERVISGAAEKIERTVQIEASTVEIEERGVKLRLTVVDTPGYGDAINCRDCFKTIISY  102 (301)
T ss_dssp             EEEETTSSHHHHHHHHHC------------------------CEEEEC---CCEEEEEEEEC-----------CTTHHHH
T ss_pred             EECCCCCCHHHHHHHHhCCCccCCCCcccCCcccCCcceEeeEEEEecCCCcccCcchhhhhhhhhhcCcHHHHHHHHHH
Confidence            5899999999999998875 333222        112111111111122334567899999997       44444433 


Q ss_pred             ------hHhc-------------CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHH
Q 040835           64 ------AYYR-------------GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTE  122 (206)
Q Consensus        64 ------~~~~-------------~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~  122 (206)
                            .++.             .+++++++.+++.. +++....  ..+.... ..+++++|+||.|+...+++  ..+
T Consensus       103 l~~~~~~~~~~~sgg~rqrv~~ara~~ll~ldePt~~-~Ld~~~~--~~l~~l~-~~~~iilV~~K~Dl~~~~e~~~~~~  178 (301)
T 2qnr_A          103 IDEQFERYLHDESGLNRRHIIDNRVHCCFYFISPFGH-GLKPLDV--AFMKAIH-NKVNIVPVIAKADTLTLKERERLKK  178 (301)
T ss_dssp             HHHHHHHHHHHHTSSCCTTCCCCCCCEEEEEECSSSS-SCCHHHH--HHHHHHT-TTSCEEEEECCGGGSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHhCHHhhhhhhhhhhhheeeeecCccc-CCCHHHH--HHHHHHH-hcCCEEEEEEeCCCCCHHHHHHHHH
Confidence                  3332             23456666665432 1222211  2222222 36799999999998643332  235


Q ss_pred             HHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          123 DAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       123 ~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      ++.+++..+++++|++||+++ |++++|..+.+.+.+..+
T Consensus       179 ~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~~~p  217 (301)
T 2qnr_A          179 RILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKASIP  217 (301)
T ss_dssp             HHHHHHHHTTCCCCCCC----------CHHHHHHHHTTCS
T ss_pred             HHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhcCCC
Confidence            677888889999999999999 999999999988865443

>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=99.72  E-value=1.6e-17  Score=140.28  Aligned_cols=111  Identities=16%  Similarity=0.210  Sum_probs=76.3

Q ss_pred             CccCCCCCHHHHHHHHhcCC--C------CCCC---c-----cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDE--F------SLDS---K-----ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~------~~~~---~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+|+|||||+++|+...  +      ....   +     ...+.++......+.+....+.+|||||+..|...+..
T Consensus        17 IvG~~~aGKTTL~~~Ll~~~g~~~~~g~v~~~~~~~d~~~~E~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~   96 (691)
T 1dar_A           17 IAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDTPGHVDFTIEVER   96 (691)
T ss_dssp             EEECTTSCHHHHHHHHHHHHCC----------------------------CCEEEEEETTEEEEEECCCSSTTCHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHhcCCCcccceecCCceeccCchhhhhcccccccceEEEEECCeEEEEEECcCccchHHHHHH
Confidence            58999999999999998421  1      0000   0     00112222222223334578999999999999988999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      +++.+|++|+|+|+++.........|.. +..   .++|+++++||+|+..
T Consensus        97 ~l~~aD~~ilVvDa~~g~~~~t~~~~~~-~~~---~~~p~ivviNKiD~~~  143 (691)
T 1dar_A           97 SMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKTG  143 (691)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             HHHHCCEEEEEEECCCCcchhhHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            9999999999999998777666555543 222   3799999999999853

>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=99.72  E-value=3.3e-17  Score=126.59  Aligned_cols=112  Identities=13%  Similarity=0.085  Sum_probs=69.1

Q ss_pred             EEEEEEeCCCchh-------------hhhhhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           45 VKAQIWDTAGQER-------------YRAVTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        45 ~~~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ..+.+|||||...             +......++..+|++|+|+|.++.. .......+...+.   ..+.|+++|+||
T Consensus       131 ~~~~lvDTpG~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iilvvd~~~~~~~~~~~~~i~~~~~---~~~~~~i~v~NK  207 (315)
T 1jwy_B          131 VNLTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITK  207 (315)
T ss_dssp             CSEEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEEC
T ss_pred             CCcEEEECCCCccCCCCCCchhHHHHHHHHHHHHHcCCCeEEEEEEecCcchhhhHHHHHHHHhC---CCCCcEEEEEcC
Confidence            4689999999643             5566778899999999999974332 1111112222232   247899999999


Q ss_pred             CCCCcCCCCCHHHHHHHHHHcCCeEEEeccC---C---CCCHHHHHHHHHHHHHH
Q 040835          111 SDLETLRAVPTEDAKEFAEKEGLCFMETSAL---E---STNVELAFLTVLTEIYR  159 (206)
Q Consensus       111 ~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~---~---~~~v~~~~~~l~~~i~~  159 (206)
                      +|+........+.+.......+..++++++.   +   +.|+.+++..+.+.+..
T Consensus       208 ~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~~  262 (315)
T 1jwy_B          208 LDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFKN  262 (315)
T ss_dssp             TTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHHT
T ss_pred             cccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHhC
Confidence            9986533322222221111122556666544   4   67888888887766643

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=99.72  E-value=6.6e-20  Score=152.27  Aligned_cols=144  Identities=24%  Similarity=0.260  Sum_probs=75.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----------------------------ccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----------------------------KATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      |+|.+++|||||+++|+........                             ....++++......+......+.|||
T Consensus       182 iiG~~d~GKSTLi~~Ll~~~~~i~~~~~~~~~~~~~~~g~~~~~~~~~~D~~~~E~~~GiTid~~~~~~~~~~~~i~iiD  261 (592)
T 3mca_A          182 VTGHVDSGKSTMLGRIMFELGEINSRSMQKLHNEAANSGKGSFSYAWLLDTTEEERARGVTMDVASTTFESDKKIYEIGD  261 (592)
T ss_dssp             EECCSSSTHHHHHHHHHHHHHCC------------------------------------------------------CCE
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHhHhhcCCcchhhhhhhccchhhhcCCeeEEeeEEEEEeCCeEEEEEE
Confidence            5899999999999999742110000                             00113344443444444567899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChh---hH---HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCC----
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQ---SF---DNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVP----  120 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~---s~---~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~----  120 (206)
                      |||++.|.......+..+|++|+|+|++++.   .+   ......+..+..   .++| +++++||+|+.......    
T Consensus       262 TPGh~~f~~~~~~~~~~aD~alLVVDa~~g~~e~gi~~~~qt~e~l~~~~~---lgip~iIvviNKiDl~~~~~~~~~~i  338 (592)
T 3mca_A          262 APGHRDFISGMIAGASSADFAVLVVDSSQNNFERGFLENGQTREHAYLLRA---LGISEIVVSVNKLDLMSWSEDRFQEI  338 (592)
T ss_dssp             EESSSEEEEECCC-------CCSEEEEEECCSSTTSCSCSSHHHHHHHHHH---SSCCCEEEEEECGGGGTTCHHHHHHH
T ss_pred             CCChHHHHHHHHHHHhhCCEEEEEEECCCCccccccccchHHHHHHHHHHH---cCCCeEEEEEeccccccccHHHHHHH
Confidence            9999999888888899999999999998632   11   111122222222   3465 89999999986411111    


Q ss_pred             HHHHHHHH-HHcCC-----eEEEeccCCCCCHH
Q 040835          121 TEDAKEFA-EKEGL-----CFMETSALESTNVE  147 (206)
Q Consensus       121 ~~~~~~~~-~~~~~-----~~~~~Sa~~~~~v~  147 (206)
                      ..++..+. ...++     +++++||++|.|+.
T Consensus       339 ~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          339 KNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             HHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             HHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            12334444 33454     69999999999998

>1h65_A Chloroplast outer envelope protein OEP34; GTPase, translocon; HET: GDP; 2.0A {Pisum sativum} SCOP: c.37.1.8 PDB: 3bb1_A*

Probab=99.71  E-value=1.7e-17  Score=125.64  Aligned_cols=116  Identities=12%  Similarity=0.072  Sum_probs=74.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhH-------hH--hcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTS-------AY--YRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~-------~~--~~~~d~   71 (206)
                      |+|.+|+|||||+|+|++..+..... ..+.+.......+......+.+|||||...+.....       .+  .+.+|+
T Consensus        44 vvG~~g~GKSSLin~l~~~~~~~~~~-~~~~t~~~~~~~~~~~~~~l~iiDTpG~~~~~~~~~~~~~~i~~~~~~~~~d~  122 (270)
T 1h65_A           44 VMGKGGVGKSSTVNSIIGERVVSISP-FQSEGPRPVMVSRSRAGFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTIDV  122 (270)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCSCCCS-SSCCCSSCEEEEEEETTEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEECE
T ss_pred             EECCCCCCHHHHHHHHhCCCcccccC-CCCcceeeEEEEEeeCCeEEEEEECCCCCCCccchHHHHHHHHHHhhcCCCCE
Confidence            58999999999999999987643221 112233333333334457799999999865532211       22  247999


Q ss_pred             EEEEeeCCChhhHHH-HHHHHHHHHhcCCCC--CcEEEEEeCCCCCcCCC
Q 040835           72 AMLVYDITKRQSFDN-VARWLEELRGHADKN--IIIMLVGNKSDLETLRA  118 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~-~~~~~~~~~~~~~~~--~p~ivv~nK~D~~~~~~  118 (206)
                      +|+|+|++.. ++.. ...|+..+....+.+  .|+++|+||+|+...+.
T Consensus       123 il~v~~~d~~-~~~~~~~~~~~~l~~~~~~~~~~~iivV~nK~Dl~~~~~  171 (270)
T 1h65_A          123 LLYVDRLDAY-RVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDG  171 (270)
T ss_dssp             EEEEEESSCC-CCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGG
T ss_pred             EEEEEeCCCC-cCCHHHHHHHHHHHHHhCcccccCEEEEEECcccCCcCC
Confidence            9999988653 2322 235666665543322  79999999999865443

>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=99.70  E-value=3.9e-16  Score=132.06  Aligned_cols=110  Identities=15%  Similarity=0.124  Sum_probs=76.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC--CCC------C-----Cc---cccceeeEEEEEEECCe-------EEEEEEEeCCCchh
Q 040835            1 LIGDSAVGKSQLLARFARDE--FSL------D-----SK---ATIGVEFQTKTLVIHHK-------NVKAQIWDTAGQER   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--~~~------~-----~~---~~~~~~~~~~~~~~~~~-------~~~~~i~D~~G~~~   57 (206)
                      |+|..|+|||||+++|+...  +..      .     +.   ...+.++......+.+.       .+.+.||||||+..
T Consensus        15 IiG~~~~GKTTL~~~Ll~~~g~~~~~g~v~~g~~~~D~~~~E~~rgiTi~~~~~~~~~~~~~~~~~~~~i~liDTPG~~d   94 (704)
T 2rdo_7           15 ISAHIDAGKTTTTERILFYTGVNHKIGEVHDGAATMDWMEQEQERGITITSAATTAFWSGMAKQYEPHRINIIDTPGHVD   94 (704)
T ss_pred             EECCCCCCHHHHHHHHHHhcCCcccccccCCCceeecChhhHHhcCceeeeceEEEEECCccccCCceeEEEEeCCCccc
Confidence            58999999999999997531  110      0     00   01122332222223222       38899999999999


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      |...+..+++.+|++|+|+|+++.........|.. ...   .++|+++++||+|+.
T Consensus        95 f~~~~~~~l~~aD~aIlVvDa~~gv~~qt~~~~~~-~~~---~~ip~ilviNKiD~~  147 (704)
T 2rdo_7           95 FTIEVERSMRVLDGAVMVYCAVGGVQPQSETVWRQ-ANK---YKVPRIAFVNKMDRM  147 (704)
T ss_pred             hHHHHHHHHHHCCEEEEEEeCCCCCcHHHHHHHHH-HHH---cCCCEEEEEeCCCcc
Confidence            98889999999999999999998765444444432 222   468999999999985

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=99.68  E-value=1.2e-16  Score=135.07  Aligned_cols=111  Identities=15%  Similarity=0.162  Sum_probs=75.8

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCCCC---Cc---c--------ccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARD--EFSLD---SK---A--------TIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~~~---~~---~--------~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+|+|||||+++|+..  .+...   ..   .        ..+.++......+......+.+|||||+..|...+..
T Consensus        15 IvG~~~aGKSTL~~~Ll~~~~~~~~~g~v~~~~~~~D~~~~e~~~giTi~~~~~~~~~~~~~i~liDTPG~~df~~~~~~   94 (693)
T 2xex_A           15 IMAHIDAGKTTTTERILYYTGRIHKIGETHEGASQMDWMEQEQDRGITITSAATTAAWEGHRVNIIDTPGHVDFTVEVER   94 (693)
T ss_dssp             EECCGGGTHHHHHHHHHHHHSSCC-------------------------CCSEEEEEETTEEEEEECCCCCSSCCHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHhcCCccccccccCCceecccchhhhhcCceEeeeeEEEEECCeeEEEEECcCCcchHHHHHH
Confidence            5899999999999999952  21100   00   0        0011111112222233578999999999999888899


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      +++.+|++|+|+|+++..+......|.. +..   .++|+++++||+|+..
T Consensus        95 ~l~~aD~~llVvDa~~g~~~~~~~~~~~-~~~---~~~p~ilviNK~Dl~~  141 (693)
T 2xex_A           95 SLRVLDGAVTVLDAQSGVEPQTETVWRQ-ATT---YGVPRIVFVNKMDKLG  141 (693)
T ss_dssp             HHHHCSEEEEEEETTTBSCHHHHHHHHH-HHH---TTCCEEEEEECTTSTT
T ss_pred             HHHHCCEEEEEECCCCCCcHHHHHHHHH-HHH---cCCCEEEEEECCCccc
Confidence            9999999999999998766655555543 333   3689999999999853

>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=99.68  E-value=2.4e-17  Score=131.28  Aligned_cols=151  Identities=14%  Similarity=0.148  Sum_probs=74.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC--------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------hh----
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS--------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------AV----   61 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~~----   61 (206)
                      |+|++|+|||||++.|++..+....        .++.+...........+....+.+||++|...+.       .+    
T Consensus        36 lvG~sGaGKSTLln~L~g~~~~~~~~~~~~~~~~~t~~~~~i~~v~q~~~~~~~Ltv~Dt~g~~~~~~~~~~~~~i~~~i  115 (418)
T 2qag_C           36 VVGESGLGKSTLINSLFLTDLYSPEYPGPSHRIKKTVQVEQSKVLIKEGGVQLLLTIVDTPGFGDAVDNSNCWQPVIDYI  115 (418)
T ss_dssp             EECCTTSSHHHHHHHHTTCCCCCCCCCSCC-----CCEEEEEECC------CEEEEEEECC-----------CHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHhCCCCCCCCCCCcccCCccceeeeeEEEEEecCCcccceeeeechhhhhhccchhhHHHHHHHH
Confidence            5899999999999999987663221        1111111111111112333578999999975431       11    


Q ss_pred             --------------hHhHhcCCc--EEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--H
Q 040835           62 --------------TSAYYRGAV--GAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--E  122 (206)
Q Consensus        62 --------------~~~~~~~~d--~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--~  122 (206)
                                    .+.++.+++  +++|+++++. .++... ..|+..+.    .++|+++|+||+|+...+++..  .
T Consensus       116 ~~~~~~~l~qr~~IaRal~~d~~~~vlL~ldePt~-~~L~~~d~~~lk~L~----~~v~iIlVinK~Dll~~~ev~~~k~  190 (418)
T 2qag_C          116 DSKFEDYLNAESRVNRRQMPDNRVQCCLYFIAPSG-HGLKPLDIEFMKRLH----EKVNIIPLIAKADTLTPEECQQFKK  190 (418)
T ss_dssp             HHHHHHHTTTSCC-CCCCCCCC-CCEEEEECCC-C-CSCCHHHHHHHHHHT----TTSEEEEEEESTTSSCHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHhccCCCeeEEEEEecCcc-cCCCHHHHHHHHHHh----ccCcEEEEEEcccCccHHHHHHHHH
Confidence                          122334444  4555555541 122222 24555553    3689999999999865344333  5


Q ss_pred             HHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          123 DAKEFAEKEGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       123 ~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ++...+...+++++++|+.++.++.++|..+...
T Consensus       191 ~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~  224 (418)
T 2qag_C          191 QIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  224 (418)
T ss_dssp             HHHHHHHHHTCCCCCCC-----------------
T ss_pred             HHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhh
Confidence            6677778889999999999999999877666543

>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=99.67  E-value=2.6e-17  Score=130.61  Aligned_cols=81  Identities=20%  Similarity=0.230  Sum_probs=43.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc--ccceeeEEEEEE-------------------ECC-eEEEEEEEeCCCchh-
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA--TIGVEFQTKTLV-------------------IHH-KNVKAQIWDTAGQER-   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~--~~~~~~~~~~~~-------------------~~~-~~~~~~i~D~~G~~~-   57 (206)
                      |+|.+|||||||+|+|++........|  |...+.....+.                   +++ ....+.+|||||... 
T Consensus         5 ivG~pnvGKSTL~n~L~~~~~~~~~~p~tT~~~~~g~~~~~~~~~~~~l~~~~~p~~~~~~~~~~~~~i~lvDtpG~~~~   84 (397)
T 1wxq_A            5 VVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPG   84 (397)
T ss_dssp             EEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-----
T ss_pred             EECCCCCCHHHHHHHHHCCCCcccCCCCcccCCceEEEeeccCCchHHhhhhcccccccccCCcceEEEEEEECCCcccc
Confidence            589999999999999999873222222  111122211111                   122 257899999999753 


Q ss_pred             ---hhhhhH---hHhcCCcEEEEEeeCCCh
Q 040835           58 ---YRAVTS---AYYRGAVGAMLVYDITKR   81 (206)
Q Consensus        58 ---~~~~~~---~~~~~~d~~i~v~d~~~~   81 (206)
                         ...+..   .+++.+|++++|+|+++.
T Consensus        85 a~~~~~l~~~~l~~i~~aD~il~VvD~~~~  114 (397)
T 1wxq_A           85 AHEGRGLGNKFLDDLRMASALIHVVDATGK  114 (397)
T ss_dssp             ----------CCCSSTTCSEEEEEEETTCC
T ss_pred             hhhhhhHHHHHHHHHhcCCEEEEEEecccc
Confidence               222233   346899999999999875

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=99.63  E-value=2.1e-16  Score=115.96  Aligned_cols=149  Identities=13%  Similarity=0.067  Sum_probs=90.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcccccee--------------eEEEEEEE----------------CCeEEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVE--------------FQTKTLVI----------------HHKNVKAQIW   50 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~--------------~~~~~~~~----------------~~~~~~~~i~   50 (206)
                      |+|.+|||||||+++|+...........+..+              .....+..                ......+.+|
T Consensus        35 i~G~~g~GKTTl~~~l~~~~~~~~~~~~i~~d~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~iii  114 (221)
T 2wsm_A           35 IMGAIGSGKTLLIERTIERIGNEVKIGAMLGDVVSKADYERVRRFGIKAEAISTGKECHLDAHMIYHRLKKFSDCDLLLI  114 (221)
T ss_dssp             EEECTTSCHHHHHHHHHHHHTTTSCEEEEECSCCCHHHHHHHHTTTCEEEECCCTTCSSCCHHHHHTTGGGGTTCSEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHhccCCeEEEEecCCCCchhHHHHHhCCCcEEEecCCceeecccHHHHHHHHhcCCCCEEEE
Confidence            58999999999999998753211110000000              00011111                1123568899


Q ss_pred             eCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040835           51 DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK  130 (206)
Q Consensus        51 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  130 (206)
                      ||+|.....   ..+....+.+++|+|+++....  ...+...      .+.|+++++||+|+........+++...+..
T Consensus       115 dt~G~~~~~---~~~~~~~~~~i~vvd~~~~~~~--~~~~~~~------~~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~  183 (221)
T 2wsm_A          115 ENVGNLICP---VDFDLGENYRVVMVSVTEGDDV--VEKHPEI------FRVADLIVINKVALAEAVGADVEKMKADAKL  183 (221)
T ss_dssp             EEEEBSSGG---GGCCCSCSEEEEEEEGGGCTTH--HHHCHHH------HHTCSEEEEECGGGHHHHTCCHHHHHHHHHH
T ss_pred             eCCCCCCCC---chhccccCcEEEEEeCCCcchh--hhhhhhh------hhcCCEEEEecccCCcchhhHHHHHHHHHHH
Confidence            999951110   0111256889999998765321  1111111      1478899999999864333456666666665


Q ss_pred             c--CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          131 E--GLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       131 ~--~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .  +++++++||+++.|++++|+++.+.+...
T Consensus       184 ~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~~  215 (221)
T 2wsm_A          184 INPRAKIIEMDLKTGKGFEEWIDFLRGILNVH  215 (221)
T ss_dssp             HCTTSEEEECBTTTTBTHHHHHHHHHHHHC--
T ss_pred             hCCCCeEEEeecCCCCCHHHHHHHHHHHHHHH
Confidence            4  47899999999999999999999877543

>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=99.63  E-value=6e-17  Score=127.09  Aligned_cols=108  Identities=9%  Similarity=0.043  Sum_probs=65.5

Q ss_pred             EEEEEEeCCCch-------------hhhhhhHhHhcCCcEEE-EEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeC
Q 040835           45 VKAQIWDTAGQE-------------RYRAVTSAYYRGAVGAM-LVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNK  110 (206)
Q Consensus        45 ~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK  110 (206)
                      ..+.+|||||..             .+..+...|+..++.+| ++++.+....-.....++   ......+.|+++|+||
T Consensus       130 ~~l~lvDTPG~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iiL~v~~a~~~~~~~~~~~i~---~~~~~~~~~~i~V~NK  206 (353)
T 2x2e_A          130 LNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKVA---KEVDPQGQRTIGVITK  206 (353)
T ss_dssp             CSEEEEECCCBCSSCCTTCCTTHHHHHHHHHHHHHTSTTEEEEEEEETTSCGGGCHHHHHH---HHHCTTCTTEEEEEEC
T ss_pred             CCcEEEECCCCCCCccCCCchhHHHHHHHHHHHHHcCCCeEEEEEecCCCccchhHHHHHH---HHhCcCCCceEEEecc
Confidence            568999999952             34556667776665554 455655422211222233   3333357899999999


Q ss_pred             CCCCcCCCCCHHHHHH--HHHHcC-CeEEEeccCCCCCHHHHHHHHHH
Q 040835          111 SDLETLRAVPTEDAKE--FAEKEG-LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus       111 ~D~~~~~~~~~~~~~~--~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +|+..........+..  +....+ .+++.+||+++.|+++++..+.+
T Consensus       207 ~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          207 LDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             GGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             ccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            9986533312221110  000122 25788999999999999998876

>3vqt_A RF-3, peptide chain release factor 3; translation, GTPase; HET: GDP; 1.80A {Desulfovibrio vulgaris} PDB: 3vr1_A*

Probab=99.62  E-value=2.5e-15  Score=123.80  Aligned_cols=109  Identities=17%  Similarity=0.164  Sum_probs=78.0

Q ss_pred             CccCCCCCHHHHHHHHhcCC---------------------CCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDE---------------------FSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~---------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|..++|||||..+|+...                     +.+. ..--|+++....+.+.+.+..++|+||||+.+|.
T Consensus        36 IiaHvdaGKTTLtE~lL~~tG~i~~~G~V~~~~~~~~~~~D~~~~-EreRGITI~s~~~~~~~~~~~iNlIDTPGHvDF~  114 (548)
T 3vqt_A           36 IISHPDAGKTTLTEKLLLFGGAIQMAGSVKARKAARHATSDWMAM-ERERGISVTTSVMQFPYRDRVVNLLDTPGHQDFS  114 (548)
T ss_dssp             EECCTTSSHHHHHHHHHHHTTCHHHHHHHHHC---------------------CTTTEEEEEETTEEEEEECCCCGGGCS
T ss_pred             EEeCCCCCHHHHHHHHHHhcCcccccceeecCccccccccCChHH-HHHCCCcEeeceEEEEECCEEEEEEeCCCcHHHH
Confidence            58999999999999997311                     1000 1112334444445556677889999999999999


Q ss_pred             hhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           60 AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        60 ~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ......++.+|++|+|+|+.+.-.......|.... .   .++|.++++||+|..
T Consensus       115 ~Ev~raL~~~DgAvlVvda~~GV~~qT~~v~~~a~-~---~~lp~i~fINK~Dr~  165 (548)
T 3vqt_A          115 EDTYRVLTAVDSALVVIDAAKGVEAQTRKLMDVCR-M---RATPVMTFVNKMDRE  165 (548)
T ss_dssp             HHHHHHHHSCSEEEEEEETTTBSCHHHHHHHHHHH-H---TTCCEEEEEECTTSC
T ss_pred             HHHHHHHHhcCceEEEeecCCCcccccHHHHHHHH-H---hCCceEEEEecccch
Confidence            99999999999999999999875545545554333 2   479999999999974

>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=99.61  E-value=1.6e-14  Score=112.67  Aligned_cols=140  Identities=18%  Similarity=0.130  Sum_probs=85.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc--ccceeeEEEEEEECCe---------------EEEEEEEeCCCchhhh----
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA--TIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQERYR----   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~----   59 (206)
                      |+|.+|||||||+|+|++..+.....|  |...+..  .+.+++.               ...+.+|||||...+.    
T Consensus         7 IVG~pnvGKSTL~n~Lt~~~~~v~~~p~tTi~p~~g--~v~~~~~r~~~l~~~~~~~~~~~~~i~lvDtpGl~~~a~~~~   84 (363)
T 1jal_A            7 IVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTG--VVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGE   84 (363)
T ss_dssp             EECCTTSSHHHHHHHHHHTC------CCCCCCCCSS--EEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHG
T ss_pred             EECCCCCCHHHHHHHHHCCCCcccCCCCceECceEE--EEecCCcccceeeeeecccceeeeEEEEEECCCCcccccccc
Confidence            589999999999999999764332222  2222222  2233331               2579999999986543    


Q ss_pred             hh---hHhHhcCCcEEEEEeeCCCh----------hhHHHHHHHHHH---------------------------------
Q 040835           60 AV---TSAYYRGAVGAMLVYDITKR----------QSFDNVARWLEE---------------------------------   93 (206)
Q Consensus        60 ~~---~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~~---------------------------------   93 (206)
                      .+   ...+++.+|++++|+|+++.          +++.++..+..+                                 
T Consensus        85 gl~~~fl~~ir~ad~il~VvD~~~~~~v~~v~~~~dp~~d~~~i~~EL~~~d~~~~~k~~~~~~k~~k~g~~~~~~~~~~  164 (363)
T 1jal_A           85 GLGNKFLANIRETDAIGHVVRCFENDDIVHVAGKIDPLDDIDTINTELALADLDSCERAIQRLQKRAKGGDKEAKFELSV  164 (363)
T ss_dssp             GGTCCHHHHHHTCSEEEEEEECSCC---------CCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHTTTCHHHHHHHHH
T ss_pred             hHHHHHHHHHHhcCeEEEEEecCCCCceeeecCCcChHHHHHHHHHHHHhhhHHHHhhHHHHHHHHhhccchhHHHHHHH
Confidence            22   23457899999999999862          122222111111                                 


Q ss_pred             -------HHh-------------------c-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCC
Q 040835           94 -------LRG-------------------H-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus        94 -------~~~-------------------~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                             +..                   + ....+|+++++|+.|..-........+..++...+.+++.+||+.
T Consensus       165 l~~~~~~L~~~~~~~~~~~~~~e~~~l~~~~llt~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          165 MEKILPVLENAGMIRSVGLDKEELQAIKSYNFLTLKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             HHHHHHHHHTTCCGGGSCCCHHHHHHHGGGCCSTTSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             HHHHHHHHhcCCCccccCCCHHHHHHHHHhhcccCCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence                   110                   1 113599999999998642112234667778888899999999653

>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=99.60  E-value=9.3e-17  Score=126.05  Aligned_cols=104  Identities=15%  Similarity=0.081  Sum_probs=70.2

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                      ...+.||||||...   .....+..+|++|+|+|+...+....+..        .-...|+++|+||+|+...... ...
T Consensus       171 ~~~~iiiDTpGi~~---~~~~~~~~aD~vl~V~d~~~~~~~~~l~~--------~~~~~p~ivVlNK~Dl~~~~~~-~~~  238 (355)
T 3p32_A          171 GFDVILIETVGVGQ---SEVAVANMVDTFVLLTLARTGDQLQGIKK--------GVLELADIVVVNKADGEHHKEA-RLA  238 (355)
T ss_dssp             TCCEEEEEECSCSS---HHHHHHTTCSEEEEEEESSTTCTTTTCCT--------TSGGGCSEEEEECCCGGGHHHH-HHH
T ss_pred             CCCEEEEeCCCCCc---HHHHHHHhCCEEEEEECCCCCccHHHHHH--------hHhhcCCEEEEECCCCcChhHH-HHH
Confidence            46789999999533   23345689999999999876543322211        0124689999999998531111 111


Q ss_pred             HHHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          124 AKEFAEK----------EGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       124 ~~~~~~~----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ...+...          ++.+++.+||++++|++++++++.+.+..
T Consensus       239 ~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          239 ARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             HHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            1222221          25789999999999999999999988765

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=99.59  E-value=1.9e-17  Score=122.06  Aligned_cols=59  Identities=12%  Similarity=0.021  Sum_probs=47.4

Q ss_pred             CCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          101 NIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       101 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.|.++++||+|+...+....++...++...  +++++++||+++.|++++|.++.+.+..
T Consensus       164 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~  224 (226)
T 2hf9_A          164 KTADLIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVKE  224 (226)
T ss_dssp             TTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             hcCCEEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHHh
Confidence            3678999999998653334667777777654  5789999999999999999999887653

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=99.56  E-value=1.4e-14  Score=113.25  Aligned_cols=104  Identities=11%  Similarity=0.005  Sum_probs=63.7

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                      +..+.++||+|....   ...+...+|++++|+|++++.....+..   .+     ...|.++++||+|+...... ...
T Consensus       166 ~~~~iliDT~Gi~~~---~~~l~~~~d~vl~V~d~~~~~~~~~i~~---~i-----l~~~~ivVlNK~Dl~~~~~~-~~~  233 (349)
T 2www_A          166 GYDIILIETVGVGQS---EFAVADMVDMFVLLLPPAGGDELQGIKR---GI-----IEMADLVAVTKSDGDLIVPA-RRI  233 (349)
T ss_dssp             TCSEEEEECCCC--C---HHHHHTTCSEEEEEECCC--------------------CCSCSEEEECCCSGGGHHHH-HHH
T ss_pred             CCCEEEEECCCcchh---hhhHHhhCCEEEEEEcCCcchhHHHhHH---HH-----HhcCCEEEEeeecCCCchhH-HHH
Confidence            356899999996321   2345678999999999986543221211   11     24678999999998531110 011


Q ss_pred             HHHHHH----------HcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          124 AKEFAE----------KEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       124 ~~~~~~----------~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ...+..          .++.+++.+||+++.|+++++++|.+.+..
T Consensus       234 ~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~~~  279 (349)
T 2www_A          234 QAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQDL  279 (349)
T ss_dssp             HHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHHHH
Confidence            222221          124578999999999999999999887643

>2qpt_A EH domain-containing protein-2; protein-nucleotide complex, membrane protein, endocytosis; HET: ANP; 3.10A {Mus musculus}

Probab=99.54  E-value=8.5e-15  Score=120.73  Aligned_cols=109  Identities=21%  Similarity=0.280  Sum_probs=74.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC---CCCccccceeeEEEEEEECCe-----------------------E----------
Q 040835            1 LIGDSAVGKSQLLARFARDEFS---LDSKATIGVEFQTKTLVIHHK-----------------------N----------   44 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~---~~~~~~~~~~~~~~~~~~~~~-----------------------~----------   44 (206)
                      |+|.+|+|||||+|+|++..+.   ....++.  +... .+.....                       .          
T Consensus        70 vvG~~n~GKSTLIN~Llg~~~~~~~vs~~p~T--~~~~-~i~~~~~~~i~~g~~l~~~~~~~~~~L~~~g~~~~~~~~~~  146 (550)
T 2qpt_A           70 VAGQYSTGKTSFIQYLLEQEVPGSRVGPEPTT--DCFV-AVMHGETEGTVPGNALVVDPEKPFRKLNPFGNTFLNRFMCA  146 (550)
T ss_dssp             EEEBTTSCHHHHHHHHHTSCCSSCCCCSSCCC--CSEE-EEECCSSSEEECCC------------------CCCTTEEEE
T ss_pred             EECCCCCCHHHHHHHHhCCccccCccCCCCcc--ceEE-EEEECCcccccCCceeeecCcccHHHHhhhcccccccceEE
Confidence            5899999999999999998764   2223321  1111 0000000                       0          


Q ss_pred             -------EEEEEEeCCCchh-----------hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEE
Q 040835           45 -------VKAQIWDTAGQER-----------YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIML  106 (206)
Q Consensus        45 -------~~~~i~D~~G~~~-----------~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~iv  106 (206)
                             ..+.+|||||...           |...+..++..+|++|+|+|+++.........|+..+..   .+.|+++
T Consensus       147 ~~~~~ll~~l~lIDTPG~~~~~~~~~~~~~~f~~~~~~~l~~aD~il~VvDa~~~~~~~~~~~~l~~l~~---~~~pvil  223 (550)
T 2qpt_A          147 QLPNQVLESISIIDTPGILSGAKQRVSRGYDFPAVLRWFAERVDLIILLFDAHKLEISDEFSEAIGALRG---HEDKIRV  223 (550)
T ss_dssp             ECCCHHHHHCEEEECCCBCC-------CCSCHHHHHHHHHHHCSEEEEEEETTSCCCCHHHHHHHHHTTT---CGGGEEE
T ss_pred             eccccccCCEEEEECcCCCCcchhHHHHHhhHHHHHHHHHHhCCEEEEEEeCCcCCCCHHHHHHHHHHHh---cCCCEEE
Confidence                   2588999999764           556677788999999999999875444445556555443   4589999


Q ss_pred             EEeCCCCCc
Q 040835          107 VGNKSDLET  115 (206)
Q Consensus       107 v~nK~D~~~  115 (206)
                      |+||+|+..
T Consensus       224 VlNK~Dl~~  232 (550)
T 2qpt_A          224 VLNKADMVE  232 (550)
T ss_dssp             EEECGGGSC
T ss_pred             EEECCCccC
Confidence            999999864

>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=99.54  E-value=1.7e-14  Score=124.27  Aligned_cols=110  Identities=19%  Similarity=0.176  Sum_probs=78.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC----------------Ccc--ccceeeEEEEEE------------ECCeEEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD----------------SKA--TIGVEFQTKTLV------------IHHKNVKAQIW   50 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~----------------~~~--~~~~~~~~~~~~------------~~~~~~~~~i~   50 (206)
                      |+|+.++|||||+++|+...-...                ..+  |+..........            .++..+.+.||
T Consensus        24 IiG~~~~GKTTL~~~Ll~~~g~i~~~~~~~~~~~D~~~~E~~rgiTI~~~~~~~~~~~~~~~~~~i~~~~~~~~~~i~li  103 (842)
T 1n0u_A           24 VIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLI  103 (842)
T ss_dssp             EECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEE
T ss_pred             EECCCCCCHHHHHHHHHHhcCCcccccCCCceeecCchhhhhcceeEeeceeEEEecccccccccccccccCCCceEEEE
Confidence            589999999999999987421100                011  111111111111            12347889999


Q ss_pred             eCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           51 DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        51 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ||||+.+|...+..+++.+|++|+|+|++++.++.....|.....    .++|+++++||+|+.
T Consensus       104 DTPG~~df~~~~~~~l~~aD~ailVvDa~~g~~~qt~~~~~~~~~----~~~p~ilviNK~D~~  163 (842)
T 1n0u_A          104 DSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  163 (842)
T ss_dssp             CCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             ECcCchhhHHHHHHHHHhCCEEEEEEeCCCCCCHHHHHHHHHHHH----cCCCeEEEEECCCcc
Confidence            999999999999999999999999999999877766665654332    468999999999985

>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=99.53  E-value=3.8e-14  Score=111.20  Aligned_cols=147  Identities=16%  Similarity=0.111  Sum_probs=88.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc--ccceeeEEEEEEECC-------------------eEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA--TIGVEFQTKTLVIHH-------------------KNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~-------------------~~~~~~i~D~~G~~~~~   59 (206)
                      ++|.+|||||||+|+|++........+  |...+....  .+..                   ....+.+|||||.....
T Consensus         6 IVG~pnvGKSTL~n~L~~~~~~v~~~p~~Ti~pn~g~~--~v~~~~l~~~~~~~~~~~~~~~~~~~~i~lvDtpGl~~~a   83 (368)
T 2dby_A            6 IVGLPNVGKSTLFNALTRANALAANYPFATIDKNVGVV--PLEDERLYALQRTFAKGERVPPVVPTHVEFVDIAGLVKGA   83 (368)
T ss_dssp             EECCSSSSHHHHHHHHHHHHTTCSSCCGGGGSTTEEEE--ECCCHHHHHHHHHHCBTTBCCCEECCEEEEEECCSCCCCC
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCceeccceeeE--ecChHHHHHHHHHhcccccccccCCceEEEEECCCccccc
Confidence            589999999999999998653222111  222222222  2221                   24579999999976542


Q ss_pred             -------hhhHhHhcCCcEEEEEeeCCCh----------hhHHHHHHHHH------------------------------
Q 040835           60 -------AVTSAYYRGAVGAMLVYDITKR----------QSFDNVARWLE------------------------------   92 (206)
Q Consensus        60 -------~~~~~~~~~~d~~i~v~d~~~~----------~s~~~~~~~~~------------------------------   92 (206)
                             ......++.+|++++|+|+++.          +.+.++..+..                              
T Consensus        84 ~~~~~lg~~fl~~ir~ad~ii~VvD~~~~~~~~~v~~~~dp~~d~~~i~~EL~~~d~~~l~k~~~~~~~~~~~~~~~~~~  163 (368)
T 2dby_A           84 HKGEGLGNQFLAHIREVAAIAHVLRCFPDPDVVHVMGRVDPLEDAEVVETELLLADLATLERRLERLRKEARADRERLPL  163 (368)
T ss_dssp             CSSSCTTHHHHHHHHTCSEEEEEEECCCCH-----------HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHCGGGHHH
T ss_pred             cccchHHHHHHHHHHhCCEEEEEEECCCCCceeEeecccChHHHHHHHhhHHHHccHHHHHHHHHHHHhhhccchhHHHH
Confidence                   1223457899999999999852          11211111000                              


Q ss_pred             ---------HHHh-------------------cC-CCCCcEEEEEeCCCCC--cC-CCCCHHHHHHHHHHcCCeEEEecc
Q 040835           93 ---------ELRG-------------------HA-DKNIIIMLVGNKSDLE--TL-RAVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus        93 ---------~~~~-------------------~~-~~~~p~ivv~nK~D~~--~~-~~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                               .+..                   +. -..+|+++++||.|..  .. .......++.++...+++++++||
T Consensus       164 ~~~l~~~~~~L~~~~~~~~~~~~~~~~~~l~~~~~lt~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSA  243 (368)
T 2dby_A          164 LEAAEGLYVHLQEGKPARTFPPSEAVARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSA  243 (368)
T ss_dssp             HHHHHHHHHHHHTTCCGGGSCCCHHHHHHHHHSCCGGGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECH
T ss_pred             HHHHHHHHHHHhcCCCcccCCCCHHHHHHHHHHhhhhcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeec
Confidence                     0000                   00 1237999999999853  21 123356677888888999999999


Q ss_pred             CCCCCHHHH
Q 040835          141 LESTNVELA  149 (206)
Q Consensus       141 ~~~~~v~~~  149 (206)
                      +...++.++
T Consensus       244 k~E~el~eL  252 (368)
T 2dby_A          244 RLEAELAEL  252 (368)
T ss_dssp             HHHHHHHTS
T ss_pred             hhHHHHHHh
Confidence            876555543

>3j25_A Tetracycline resistance protein TETM; antibiotic resistance, translation; HET: GCP; 7.20A {Enterococcus faecalis}

Probab=99.50  E-value=9.8e-15  Score=122.42  Aligned_cols=110  Identities=18%  Similarity=0.192  Sum_probs=79.9

Q ss_pred             CccCCCCCHHHHHHHHhcCC--------CCCCCc--------cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDE--------FSLDSK--------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~--------~~~~~~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|+.++|||||..+|+...        ......        .--|+++....+.+.+.+..++|+||||+.+|......
T Consensus         7 IiaHvD~GKTTL~e~LL~~~G~i~~~g~v~~g~~~~D~~~~EreRGITI~s~~~~~~~~~~~iNlIDTPGH~DF~~Ev~r   86 (638)
T 3j25_A            7 VLAHVDAGKTTLTESLLYNSGAITELGSVDKGTTRTDNTLLERQRGITIQTGITSFQWENTKVNIIDTPGHMDFLAEVYR   86 (638)
T ss_dssp             EECCSTTSSHHHHHHHHHHHTCCSSCSSCCCSCCSTTCSTTHHHHSSCSSCCCCCCBCSSCBCCCEECCCSSSTHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCCccccccccCCcccCCcHHHHhCCCcEEeeeEEEEECCEEEEEEECCCcHHHHHHHHH
Confidence            58999999999999997421        100000        00144555555566777888999999999999999999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .++.+|++|+|+|+.+.-.......|.....    .++|.++++||+|..
T Consensus        87 aL~~~DgavlVVDa~~GV~~qT~~v~~~a~~----~~lp~i~~INKmDr~  132 (638)
T 3j25_A           87 SLSVLDGAILLISAKDGVQAQTRILFHALRK----MGIPTIFFINKIDQN  132 (638)
T ss_dssp             HHTTCSEEECCEESSCTTCSHHHHHHHHHHH----HTCSCEECCEECCSS
T ss_pred             HHHHhCEEEEEEeCCCCCcHHHHHHHHHHHH----cCCCeEEEEeccccc
Confidence            9999999999999987654333344443332    368899999999974

>1yrb_A ATP(GTP)binding protein; GTPase, P-loop, rossman fold, GDP, HYDR; HET: GDP; 1.75A {Pyrococcus abyssi} SCOP: c.37.1.10 PDB: 1yr6_A* 1yr8_A* 1yr9_A* 1yra_A* 1yr7_A* 2oxr_A*

Probab=99.49  E-value=6.7e-14  Score=105.22  Aligned_cols=111  Identities=13%  Similarity=-0.059  Sum_probs=67.4

Q ss_pred             EEEEEEeCCCchhhhhhhH------hHhcCCcEEEEEeeCCChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           45 VKAQIWDTAGQERYRAVTS------AYYRGAVGAMLVYDITKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~------~~~~~~d~~i~v~d~~~~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      +.+.||||||.........      ..+.. +++|+++|............ +..........+.|+++|+||+|+....
T Consensus       109 ~d~iiiDtpG~~~~~~~~~l~~~~~~~~~~-~~iv~vvD~~~~~~~~~~~~~~~~~~~~~~~~~~p~~iv~NK~D~~~~~  187 (262)
T 1yrb_A          109 NDYVLIDTPGQMETFLFHEFGVRLMENLPY-PLVVYISDPEILKKPNDYCFVRFFALLIDLRLGATTIPALNKVDLLSEE  187 (262)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSS-CEEEEEECGGGCCSHHHHHHHHHHHHHHHHHHTSCEEEEECCGGGCCHH
T ss_pred             CCEEEEeCCCccchhhhhhhHHHHHHHHhh-ceEEeccchhhhcCHHHHHHHHHHHHHHhcccCCCeEEEEecccccccc
Confidence            5799999999876543221      24455 88888888754322222111 1111111112368999999999986422


Q ss_pred             CCCHHHHHH----------------------------HHHHcC--CeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          118 AVPTEDAKE----------------------------FAEKEG--LCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       118 ~~~~~~~~~----------------------------~~~~~~--~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ..  ++...                            ++..++  .+++++||++++|++++++++.+.+.
T Consensus       188 ~~--~~~~~~l~~~~~~~~~l~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          188 EK--ERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HH--HHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cH--HHHHHHHhChHHHHHHHhccccccchhHhHHHHHHHHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            11  11111                            123333  47999999999999999999987654

>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=99.49  E-value=1.8e-14  Score=112.44  Aligned_cols=104  Identities=13%  Similarity=0.066  Sum_probs=65.5

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--  121 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--  121 (206)
                      ++.+.||||||......   .....+|++++|+|++....+..+..   ..     .+.|.++|+||+|+........  
T Consensus       148 ~~~i~liDTpG~~~~~~---~~~~~aD~vl~Vvd~~~~~~~~~l~~---~~-----~~~p~ivv~NK~Dl~~~~~~~~~~  216 (341)
T 2p67_A          148 GYDVVIVETVGVGQSET---EVARMVDCFISLQIAGGGDDLQGIKK---GL-----MEVADLIVINKDDGDNHTNVAIAR  216 (341)
T ss_dssp             TCSEEEEEEECCTTHHH---HHHTTCSEEEEEECC------CCCCH---HH-----HHHCSEEEECCCCTTCHHHHHHHH
T ss_pred             CCCEEEEeCCCccchHH---HHHHhCCEEEEEEeCCccHHHHHHHH---hh-----hcccCEEEEECCCCCChHHHHHHH
Confidence            46799999999754432   35689999999999976533211111   00     1367899999999853111110  


Q ss_pred             HHHHHHHHH-------cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          122 EDAKEFAEK-------EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       122 ~~~~~~~~~-------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++.......       +..+++.+||+++.|++++++++.+.+.
T Consensus       217 ~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          217 HMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            112221112       1457899999999999999999988764

>4a9a_A Ribosome-interacting GTPase 1; DRG-DFRP complex, ribosome binding GTPase; 2.67A {Saccharomyces cerevisiae}

Probab=99.49  E-value=3e-13  Score=106.13  Aligned_cols=148  Identities=15%  Similarity=0.087  Sum_probs=90.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh-------hhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-------RAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~~~~~d~~i   73 (206)
                      ++|.||||||||+|+|++........|..+.+.....+.+.  +..+.++||||...-       .......++.+|+++
T Consensus        77 ivG~PNvGKSTL~n~Lt~~~~~v~~~pftT~~~~~g~~~~~--~~~i~l~D~pGl~~~a~~~~~~g~~~l~~i~~ad~il  154 (376)
T 4a9a_A           77 FVGFPSVGKSTLLSKLTGTESEAAEYEFTTLVTVPGVIRYK--GAKIQMLDLPGIIDGAKDGRGRGKQVIAVARTCNLLF  154 (376)
T ss_dssp             EECCCCHHHHHHHHHHHSBCCCGGGTCSSCCCEEEEEEEET--TEEEEEEECGGGCCC-----CHHHHHHHHHHHCSEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCcccCCCCceeeeeeEEEEeC--CcEEEEEeCCCccCCchhhhHHHHHHHHHHHhcCccc
Confidence            58999999999999999977554444443334433444444  467899999995321       112334568899999


Q ss_pred             EEeeCCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC--------cCCCCCHHHHHHHHHHcCCeEEEeccCCCC
Q 040835           74 LVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKSDLE--------TLRAVPTEDAKEFAEKEGLCFMETSALEST  144 (206)
Q Consensus        74 ~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~--------~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~  144 (206)
                      +|+|.+++.. ++.+...+..+... -...|.++++||.|..        ....+..++...+...+.+.--.+-...+.
T Consensus       155 ~vvD~~~p~~~~~~i~~EL~~~~~~-l~~k~~~i~~nK~d~~gi~i~~~~~~~~l~~eeik~il~~~~lt~kpv~~~~nv  233 (376)
T 4a9a_A          155 IILDVNKPLHHKQIIEKELEGVGIR-LNKTPPDILIKKKEKGGISITNTVPLTHLGNDEIRAVMSEYRINSAEIAFRCDA  233 (376)
T ss_dssp             EEEETTSHHHHHHHHHHHHHHTTEE-ETCCCCCEEEEECSSSCEEEEESSCCSSCCHHHHHHHHHHTTCCSEEEEECSCC
T ss_pred             cccccCccHHHHHHHHHHHHHhhHh-hccCChhhhhhHhhhhhhhhhcchhhhhccHHHHHHHHHHhcccCCCeeecccC
Confidence            9999998642 22222222222111 1457888999999963        223456777777777665532223333444


Q ss_pred             CHHHHHH
Q 040835          145 NVELAFL  151 (206)
Q Consensus       145 ~v~~~~~  151 (206)
                      +.+++.+
T Consensus       234 ~eddl~d  240 (376)
T 4a9a_A          234 TVDDLID  240 (376)
T ss_dssp             CHHHHHH
T ss_pred             CHHHHHH
Confidence            4555443

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=99.45  E-value=1.6e-13  Score=105.29  Aligned_cols=108  Identities=14%  Similarity=0.025  Sum_probs=83.9

Q ss_pred             EEEEEEEe-CCC-----chhhhhhhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040835           44 NVKAQIWD-TAG-----QERYRAVTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETL  116 (206)
Q Consensus        44 ~~~~~i~D-~~G-----~~~~~~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  116 (206)
                      .+.+.++| +.|     ++++..+.+.++.++|++++|+|++++. ++..+.+|+..+..   .++|+++|+||+|+...
T Consensus        49 ~V~~~~~~~~~g~I~~i~er~~~l~r~~~~naD~vliV~d~~~p~~s~~~l~~~l~~~~~---~~~~~ilV~NK~DL~~~  125 (302)
T 2yv5_A           49 YVWGEVVDPNTFAIEEVEERKNLLIRPKVANVDRVIIVETLKMPEFNNYLLDNMLVVYEY---FKVEPVIVFNKIDLLNE  125 (302)
T ss_dssp             EEEEEEEETTEEEEEEECCCSCEEETTEEESCCEEEEEECSTTTTCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCH
T ss_pred             EEEEEEccCCeEEEEeeCChHHHHhHHHHHhcCEEEEEEECCCCCCCHHHHHHHHHHHHh---CCCCEEEEEEcccCCCc
Confidence            34555555 323     5667777888999999999999999986 88888899887665   47999999999999642


Q ss_pred             CCCC-HHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835          117 RAVP-TEDAKEFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus       117 ~~~~-~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.+. .++...++...+++++++||+++.|+++++..+.
T Consensus       126 ~~v~~~~~~~~~~~~~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          126 EEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             HHHHHHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             cccHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhhcc
Confidence            2212 3445666677789999999999999999998763

>4fn5_A EF-G 1, elongation factor G 1; translation, translation-antibiotic compl; HET: 0UO; 2.90A {Pseudomonas aeruginosa}

Probab=99.43  E-value=2.3e-12  Score=109.44  Aligned_cols=110  Identities=16%  Similarity=0.195  Sum_probs=74.5

Q ss_pred             CccCCCCCHHHHHHHHhcC--------CCCCCC--------ccccceeeEEEEEEECC-------eEEEEEEEeCCCchh
Q 040835            1 LIGDSAVGKSQLLARFARD--------EFSLDS--------KATIGVEFQTKTLVIHH-------KNVKAQIWDTAGQER   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--------~~~~~~--------~~~~~~~~~~~~~~~~~-------~~~~~~i~D~~G~~~   57 (206)
                      |+|+.++|||||..+|+..        ......        ..--|+++....+++.+       .++.++|+||||+-+
T Consensus        18 IiaHvd~GKTTL~d~LL~~~g~i~~~g~v~~~~~~~D~~~~E~eRGITI~s~~~s~~~~~~~~~~~~~~iNlIDTPGHvD   97 (709)
T 4fn5_A           18 ICAHVDAGKTTTTERVLFYTGVNHKLGEVHDGAATTDWMVQEQERGITITSAAVTTFWKGSRGQYDNYRVNVIDTPGHVD   97 (709)
T ss_dssp             EECCSSSCHHHHHHHHHHHHHHHHHC------------------------CCEEEEEECCTTSCSCCEEEEEECCCSCTT
T ss_pred             EEcCCCCCHHHHHHHHHHhcCCCCcCceecCCCccCCChHHHHHcCCeEEeeeEEEEeccCcCCCCCEEEEEEeCCCCcc
Confidence            5899999999999999842        111000        01112333333333322       358899999999999


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      |.......++.+|++|+|+|+...-.......|......    ++|.++++||+|..
T Consensus        98 F~~Ev~~aLr~~DgavlvVDaveGV~~qT~~v~~~a~~~----~lp~i~~iNKiDr~  150 (709)
T 4fn5_A           98 FTIEVERSLRVLDGAVVVFCGTSGVEPQSETVWRQANKY----GVPRIVYVNKMDRQ  150 (709)
T ss_dssp             CHHHHHHHHHHCSEEEEEEETTTCSCHHHHHHHHHHHHH----TCCEEEEEECSSST
T ss_pred             cHHHHHHHHHHhCeEEEEEECCCCCchhHHHHHHHHHHc----CCCeEEEEcccccc
Confidence            999999999999999999999876554444455444433    68999999999974

>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=2.3e-13  Score=115.00  Aligned_cols=108  Identities=11%  Similarity=0.086  Sum_probs=67.9

Q ss_pred             EEEEEeCCCchh-------------hhhhhHhHh-cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           46 KAQIWDTAGQER-------------YRAVTSAYY-RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        46 ~~~i~D~~G~~~-------------~~~~~~~~~-~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      .+.++||||...             +......++ ..+|++++|+|+++...-.+...++..+.   ..+.|+++|+||+
T Consensus       151 qL~LVDTPGi~~~~~~~qp~di~~~i~~lv~~yi~~~aDlIL~VVDAs~~~~~~d~l~ll~~L~---~~g~pvIlVlNKi  227 (772)
T 3zvr_A          151 NLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVD---PQGQRTIGVITKL  227 (772)
T ss_dssp             SEEEEECCCCCCCCSSCCCCHHHHHHHHHHHHHHTSTTEEEEEEEETTSCSSSCHHHHHHHHHC---TTCSSEEEEEECT
T ss_pred             ceEEEECCCcccCCCCCCcHHHHHHHHHHHHHHHhcCCcEEEEEEcCCCCcchhHHHHHHHHHH---hcCCCEEEEEeCc
Confidence            478999999432             233444454 57899999999986433222222333333   3578999999999


Q ss_pred             CCCcCCCCCHHHHHH-H-HHHcC-CeEEEeccCCCCCHHHHHHHHHHH
Q 040835          112 DLETLRAVPTEDAKE-F-AEKEG-LCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       112 D~~~~~~~~~~~~~~-~-~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      |+............. . ....+ .+++.+||+++.|++++++.+.+.
T Consensus       228 Dlv~~~~~~~~il~~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~e  275 (772)
T 3zvr_A          228 DLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAAE  275 (772)
T ss_dssp             TSSCTTCCSHHHHTTCSSCCSSCEEECCCCCCEESSSSEEHHHHHHHH
T ss_pred             ccCCcchhhHHHHHHHhhhhhccCCceEEecccccccchhHHHHHHHH
Confidence            997543332221110 0 00012 356778999999999999888763

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=99.42  E-value=1.3e-13  Score=107.39  Aligned_cols=104  Identities=11%  Similarity=0.037  Sum_probs=63.8

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED  123 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~  123 (206)
                      ...+.++||+|...-.   ......+|.+++++|+...+....+....   .     ..+.++++||+|+..........
T Consensus       147 ~~~~iliDT~Gi~~~~---~~v~~~~d~vl~v~d~~~~~~~~~i~~~i---~-----~~~~ivvlNK~Dl~~~~~~s~~~  215 (337)
T 2qm8_A          147 GFDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGI---F-----ELADMIAVNKADDGDGERRASAA  215 (337)
T ss_dssp             TCCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTH---H-----HHCSEEEEECCSTTCCHHHHHHH
T ss_pred             CCCEEEEECCCCCcch---hhHHhhCCEEEEEEcCCCcccHHHHHHHH---h-----ccccEEEEEchhccCchhHHHHH
Confidence            4678999999964321   23457899999999986543221111111   1     23567778999974311111122


Q ss_pred             HHHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          124 AKEFAEK----------EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       124 ~~~~~~~----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ...+...          +..+++.+|++++.|++++++.|.+...
T Consensus       216 ~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~~  260 (337)
T 2qm8_A          216 ASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRS  260 (337)
T ss_dssp             HHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            2333221          1457899999999999999999987654

>3l82_B F-box only protein 4; TRFH domain, helix, GTPase domain, acetylation, ADP- ribosylation, alternative splicing, cell cycle, cell division; 2.40A {Homo sapiens}

Probab=99.32  E-value=1.2e-12  Score=93.71  Aligned_cols=103  Identities=9%  Similarity=-0.045  Sum_probs=68.7

Q ss_pred             CCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHH----HHhcC-CCCCcEEEEEeCC-CCCcCCCCCHHHHHH
Q 040835           53 AGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE----LRGHA-DKNIIIMLVGNKS-DLETLRAVPTEDAKE  126 (206)
Q Consensus        53 ~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~----~~~~~-~~~~p~ivv~nK~-D~~~~~~~~~~~~~~  126 (206)
                      +|+..++.+|+.|+.++|++|||+|.+|++.++ .+..+..    +.... ..++|++|++||. |+.  ..++..++.+
T Consensus       110 GGQ~klRplWr~Yy~~TdglIfVVDSsD~~R~e-ak~EL~eL~~mL~ee~~L~gapLLVlANKqqDlp--~Ams~~EI~e  186 (227)
T 3l82_B          110 GSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHE-WQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAH  186 (227)
T ss_dssp             -------CCHHHHHHHCSEEEEEEECBTTCCCC-HHHHHHHHHHHSCTTSSCSCSCEEEEEEESSTTS--CBCCHHHHHH
T ss_pred             CcHHHHHHHHHHHhcCCCEEEEEeccccHhHHH-HHHHHHHHHHHhcchhhhCCCeEEEEeCCCcCcc--CCCCHHHHHH
Confidence            478889999999999999999999999986443 3332222    22221 2578999999995 664  3455555443


Q ss_pred             HHHH----cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          127 FAEK----EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       127 ~~~~----~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ...-    ..+.+..|||.+|+|+.+.++||.+.+.
T Consensus       187 ~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l~  222 (227)
T 3l82_B          187 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  222 (227)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTTT
T ss_pred             HcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHHH
Confidence            3221    2456899999999999999999987654

>2ohf_A Protein OLA1, GTP-binding protein 9; ATPase, GTPase, P-loop, OBG-like, hydrolase; HET: ACP; 2.70A {Homo sapiens}

Probab=99.25  E-value=5e-12  Score=99.61  Aligned_cols=82  Identities=12%  Similarity=0.126  Sum_probs=45.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchhhhh-----
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQERYRA-----   60 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~~~~-----   60 (206)
                      |+|.+|||||||+|+|++..+.....|+.+.......+.+++.               ...+.+|||||......     
T Consensus        27 IVG~pnvGKSTL~n~Ltg~~~~~~~~p~tTi~p~~g~v~v~~~r~~~l~~~~~p~~~~~~~i~lvDtpGl~~~as~~~gl  106 (396)
T 2ohf_A           27 IVGLPNVGKSTFFNVLTNSQASAENFPFCTIDPNESRVPVPDERFDFLCQYHKPASKIPAFLNVVDIAGLVKGAHNGQGL  106 (396)
T ss_dssp             EECCSSSSHHHHHHHHHC-------------CCSEEEEECCCHHHHHHHHHHCCSEEECCEEEEEECCC-----------
T ss_pred             EECCCCCCHHHHHHHHHCCCccccCCCccccCceeEEEEECCccceeeccccCcccccccccEEEECCCcccccchhhHH
Confidence            5899999999999999998764433333333333333333331               23589999999776443     


Q ss_pred             --hhHhHhcCCcEEEEEeeCCChh
Q 040835           61 --VTSAYYRGAVGAMLVYDITKRQ   82 (206)
Q Consensus        61 --~~~~~~~~~d~~i~v~d~~~~~   82 (206)
                        .+..+++.+|++++|+|+++.+
T Consensus       107 g~~~l~~ir~aD~Il~VvD~~~~~  130 (396)
T 2ohf_A          107 GNAFLSHISACDGIFHLTRAFEDD  130 (396)
T ss_dssp             CCHHHHHHHTSSSEEEEEEC----
T ss_pred             HHHHHHHHHhcCeEEEEEecCCCc
Confidence              4567789999999999987643

>1ni3_A YCHF GTPase, YCHF GTP-binding protein; structural genomics, GTP1OBG, PSI, protein structure initiative; 2.80A {Schizosaccharomyces pombe} SCOP: c.37.1.8 d.15.10.2

Probab=99.23  E-value=1.9e-10  Score=90.83  Aligned_cols=80  Identities=13%  Similarity=0.180  Sum_probs=53.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCC-CCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchh-------
Q 040835            1 LIGDSAVGKSQLLARFARDEF-SLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQER-------   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~-~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-------   57 (206)
                      |+|++|||||||+|+|++... .....|..+.......+.+.+.               ...+.+||+||...       
T Consensus        25 iVG~pnaGKSTL~n~Ltg~~~a~~~~~p~tTi~p~~G~v~v~~~r~~~l~~~~~~~~~v~~~i~lvD~pGl~~~~s~~e~  104 (392)
T 1ni3_A           25 IVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVG  104 (392)
T ss_dssp             EEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSS
T ss_pred             EECCCCCCHHHHHHHHHCCCcccccCCCceeecceeeeeeeCCcchhhhhhhcccccccCcceEEEeccccccCCcHHHH
Confidence            589999999999999999765 3333343333333334444431               13589999999532       


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      +.......++.+|++++|+|..+
T Consensus       105 L~~~fl~~ir~~d~il~Vvd~~~  127 (392)
T 1ni3_A          105 LGNAFLSHVRAVDAIYQVVRAFD  127 (392)
T ss_dssp             SCHHHHHHHTTCSEEEEEEECCC
T ss_pred             HHHHHHHHHHHHHHHHHHHhccc
Confidence            22234556789999999999864

>3l2o_B F-box only protein 4; small G protein fold, UBL conjugation pathway, ubiquitin Pro ligase, protein binding-cell cycle complex; 2.80A {Homo sapiens}

Probab=99.19  E-value=2.6e-11  Score=90.90  Aligned_cols=105  Identities=8%  Similarity=-0.030  Sum_probs=73.2

Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHH---HHHHHHHHHHhcC-CCCCcEEEEEeC-CCCCcCCCCCHHHHHH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFD---NVARWLEELRGHA-DKNIIIMLVGNK-SDLETLRAVPTEDAKE  126 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~---~~~~~~~~~~~~~-~~~~p~ivv~nK-~D~~~~~~~~~~~~~~  126 (206)
                      .+|++.++..|+.|+.++|++|||+|.+|++.++   ++.+++..+.... ..++|++|++|| .|+.  ..++..++.+
T Consensus       194 ~GGQ~~lRplWr~Yy~~tdglIfVVDSsDreRleak~EL~eL~~mL~e~~~l~~apLLVfANKkQDlp--~Ams~~EI~e  271 (312)
T 3l2o_B          194 QGSRYSVIPQIQKVCEVVDGFIYVANAEAHKRHEWQDEFSHIMAMTDPAFGSSGRPLLVLSCISQGDV--KRMPCFYLAH  271 (312)
T ss_dssp             ---CCCCCHHHHHHHHHCSEEEECCBCBTTCCCCHHHHHHHHHHHHCHHHHCTTCCEEEEEEESSTTS--CBCCHHHHHH
T ss_pred             CCCHHHHHHHHHHHhcCCCEEEEEecCCcHhHHHHHHHHHHHHHHhcchhhcCCCeEEEEeCCccccc--CCCCHHHHHH
Confidence            4578889999999999999999999999987543   2222222222211 257999999996 5774  3445555443


Q ss_pred             HHHH----cCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835          127 FAEK----EGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus       127 ~~~~----~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ...-    ....+..|||.+|+|+.+.++|+.+.+.
T Consensus       272 ~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l~  307 (312)
T 3l2o_B          272 ELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEVE  307 (312)
T ss_dssp             HTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHSC
T ss_pred             HcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHHH
Confidence            3221    2346899999999999999999998764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=99.07  E-value=7.8e-10  Score=86.98  Aligned_cols=96  Identities=21%  Similarity=0.261  Sum_probs=72.9

Q ss_pred             CchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH----HH
Q 040835           54 GQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF----AE  129 (206)
Q Consensus        54 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~----~~  129 (206)
                      ..+.|...+..+.+.++++++|+|+++..     ..|...+.+.. .+.|+++|+||+|+... ....++..++    +.
T Consensus        55 ~~e~f~~~l~~i~~~~~~il~VvD~~d~~-----~~~~~~l~~~~-~~~p~ilV~NK~DL~~~-~~~~~~~~~~l~~~~~  127 (368)
T 3h2y_A           55 TDDDFLRILNGIGKSDALVVKIVDIFDFN-----GSWLPGLHRFV-GNNKVLLVGNKADLIPK-SVKHDKVKHWMRYSAK  127 (368)
T ss_dssp             -CHHHHHHHHHHHHSCCEEEEEEETTSHH-----HHCCTTHHHHS-SSSCEEEEEECGGGSCT-TSCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHHhccCcEEEEEEECCCCc-----ccHHHHHHHHh-CCCcEEEEEEChhcCCc-ccCHHHHHHHHHHHHH
Confidence            46788999999999999999999999853     34544454443 37899999999999653 3334444443    56


Q ss_pred             HcCC---eEEEeccCCCCCHHHHHHHHHHH
Q 040835          130 KEGL---CFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       130 ~~~~---~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ..|+   +++.+||+++.|+++++..+.+.
T Consensus       128 ~~g~~~~~v~~iSA~~g~gi~~L~~~l~~~  157 (368)
T 3h2y_A          128 QLGLKPEDVFLISAAKGQGIAELADAIEYY  157 (368)
T ss_dssp             HTTCCCSEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEeCCCCcCHHHHHhhhhhh
Confidence            6677   79999999999999999888653

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.96  E-value=4.4e-11  Score=94.14  Aligned_cols=136  Identities=15%  Similarity=0.127  Sum_probs=78.0

Q ss_pred             CccCCCCCHHHHHHHHhcC-----CCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-------h-hhHhHh-
Q 040835            1 LIGDSAVGKSQLLARFARD-----EFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-------A-VTSAYY-   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-------~-~~~~~~-   66 (206)
                      ++|.+|+|||||+|+|++.     ...... ...+++.......+...   +.++||||.....       . ....++ 
T Consensus       167 ~vG~~nvGKStliN~L~~~~~~~~~~~~~~-~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~~~~  242 (369)
T 3ec1_A          167 VVGCTNVGKSTFINRIIEEATGKGNVITTS-YFPGTTLDMIEIPLESG---ATLYDTPGIINHHQMAHFVDARDLKIITP  242 (369)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHTTCCCEEE-ECTTSSCEEEEEECSTT---CEEEECCSCCCCSSGGGGSCTTTHHHHSC
T ss_pred             EEcCCCCchHHHHHHHHhhccCCccceeec-CCCCeEEeeEEEEeCCC---eEEEeCCCcCcHHHHHHHHhHHHHHHHhc
Confidence            5899999999999999986     221111 12234554444444332   7899999953221       1 112222 


Q ss_pred             -cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCC
Q 040835           67 -RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTN  145 (206)
Q Consensus        67 -~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~  145 (206)
                       ...+.+++++++...--+..+..    +......+.|+++++||.|....... ......+.+..|..+...++.+..+
T Consensus       243 ~~~i~~~~~~l~~~~~~~~g~l~~----l~~l~~~~~~~~~v~~k~d~~~~~~~-~~~~~~~~~~~g~~l~p~~~~~~~~  317 (369)
T 3ec1_A          243 KREIHPRVYQLNEGQTLFFGGLAR----LDYIKGGRRSFVCYMANELTVHRTKL-EKADSLYANQLGELLSPPSKRYAAE  317 (369)
T ss_dssp             SSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEEG-GGHHHHHHHHBTTTBCSSCGGGTTT
T ss_pred             ccccCceEEEEcCCceEEECCEEE----EEEccCCCceEEEEecCCcccccccH-HHHHHHHHHhcCCccCCCCchhhhh
Confidence             67899999999843211111111    12223356899999999998643332 2334455555666655555544333

>2j37_W Signal recognition particle 54 kDa protein (SRP54); ribosome, SRP, translation/RNA; 8.00A {Canis SP} PDB: 1wgw_A

Probab=98.96  E-value=1.6e-10  Score=94.01  Aligned_cols=102  Identities=15%  Similarity=0.038  Sum_probs=61.5

Q ss_pred             EEEEEEEeCCCchhhhh-hh---HhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcE-EEEEeCCCCCcC
Q 040835           44 NVKAQIWDTAGQERYRA-VT---SAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIII-MLVGNKSDLETL  116 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~-~~---~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~-ivv~nK~D~~~~  116 (206)
                      .+.+.||||||...... ..   ..+  +..+|.+++|+|+........   ....+..    .+|+ .+|+||+|....
T Consensus       183 ~~DvvIIDTpG~~~~~~~l~~el~~~~~~i~pd~vllVvDa~~g~~~~~---~a~~~~~----~~~i~gvVlNK~D~~~~  255 (504)
T 2j37_W          183 NFEIIIVDTSGRHKQEDSLFEEMLQVANAIQPDNIVYVMDASIGQACEA---QAKAFKD----KVDVASVIVTKLDGHAK  255 (504)
T ss_dssp             TCCEEEEEECCCCTTCHHHHHHHHHHHHHHCCSEEEEEEETTCCTTHHH---HHHHHHH----HHCCCCEEEECTTSCCC
T ss_pred             CCcEEEEeCCCCcccchhHHHHHHHHHhhhcCceEEEEEeccccccHHH---HHHHHHh----hcCceEEEEeCCccccc
Confidence            46789999999643211 11   111  227899999999987543211   1222222    1564 889999998632


Q ss_pred             CCCCHHHHHHHHHHcCCeE------------------EEeccCCCCC-HHHHHHHHHHH
Q 040835          117 RAVPTEDAKEFAEKEGLCF------------------METSALESTN-VELAFLTVLTE  156 (206)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~------------------~~~Sa~~~~~-v~~~~~~l~~~  156 (206)
                      .    ..........++|+                  +.+|+..+.| +.++++++.+.
T Consensus       256 ~----g~~l~~~~~~g~PI~fig~ge~~~dl~~f~~~~~vsal~G~Gdi~~Lie~i~e~  310 (504)
T 2j37_W          256 G----GGALSAVAATKSPIIFIGTGEHIDDFEPFKTQPFISKLLGMGDIEGLIDKVNEL  310 (504)
T ss_dssp             C----THHHHHHHHHCCCEEEEECSSSTTCEECCTHHHHHHCCCTTTTTTTTHHHHTTT
T ss_pred             h----HHHHHHHHHhCCCeEEeccccchhhhhccCcceeeehhcCCCcHHHHHHHHHHH
Confidence            1    11233444555554                  2358888988 88888888755

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.90  E-value=3.2e-09  Score=83.55  Aligned_cols=96  Identities=21%  Similarity=0.214  Sum_probs=70.7

Q ss_pred             CchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH----HH
Q 040835           54 GQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEF----AE  129 (206)
Q Consensus        54 G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~----~~  129 (206)
                      .++.|...+..+++.++++++|+|+++..+     .|...+.... .+.|+++|+||+|+.+ .....+...++    +.
T Consensus        57 ~~e~f~~~L~~~~~~~~lil~VvD~~d~~~-----s~~~~l~~~l-~~~piilV~NK~DLl~-~~~~~~~~~~~l~~~~~  129 (369)
T 3ec1_A           57 DDDDFLSMLHRIGESKALVVNIVDIFDFNG-----SFIPGLPRFA-ADNPILLVGNKADLLP-RSVKYPKLLRWMRRMAE  129 (369)
T ss_dssp             --CHHHHHHHHHHHHCCEEEEEEETTCSGG-----GCCSSHHHHC-TTSCEEEEEECGGGSC-TTCCHHHHHHHHHHHHH
T ss_pred             CHHHHHHHHHHhhccCcEEEEEEECCCCCC-----chhhHHHHHh-CCCCEEEEEEChhcCC-CccCHHHHHHHHHHHHH
Confidence            478899999999999999999999998763     2333333333 3689999999999975 23334444443    55


Q ss_pred             HcCC---eEEEeccCCCCCHHHHHHHHHHH
Q 040835          130 KEGL---CFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       130 ~~~~---~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      ..|+   .++.+||+++.|++++++.+.+.
T Consensus       130 ~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~  159 (369)
T 3ec1_A          130 ELGLCPVDVCLVSAAKGIGMAKVMEAINRY  159 (369)
T ss_dssp             TTTCCCSEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             HcCCCcccEEEEECCCCCCHHHHHHHHHhh
Confidence            5676   68999999999999999888654

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.86  E-value=5.4e-11  Score=93.58  Aligned_cols=131  Identities=11%  Similarity=0.121  Sum_probs=71.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-----CCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----h----hHhH--
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-----DSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----V----TSAY--   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~----~~~~--   65 (206)
                      ++|.+|+|||||+|+|++.....     ......+++.......+...   +.++||||......    +    ...+  
T Consensus       165 ~vG~~nvGKStliN~L~~~~~~~~~~~~~~~~~~gtT~~~~~~~~~~~---~~liDtPG~~~~~~~~~~l~~~~l~~~~~  241 (368)
T 3h2y_A          165 VVGCTNVGKSTFINRMIKEFSDETENVITTSHFPGTTLDLIDIPLDEE---SSLYDTPGIINHHQMAHYVGKQSLKLITP  241 (368)
T ss_dssp             EEEBTTSSHHHHHHHHHHHHTTSCSSCCEEECCC----CEEEEESSSS---CEEEECCCBCCTTSGGGGSCHHHHHHHSC
T ss_pred             EecCCCCChhHHHHHHHhhhccccccceecCCCCCeecceEEEEecCC---eEEEeCCCcCcHHHHHHHhhHHHHHHhcc
Confidence            57999999999999999863211     11122234444444444332   78999999532211    1    1111  


Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      ....+.++++++.........+..    +......+.|+++++||+|...... .......+.+..|..+...+
T Consensus       242 ~~~i~~~~~~l~~~~~~~~g~l~~----~d~l~~~~~~~~~v~nk~d~~~~~~-~~~~~~~~~~~~g~~l~p~~  310 (368)
T 3h2y_A          242 TKEIKPMVFQLNEEQTLFFSGLAR----FDYVSGGRRAFTCHFSNRLTIHRTK-LEKADELYKNHAGDLLSPPT  310 (368)
T ss_dssp             SSCCCCEEEEECTTEEEEETTTEE----EEEEESSSEEEEEEECTTSCEEEEE-HHHHHHHHHHHBTTTBCSSC
T ss_pred             ccccCceEEEEcCCCEEEEcceEE----EEEecCCCceEEEEecCcccccccc-HHHHHHHHHHHhCCccCCCc
Confidence            356788899988743211111111    1222335789999999999864222 23334444555565444444

>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=98.79  E-value=1.4e-08  Score=76.98  Aligned_cols=102  Identities=16%  Similarity=0.061  Sum_probs=70.0

Q ss_pred             EEeCCCch-hhhhhhHhHhcCCcEEEEEeeCCChhhHH--HHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHH
Q 040835           49 IWDTAGQE-RYRAVTSAYYRGAVGAMLVYDITKRQSFD--NVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAK  125 (206)
Q Consensus        49 i~D~~G~~-~~~~~~~~~~~~~d~~i~v~d~~~~~s~~--~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~  125 (206)
                      |-..||+. .........+..+|+++.|+|+.++.+..  .+..|+        .++|.++|+||+|+....  ..+...
T Consensus         3 i~w~PGhm~ka~~~~~~~l~~aDvVl~VvDAr~p~~~~~~~l~~~l--------~~kp~ilVlNK~DL~~~~--~~~~~~   72 (282)
T 1puj_A            3 IQWFPGHMAKARREVTEKLKLIDIVYELVDARIPMSSRNPMIEDIL--------KNKPRIMLLNKADKADAA--VTQQWK   72 (282)
T ss_dssp             ------CTTHHHHHHHHHGGGCSEEEEEEETTSTTTTSCHHHHHHC--------SSSCEEEEEECGGGSCHH--HHHHHH
T ss_pred             CcCCchHHHHHHHHHHHHHhhCCEEEEEEeCCCCCccCCHHHHHHH--------CCCCEEEEEECcccCCHH--HHHHHH
Confidence            44578875 44556677889999999999999887653  334332        368999999999996411  112223


Q ss_pred             HHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          126 EFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       126 ~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++.+..+++++.+||.++.|+++++..+.+.+...
T Consensus        73 ~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~~  107 (282)
T 1puj_A           73 EHFENQGIRSLSINSVNGQGLNQIVPASKEILQEK  107 (282)
T ss_dssp             HHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHHH
Confidence            34445578999999999999999999888776544

>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding, nucleotide-binding, phosphorylation, acetylation, alternative splicing, coiled coil; HET: GDP GTP; 4.00A {Homo sapiens}

Probab=98.76  E-value=9.3e-09  Score=81.82  Aligned_cols=55  Identities=25%  Similarity=0.433  Sum_probs=31.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc--ccceeeEEEEEEECC--eEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA--TIGVEFQTKTLVIHH--KNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~--~~~~~~~~~~~~~~~--~~~~~~i~D~~G~   55 (206)
                      |+|++|+|||||++.|++..+......  ..+.......+....  ....+.++|++|.
T Consensus        47 LvG~nGaGKSTLln~L~G~~l~g~~~~~~~~~~~~~~i~~v~Q~~~l~~~ltv~D~~~~  105 (427)
T 2qag_B           47 CVGETGLGKSTLMDTLFNTKFEGEPATHTQPGVQLQSNTYDLQESNVRLKLTIVSTVGF  105 (427)
T ss_dssp             EECSTTSSSHHHHHHHHTSCC-------CCSSCEEEEEEEEEEC--CEEEEEEEEEECC
T ss_pred             EECCCCCCHHHHHHHHhCccccCCcCCCCCccceEeeEEEEeecCccccccchhhhhhh
Confidence            589999999999999998754321111  111222222222222  2236889999874

>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=98.74  E-value=1.7e-07  Score=74.46  Aligned_cols=152  Identities=13%  Similarity=0.137  Sum_probs=78.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcccc-ceeeE-EEEEEECCeEEEEEEEeCCCchhhhhhhHh-----HhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATI-GVEFQ-TKTLVIHHKNVKAQIWDTAGQERYRAVTSA-----YYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~-~~~~~-~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~-----~~~~~d~~i   73 (206)
                      |+|++|||||||+|.|.+-.......... +.... ...+.-......+.+||++|..........     -+...+.++
T Consensus        74 lvG~nGaGKSTLln~L~Gl~~p~~GsI~~~g~~~t~~~~v~q~~~~~~ltv~D~~g~~~~~~~~~~~L~~~~L~~~~~~~  153 (413)
T 1tq4_A           74 VTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFFI  153 (413)
T ss_dssp             EEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECSSCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEEE
T ss_pred             EECCCCCcHHHHHHHHhCCCCccCceEEECCeecceeEEeccccccCCeeehHhhcccchHHHHHHHHHHcCCCccCCeE
Confidence            58999999999999999843322111111 11100 001111111124789999985321111111     133445555


Q ss_pred             EEeeCC--ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC-------cCCCCCHHHH----HHHH----HHcC---C
Q 040835           74 LVYDIT--KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE-------TLRAVPTEDA----KEFA----EKEG---L  133 (206)
Q Consensus        74 ~v~d~~--~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-------~~~~~~~~~~----~~~~----~~~~---~  133 (206)
                      + ++..  ......    +...+..   .+.|+++|.||.|+.       .-+.....++    ..+.    .+.|   .
T Consensus       154 ~-lS~G~~~kqrv~----la~aL~~---~~~p~~lV~tkpdlllLDEPtsgLD~~~~~~l~~~l~~l~~~~l~~~g~~~~  225 (413)
T 1tq4_A          154 I-ISATRFKKNDID----IAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEP  225 (413)
T ss_dssp             E-EESSCCCHHHHH----HHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSC
T ss_pred             E-eCCCCccHHHHH----HHHHHHh---cCCCeEEEEecCcccccCcccccCCHHHHHHHHHHHHHHHHHHHHhcCCCCC
Confidence            4 7765  322211    1122222   358999999999962       1122233333    3332    1222   3


Q ss_pred             eEEEecc--CCCCCHHHHHHHHHHHHHHH
Q 040835          134 CFMETSA--LESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       134 ~~~~~Sa--~~~~~v~~~~~~l~~~i~~~  160 (206)
                      .++.+|+  ..+.|++++.+.+.+.+.+.
T Consensus       226 ~iiliSsh~l~~~~~e~L~d~I~~~Lpeg  254 (413)
T 1tq4_A          226 PIFLLSNKNVCHYDFPVLMDKLISDLPIY  254 (413)
T ss_dssp             CEEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             cEEEEecCcCCccCHHHHHHHHHHhCccc
Confidence            5788899  45567999988888776443

>3sop_A Neuronal-specific septin-3; hydrolase; HET: GDP; 2.88A {Homo sapiens}

Probab=98.58  E-value=1.9e-07  Score=70.27  Aligned_cols=132  Identities=20%  Similarity=0.200  Sum_probs=65.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc-------cccceeeEEEEEEEC--CeEEEEEEEeCCCchh----------h---
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK-------ATIGVEFQTKTLVIH--HKNVKAQIWDTAGQER----------Y---   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~-------~~~~~~~~~~~~~~~--~~~~~~~i~D~~G~~~----------~---   58 (206)
                      |+|+.|+|||||++.|++........       ...............  .-...+.++|++|...          .   
T Consensus         7 lvG~nGaGKSTLln~L~g~~~~~~G~i~~~g~~i~~~~~~~~i~~v~q~~~~~~~ltv~d~~~~g~~~~~~~~~~~i~~~   86 (270)
T 3sop_A            7 VVGQSGLGKSTLVNTLFKSQVSRKASSWNREEKIPKTVEIKAIGHVIEEGGVKMKLTVIDTPGFGDQINNENCWEPIEKY   86 (270)
T ss_dssp             EEESSSSSHHHHHHHHHHHHC------------CCCCCSCCEEEESCC----CCEEEEECCCC--CCSBCTTCSHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhCCCCCCCCccccCCcccCcceeeeeeEEEeecCCCcCCceEEechhhhhhcccHHHHHHHHHH
Confidence            58999999999999999854322110       000000011111111  1223678999987321          0   


Q ss_pred             -----hhhhHh----------HhcCCcEEEEEeeCCC-hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--C
Q 040835           59 -----RAVTSA----------YYRGAVGAMLVYDITK-RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--P  120 (206)
Q Consensus        59 -----~~~~~~----------~~~~~d~~i~v~d~~~-~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~  120 (206)
                           ......          .+..+++.++++|... +-.-.+ ...+..+..   . +++++|++|.|.....+.  .
T Consensus        87 ~~~~~~~~~~~~LS~G~~qrv~iaRal~~lllldep~~gL~~lD-~~~l~~L~~---~-~~vI~Vi~K~D~lt~~e~~~~  161 (270)
T 3sop_A           87 INEQYEKFLKEEVNIARKKRIPDTRVHCCLYFISPTGHSLRPLD-LEFMKHLSK---V-VNIIPVIAKADTMTLEEKSEF  161 (270)
T ss_dssp             HHHHHHHHHHHHSCTTCCSSCCCCSCCEEEEEECCCSSSCCHHH-HHHHHHHHT---T-SEEEEEETTGGGSCHHHHHHH
T ss_pred             HHHHHHhhhHHhcCcccchhhhhheeeeeeEEEecCCCcCCHHH-HHHHHHHHh---c-CcEEEEEeccccCCHHHHHHH
Confidence                 000001          1223688899999653 211111 223333332   3 899999999997532211  1


Q ss_pred             HHHHHHHHHHcCCeEEE
Q 040835          121 TEDAKEFAEKEGLCFME  137 (206)
Q Consensus       121 ~~~~~~~~~~~~~~~~~  137 (206)
                      ...+.......++.+|.
T Consensus       162 k~~i~~~l~~~~i~i~~  178 (270)
T 3sop_A          162 KQRVRKELEVNGIEFYP  178 (270)
T ss_dssp             HHHHHHHHHHTTCCCSS
T ss_pred             HHHHHHHHHHcCccccC
Confidence            12234444556777664

>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=98.55  E-value=1.2e-07  Score=75.82  Aligned_cols=86  Identities=20%  Similarity=0.067  Sum_probs=52.8

Q ss_pred             EEEEEEeCCCchhhh-----hhhH-hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYR-----AVTS-AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~-----~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      +.+.|+||+|.....     .+.. .....+|.+++|+|+........   ....+...   -.+..+|+||.|...   
T Consensus       183 ~DvVIIDTaGrl~~d~~lm~el~~i~~~~~pd~vlLVvDA~~gq~a~~---~a~~f~~~---~~i~gVIlTKlD~~~---  253 (443)
T 3dm5_A          183 VDIIIVDTAGRHKEDKALIEEMKQISNVIHPHEVILVIDGTIGQQAYN---QALAFKEA---TPIGSIIVTKLDGSA---  253 (443)
T ss_dssp             CSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHH---HHHHHHHS---CTTEEEEEECCSSCS---
T ss_pred             CCEEEEECCCcccchHHHHHHHHHHHHhhcCceEEEEEeCCCchhHHH---HHHHHHhh---CCCeEEEEECCCCcc---
Confidence            678999999943211     1111 12335789999999986543222   22333332   234678999999753   


Q ss_pred             CCHHHHHHHHHHcCCeEEEecc
Q 040835          119 VPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                       ....+..+....++|+.+++.
T Consensus       254 -~gG~~ls~~~~~g~PI~fig~  274 (443)
T 3dm5_A          254 -KGGGALSAVAATGAPIKFIGT  274 (443)
T ss_dssp             -SHHHHHHHHHTTCCCEEEEEC
T ss_pred             -cccHHHHHHHHHCCCEEEEEc
Confidence             344556666678899877764

>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=98.36  E-value=1.4e-07  Score=75.29  Aligned_cols=91  Identities=15%  Similarity=0.064  Sum_probs=55.5

Q ss_pred             EEEEEEEeCCCchh--hh----hhhHhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           44 NVKAQIWDTAGQER--YR----AVTSAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        44 ~~~~~i~D~~G~~~--~~----~~~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      ...+.|+||||...  ..    .....+  ....+.+++|+|+........   ....+....   .+..||+||.|...
T Consensus       179 ~~DvvIIDTaGr~~~~~d~~lm~el~~i~~~~~pd~vlLVlDa~~gq~a~~---~a~~f~~~~---~~~gVIlTKlD~~a  252 (433)
T 3kl4_A          179 KMDIIIVDTAGRHGYGEETKLLEEMKEMYDVLKPDDVILVIDASIGQKAYD---LASRFHQAS---PIGSVIITKMDGTA  252 (433)
T ss_dssp             TCSEEEEEECCCSSSCCTTHHHHHHHHHHHHHCCSEEEEEEEGGGGGGGHH---HHHHHHHHC---SSEEEEEECGGGCS
T ss_pred             CCCEEEEECCCCccccCCHHHHHHHHHHHHhhCCcceEEEEeCccchHHHH---HHHHHhccc---CCcEEEEecccccc
Confidence            45688999999533  11    111111  124689999999986543222   223333221   35778999999753


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEeccCCCCCH
Q 040835          116 LRAVPTEDAKEFAEKEGLCFMETSALESTNV  146 (206)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v  146 (206)
                          ....+.......++|+..++.  |+++
T Consensus       253 ----~~G~als~~~~~g~Pi~fig~--Ge~v  277 (433)
T 3kl4_A          253 ----KGGGALSAVVATGATIKFIGT--GEKI  277 (433)
T ss_dssp             ----CHHHHHHHHHHHTCEEEEEEC--CSSS
T ss_pred             ----cchHHHHHHHHHCCCEEEEEC--CCCh
Confidence                445566677778999887775  5544

>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=98.36  E-value=1.2e-06  Score=70.14  Aligned_cols=84  Identities=15%  Similarity=0.063  Sum_probs=49.4

Q ss_pred             EEEEEEEeCCCchhhhh-h---hHhH--hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCC-c-EEEEEeCCCCCc
Q 040835           44 NVKAQIWDTAGQERYRA-V---TSAY--YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNI-I-IMLVGNKSDLET  115 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~-~---~~~~--~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p-~ivv~nK~D~~~  115 (206)
                      .+.+.|+||||...... .   ...+  +..+|.+++|+|+.....   .......+.    ... | ..+|+||.|...
T Consensus       180 ~~D~vIIDT~G~~~~~~~l~~~l~~i~~~~~~d~vllVvda~~g~~---~~~~~~~~~----~~~~~i~gvVlnK~D~~~  252 (432)
T 2v3c_C          180 KADVLIIDTAGRHKEEKGLLEEMKQIKEITNPDEIILVIDGTIGQQ---AGIQAKAFK----EAVGEIGSIIVTKLDGSA  252 (432)
T ss_dssp             SCSEEEEECCCSCSSHHHHHHHHHHTTSSSCCSEEEEEEEGGGGGG---HHHHHHHHH----TTSCSCEEEEEECSSSCS
T ss_pred             CCCEEEEcCCCCccccHHHHHHHHHHHHHhcCcceeEEeeccccHH---HHHHHHHHh----hcccCCeEEEEeCCCCcc
Confidence            45789999999643211 1   1111  226899999999876532   112222222    234 5 889999999753


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEe
Q 040835          116 LRAVPTEDAKEFAEKEGLCFMET  138 (206)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~  138 (206)
                          ....+..+....+.++..+
T Consensus       253 ----~~g~~l~~~~~~~~pi~~i  271 (432)
T 2v3c_C          253 ----KGGGALSAVAETKAPIKFI  271 (432)
T ss_dssp             ----TTHHHHHHHHHSSCCEEEE
T ss_pred             ----chHHHHHHHHHHCCCEEEe
Confidence                1223445666777776555

>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=98.34  E-value=2e-07  Score=70.60  Aligned_cols=52  Identities=25%  Similarity=0.395  Sum_probs=30.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   56 (206)
                      |+|.||||||||+|+|.+......... .+.+.....+.++   ..+.+|||||..
T Consensus       125 ~vG~~nvGKSsliN~l~~~~~~~~~~~-~g~T~~~~~~~~~---~~~~l~DtpG~~  176 (282)
T 1puj_A          125 IIGIPNVGKSTLINRLAKKNIAKTGDR-PGITTSQQWVKVG---KELELLDTPGIL  176 (282)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCC-------------CCEEET---TTEEEEECCCCC
T ss_pred             EEecCCCchHHHHHHHhcCceeecCCC-CCeeeeeEEEEeC---CCEEEEECcCcC
Confidence            589999999999999998764333221 1333333223332   257899999964

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.29  E-value=1.5e-07  Score=70.58  Aligned_cols=53  Identities=21%  Similarity=0.268  Sum_probs=31.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~   57 (206)
                      |+|.+|+|||||+|+|.+....... ++.+.+.....+..+   ..+.+|||||...
T Consensus       104 ~vG~~~vGKSslin~l~~~~~~~~~-~~~g~T~~~~~~~~~---~~~~l~DtpG~~~  156 (262)
T 3cnl_A          104 IVGVPNTGKSTIINKLKGKRASSVG-AQPGITKGIQWFSLE---NGVKILDTPGILY  156 (262)
T ss_dssp             EEESTTSSHHHHHHHHHTTCC-----------CCSCEEECT---TSCEEESSCEECC
T ss_pred             EeCCCCCCHHHHHHHHhcccccccC-CCCCCccceEEEEeC---CCEEEEECCCccc
Confidence            5899999999999999987653322 222333332222222   3578999999653

>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=98.27  E-value=2.5e-07  Score=70.79  Aligned_cols=89  Identities=16%  Similarity=0.090  Sum_probs=61.5

Q ss_pred             hhhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHcCCeEE
Q 040835           60 AVTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEKEGLCFM  136 (206)
Q Consensus        60 ~~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~  136 (206)
                      .+.+..+.++|.+++|+|+.++. +...+.+++.....   .++|.++|+||+|+..+...  ..+....+....|++++
T Consensus        78 ~l~R~~~anvD~v~~V~~~~~p~~~~~~i~r~L~~~~~---~~~~~vivlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~  154 (307)
T 1t9h_A           78 ELIRPPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVY  154 (307)
T ss_dssp             EETTTTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEE
T ss_pred             hhhHHHHHhCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---CCCCEEEEEECCccCchhhhHHHHHHHHHHHHhCCCeEE
Confidence            34455788999999999998765 34455555544333   46889999999999752210  12334445555688999


Q ss_pred             EeccCCCCCHHHHHH
Q 040835          137 ETSALESTNVELAFL  151 (206)
Q Consensus       137 ~~Sa~~~~~v~~~~~  151 (206)
                      .+|+.++.|+++++.
T Consensus       155 ~~sa~~~~g~~~L~~  169 (307)
T 1t9h_A          155 LTSSKDQDSLADIIP  169 (307)
T ss_dssp             ECCHHHHTTCTTTGG
T ss_pred             EEecCCCCCHHHHHh
Confidence            999999888776654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=98.26  E-value=4e-07  Score=68.26  Aligned_cols=93  Identities=15%  Similarity=0.068  Sum_probs=61.1

Q ss_pred             CCCchh-hhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH
Q 040835           52 TAGQER-YRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK  130 (206)
Q Consensus        52 ~~G~~~-~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~  130 (206)
                      .||+.. ........+.++|++|.|+|+.++.+.....     +. ..  ++|.++|+||+|+....  ..+....+.+.
T Consensus         4 ~PGhm~ka~~~~~~~l~~~D~vl~VvDar~P~~~~~~~-----l~-ll--~k~~iivlNK~DL~~~~--~~~~~~~~~~~   73 (262)
T 3cnl_A            4 YPGHIEKAKRQIKDLLRLVNTVVEVRDARAPFATSAYG-----VD-FS--RKETIILLNKVDIADEK--TTKKWVEFFKK   73 (262)
T ss_dssp             -----CCTTHHHHHHHTTCSEEEEEEETTSTTTTSCTT-----SC-CT--TSEEEEEEECGGGSCHH--HHHHHHHHHHH
T ss_pred             CchHHHHHHHHHHHHHhhCCEEEEEeeCCCCCcCcChH-----HH-hc--CCCcEEEEECccCCCHH--HHHHHHHHHHH
Confidence            466542 2335667789999999999999876543210     11 11  68999999999996421  11223344455


Q ss_pred             cCCeEEEeccCCCCCHHHHHHHHHH
Q 040835          131 EGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus       131 ~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      .|+++ .+||.++.|+++++..+..
T Consensus        74 ~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           74 QGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             cCCeE-EEECCCCcCHHHHHHHHHH
Confidence            68888 9999999999998877654

>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=98.24  E-value=2.2e-06  Score=65.34  Aligned_cols=92  Identities=15%  Similarity=0.033  Sum_probs=57.2

Q ss_pred             EEEEEEEeCCCchh--hhh-hhH-----hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCC
Q 040835           44 NVKAQIWDTAGQER--YRA-VTS-----AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLE  114 (206)
Q Consensus        44 ~~~~~i~D~~G~~~--~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~  114 (206)
                      .+.+.|+||||...  ... +..     .....+|.+++|+|+......   ......+..    ..+ ..+|+||.|..
T Consensus       180 ~~D~ViIDTpg~~~~~~~~~l~~el~~i~~~~~~d~vllVvda~~g~~~---~~~~~~~~~----~~~i~gvVlnk~D~~  252 (297)
T 1j8m_F          180 KMEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKA---YDLASKFNQ----ASKIGTIIITKMDGT  252 (297)
T ss_dssp             TCSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGH---HHHHHHHHH----TCTTEEEEEECGGGC
T ss_pred             CCCEEEEeCCCCcccccHHHHHHHHHHHHHHhcCCEEEEEeeCCchHHH---HHHHHHHHh----hCCCCEEEEeCCCCC
Confidence            45689999999765  221 111     124478999999998753221   122222332    245 67899999974


Q ss_pred             cCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          115 TLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       115 ~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      .    ....+..+....++|+..++  .|+++++
T Consensus       253 ~----~~g~~~~~~~~~~~pi~~i~--~Ge~v~d  280 (297)
T 1j8m_F          253 A----KGGGALSAVAATGATIKFIG--TGEKIDE  280 (297)
T ss_dssp             T----THHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             c----chHHHHHHHHHHCcCEEEEe--CCCChhh
Confidence            3    34456677778899988776  4555544

>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=98.04  E-value=6.7e-06  Score=63.53  Aligned_cols=92  Identities=11%  Similarity=0.015  Sum_probs=52.7

Q ss_pred             EEEEEEeCCCchhhhhh----hHh--HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCC
Q 040835           45 VKAQIWDTAGQERYRAV----TSA--YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRA  118 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~----~~~--~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~  118 (206)
                      ..+.++|++|.......    ...  ..-..|-.++++|+....   .+......+....   -...+++||.|...   
T Consensus       212 ~d~vliDtaG~~~~~~~l~~eL~~i~ral~~de~llvLDa~t~~---~~~~~~~~~~~~~---~it~iilTKlD~~a---  282 (328)
T 3e70_C          212 IDVVLIDTAGRSETNRNLMDEMKKIARVTKPNLVIFVGDALAGN---AIVEQARQFNEAV---KIDGIILTKLDADA---  282 (328)
T ss_dssp             CSEEEEEECCSCCTTTCHHHHHHHHHHHHCCSEEEEEEEGGGTT---HHHHHHHHHHHHS---CCCEEEEECGGGCS---
T ss_pred             chhhHHhhccchhHHHHHHHHHHHHHHHhcCCCCEEEEecHHHH---HHHHHHHHHHHhc---CCCEEEEeCcCCcc---
Confidence            34668999995332111    111  112478889999986553   2222233333221   22468899999643   


Q ss_pred             CCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          119 VPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       119 ~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                       ..-.+.......+.|+..++  +|+++++
T Consensus       283 -~~G~~l~~~~~~~~pi~~i~--~Ge~v~d  309 (328)
T 3e70_C          283 -RGGAALSISYVIDAPILFVG--VGQGYDD  309 (328)
T ss_dssp             -CCHHHHHHHHHHTCCEEEEE--CSSSTTC
T ss_pred             -chhHHHHHHHHHCCCEEEEe--CCCCccc
Confidence             23445677777899988777  5665543

>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP hydrolysis, GDP, GMP, dynamin related, large GTPase family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens} SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A* 2bc9_A* 2d4h_A*

Probab=98.01  E-value=4e-06  Score=69.51  Aligned_cols=56  Identities=16%  Similarity=0.117  Sum_probs=34.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEE--EE-CCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTL--VI-HHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~--~~-~~~~~~~~i~D~~G~~   56 (206)
                      |+|.||||||||+|+|++....... ..+.+.+......  .+ ......+.++||||..
T Consensus        43 ivG~pnvGKStLiN~L~g~~~~~~~~~tt~~~T~gi~~~~~~~~~~~~~~i~LiDTpGi~  102 (592)
T 1f5n_A           43 IVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPHPKKPGHILVLLDTEGLG  102 (592)
T ss_dssp             EEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEECSSSTTCEEEEEEECCBC
T ss_pred             EECCCCCCHHHHHHhHcCCCCccccCCCCCCceeEEEEeecccccCCCceEEEecCCCcC
Confidence            5899999999999999997643211 1111222222111  11 1234578999999964

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.98  E-value=1.4e-05  Score=62.31  Aligned_cols=84  Identities=14%  Similarity=0.095  Sum_probs=55.3

Q ss_pred             HhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC-CHHHHHHHHHHcCCeEEEeccCC
Q 040835           65 YYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV-PTEDAKEFAEKEGLCFMETSALE  142 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~  142 (206)
                      ...++|.+++|.+. ++. +...+.+++.....   .++|.++|+||+|+..+... ..++........|++++.+|+.+
T Consensus       127 i~anvD~v~iv~a~-~P~~~~~~i~r~L~~a~~---~~~~~iivlNK~DL~~~~~~~~~~~~~~~y~~~G~~v~~~Sa~~  202 (358)
T 2rcn_A          127 IAANIDQIVIVSAI-LPELSLNIIDRYLVGCET---LQVEPLIVLNKIDLLDDEGMDFVNEQMDIYRNIGYRVLMVSSHT  202 (358)
T ss_dssp             EEECCCEEEEEEES-TTTCCHHHHHHHHHHHHH---HTCEEEEEEECGGGCCHHHHHHHHHHHHHHHTTTCCEEECBTTT
T ss_pred             HHhcCCEEEEEEeC-CCCCCHHHHHHHHHHHHh---cCCCEEEEEECccCCCchhHHHHHHHHHHHHhCCCcEEEEecCC
Confidence            36789999888665 444 34455555544433   35788999999999642110 01122333445689999999999


Q ss_pred             CCCHHHHHHH
Q 040835          143 STNVELAFLT  152 (206)
Q Consensus       143 ~~~v~~~~~~  152 (206)
                      +.|++++...
T Consensus       203 ~~gl~~L~~~  212 (358)
T 2rcn_A          203 QDGLKPLEEA  212 (358)
T ss_dssp             TBTHHHHHHH
T ss_pred             CcCHHHHHHh
Confidence            9999987654

>3szr_A Interferon-induced GTP-binding protein MX1; interferon-induced antiviral GTPase, membrane associated, PR binding; 3.50A {Homo sapiens} PDB: 3zys_B

Probab=97.95  E-value=2.2e-05  Score=65.66  Aligned_cols=20  Identities=35%  Similarity=0.567  Sum_probs=18.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|||||||++.+.+-.
T Consensus        50 IvG~nGsGKSTLL~~I~Gl~   69 (608)
T 3szr_A           50 VIGDQSSGKSSVLEALSGVA   69 (608)
T ss_dssp             CCCCTTSCHHHHHHHHHSCC
T ss_pred             EECCCCChHHHHHHHHhCCC
Confidence            68999999999999999864

>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=97.65  E-value=2e-05  Score=63.76  Aligned_cols=84  Identities=15%  Similarity=0.119  Sum_probs=46.3

Q ss_pred             EEEEEEeCCCchhhhh----h---hHhHhc-----CCcEEEEEeeCCChhh-HHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERYRA----V---TSAYYR-----GAVGAMLVYDITKRQS-FDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~----~---~~~~~~-----~~d~~i~v~d~~~~~s-~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      +.+.|+||+|......    .   .....+     ..+-+++++|.+.... +..+    ..+....  ++ ..+|+||.
T Consensus       376 ~DvVLIDTaGrl~~~~~lm~EL~kiv~iar~l~~~~P~evLLvLDattGq~al~~a----k~f~~~~--~i-tgvIlTKL  448 (503)
T 2yhs_A          376 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQA----KLFHEAV--GL-TGITLTKL  448 (503)
T ss_dssp             CSEEEECCCCSCCCHHHHHHHHHHHHHHHHTTCTTCSSEEEEEEEGGGTHHHHHHH----HHHHHHT--CC-SEEEEECG
T ss_pred             CCEEEEeCCCccchhhhHHHHHHHHHHHHHHhccCCCCeeEEEecCcccHHHHHHH----HHHHhhc--CC-CEEEEEcC
Confidence            4578999999532111    1   111111     2567888999875532 2222    2233221  22 35789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      |-..    ..-.+..+...+++++.++.
T Consensus       449 D~ta----kgG~~lsi~~~~~~PI~fig  472 (503)
T 2yhs_A          449 DGTA----KGGVIFSVADQFGIPIRYIG  472 (503)
T ss_dssp             GGCS----CCTHHHHHHHHHCCCEEEEE
T ss_pred             CCcc----cccHHHHHHHHHCCCEEEEe
Confidence            9532    23346677777888876643

>1bif_A 6-phosphofructo-2-kinase/ fructose-2,6-bisphospha; transferase (phospho), phosphatase, hydrolase (phosp glycolysis, bifunctional enzyme; HET: AGS; 2.00A {Rattus norvegicus} SCOP: c.37.1.7 c.60.1.4 PDB: 3bif_A* 2bif_A* 1k6m_A* 1c80_A* 1c7z_A* 1c81_A* 1tip_A* 1fbt_A

Probab=97.53  E-value=3.6e-06  Score=68.26  Aligned_cols=94  Identities=14%  Similarity=0.108  Sum_probs=52.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh--hhhhh--------HhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--YRAVT--------SAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--~~~~~--------~~~~~~~d   70 (206)
                      ++|.+|+||||+.++|....... ..++.............+......+||..|.+.  ....+        ..++...+
T Consensus        44 lvGlpGsGKSTia~~La~~l~~~-~~~t~~~~~d~~r~~~~g~~~~~~ifd~~g~~~~r~re~~~~~~l~~~~~~l~~~~  122 (469)
T 1bif_A           44 MVGLPARGKTYISKKLTRYLNFI-GVPTREFNVGQYRRDMVKTYKSFEFFLPDNEEGLKIRKQCALAALNDVRKFLSEEG  122 (469)
T ss_dssp             EECCTTSSHHHHHHHHHHHHHHT-TCCEEEEEHHHHHHHHHCSCCCGGGGCTTCHHHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred             EECCCCCCHHHHHHHHHHHHhcc-CCCceEEecchhhhhhccCCCcccccCCCCHHHHHHHHHHHHHHHHHHHHHHHhCC
Confidence            58999999999999987643211 111111110000000011123346789988732  22222        45666677


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHh
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRG   96 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~   96 (206)
                      +.++|+|.++. .......|+..+..
T Consensus       123 G~~vV~D~tn~-~~~~R~~~~~~~~~  147 (469)
T 1bif_A          123 GHVAVFDATNT-TRERRAMIFNFGEQ  147 (469)
T ss_dssp             CSEEEEESCCC-SHHHHHHHHHHHHH
T ss_pred             CCEEEEeCCCC-CHHHHHHHHHHHHh
Confidence            88899999987 34555566665554

>3q5d_A Atlastin-1; G protein, GTPase, GDP/GTP binding, hydrolase; HET: GDP; 2.70A {Homo sapiens} PDB: 3q5e_A* 3qnu_A* 3qof_A*

Probab=97.46  E-value=0.00011  Score=58.95  Aligned_cols=19  Identities=32%  Similarity=0.303  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++++|||+|+|.|++.
T Consensus        72 V~G~~~~GKStLLN~llg~   90 (447)
T 3q5d_A           72 VAGAFRKGKSFLMDFMLRY   90 (447)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHhhh
Confidence            5899999999999999863

>2xxa_A Signal recognition particle protein; protein transport, RNA/RNA binding protein, hydrolase, gtpas; HET: GCP; 3.94A {Escherichia coli} PDB: 2j28_9

Probab=97.42  E-value=0.00022  Score=57.17  Aligned_cols=83  Identities=17%  Similarity=0.078  Sum_probs=46.4

Q ss_pred             EEEEEEEeCCCchhhhh-hhH-----hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcC
Q 040835           44 NVKAQIWDTAGQERYRA-VTS-----AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETL  116 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~  116 (206)
                      .+.+.|+||||...... ...     ..+..++.+++|+|+.......   .....+..    ..+ .-+|+||.|... 
T Consensus       183 ~~D~VIIDTpG~l~~~~~l~~~L~~~~~~~~p~~vllVvda~~g~~~~---~~~~~f~~----~l~i~gvVlnK~D~~~-  254 (433)
T 2xxa_A          183 FYDVLLVDTAGRLHVDEAMMDEIKQVHASINPVETLFVVDAMTGQDAA---NTAKAFNE----ALPLTGVVLTKVDGDA-  254 (433)
T ss_dssp             TCSEEEEECCCCCTTCHHHHHHHHHHHHHSCCSEEEEEEETTBCTTHH---HHHHHHHH----HSCCCCEEEECTTSSS-
T ss_pred             CCCEEEEECCCcccccHHHHHHHHHHHHhhcCcceeEEeecchhHHHH---HHHHHHhc----cCCCeEEEEecCCCCc-
Confidence            46789999999643321 111     1244788999999987543221   12222322    133 347899999753 


Q ss_pred             CCCCHHHHHHHHHHcCCeEEE
Q 040835          117 RAVPTEDAKEFAEKEGLCFME  137 (206)
Q Consensus       117 ~~~~~~~~~~~~~~~~~~~~~  137 (206)
                      +.   ..+..+....+.|+..
T Consensus       255 ~~---g~~l~i~~~~~~Pi~~  272 (433)
T 2xxa_A          255 RG---GAALSIRHITGKPIKF  272 (433)
T ss_dssp             CC---THHHHHHHHHCCCEEE
T ss_pred             cH---HHHHHHHHHHCCCeEE
Confidence            11   2344556666766433

>1zu4_A FTSY; GTPase, signal recognition particle, SRP, receptor, protein transport; 1.95A {Mycoplasma mycoides} PDB: 1zu5_A

Probab=97.25  E-value=0.00027  Score=54.37  Aligned_cols=86  Identities=17%  Similarity=0.100  Sum_probs=49.1

Q ss_pred             EEEEEEEeCCCchhhhhhh-H------hHh-----cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           44 NVKAQIWDTAGQERYRAVT-S------AYY-----RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~-~------~~~-----~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      .+.+.|+||||........ .      ..+     ..+|.+++|++....  ...+... ..+...   -...-+|+||.
T Consensus       191 ~yD~VIIDTpg~l~~~~~l~~eL~~~~~vi~~~~p~~~d~vllVl~a~~~--~~~l~~~-~~~~~~---~~i~GvVltk~  264 (320)
T 1zu4_A          191 NYDLLLIDTAGRLQNKTNLMAELEKMNKIIQQVEKSAPHEVLLVIDATTG--QNGVIQA-EEFSKV---ADVSGIILTKM  264 (320)
T ss_dssp             TCSEEEEECCCCGGGHHHHHHHHHHHHHHHHTTCTTCCSEEEEEEEGGGT--HHHHHHH-HHHTTT---SCCCEEEEECG
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHHHHHHhcccCCCCceEEEEEECCCc--HHHHHHH-HHHhhc---CCCcEEEEeCC
Confidence            3568999999964432111 0      111     247889999998743  2222221 122221   12345789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      |...    ....+..+....++|+..+.
T Consensus       265 d~~~----~~g~~~~~~~~~~~Pi~~i~  288 (320)
T 1zu4_A          265 DSTS----KGGIGLAIKELLNIPIKMIG  288 (320)
T ss_dssp             GGCS----CTTHHHHHHHHHCCCEEEEE
T ss_pred             CCCC----chhHHHHHHHHHCcCEEEEe
Confidence            9643    12356677778898876664

>2rcn_A Probable GTPase ENGC; YJEQ, circularly permuted, GTP-binding, hydrolase, nucleotide-binding; HET: GDP; 2.25A {Salmonella typhimurium} PDB: 2ykr_W 4a2i_V

Probab=97.18  E-value=0.00018  Score=56.05  Aligned_cols=21  Identities=38%  Similarity=0.453  Sum_probs=18.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|++|||||||+|.|.+...
T Consensus       220 lvG~sG~GKSTLln~L~g~~~  240 (358)
T 2rcn_A          220 FAGQSGVGKSSLLNALLGLQN  240 (358)
T ss_dssp             EECCTTSSHHHHHHHHHCCSS
T ss_pred             EECCCCccHHHHHHHHhcccc
Confidence            589999999999999998654

>1t9h_A YLOQ, probable GTPase ENGC; N-terminal beta-barrel domain with oligonucleotide binding fold, central GTP binding domain; 1.60A {Bacillus subtilis} SCOP: b.40.4.5 c.37.1.8

Probab=97.12  E-value=5.1e-05  Score=57.97  Aligned_cols=21  Identities=38%  Similarity=0.477  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|++|||||||+|.|.+...
T Consensus       178 lvG~sG~GKSTLln~L~g~~~  198 (307)
T 1t9h_A          178 FAGQSGVGKSSLLNAISPELG  198 (307)
T ss_dssp             EEESHHHHHHHHHHHHCC---
T ss_pred             EECCCCCCHHHHHHHhccccc
Confidence            589999999999999987543

>2ffh_A Protein (FFH); SRP54, signal recognition particle, GTPase, M domain, RNA-binding, signal sequence-binding, helix-turn-helix, protein targeting; 3.20A {Thermus aquaticus} SCOP: a.24.13.1 a.36.1.1 c.37.1.10 PDB: 2iy3_A

Probab=97.11  E-value=0.0018  Score=51.68  Aligned_cols=86  Identities=17%  Similarity=0.067  Sum_probs=48.4

Q ss_pred             EEEEEEEeCCCchhhhh-hhH-----hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRA-VTS-----AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~-~~~-----~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      .+.+.|+||||...... ...     ...-.+|.+++|+|......   .......+....   ...-+|+||.|...  
T Consensus       180 ~~DvVIIDTaG~l~~d~~l~~el~~i~~~~~pd~vlLVvDa~tgq~---av~~a~~f~~~l---~i~GVIlTKlD~~~--  251 (425)
T 2ffh_A          180 ARDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQE---ALSVARAFDEKV---GVTGLVLTKLDGDA--  251 (425)
T ss_dssp             TCSEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTTH---HHHHHHHHHHHT---CCCEEEEESGGGCS--
T ss_pred             CCCEEEEcCCCcccccHHHHHHHHHhhhccCCceEEEEEeccchHH---HHHHHHHHHhcC---CceEEEEeCcCCcc--
Confidence            35689999998543211 111     11235888999999864322   112222233211   12567899999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEec
Q 040835          118 AVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                        ....+..+....+.|+..+.
T Consensus       252 --~~g~alsi~~~~g~PI~flg  271 (425)
T 2ffh_A          252 --RGGAALSARHVTGKPIYFAG  271 (425)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEE
T ss_pred             --cHHHHHHHHHHHCCCEEEEe
Confidence              22345556677788876654

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=97.06  E-value=0.00075  Score=51.46  Aligned_cols=17  Identities=53%  Similarity=0.835  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      ++|++|+|||||+|.|.
T Consensus       170 l~G~sG~GKSTLln~l~  186 (302)
T 2yv5_A          170 LAGPSGVGKSSILSRLT  186 (302)
T ss_dssp             EECSTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999998

>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=96.96  E-value=0.00025  Score=49.78  Aligned_cols=20  Identities=25%  Similarity=0.561  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||++.+.+..
T Consensus         5 l~G~nGsGKTTLl~~l~g~l   24 (178)
T 1ye8_A            5 ITGEPGVGKTTLVKKIVERL   24 (178)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            58999999999999988743

>1kgd_A CASK, peripheral plasma membrane CASK; maguk, guanylate kinase like domain, protein binding; 1.31A {Homo sapiens} SCOP: c.37.1.1

Probab=96.96  E-value=0.00025  Score=49.74  Aligned_cols=19  Identities=21%  Similarity=0.506  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+.
T Consensus        10 i~GpsGsGKSTL~~~L~~~   28 (180)
T 1kgd_A           10 LLGAHGVGRRHIKNTLITK   28 (180)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            5899999999999999874

>1lvg_A Guanylate kinase, GMP kinase; transferase; HET: ADP 5GP; 2.10A {Mus musculus} SCOP: c.37.1.1

Probab=96.89  E-value=0.00031  Score=50.12  Aligned_cols=18  Identities=44%  Similarity=0.637  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||++.|.+
T Consensus         9 lvGpsGaGKSTLl~~L~~   26 (198)
T 1lvg_A            9 LSGPSGAGKSTLLKKLFQ   26 (198)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHh
Confidence            589999999999999886

>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=96.82  E-value=0.00038  Score=49.08  Aligned_cols=19  Identities=32%  Similarity=0.401  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+.
T Consensus        14 l~G~~GsGKSTl~~~La~~   32 (191)
T 1zp6_A           14 LSGHPGSGKSTIAEALANL   32 (191)
T ss_dssp             EEECTTSCHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5899999999999999875

>3tr0_A Guanylate kinase, GMP kinase; purines, pyrimidines, nucleosides, nucleotides, transferase; HET: 5GP; 1.85A {Coxiella burnetii}

Probab=96.78  E-value=0.00041  Score=49.41  Aligned_cols=19  Identities=21%  Similarity=0.426  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+.
T Consensus        12 l~Gp~GsGKSTl~~~L~~~   30 (205)
T 3tr0_A           12 ISAPSGAGKTSLVRALVKA   30 (205)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHhh
Confidence            5899999999999999874

>1znw_A Guanylate kinase, GMP kinase; ATP:GMP-phosphotransferase, TR; 2.10A {Mycobacterium tuberculosis} SCOP: c.37.1.1 PDB: 1znx_A* 1zny_A* 1znz_A* 1s4q_A 1z8f_A

Probab=96.76  E-value=0.00043  Score=49.63  Aligned_cols=20  Identities=40%  Similarity=0.463  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|||||||++.+.+-.
T Consensus        25 l~GpnGsGKSTLl~~l~gl~   44 (207)
T 1znw_A           25 LSGPSAVGKSTVVRCLRERI   44 (207)
T ss_dssp             EECSTTSSHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHhhC
Confidence            58999999999999988743

>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=96.74  E-value=0.0029  Score=44.90  Aligned_cols=86  Identities=13%  Similarity=-0.006  Sum_probs=57.0

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCH
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLRAVPT  121 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~~~~~  121 (206)
                      .+.+.|+|+|+..  .......+..+|.+|+++..+...  ..+..++..+....  ..+.++.+|+|+.|...  . ..
T Consensus        75 ~yD~viiD~~~~~--~~~~~~~l~~ad~viiv~~~~~~~--~~~~~~~~~l~~~~~~~~~~~~~vv~N~~~~~~--~-~~  147 (206)
T 4dzz_A           75 DYDFAIVDGAGSL--SVITSAAVMVSDLVIIPVTPSPLD--FSAAGSVVTVLEAQAYSRKVEARFLITRKIEMA--T-ML  147 (206)
T ss_dssp             TSSEEEEECCSSS--SHHHHHHHHHCSEEEEEECSCTTT--HHHHHHHHHHHTTSCGGGCCEEEEEECSBCTTE--E-EE
T ss_pred             CCCEEEEECCCCC--CHHHHHHHHHCCEEEEEecCCHHH--HHHHHHHHHHHHHHHhCCCCcEEEEEeccCCCc--h-HH
Confidence            3678999999865  334556677799999999876543  55666666665543  24567799999998532  1 22


Q ss_pred             HHHHHHHHHcCCeEE
Q 040835          122 EDAKEFAEKEGLCFM  136 (206)
Q Consensus       122 ~~~~~~~~~~~~~~~  136 (206)
                      .+..++.+.++.+++
T Consensus       148 ~~~~~~l~~~~~~vl  162 (206)
T 4dzz_A          148 NVLKESIKDTGVKAF  162 (206)
T ss_dssp             HHHHHHHHHHTCCBC
T ss_pred             HHHHHHHHHcCCcee
Confidence            445566666666554

>4gp7_A Metallophosphoesterase; polynucleotide kinase phosphatase, RNA repair, transferase; HET: ATP CIT; 2.00A {Clostridium thermocellum} PDB: 4gp6_A*

Probab=96.74  E-value=0.00042  Score=48.18  Aligned_cols=17  Identities=41%  Similarity=0.579  Sum_probs=15.1

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      ++|++|||||||++.+.
T Consensus        14 l~G~nGsGKSTl~~~~~   30 (171)
T 4gp7_A           14 LIGSSGSGKSTFAKKHF   30 (171)
T ss_dssp             EECCTTSCHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHc
Confidence            58999999999999754

>1s96_A Guanylate kinase, GMP kinase; E.coli, dimer, SAD, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.1 PDB: 2an9_A* 2anb_A* 2anc_A 2f3r_A* 2f3t_A*

Probab=96.72  E-value=0.0005  Score=49.93  Aligned_cols=20  Identities=25%  Similarity=0.434  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|||||||++.|.+..
T Consensus        21 l~GpsGsGKSTLlk~L~g~~   40 (219)
T 1s96_A           21 VSAPSGAGKSSLIQALLKTQ   40 (219)
T ss_dssp             EECCTTSCHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHhccC
Confidence            58999999999999998743

>1z6g_A Guanylate kinase; structural genomics, SGC, structural genom consortium, transferase; HET: EPE; 2.18A {Plasmodium falciparum}

Probab=96.67  E-value=0.00055  Score=49.61  Aligned_cols=20  Identities=30%  Similarity=0.549  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.|.+..
T Consensus        28 lvGpsGsGKSTLl~~L~g~~   47 (218)
T 1z6g_A           28 ICGPSGVGKGTLIKKLLNEF   47 (218)
T ss_dssp             EECSTTSSHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHHhhC
Confidence            58999999999999998743

>3tif_A Uncharacterized ABC transporter ATP-binding prote; nucleotide-binding domain, ABC transporter ATPase; HET: ADP; 1.80A {Methanocaldococcus jannaschii dsm 2661ORGANISM_TAXID} PDB: 1l2t_A* 1f3o_A*

Probab=96.63  E-value=0.00063  Score=49.92  Aligned_cols=19  Identities=32%  Similarity=0.427  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|||||||++.+.+-
T Consensus        36 iiG~nGsGKSTLl~~l~Gl   54 (235)
T 3tif_A           36 IMGPSGSGKSTMLNIIGCL   54 (235)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhcC
Confidence            5899999999999988874

>1htw_A HI0065; nucleotide-binding fold, structural genomics, structure 2 function project, S2F, unknown function; HET: ADP; 1.70A {Haemophilus influenzae} SCOP: c.37.1.18 PDB: 1fl9_A

Probab=96.61  E-value=0.00067  Score=46.61  Aligned_cols=20  Identities=30%  Similarity=0.380  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+..
T Consensus        38 L~G~nGaGKTTLlr~l~g~l   57 (158)
T 1htw_A           38 LNGDLGAGKTTLTRGMLQGI   57 (158)
T ss_dssp             EECSTTSSHHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHhC
Confidence            57999999999999998854

>3ney_A 55 kDa erythrocyte membrane protein; structural genomics consortium, SGC, 55 kDa erythrocyte MEMB protein; 2.26A {Homo sapiens} SCOP: c.37.1.0

Probab=96.59  E-value=0.00071  Score=48.23  Aligned_cols=19  Identities=37%  Similarity=0.604  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|...
T Consensus        24 l~GPSGaGKsTL~~~L~~~   42 (197)
T 3ney_A           24 LIGASGVGRSHIKNALLSQ   42 (197)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHhh
Confidence            5899999999999999864

>2pcj_A ABC transporter, lipoprotein-releasing system ATP-binding protein; structural genomics; 1.70A {Aquifex aeolicus} PDB: 2pcl_A

Probab=96.58  E-value=0.00065  Score=49.47  Aligned_cols=19  Identities=42%  Similarity=0.466  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        35 iiG~nGsGKSTLl~~l~Gl   53 (224)
T 2pcj_A           35 IIGASGSGKSTLLYILGLL   53 (224)
T ss_dssp             EEECTTSCHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>3c8u_A Fructokinase; YP_612366.1, putative fructose transport system kinase, STRU genomics, joint center for structural genomics, JCSG; 1.95A {Silicibacter SP}

Probab=96.57  E-value=0.00058  Score=49.01  Aligned_cols=19  Identities=37%  Similarity=0.433  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+.
T Consensus        27 I~G~sGsGKSTl~~~l~~~   45 (208)
T 3c8u_A           27 LSGAPGSGKSTLSNPLAAA   45 (208)
T ss_dssp             EECCTTSCTHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999988764

>2onk_A Molybdate/tungstate ABC transporter, ATP-binding protein; membrane protein; 3.10A {Archaeoglobus fulgidus} SCOP: c.37.1.12

Probab=96.56  E-value=0.0008  Score=49.54  Aligned_cols=19  Identities=37%  Similarity=0.487  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        29 liG~nGsGKSTLl~~l~Gl   47 (240)
T 2onk_A           29 LLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999998875

>3ec2_A DNA replication protein DNAC; helicase loader, replication initiation factor, ATP-binding, nucleotide-binding; HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*

Probab=96.55  E-value=0.00078  Score=47.06  Aligned_cols=19  Identities=26%  Similarity=0.532  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||||++.+.+.
T Consensus        43 l~G~~G~GKTtL~~~i~~~   61 (180)
T 3ec2_A           43 FVGSPGVGKTHLAVATLKA   61 (180)
T ss_dssp             ECCSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998764

>3tau_A Guanylate kinase, GMP kinase; structural genomics, center for structural genomics of infec diseases, csgid, putative guanylate kinase; HET: MSE; 2.05A {Listeria monocytogenes}

Probab=96.55  E-value=0.00075  Score=48.44  Aligned_cols=20  Identities=35%  Similarity=0.469  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|||||||++.|....
T Consensus        13 l~GpsGsGKsTl~~~L~~~~   32 (208)
T 3tau_A           13 LSGPSGVGKGTVREAVFKDP   32 (208)
T ss_dssp             EECCTTSCHHHHHHHHHHST
T ss_pred             EECcCCCCHHHHHHHHHhhC
Confidence            57999999999999998753

>2bdt_A BH3686; alpha-beta protein, structural genomics, PSI, protein struct initiative, northeast structural genomics consortium, NESG, function; 2.40A {Bacillus halodurans} SCOP: c.37.1.25

Probab=96.53  E-value=0.0008  Score=47.37  Aligned_cols=18  Identities=39%  Similarity=0.564  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||++.|.+
T Consensus         7 l~G~~GaGKSTl~~~L~~   24 (189)
T 2bdt_A            7 ITGPAGVGKSTTCKRLAA   24 (189)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHhc
Confidence            589999999999999975

>1sgw_A Putative ABC transporter; structural genomics, P protein structure initiative, southeast collaboratory for S genomics, secsg; 1.70A {Pyrococcus furiosus} SCOP: c.37.1.12

Probab=96.51  E-value=0.00086  Score=48.50  Aligned_cols=19  Identities=26%  Similarity=0.492  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        40 iiG~NGsGKSTLlk~l~Gl   58 (214)
T 1sgw_A           40 FHGPNGIGKTTLLKTISTY   58 (214)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>1b0u_A Histidine permease; ABC transporter, transport protein; HET: ATP; 1.50A {Salmonella typhimurium} SCOP: c.37.1.12

Probab=96.49  E-value=0.00089  Score=49.97  Aligned_cols=19  Identities=37%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        37 liG~nGsGKSTLlk~l~Gl   55 (262)
T 1b0u_A           37 IIGSSGSGKSTFLRCINFL   55 (262)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>1kag_A SKI, shikimate kinase I; transferase, structural genomics, PSI, protein structure initiative; 2.05A {Escherichia coli} SCOP: c.37.1.2

Probab=96.47  E-value=0.00093  Score=46.22  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+.
T Consensus         9 l~G~~GsGKSTl~~~La~~   27 (173)
T 1kag_A            9 LVGPMGAGKSTIGRQLAQQ   27 (173)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>3gfo_A Cobalt import ATP-binding protein CBIO 1; structural genomics, cell membrane, cobalt transport, hydrolase, ION transport; 2.30A {Clostridium perfringens atcc 13124}

Probab=96.47  E-value=0.00093  Score=50.23  Aligned_cols=20  Identities=35%  Similarity=0.572  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|||||||++.+.+-.
T Consensus        39 iiGpnGsGKSTLl~~l~Gl~   58 (275)
T 3gfo_A           39 ILGGNGVGKSTLFQNFNGIL   58 (275)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHHcCC
Confidence            58999999999999988743

>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=96.46  E-value=0.0034  Score=49.07  Aligned_cols=20  Identities=25%  Similarity=0.346  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||||++.+....
T Consensus        49 i~G~~G~GKTtl~~~l~~~~   68 (389)
T 1fnn_A           49 LLGRPGTGKTVTLRKLWELY   68 (389)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            57999999999999988643

>1g6h_A High-affinity branched-chain amino acid transport ATP-binding protein; beta-core domain; HET: ADP; 1.60A {Methanocaldococcus jannaschii} SCOP: c.37.1.12 PDB: 1gaj_A 1g9x_A*

Probab=96.46  E-value=0.00092  Score=49.73  Aligned_cols=20  Identities=30%  Similarity=0.383  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        38 liG~nGsGKSTLlk~l~Gl~   57 (257)
T 1g6h_A           38 IIGPNGSGKSTLINVITGFL   57 (257)
T ss_dssp             EECSTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988743

>2cbz_A Multidrug resistance-associated protein 1; ABC proteins, MRP1/ABCC1, nucleotide-binding domain, ATP- binding, hydrolysis, transport; HET: ATP; 1.5A {Homo sapiens}

Probab=96.45  E-value=0.00095  Score=49.04  Aligned_cols=19  Identities=32%  Similarity=0.623  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        36 i~G~nGsGKSTLl~~l~Gl   54 (237)
T 2cbz_A           36 VVGQVGCGKSSLLSALLAE   54 (237)
T ss_dssp             EECSTTSSHHHHHHHHTTC
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>4g1u_C Hemin import ATP-binding protein HMUV; membrane transporter, type II ABC importer, HMUT, plasma MEM transport protein-hydrolase complex; 3.01A {Yersinia pestis}

Probab=96.44  E-value=0.00099  Score=49.84  Aligned_cols=20  Identities=35%  Similarity=0.458  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        42 liG~nGsGKSTLl~~l~Gl~   61 (266)
T 4g1u_C           42 IIGPNGAGKSTLLRLLTGYL   61 (266)
T ss_dssp             EECCTTSCHHHHHHHHTSSS
T ss_pred             EECCCCCcHHHHHHHHhcCC
Confidence            58999999999999988843

>3co5_A Putative two-component system transcriptional RES regulator; structural genomics, APC89341.1; 2.40A {Neisseria gonorrhoeae}

Probab=96.43  E-value=0.0035  Score=42.08  Aligned_cols=19  Identities=16%  Similarity=0.315  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||++++.+...
T Consensus        32 l~G~~GtGKt~lA~~i~~~   50 (143)
T 3co5_A           32 LTGEAGSPFETVARYFHKN   50 (143)
T ss_dssp             EEEETTCCHHHHHGGGCCT
T ss_pred             EECCCCccHHHHHHHHHHh
Confidence            4799999999999877653

>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=96.42  E-value=0.0066  Score=46.95  Aligned_cols=19  Identities=21%  Similarity=0.303  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||||++.+.+.
T Consensus        41 l~Gp~G~GKTtl~~~la~~   59 (354)
T 1sxj_E           41 LYGPNGTGKKTRCMALLES   59 (354)
T ss_dssp             EECSTTSSHHHHHHTHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998773

>2j41_A Guanylate kinase; GMP, GMK, transferase, ATP-binding, nucleotide- binding; HET: 5GP; 1.9A {Staphylococcus aureus}

Probab=96.42  E-value=0.001  Score=47.41  Aligned_cols=20  Identities=40%  Similarity=0.527  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|||||||++.|.+..
T Consensus        11 l~G~~GsGKSTl~~~L~~~~   30 (207)
T 2j41_A           11 LSGPSGVGKGTVRKRIFEDP   30 (207)
T ss_dssp             EECSTTSCHHHHHHHHHHCT
T ss_pred             EECCCCCCHHHHHHHHHHhh
Confidence            58999999999999988754

>2olj_A Amino acid ABC transporter; ABC domain, ATPase, hydrolase; HET: ADP; 2.05A {Geobacillus stearothermophilus} PDB: 2olk_A* 2ouk_A 2q0h_A* 3c4j_A* 3c41_J*

Probab=96.42  E-value=0.001  Score=49.62  Aligned_cols=19  Identities=37%  Similarity=0.424  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        55 liG~NGsGKSTLlk~l~Gl   73 (263)
T 2olj_A           55 VIGPSGSGKSTFLRCLNLL   73 (263)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EEcCCCCcHHHHHHHHHcC
Confidence            5899999999999998874

>2pze_A Cystic fibrosis transmembrane conductance regulat; NBD, ABC transporter, CFTR, hydrolase; HET: ATP; 1.70A {Homo sapiens} PDB: 2pzg_A* 2pzf_A* 1ckx_A 1cky_A 1ckw_A 1ckz_A

Probab=96.41  E-value=0.0011  Score=48.51  Aligned_cols=20  Identities=25%  Similarity=0.443  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        39 i~G~nGsGKSTLl~~l~Gl~   58 (229)
T 2pze_A           39 VAGSTGAGKTSLLMMIMGEL   58 (229)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988743

>1vpl_A ABC transporter, ATP-binding protein; TM0544, structural GENO joint center for structural genomics, JCSG, protein structu initiative, PSI; 2.10A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.41  E-value=0.0011  Score=49.38  Aligned_cols=19  Identities=32%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        46 l~G~NGsGKSTLlk~l~Gl   64 (256)
T 1vpl_A           46 LIGPNGAGKTTTLRIISTL   64 (256)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>2qor_A Guanylate kinase; phosphotransferase, purine metabolism, structural genomics, structural genomics of pathogenic protozoa consortium; HET: 5GP POP; 1.80A {Plasmodium vivax}

Probab=96.40  E-value=0.0011  Score=47.29  Aligned_cols=19  Identities=32%  Similarity=0.587  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|...
T Consensus        17 l~G~sGsGKsTl~~~L~~~   35 (204)
T 2qor_A           17 VCGPSGVGKGTLIKKVLSE   35 (204)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998764

>1ji0_A ABC transporter; ATP binding protein, structural genomics, PSI, protein structure initiative, midwest center for structural genomics, MCSG; HET: ATP; 2.00A {Thermotoga maritima} SCOP: c.37.1.12

Probab=96.40  E-value=0.0011  Score=48.86  Aligned_cols=19  Identities=37%  Similarity=0.504  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        37 l~G~nGsGKSTLl~~l~Gl   55 (240)
T 1ji0_A           37 LIGANGAGKTTTLSAIAGL   55 (240)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999998874

>4eun_A Thermoresistant glucokinase; putative sugar kinase, enzyme function initiative, EFI, STRU genomics, transferase; 1.60A {Janibacter SP}

Probab=96.39  E-value=0.0011  Score=47.22  Aligned_cols=19  Identities=26%  Similarity=0.452  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+.
T Consensus        34 l~G~~GsGKSTl~~~L~~~   52 (200)
T 4eun_A           34 VMGVSGSGKTTIAHGVADE   52 (200)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998763

>2qi9_C Vitamin B12 import ATP-binding protein BTUD; inner membrane, membrane, transmembrane, transport, ATP- binding, hydrolase, nucleotide-binding, periplasm; HET: 1PE; 2.60A {Escherichia coli} PDB: 1l7v_C* 4dbl_C

Probab=96.39  E-value=0.0011  Score=49.05  Aligned_cols=19  Identities=53%  Similarity=0.730  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        31 liG~NGsGKSTLlk~l~Gl   49 (249)
T 2qi9_C           31 LVGPNGAGKSTLLARMAGM   49 (249)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhCC
Confidence            5899999999999998874

>1mv5_A LMRA, multidrug resistance ABC transporter ATP-binding and permease protein; asymmetric dimer, tetramer, P-glycoprotein; HET: ATP ADP; 3.10A {Lactococcus lactis} SCOP: c.37.1.12

Probab=96.39  E-value=0.0011  Score=48.84  Aligned_cols=19  Identities=32%  Similarity=0.429  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        33 i~G~nGsGKSTLl~~l~Gl   51 (243)
T 1mv5_A           33 FAGPSGGGKSTIFSLLERF   51 (243)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998874

>2i3b_A HCR-ntpase, human cancer-related ntpase; AAA, rossmann, hydrolase; NMR {Homo sapiens} SCOP: c.37.1.11

Probab=96.38  E-value=0.0011  Score=46.91  Aligned_cols=19  Identities=32%  Similarity=0.525  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+.+.
T Consensus         6 i~G~nG~GKTTll~~l~g~   24 (189)
T 2i3b_A            6 LTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             EESCCSSCHHHHHHHHHHH
T ss_pred             EECCCCChHHHHHHHHHhh
Confidence            5899999999999998874

>2d2e_A SUFC protein; ABC-ATPase, SUF protein, 310-helix, riken structural genomics/proteomics initiative, RSGI, structural genomics, binding; 1.70A {Thermus thermophilus} PDB: 2d2f_A*

Probab=96.37  E-value=0.0012  Score=48.89  Aligned_cols=19  Identities=42%  Similarity=0.541  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        34 l~G~nGsGKSTLlk~l~Gl   52 (250)
T 2d2e_A           34 LMGPNGAGKSTLGKILAGD   52 (250)
T ss_dssp             EECSTTSSHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999999885

>2ff7_A Alpha-hemolysin translocation ATP-binding protein HLYB; ABC-transporter, transport protein; HET: ADP; 1.60A {Escherichia coli} SCOP: c.37.1.12 PDB: 2ffb_A* 2fgk_A* 2ffa_A* 2fgj_A* 2pmk_A* 3b5j_A* 1mt0_A 1xef_A*

Probab=96.37  E-value=0.0011  Score=48.94  Aligned_cols=19  Identities=37%  Similarity=0.475  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        40 i~G~nGsGKSTLl~~l~Gl   58 (247)
T 2ff7_A           40 IVGRSGSGKSTLTKLIQRF   58 (247)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998875

>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=96.37  E-value=0.0012  Score=45.53  Aligned_cols=16  Identities=25%  Similarity=0.409  Sum_probs=15.0

Q ss_pred             CccCCCCCHHHHHHHH
Q 040835            1 LIGDSAVGKSQLLARF   16 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l   16 (206)
                      |+|++||||||+.+.|
T Consensus         6 l~G~~GsGKsT~a~~L   21 (179)
T 3lw7_A            6 ITGMPGSGKSEFAKLL   21 (179)
T ss_dssp             EECCTTSCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHH
Confidence            5799999999999998

>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=96.36  E-value=0.0014  Score=49.89  Aligned_cols=21  Identities=38%  Similarity=0.379  Sum_probs=18.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      ++|++|+|||||+|.|.+...
T Consensus       174 l~G~sG~GKSTll~~l~g~~~  194 (301)
T 1u0l_A          174 MAGLSGVGKSSLLNAINPGLK  194 (301)
T ss_dssp             EECSTTSSHHHHHHHHSTTCC
T ss_pred             EECCCCCcHHHHHHHhccccc
Confidence            589999999999999988544

>2bbw_A Adenylate kinase 4, AK4; nucleotide kinase, nucleotide binding, human, structura genomics, structural genomics consortium, SGC, transferase; HET: GP5; 2.05A {Homo sapiens} PDB: 2ar7_A* 3ndp_A

Probab=96.35  E-value=0.0013  Score=48.44  Aligned_cols=17  Identities=29%  Similarity=0.585  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|++|||||||++.|.
T Consensus        32 l~G~~GsGKSTl~k~La   48 (246)
T 2bbw_A           32 ILGPPGSGKGTVCQRIA   48 (246)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999998

>2zu0_C Probable ATP-dependent transporter SUFC; iron-sulfur cluster, ABC-ATPase, ATP-binding, cytoplasm, nucleotide-binding; HET: MES; 2.20A {Escherichia coli} PDB: 2d3w_A

Probab=96.34  E-value=0.0013  Score=49.20  Aligned_cols=19  Identities=37%  Similarity=0.541  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        51 l~G~NGsGKSTLlk~l~Gl   69 (267)
T 2zu0_C           51 IMGPNGSGKSTLSATLAGR   69 (267)
T ss_dssp             EECCTTSSHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999999885

>2eyu_A Twitching motility protein PILT; pilus retraction motor, C-terminal domain PILT, protein transport; 1.87A {Aquifex aeolicus}

Probab=96.34  E-value=0.0012  Score=49.25  Aligned_cols=19  Identities=26%  Similarity=0.379  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+.+.
T Consensus        30 i~Gp~GsGKSTll~~l~g~   48 (261)
T 2eyu_A           30 VTGPTGSGKSTTIASMIDY   48 (261)
T ss_dssp             EECSTTCSHHHHHHHHHHH
T ss_pred             EECCCCccHHHHHHHHHHh
Confidence            5899999999999998873

>1ly1_A Polynucleotide kinase; PNK, phosphatase, transferase; 2.00A {Enterobacteria phage T4} SCOP: c.37.1.1

Probab=96.34  E-value=0.0013  Score=45.60  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         7 i~G~~GsGKST~a~~L~~   24 (181)
T 1ly1_A            7 TIGCPGSGKSTWAREFIA   24 (181)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EecCCCCCHHHHHHHHHh
Confidence            579999999999999986

>2ihy_A ABC transporter, ATP-binding protein; ATPase, ABC cassette, hydrolase; HET: MSE; 1.90A {Staphylococcus aureus}

Probab=96.33  E-value=0.0012  Score=49.67  Aligned_cols=20  Identities=35%  Similarity=0.433  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        52 liG~NGsGKSTLlk~l~Gl~   71 (279)
T 2ihy_A           52 LYGLNGAGKTTLLNILNAYE   71 (279)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCcHHHHHHHHhCCC
Confidence            58999999999999988743

>1ex7_A Guanylate kinase; substrate-induced FIT, domain movement, GMP, ATP, substrate specificity, X-RAY diffraction, transferase; HET: 5GP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1ex6_A* 1gky_A* 3sqk_A 4f4j_A

Probab=96.32  E-value=0.0014  Score=46.28  Aligned_cols=19  Identities=37%  Similarity=0.592  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||+++|+..
T Consensus         6 i~GPSG~GK~Tl~~~L~~~   24 (186)
T 1ex7_A            6 ISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999999864

>3cwq_A Para family chromosome partitioning protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; HET: ADP; 2.47A {Synechocystis SP}

Probab=96.32  E-value=0.02  Score=40.91  Aligned_cols=86  Identities=14%  Similarity=0.080  Sum_probs=56.6

Q ss_pred             EEEEEEEeCCCc-hhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHH
Q 040835           44 NVKAQIWDTAGQ-ERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTE  122 (206)
Q Consensus        44 ~~~~~i~D~~G~-~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~  122 (206)
                      .+.+.|+|+|+. ...  .....+..+|.+|+++..+ ..++..+..++..+....  +.++.+|+|+.|....  ....
T Consensus        67 ~yD~viiD~p~~~~~~--~~~~~l~~aD~viiv~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~--~~~~  139 (209)
T 3cwq_A           67 KYQNIVIDTQARPEDE--DLEALADGCDLLVIPSTPD-ALALDALMLTIETLQKLG--NNRFRILLTIIPPYPS--KDGD  139 (209)
T ss_dssp             GCSEEEEEEECCCSSS--HHHHHHHTSSEEEEEECSS-HHHHHHHHHHHHHHHHTC--SSSEEEEECSBCCTTS--CHHH
T ss_pred             cCCEEEEeCCCCcCcH--HHHHHHHHCCEEEEEecCC-chhHHHHHHHHHHHHhcc--CCCEEEEEEecCCccc--hHHH
Confidence            356899999886 432  3455678899999988875 345566666666666533  4668899999986420  1234


Q ss_pred             HHHHHHHHcCCeEE
Q 040835          123 DAKEFAEKEGLCFM  136 (206)
Q Consensus       123 ~~~~~~~~~~~~~~  136 (206)
                      +..+..++++.+++
T Consensus       140 ~~~~~l~~~g~~v~  153 (209)
T 3cwq_A          140 EARQLLTTAGLPLF  153 (209)
T ss_dssp             HHHHHHHHTTCCBC
T ss_pred             HHHHHHHHcCCchh
Confidence            55566666776654

>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=96.30  E-value=0.0014  Score=45.18  Aligned_cols=19  Identities=26%  Similarity=0.398  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus         6 l~G~~GsGKsT~~~~L~~~   24 (173)
T 3kb2_A            6 LEGPDCCFKSTVAAKLSKE   24 (173)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998753

>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=96.30  E-value=0.0051  Score=43.83  Aligned_cols=19  Identities=32%  Similarity=0.492  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        43 l~G~~G~GKT~l~~~l~~~   61 (226)
T 2chg_A           43 FSGPPGTGKTATAIALARD   61 (226)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999988764

>2ghi_A Transport protein; multidrug resistance protein, MDR, structural genomics, structural genomics consortium, SGC; 2.20A {Plasmodium yoelii yoelii str}

Probab=96.29  E-value=0.0013  Score=48.98  Aligned_cols=19  Identities=32%  Similarity=0.459  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        51 i~G~nGsGKSTLl~~l~Gl   69 (260)
T 2ghi_A           51 LVGHTGSGKSTIAKLLYRF   69 (260)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcc
Confidence            5899999999999998874

>2nq2_C Hypothetical ABC transporter ATP-binding protein HI1470; putative iron chelatin ABC transporter, nucleotide binding domain; 2.40A {Haemophilus influenzae}

Probab=96.29  E-value=0.0013  Score=48.76  Aligned_cols=20  Identities=30%  Similarity=0.458  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        36 l~G~nGsGKSTLl~~l~Gl~   55 (253)
T 2nq2_C           36 VLGQNGCGKSTLLDLLLGIH   55 (253)
T ss_dssp             EECCSSSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988743

>3b85_A Phosphate starvation-inducible protein; PHOH2, ATPase, PFAM: PF02562, ST genomics, PSI-2, protein structure initiative; 2.35A {Corynebacterium glutamicum atcc 13032}

Probab=96.28  E-value=0.00088  Score=48.21  Aligned_cols=19  Identities=26%  Similarity=0.247  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        27 liG~nGsGKSTLl~~l~Gl   45 (208)
T 3b85_A           27 GLGPAGSGKTYLAMAKAVQ   45 (208)
T ss_dssp             EECCTTSSTTHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999999875

>2yz2_A Putative ABC transporter ATP-binding protein TM_0; cobalt transport, TM02 hydrolase, inner membrane, membrane, nucleotide-binding; 2.30A {Thermotoga maritima}

Probab=96.27  E-value=0.0014  Score=49.05  Aligned_cols=19  Identities=37%  Similarity=0.452  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        38 liG~nGsGKSTLl~~i~Gl   56 (266)
T 2yz2_A           38 VAGNTGSGKSTLLQIVAGL   56 (266)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhCC
Confidence            5899999999999998874

>2ixe_A Antigen peptide transporter 1; ABC ATPase, hydrolase; HET: ATP; 2.0A {Rattus norvegicus} PDB: 2ixg_A* 2ixf_A* 1jj7_A*

Probab=96.27  E-value=0.0014  Score=49.20  Aligned_cols=19  Identities=32%  Similarity=0.427  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        50 i~G~nGsGKSTLlk~l~Gl   68 (271)
T 2ixe_A           50 LVGPNGSGKSTVAALLQNL   68 (271)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHhcC
Confidence            5899999999999998875

>3asz_A Uridine kinase; cytidine phosphorylation, transferase; HET: C5P; 2.25A {Thermus thermophilus} PDB: 3asy_A*

Probab=96.27  E-value=0.0012  Score=47.21  Aligned_cols=19  Identities=37%  Similarity=0.597  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|||||||++.|.+.
T Consensus        11 i~G~~GsGKSTl~~~l~~~   29 (211)
T 3asz_A           11 IAGGTASGKTTLAQALART   29 (211)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998773

>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=96.27  E-value=0.0014  Score=45.72  Aligned_cols=19  Identities=26%  Similarity=0.366  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||+++|...
T Consensus        11 i~G~sGsGKTTl~~~l~~~   29 (174)
T 1np6_A           11 FAAWSGTGKTTLLKKLIPA   29 (174)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHHh
Confidence            5799999999999999874

>1knq_A Gluconate kinase; ALFA/beta structure, transferase; 2.00A {Escherichia coli} SCOP: c.37.1.17 PDB: 1ko1_A 1ko4_A 1ko5_A* 1ko8_A* 1kof_A*

Probab=96.26  E-value=0.0014  Score=45.45  Aligned_cols=18  Identities=39%  Similarity=0.536  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||++.|.+
T Consensus        13 l~G~~GsGKSTl~~~l~~   30 (175)
T 1knq_A           13 LMGVSGSGKSAVASEVAH   30 (175)
T ss_dssp             EECSTTSCHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999998865

>4a74_A DNA repair and recombination protein RADA; hydrolase, recombinase; HET: DNA ANP; 1.48A {Pyrococcus furiosus} PDB: 4a6x_A* 4a6p_A* 4a7o_A*

Probab=96.23  E-value=0.0013  Score=47.54  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=18.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|++|+|||||++.+.+...
T Consensus        30 l~G~nGsGKSTll~~l~g~~~   50 (231)
T 4a74_A           30 VFGEFGSGKTQLAHTLAVMVQ   50 (231)
T ss_dssp             EEESTTSSHHHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHHHh
Confidence            589999999999999987433

>2pjz_A Hypothetical protein ST1066; ATP binding protein, structural genomics, NPPSFA; 1.90A {Sulfolobus tokodaii}

Probab=96.15  E-value=0.0018  Score=48.38  Aligned_cols=20  Identities=25%  Similarity=0.406  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        35 i~G~NGsGKSTLlk~l~Gl~   54 (263)
T 2pjz_A           35 ILGPNGSGKTTLLRAISGLL   54 (263)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988754

>3t61_A Gluconokinase; PSI-biology, structural genomics, protein structure initiati YORK structural genomics research consortium, nysgrc; 2.20A {Sinorhizobium meliloti}

Probab=96.14  E-value=0.0017  Score=46.17  Aligned_cols=19  Identities=32%  Similarity=0.391  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+|||||||++.|...
T Consensus        23 l~G~~GsGKSTla~~L~~~   41 (202)
T 3t61_A           23 VMGVSGSGKSSVGEAIAEA   41 (202)
T ss_dssp             EECSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998753

>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=96.12  E-value=0.002  Score=44.69  Aligned_cols=19  Identities=32%  Similarity=0.401  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus         8 l~G~~GsGKST~a~~La~~   26 (178)
T 1qhx_A            8 LNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998763

>2v9p_A Replication protein E1; AAA+ molecular motor, DNA replication, DNA translocation, nucleotide-binding, DNA-binding; 3.00A {Bovine papillomavirus type 1} PDB: 2gxa_A*

Probab=96.12  E-value=0.0017  Score=49.44  Aligned_cols=19  Identities=32%  Similarity=0.392  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+-
T Consensus       131 IvGpsGsGKSTLl~lL~gl  149 (305)
T 2v9p_A          131 FIGPPNTGKSMLCNSLIHF  149 (305)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHhhh
Confidence            5899999999999998864

>3aez_A Pantothenate kinase; transferase, homodimer, COA biosynthesis, nucleotide binding binding, cytoplasm, nucleotide-binding; HET: GDP PAZ; 2.20A {Mycobacterium tuberculosis} PDB: 2ges_A* 2geu_A* 2gev_A* 2zs7_A* 2zs8_A* 2zs9_A* 2zsa_A* 2zsb_A* 2zsd_A* 2zse_A* 2zsf_A* 2get_A* 3af0_A* 3af1_A* 3af2_A* 3af3_A* 3af4_A* 3avp_A* 3avo_A* 3avq_A*

Probab=96.09  E-value=0.0019  Score=49.49  Aligned_cols=19  Identities=32%  Similarity=0.300  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|.+-
T Consensus        95 I~G~sGsGKSTL~~~L~gl  113 (312)
T 3aez_A           95 VAGSVAVGKSTTARVLQAL  113 (312)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCchHHHHHHHHHhh
Confidence            5899999999999998874

>3lnc_A Guanylate kinase, GMP kinase; ALS collaborative crystallography, emerald biostructures, ATP-binding, cytoplasm, nucleotide-binding; HET: 5GP; 1.95A {Anaplasma phagocytophilum}

Probab=96.09  E-value=0.0012  Score=48.17  Aligned_cols=19  Identities=21%  Similarity=0.410  Sum_probs=12.0

Q ss_pred             CccCCCCCHHHHHHHHh-cC
Q 040835            1 LIGDSAVGKSQLLARFA-RD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~-~~   19 (206)
                      |+|++|||||||++.|. +.
T Consensus        32 l~Gp~GsGKSTl~~~L~~~~   51 (231)
T 3lnc_A           32 LSSPSGCGKTTVANKLLEKQ   51 (231)
T ss_dssp             EECSCC----CHHHHHHC--
T ss_pred             EECCCCCCHHHHHHHHHhcC
Confidence            58999999999999998 54

>3ea0_A ATPase, para family; alpha-beta-alpha sandwich, structural genomics, PSI-2, prote structure initiative; HET: ATP; 2.20A {Chlorobium tepidum}

Probab=96.07  E-value=0.056  Score=39.27  Aligned_cols=89  Identities=13%  Similarity=0.047  Sum_probs=59.6

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|+|+|+.-  .......+..+|.+|+++..+ ..++..+..++..+.........+.+|+|+.+...  ....   
T Consensus       119 yD~viiD~p~~~--~~~~~~~l~~ad~viiv~~~~-~~~~~~~~~~~~~l~~~~~~~~~~~~v~N~~~~~~--~~~~---  190 (245)
T 3ea0_A          119 YDYIIVDFGASI--DHVGVWVLEHLDELCIVTTPS-LQSLRRAGQLLKLCKEFEKPISRIEIILNRADTNS--RITS---  190 (245)
T ss_dssp             CSEEEEEEESSC--CTTHHHHGGGCSEEEEEECSS-HHHHHHHHHHHHHHHTCSSCCSCEEEEEESTTSCT--TSCH---
T ss_pred             CCEEEEeCCCCC--chHHHHHHHHCCEEEEEecCc-HHHHHHHHHHHHHHHHhCCCccceEEEEecCCCCC--CCCH---
Confidence            568999998754  224556678899999998875 55667777777777665433456889999998643  2333   


Q ss_pred             HHHHHHcCCeEEEeccC
Q 040835          125 KEFAEKEGLCFMETSAL  141 (206)
Q Consensus       125 ~~~~~~~~~~~~~~Sa~  141 (206)
                      ..+.+.++.+++.+-..
T Consensus       191 ~~~~~~~~~~v~~~ip~  207 (245)
T 3ea0_A          191 DEIEKVIGRPISKRIPQ  207 (245)
T ss_dssp             HHHHHHHTSCEEEEECC
T ss_pred             HHHHHHhCCCeEEECCC
Confidence            34445567777765333

>3u61_B DNA polymerase accessory protein 44; AAA+, ATP hydrolase, clamp loader, sliding clamp, primer-TEM DNA, DNA binding protein-DNA complex; HET: DNA ADP 08T; 3.20A {Enterobacteria phage T4} PDB: 3u5z_B* 3u60_B*

Probab=96.06  E-value=0.088  Score=40.07  Aligned_cols=18  Identities=17%  Similarity=0.311  Sum_probs=15.4

Q ss_pred             ccCCCCCHHHHHHHHhcC
Q 040835            2 IGDSAVGKSQLLARFARD   19 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~   19 (206)
                      .|++|+|||++++.+...
T Consensus        54 ~G~~G~GKT~la~~la~~   71 (324)
T 3u61_B           54 SPSPGTGKTTVAKALCHD   71 (324)
T ss_dssp             CSSTTSSHHHHHHHHHHH
T ss_pred             eCcCCCCHHHHHHHHHHH
Confidence            477999999999998753

>3uie_A Adenylyl-sulfate kinase 1, chloroplastic; rossmann fold, transferase-transferase complex; HET: ADX ANP; 1.79A {Arabidopsis thaliana} SCOP: c.37.1.0 PDB: 4fxp_A*

Probab=96.05  E-value=0.002  Score=45.77  Aligned_cols=19  Identities=32%  Similarity=0.359  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+.
T Consensus        30 l~G~sGsGKSTl~~~La~~   48 (200)
T 3uie_A           30 VTGLSGSGKSTLACALNQM   48 (200)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999988764

>2kjq_A DNAA-related protein; solution structure, NESG, structural genomics, PSI-2, protei structure initiative; NMR {Neisseria meningitidis serogroup B}

Probab=96.03  E-value=0.0012  Score=44.82  Aligned_cols=20  Identities=30%  Similarity=0.576  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|++|+|||+|++.+.+..
T Consensus        41 l~G~~G~GKTtL~~~i~~~~   60 (149)
T 2kjq_A           41 VWGEEGAGKSHLLQAWVAQA   60 (149)
T ss_dssp             EESSSTTTTCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            57999999999999988743

>3te6_A Regulatory protein SIR3; heterochromatin, gene silencing, SIR complex, HMR, HML, TELO AAA+ domain, structural, nucleus, gene RE; 2.80A {Saccharomyces cerevisiae}

Probab=96.00  E-value=0.015  Score=44.59  Aligned_cols=19  Identities=16%  Similarity=0.186  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+||+|||++++.++..
T Consensus        50 i~GpPGTGKT~~v~~v~~~   68 (318)
T 3te6_A           50 ITNADDSTKFQLVNDVMDE   68 (318)
T ss_dssp             EECCCSHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4699999999999998864

>3vaa_A Shikimate kinase, SK; structural genomics, center for structural genomics of infec diseases, csgid, metal binding, transferase; 1.70A {Bacteroides thetaiotaomicron}

Probab=95.98  E-value=0.0023  Score=45.44  Aligned_cols=18  Identities=44%  Similarity=0.564  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus        30 l~G~~GsGKsTl~~~La~   47 (199)
T 3vaa_A           30 LTGYMGAGKTTLGKAFAR   47 (199)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2x8a_A Nuclear valosin-containing protein-like; nuclear protein; 2.60A {Homo sapiens}

Probab=95.98  E-value=0.0022  Score=48.10  Aligned_cols=19  Identities=32%  Similarity=0.475  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||||++.+.+.
T Consensus        49 L~Gp~GtGKTtLakala~~   67 (274)
T 2x8a_A           49 LAGPPGCGKTLLAKAVANE   67 (274)
T ss_dssp             EESSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5799999999999999873

>1nks_A Adenylate kinase; thermophilic, transferase; HET: AMP ADP; 2.57A {Sulfolobus acidocaldarius} SCOP: c.37.1.1

Probab=95.97  E-value=0.0023  Score=44.86  Aligned_cols=18  Identities=39%  Similarity=0.580  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus         6 i~G~~GsGKsT~~~~L~~   23 (194)
T 1nks_A            6 VTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEECTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999876

>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=95.97  E-value=0.0025  Score=49.73  Aligned_cols=20  Identities=40%  Similarity=0.469  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        59 IiGpnGaGKSTLlr~i~GL~   78 (366)
T 3tui_C           59 VIGASGAGKSTLIRCVNLLE   78 (366)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCchHHHHHHHHhcCC
Confidence            58999999999999988743

>1z47_A CYSA, putative ABC-transporter ATP-binding protein; alpha/beta motif, beta sandwich, ligand binding protein; 1.90A {Alicyclobacillus acidocaldarius}

Probab=95.96  E-value=0.0025  Score=49.61  Aligned_cols=20  Identities=40%  Similarity=0.529  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        46 llGpnGsGKSTLLr~iaGl~   65 (355)
T 1z47_A           46 LLGPSGSGKTTILRLIAGLE   65 (355)
T ss_dssp             EECSTTSSHHHHHHHHHTSS
T ss_pred             EECCCCCcHHHHHHHHhCCC
Confidence            58999999999999988753

>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=95.96  E-value=0.0023  Score=49.87  Aligned_cols=20  Identities=45%  Similarity=0.581  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        35 llGpsGsGKSTLLr~iaGl~   54 (359)
T 3fvq_A           35 IIGASGCGKTTLLRCLAGFE   54 (359)
T ss_dssp             EEESTTSSHHHHHHHHHTSS
T ss_pred             EECCCCchHHHHHHHHhcCC
Confidence            58999999999999998853

>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=95.95  E-value=0.0022  Score=48.58  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        69 i~G~NGsGKSTLlk~l~Gl   87 (290)
T 2bbs_A           69 VAGSTGAGKTSLLMMIMGE   87 (290)
T ss_dssp             EEESTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhcC
Confidence            5899999999999998874

>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=95.95  E-value=0.0023  Score=49.90  Aligned_cols=19  Identities=32%  Similarity=0.386  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+++.
T Consensus       128 I~GptGSGKTTlL~~l~g~  146 (356)
T 3jvv_A          128 VTGPTGSGKSTTLAAMLDY  146 (356)
T ss_dssp             EECSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5899999999999998763

>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=95.94  E-value=0.0027  Score=44.45  Aligned_cols=18  Identities=17%  Similarity=0.141  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++||||||+++.|..
T Consensus         8 i~G~~GsGKsT~~~~L~~   25 (192)
T 1kht_A            8 VTGVPGVGSTTSSQLAMD   25 (192)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999865

>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=95.91  E-value=0.0027  Score=49.51  Aligned_cols=19  Identities=37%  Similarity=0.459  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        34 llGpnGsGKSTLLr~iaGl   52 (359)
T 2yyz_A           34 LLGPSGCGKTTTLLMLAGI   52 (359)
T ss_dssp             EECSTTSSHHHHHHHHHTS
T ss_pred             EEcCCCchHHHHHHHHHCC
Confidence            5899999999999998874

>2it1_A 362AA long hypothetical maltose/maltodextrin transport ATP-binding protein; structural genomics, NPPSFA; 1.94A {Pyrococcus horikoshii}

Probab=95.90  E-value=0.0028  Score=49.50  Aligned_cols=20  Identities=45%  Similarity=0.466  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        34 llGpnGsGKSTLLr~iaGl~   53 (362)
T 2it1_A           34 LLGPSGSGKSTLLYTIAGIY   53 (362)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCchHHHHHHHHhcCC
Confidence            58999999999999988853

>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=95.90  E-value=0.0026  Score=46.91  Aligned_cols=19  Identities=37%  Similarity=0.625  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+.+.
T Consensus        54 l~G~~G~GKTtl~~~i~~~   72 (254)
T 1ixz_A           54 LVGPPGVGKTHLARAVAGE   72 (254)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998874

>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=95.89  E-value=0.0029  Score=45.08  Aligned_cols=18  Identities=28%  Similarity=0.473  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|.+
T Consensus         7 l~G~~GsGKST~~~~La~   24 (206)
T 1jjv_A            7 LTGGIGSGKTTIANLFTD   24 (206)
T ss_dssp             EECSTTSCHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999976

>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=95.89  E-value=0.003  Score=43.78  Aligned_cols=19  Identities=21%  Similarity=0.538  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+|||||||+.+|...
T Consensus         9 i~G~sGsGKTTl~~~L~~~   27 (169)
T 1xjc_A            9 VVGYKHSGKTTLMEKWVAA   27 (169)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998863

>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=95.89  E-value=0.0026  Score=44.64  Aligned_cols=18  Identities=33%  Similarity=0.512  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        10 l~G~~GsGKST~~~~L~~   27 (193)
T 2rhm_A           10 VTGHPATGKTTLSQALAT   27 (193)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>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=95.87  E-value=0.0029  Score=49.67  Aligned_cols=20  Identities=45%  Similarity=0.557  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        34 llGpsGsGKSTLLr~iaGl~   53 (381)
T 3rlf_A           34 FVGPSGCGKSTLLRMIAGLE   53 (381)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EEcCCCchHHHHHHHHHcCC
Confidence            58999999999999998843

>2jeo_A Uridine-cytidine kinase 1; UCK, transferase, ATP-binding, nucleoside kinase, nucleotide-binding; 2.50A {Homo sapiens} PDB: 2uvq_A*

Probab=95.85  E-value=0.0028  Score=46.64  Aligned_cols=18  Identities=28%  Similarity=0.470  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|||||||++.|.+
T Consensus        30 I~G~~GsGKSTl~k~L~~   47 (245)
T 2jeo_A           30 VSGGTASGKSTVCEKIME   47 (245)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999876

>3b9q_A Chloroplast SRP receptor homolog, alpha subunit CPFTSY; protein translocation, GTP-binding, nucleotide-binding, protein transport; 1.75A {Arabidopsis thaliana}

Probab=95.85  E-value=0.0028  Score=48.31  Aligned_cols=82  Identities=16%  Similarity=0.068  Sum_probs=44.2

Q ss_pred             EEEEeCCCchhhhh-----h-------hHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           47 AQIWDTAGQERYRA-----V-------TSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        47 ~~i~D~~G~~~~~~-----~-------~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      ..++|+.|......     +       .+.+....+-+++++|++..- ....+    ..+...  .+. .+++++|.|.
T Consensus       186 ~~lldt~gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDptsglD~~~~~----~~~~~~--~g~-t~iiiThlD~  258 (302)
T 3b9q_A          186 VVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQA----REFNEV--VGI-TGLILTKLDG  258 (302)
T ss_dssp             EEEECCCCCSSCCHHHHHHHHHHHHHHHTTSTTCCSEEEEEEEGGGGGGGHHHH----HHHHHH--TCC-CEEEEECCSS
T ss_pred             chHHhcCCCCcchhHHHHHHHHHHHHHHHhhccCCCeeEEEEeCCCCcCHHHHH----HHHHHh--cCC-CEEEEeCCCC
Confidence            56789988532211     1       111234566678888876442 22222    222221  123 4567889875


Q ss_pred             CcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          114 ETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      ..    ..-.....+...+.|+..+.
T Consensus       259 ~~----~~g~~l~~~~~~~~pi~~i~  280 (302)
T 3b9q_A          259 SA----RGGCVVSVVEELGIPVKFIG  280 (302)
T ss_dssp             CS----CTHHHHHHHHHHCCCEEEEE
T ss_pred             CC----ccChheehHHHHCCCEEEEe
Confidence            32    34556677777788876554

>1f2t_A RAD50 ABC-ATPase; DNA double-strand break repair, replication; 1.60A {Pyrococcus furiosus} SCOP: c.37.1.12 PDB: 1f2u_A* 1us8_A*

Probab=95.85  E-value=0.0033  Score=42.65  Aligned_cols=17  Identities=41%  Similarity=0.663  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||++++.
T Consensus        28 I~G~NGsGKStil~Ai~   44 (149)
T 1f2t_A           28 IIGQNGSGKSSLLDAIL   44 (149)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999976

>3cm0_A Adenylate kinase; ATP-binding, cytoplasm, nucleotide biosynthesis, nucleotide-binding, transferase, structural genomics; 1.80A {Thermus thermophilus}

Probab=95.85  E-value=0.0031  Score=44.03  Aligned_cols=18  Identities=28%  Similarity=0.571  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         9 l~G~~GsGKST~~~~La~   26 (186)
T 3cm0_A            9 FLGPPGAGKGTQASRLAQ   26 (186)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999874

>3kta_A Chromosome segregation protein SMC; structural maintenance of chromosomes, ABC ATPase, CFTR adenylate kinase, AP5A, transferase; HET: AP5; 1.63A {Pyrococcus furiosus} PDB: 1xex_A* 1xew_X*

Probab=95.85  E-value=0.0029  Score=44.12  Aligned_cols=18  Identities=22%  Similarity=0.361  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|+|||||++++..
T Consensus        31 i~G~NGsGKStll~ai~~   48 (182)
T 3kta_A           31 IVGANGSGKSNIGDAILF   48 (182)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999865

>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=95.84  E-value=0.003  Score=49.54  Aligned_cols=20  Identities=40%  Similarity=0.486  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus        34 llGpnGsGKSTLLr~iaGl~   53 (372)
T 1g29_1           34 LLGPSGCGKTTTLRMIAGLE   53 (372)
T ss_dssp             EECSTTSSHHHHHHHHHTSS
T ss_pred             EECCCCcHHHHHHHHHHcCC
Confidence            58999999999999988753

>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=95.84  E-value=0.0028  Score=48.95  Aligned_cols=19  Identities=32%  Similarity=0.503  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||||++.+.+.
T Consensus        56 l~Gp~G~GKTTLa~~ia~~   74 (334)
T 1in4_A           56 LAGPPGLGKTTLAHIIASE   74 (334)
T ss_dssp             EESSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5799999999999998874

>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=95.84  E-value=0.0029  Score=45.69  Aligned_cols=18  Identities=33%  Similarity=0.442  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+++.|..
T Consensus        10 i~G~~GsGKSTl~~~L~~   27 (227)
T 1cke_A           10 IDGPSGAGKGTLCKAMAE   27 (227)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999998875

>2jaq_A Deoxyguanosine kinase; transferase, deoxyribonucleoside kinase; HET: DCP; 2.3A {Mycoplasma mycoides subsp} PDB: 2jat_A* 2jas_A*

Probab=95.83  E-value=0.003  Score=44.74  Aligned_cols=18  Identities=28%  Similarity=0.562  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus         5 i~G~~GsGKsT~~~~L~~   22 (205)
T 2jaq_A            5 IFGTVGAGKSTISAEISK   22 (205)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCccCHHHHHHHHHH
Confidence            579999999999998876

>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=95.83  E-value=0.0032  Score=49.40  Aligned_cols=19  Identities=37%  Similarity=0.448  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        42 llGpnGsGKSTLLr~iaGl   60 (372)
T 1v43_A           42 LLGPSGCGKTTTLRMIAGL   60 (372)
T ss_dssp             EECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCChHHHHHHHHHcC
Confidence            5899999999999998874

>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=95.81  E-value=0.0028  Score=45.06  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+++.|.+
T Consensus         6 i~G~~GsGKSTl~~~L~~   23 (204)
T 2if2_A            6 LTGNIGCGKSTVAQMFRE   23 (204)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHH
Confidence            579999999999999887

>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=95.81  E-value=0.0029  Score=48.21  Aligned_cols=84  Identities=13%  Similarity=0.014  Sum_probs=46.5

Q ss_pred             EEEEEeCCCchhhhh------------hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           46 KAQIWDTAGQERYRA------------VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        46 ~~~i~D~~G~~~~~~------------~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      .+.++|++|......            +.+.+....+.+++++|+.......   ..+..+....  + ..++++||.|.
T Consensus       186 d~~llDt~G~~~~~~~~~~eLs~~r~~iaRal~~~P~~~lLvLDa~t~~~~~---~~~~~~~~~~--~-~t~iivTh~d~  259 (304)
T 1rj9_A          186 DLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGL---EQAKKFHEAV--G-LTGVIVTKLDG  259 (304)
T ss_dssp             SEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHH---HHHHHHHHHH--C-CSEEEEECTTS
T ss_pred             CEEEecCCCCCCchHHHHHHHHHHHHHHHHhhcCCCCeEEEEEcHHHHHHHH---HHHHHHHHHc--C-CcEEEEECCcc
Confidence            456889998432111            1112334577788899987654322   2222222211  1 25688999986


Q ss_pred             CcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          114 ETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      .. +   .-.+.......+.|+..+.
T Consensus       260 ~a-~---gg~~l~i~~~~~~pi~~ig  281 (304)
T 1rj9_A          260 TA-K---GGVLIPIVRTLKVPIKFVG  281 (304)
T ss_dssp             SC-C---CTTHHHHHHHHCCCEEEEE
T ss_pred             cc-c---ccHHHHHHHHHCCCeEEEe
Confidence            43 1   2234566667788877665

>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=95.79  E-value=0.0028  Score=48.91  Aligned_cols=20  Identities=15%  Similarity=0.258  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||++.+.+-.
T Consensus       176 i~G~~GsGKTTll~~l~g~~  195 (330)
T 2pt7_A          176 VCGGTGSGKTTYIKSIMEFI  195 (330)
T ss_dssp             EEESTTSCHHHHHHHGGGGS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999988753

>1jbk_A CLPB protein; beta barrel, chaperone; 1.80A {Escherichia coli} SCOP: c.37.1.20

Probab=95.77  E-value=0.0033  Score=43.73  Aligned_cols=19  Identities=37%  Similarity=0.735  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        48 l~G~~G~GKT~l~~~~~~~   66 (195)
T 1jbk_A           48 LIGEPGVGKTAIVEGLAQR   66 (195)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999988764

>2gza_A Type IV secretion system protein VIRB11; ATPase, hydrolase; 2.60A {Brucella suis}

Probab=95.74  E-value=0.0031  Score=49.30  Aligned_cols=19  Identities=21%  Similarity=0.595  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+.
T Consensus       180 ivG~sGsGKSTll~~l~~~  198 (361)
T 2gza_A          180 VAGETGSGKTTLMKALMQE  198 (361)
T ss_dssp             EEESSSSCHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5899999999999999874

>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=95.72  E-value=0.0034  Score=44.76  Aligned_cols=19  Identities=21%  Similarity=0.419  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|...
T Consensus        26 i~G~~GsGKSTl~~~L~~~   44 (207)
T 2qt1_A           26 ISGVTNSGKTTLAKNLQKH   44 (207)
T ss_dssp             EEESTTSSHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998874

>1xwi_A SKD1 protein; VPS4B, AAA ATPase, protein transport; 2.80A {Homo sapiens}

Probab=95.72  E-value=0.044  Score=41.99  Aligned_cols=19  Identities=37%  Similarity=0.508  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        50 L~GppGtGKT~la~ala~~   68 (322)
T 1xwi_A           50 LFGPPGTGKSYLAKAVATE   68 (322)
T ss_dssp             EESSSSSCHHHHHHHHHHH
T ss_pred             EECCCCccHHHHHHHHHHH
Confidence            4799999999999998874

>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=95.71  E-value=0.0033  Score=49.36  Aligned_cols=19  Identities=26%  Similarity=0.379  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+.+.
T Consensus       141 ivG~~GsGKTTll~~l~~~  159 (372)
T 2ewv_A          141 VTGPTGSGKSTTIASMIDY  159 (372)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            5899999999999998873

>2ze6_A Isopentenyl transferase; crown GALL tumor, cytokinin biosynthesis; HET: DST AMP; 2.10A {Agrobacterium tumefaciens} PDB: 2ze5_A* 2ze7_A* 2ze8_A

Probab=95.68  E-value=0.0037  Score=46.33  Aligned_cols=18  Identities=22%  Similarity=0.527  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||.+.|..
T Consensus         6 I~G~~GSGKSTla~~La~   23 (253)
T 2ze6_A            6 IYGPTCSGKTDMAIQIAQ   23 (253)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHh
Confidence            589999999999999864

>3trf_A Shikimate kinase, SK; amino acid biosynthesis, transferase; 2.60A {Coxiella burnetii}

Probab=95.68  E-value=0.004  Score=43.48  Aligned_cols=18  Identities=33%  Similarity=0.527  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|++||||||+.+.|..
T Consensus        10 l~G~~GsGKst~a~~La~   27 (185)
T 3trf_A           10 LIGLMGAGKTSVGSQLAK   27 (185)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999865

>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=95.67  E-value=0.0022  Score=48.98  Aligned_cols=19  Identities=42%  Similarity=0.557  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        85 ivG~sGsGKSTLl~ll~gl  103 (306)
T 3nh6_A           85 LVGPSGAGKSTILRLLFRF  103 (306)
T ss_dssp             EESSSCHHHHHHHHHHTTS
T ss_pred             EECCCCchHHHHHHHHHcC
Confidence            5899999999999988774

>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=95.67  E-value=0.0035  Score=49.98  Aligned_cols=19  Identities=26%  Similarity=0.314  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.+++.
T Consensus       172 I~GpnGSGKTTlL~allg~  190 (418)
T 1p9r_A          172 VTGPTGSGKSTTLYAGLQE  190 (418)
T ss_dssp             EECSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            5899999999999999874

>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus P2}

Probab=95.67  E-value=0.0037  Score=45.17  Aligned_cols=19  Identities=26%  Similarity=0.499  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||+..+...
T Consensus        28 i~G~~GsGKTtl~~~l~~~   46 (235)
T 2w0m_A           28 LTGEPGTGKTIFSLHFIAK   46 (235)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHH
Confidence            5799999999999998853

>2f1r_A Molybdopterin-guanine dinucleotide biosynthesis protein B (MOBB); structural genomics, PSI, protein structure initiative; 2.10A {Archaeoglobus fulgidus}

Probab=95.66  E-value=0.0014  Score=45.57  Aligned_cols=19  Identities=32%  Similarity=0.580  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.|.+-
T Consensus         7 IvG~SGsGKSTL~~~L~~~   25 (171)
T 2f1r_A            7 IVGTSDSGKTTLITRMMPI   25 (171)
T ss_dssp             EEESCHHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998874

>1via_A Shikimate kinase; structural genomics, transferase; HET: MSE; 1.57A {Campylobacter jejuni} SCOP: c.37.1.2

Probab=95.65  E-value=0.0042  Score=43.03  Aligned_cols=18  Identities=39%  Similarity=0.499  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         9 i~G~~GsGKsTla~~La~   26 (175)
T 1via_A            9 FIGFMGSGKSTLARALAK   26 (175)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999998865

>2oap_1 GSPE-2, type II secretion system protein; hexameric ATPase, hydrolase; HET: ANP; 2.95A {Archaeoglobus fulgidus} PDB: 2oaq_1

Probab=95.64  E-value=0.0036  Score=51.21  Aligned_cols=20  Identities=25%  Similarity=0.361  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|||||||++.+++--
T Consensus       265 I~GptGSGKTTlL~aL~~~i  284 (511)
T 2oap_1          265 VVGETASGKTTTLNAIMMFI  284 (511)
T ss_dssp             EEESTTSSHHHHHHHHGGGS
T ss_pred             EECCCCCCHHHHHHHHHhhC
Confidence            58999999999999998743

>2plr_A DTMP kinase, probable thymidylate kinase; TMP-binding, ATP-binding, structural GEN NPPSFA; HET: 1PE PGE EPE PG4; 1.60A {Sulfolobus tokodaii}

Probab=95.63  E-value=0.0043  Score=44.19  Aligned_cols=18  Identities=22%  Similarity=0.209  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus         9 i~G~~GsGKsT~~~~L~~   26 (213)
T 2plr_A            9 FEGIDGSGKSSQATLLKD   26 (213)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999876

>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=95.62  E-value=0.003  Score=49.38  Aligned_cols=19  Identities=32%  Similarity=0.566  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.|.+.
T Consensus       175 IvG~nGsGKSTLlk~L~gl  193 (365)
T 1lw7_A          175 ILGGESSGKSVLVNKLAAV  193 (365)
T ss_dssp             EECCTTSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998874

>3d31_A Sulfate/molybdate ABC transporter, ATP-binding protein; ATP-binding, nucleotide-binding, membrane, transmembrane, transport protein; 3.00A {Methanosarcina acetivorans} SCOP: b.40.6.3 c.37.1.12

Probab=95.62  E-value=0.0026  Score=49.47  Aligned_cols=20  Identities=25%  Similarity=0.424  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        31 llGpnGsGKSTLLr~iaGl~   50 (348)
T 3d31_A           31 ILGPTGAGKTLFLELIAGFH   50 (348)
T ss_dssp             EECCCTHHHHHHHHHHHTSS
T ss_pred             EECCCCccHHHHHHHHHcCC
Confidence            58999999999999988743

>1iy2_A ATP-dependent metalloprotease FTSH; AAA domain fold, hydrolase; 3.20A {Thermus thermophilus} SCOP: c.37.1.20

Probab=95.62  E-value=0.004  Score=46.68  Aligned_cols=19  Identities=37%  Similarity=0.625  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||++.+.+.
T Consensus        78 l~Gp~GtGKTtl~~~i~~~   96 (278)
T 1iy2_A           78 LVGPPGVGKTHLARAVAGE   96 (278)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCcChHHHHHHHHHHH
Confidence            5799999999999998874

>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=95.61  E-value=0.0044  Score=43.13  Aligned_cols=18  Identities=39%  Similarity=0.545  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+||||+.+.|..
T Consensus        16 i~G~~GsGKst~~~~l~~   33 (180)
T 3iij_A           16 LTGTPGVGKTTLGKELAS   33 (180)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            579999999999999874

>1gvn_B Zeta; postsegregational killing system, plasmid; 1.95A {Streptococcus pyogenes} SCOP: c.37.1.21 PDB: 3q8x_B*

Probab=95.61  E-value=0.0034  Score=47.41  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||.+.|..
T Consensus        38 l~G~sGsGKSTla~~L~~   55 (287)
T 1gvn_B           38 LGGQPGSGKTSLRSAIFE   55 (287)
T ss_dssp             EECCTTSCTHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999975

>1tev_A UMP-CMP kinase; ploop, NMP binding region, LID region, conformational changes, transferase; 2.10A {Homo sapiens} SCOP: c.37.1.1

Probab=95.60  E-value=0.0045  Score=43.42  Aligned_cols=18  Identities=28%  Similarity=0.519  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus         8 l~G~~GsGKsT~a~~L~~   25 (196)
T 1tev_A            8 VLGGPGAGKGTQCARIVE   25 (196)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998864

>3fb4_A Adenylate kinase; psychrophIle, phosphotransferase, ATP-binding, nucleotide-binding, transferase; HET: AP5; 2.00A {Marinibacillus marinus}

Probab=95.60  E-value=0.0043  Score=44.48  Aligned_cols=18  Identities=22%  Similarity=0.364  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         5 l~G~~GsGKsT~a~~L~~   22 (216)
T 3fb4_A            5 LMGLPGAGKGTQAEQIIE   22 (216)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999854

>1rz3_A Hypothetical protein rbstp0775; MCSG, structural genomics, PSI, protein structure initiative; 1.90A {Geobacillus stearothermophilus} SCOP: c.37.1.6

Probab=95.59  E-value=0.0038  Score=44.43  Aligned_cols=18  Identities=28%  Similarity=0.410  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+|||||++.|.+
T Consensus        27 i~G~~GsGKstl~~~l~~   44 (201)
T 1rz3_A           27 IDGLSRSGKTTLANQLSQ   44 (201)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998875

>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=95.59  E-value=0.0037  Score=47.71  Aligned_cols=19  Identities=32%  Similarity=0.317  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|||||||++.|.+.
T Consensus        85 I~G~~GsGKSTl~~~L~~~  103 (308)
T 1sq5_A           85 IAGSVAVGKSTTARVLQAL  103 (308)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998873

>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=95.57  E-value=0.0045  Score=44.42  Aligned_cols=18  Identities=28%  Similarity=0.381  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         5 l~G~~GsGKsT~a~~L~~   22 (216)
T 3dl0_A            5 LMGLPGAGKGTQGERIVE   22 (216)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999864

>2yvu_A Probable adenylyl-sulfate kinase; transferase, structural genomics, NPPSFA, national P protein structural and functional analyses; 2.10A {Aeropyrum pernix}

Probab=95.57  E-value=0.0044  Score=43.40  Aligned_cols=19  Identities=32%  Similarity=0.426  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+||||||+++.|...
T Consensus        18 l~G~~GsGKsT~~~~L~~~   36 (186)
T 2yvu_A           18 LTGLPGSGKTTIATRLADL   36 (186)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>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=95.54  E-value=0.0048  Score=44.27  Aligned_cols=18  Identities=28%  Similarity=0.565  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||+|....|..
T Consensus         5 l~GpPGsGKgTqa~~La~   22 (206)
T 3sr0_A            5 FLGPPGAGKGTQAKRLAK   22 (206)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998876

>3tqc_A Pantothenate kinase; biosynthesis of cofactors, prosthetic groups, carriers, TRAN; HET: ADP; 2.30A {Coxiella burnetii}

Probab=95.50  E-value=0.0046  Score=47.46  Aligned_cols=18  Identities=33%  Similarity=0.388  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||++.|.+
T Consensus        97 I~GpsGSGKSTl~~~L~~  114 (321)
T 3tqc_A           97 IAGSVAVGKSTTSRVLKA  114 (321)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>3pfi_A Holliday junction ATP-dependent DNA helicase RUVB; probable holliday junction DNA helicase; HET: ADP; 2.69A {Campylobacter jejuni subsp}

Probab=95.49  E-value=0.019  Score=44.03  Aligned_cols=19  Identities=21%  Similarity=0.420  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        60 l~G~~GtGKT~la~~ia~~   78 (338)
T 3pfi_A           60 FSGPAGLGKTTLANIISYE   78 (338)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHHH
Confidence            4799999999999998654

>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=95.49  E-value=0.0051  Score=43.07  Aligned_cols=19  Identities=21%  Similarity=0.468  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus        15 l~G~~GsGKSTv~~~La~~   33 (184)
T 1y63_A           15 ITGTPGTGKTSMAEMIAAE   33 (184)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998764

>3gd7_A Fusion complex of cystic fibrosis transmembrane conductance regulator, residues 1193-1427...; CFTR, ABC transporter, nucleotide binding domain, NBD; HET: B44; 2.70A {Homo sapiens}

Probab=95.48  E-value=0.0046  Score=48.82  Aligned_cols=19  Identities=47%  Similarity=0.721  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        52 llGpsGsGKSTLLr~iaGl   70 (390)
T 3gd7_A           52 LLGRTGSGKSTLLSAFLRL   70 (390)
T ss_dssp             EEESTTSSHHHHHHHHHTC
T ss_pred             EECCCCChHHHHHHHHhCC
Confidence            5899999999999998873

>2og2_A Putative signal recognition particle receptor; nucleotide-binding, protein transport; 2.00A {Arabidopsis thaliana}

Probab=95.48  E-value=0.0047  Score=48.21  Aligned_cols=82  Identities=17%  Similarity=0.082  Sum_probs=44.8

Q ss_pred             EEEEeCCCchhhhh------------hhHhHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCC
Q 040835           47 AQIWDTAGQERYRA------------VTSAYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDL  113 (206)
Q Consensus        47 ~~i~D~~G~~~~~~------------~~~~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~  113 (206)
                      ..++|+.|......            +.+.+....+-+++++|++... ....+    ..+....  +. .+++++|.|.
T Consensus       243 ~~lldt~Gl~~~~~~~~~eLSkqr~~iaral~~~P~e~lLvLDpttglD~~~~~----~~~~~~~--g~-t~iiiThlD~  315 (359)
T 2og2_A          243 VVLCDTSGRLHTNYSLMEELIACKKAVGKIVSGAPNEILLVLDGNTGLNMLPQA----REFNEVV--GI-TGLILTKLDG  315 (359)
T ss_dssp             EEEEECCCCSSCCHHHHHHHHHHHHHHHHHSTTCCSEEEEEEEGGGGGGGHHHH----HHHHHHT--CC-CEEEEESCTT
T ss_pred             HHHHHhcCCChhhhhHHHHHHHHHHHHHHHHhcCCCceEEEEcCCCCCCHHHHH----HHHHHhc--CC-eEEEEecCcc
Confidence            56889998532211            1112234567778888976432 22222    2222211  22 4677889885


Q ss_pred             CcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835          114 ETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       114 ~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      ..    ..-.........+.|+..+.
T Consensus       316 ~~----~gG~~lsi~~~~~~pI~~ig  337 (359)
T 2og2_A          316 SA----RGGCVVSVVEELGIPVKFIG  337 (359)
T ss_dssp             CS----CTHHHHHHHHHHCCCEEEEE
T ss_pred             cc----cccHHHHHHHHhCCCEEEEe
Confidence            32    34455667777788876654

>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=95.45  E-value=0.016  Score=46.51  Aligned_cols=17  Identities=29%  Similarity=0.302  Sum_probs=15.0

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.++|||+|+|.|+
T Consensus        72 v~G~~~~gks~l~N~ll   88 (457)
T 4ido_A           72 VAGAFRKGKSFLMDFML   88 (457)
T ss_dssp             EEEBTTSSHHHHHHHHH
T ss_pred             EECCCCCchhHHHHHHH
Confidence            58999999999999654

>2w58_A DNAI, primosome component (helicase loader); ATP-binding, nucleotide-binding, hydrolase; HET: ADP; 2.50A {Geobacillus kaustophilus HTA426}

Probab=95.43  E-value=0.0051  Score=43.61  Aligned_cols=20  Identities=45%  Similarity=0.551  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||+|+..+....
T Consensus        59 l~G~~GtGKT~la~~i~~~~   78 (202)
T 2w58_A           59 LHGSFGVGKTYLLAAIANEL   78 (202)
T ss_dssp             EECSTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            47999999999999988643

>1n0w_A DNA repair protein RAD51 homolog 1; DNA repair, homologous recombination, breast cancer susceptibility, RECA-like ATPase, protein complex; HET: DNA MSE; 1.70A {Homo sapiens} SCOP: c.37.1.11

Probab=95.41  E-value=0.0052  Score=44.74  Aligned_cols=19  Identities=26%  Similarity=0.464  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||+..+...
T Consensus        29 i~G~~GsGKTtl~~~l~~~   47 (243)
T 1n0w_A           29 MFGEFRTGKTQICHTLAVT   47 (243)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5799999999999999874

>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=95.41  E-value=0.0057  Score=43.36  Aligned_cols=18  Identities=28%  Similarity=0.532  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        25 l~G~~GsGKST~a~~La~   42 (201)
T 2cdn_A           25 LLGPPGAGKGTQAVKLAE   42 (201)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2cvh_A DNA repair and recombination protein RADB; filament formation, homologous recombination, ATPase domain, hyperthermophIle; HET: DNA; 2.20A {Thermococcus kodakarensis} PDB: 2cvf_A*

Probab=95.40  E-value=0.0052  Score=44.02  Aligned_cols=18  Identities=28%  Similarity=0.316  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+|||||+..+..
T Consensus        25 i~G~~GsGKTtl~~~l~~   42 (220)
T 2cvh_A           25 VYGPYASGKTTLALQTGL   42 (220)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999987

>3umf_A Adenylate kinase; rossmann fold, transferase; 2.05A {Schistosoma mansoni}

Probab=95.39  E-value=0.0059  Score=44.14  Aligned_cols=18  Identities=17%  Similarity=0.457  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||+|....|..
T Consensus        34 llGpPGsGKgTqa~~L~~   51 (217)
T 3umf_A           34 VLGGPGSGKGTQCEKLVQ   51 (217)
T ss_dssp             EECCTTCCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998876

>1oxx_K GLCV, glucose, ABC transporter, ATP binding protein; ABC-ATPase, ATP-binding cassette, ATPase, transport protein; 1.45A {Sulfolobus solfataricus} SCOP: b.40.6.3 c.37.1.12 PDB: 1oxs_C 1oxt_A 1oxu_A* 1oxv_A*

Probab=95.39  E-value=0.0025  Score=49.63  Aligned_cols=20  Identities=25%  Similarity=0.476  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        36 llGpnGsGKSTLLr~iaGl~   55 (353)
T 1oxx_K           36 ILGPSGAGKTTFMRIIAGLD   55 (353)
T ss_dssp             EECSCHHHHHHHHHHHHTSS
T ss_pred             EECCCCCcHHHHHHHHhCCC
Confidence            58999999999999988753

>1zd8_A GTP:AMP phosphotransferase mitochondrial; ATP:AMP phosphotransferase, myokinase, structural genomics, structural genomics consortium, SGC; 1.48A {Homo sapiens} PDB: 2ak3_A*

Probab=95.39  E-value=0.0053  Score=44.50  Aligned_cols=18  Identities=22%  Similarity=0.530  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+++.|..
T Consensus        12 l~G~~GsGKsT~a~~La~   29 (227)
T 1zd8_A           12 IMGAPGSGKGTVSSRITT   29 (227)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999874

>1cr0_A DNA primase/helicase; RECA-type protein fold, transferase; HET: DNA; 2.30A {Enterobacteria phage T7} SCOP: c.37.1.11 PDB: 1cr1_A* 1cr2_A* 1cr4_A* 1e0j_A* 1e0k_A*

Probab=95.38  E-value=0.0047  Score=46.67  Aligned_cols=20  Identities=25%  Similarity=0.283  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||+..+.+..
T Consensus        40 i~G~~G~GKTTl~~~ia~~~   59 (296)
T 1cr0_A           40 VTSGSGMGKSTFVRQQALQW   59 (296)
T ss_dssp             EEESTTSSHHHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHHHH
Confidence            57999999999999988743

>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=95.37  E-value=0.0059  Score=45.36  Aligned_cols=18  Identities=39%  Similarity=0.541  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus         9 l~G~pGSGKSTla~~La~   26 (260)
T 3a4m_A            9 LTGLPGVGKSTFSKNLAK   26 (260)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999875

>1lv7_A FTSH; alpha/beta domain, four helix bundle, hydrolase; 1.50A {Escherichia coli} SCOP: c.37.1.20

Probab=95.37  E-value=0.0054  Score=45.28  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||+|++.+.+.
T Consensus        50 l~G~~GtGKT~la~~la~~   68 (257)
T 1lv7_A           50 MVGPPGTGKTLLAKAIAGE   68 (257)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHHH
Confidence            4799999999999998764

>2c95_A Adenylate kinase 1; transferase, AP4A, nucleotide kinase, transferase ATP-bindi; HET: B4P; 1.71A {Homo sapiens} PDB: 1z83_A* 3adk_A

Probab=95.36  E-value=0.0055  Score=43.07  Aligned_cols=18  Identities=17%  Similarity=0.444  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        14 l~G~~GsGKsT~~~~La~   31 (196)
T 2c95_A           14 VVGGPGSGKGTQCEKIVQ   31 (196)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998864

>1wcv_1 SOJ, segregation protein; ATPase, bacterial, chromosome segregation; 1.6A {Thermus thermophilus} PDB: 2bej_A* 2bek_A*

Probab=95.36  E-value=0.052  Score=40.00  Aligned_cols=68  Identities=13%  Similarity=0.122  Sum_probs=42.6

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHH---hcCCCCCcEE-EEEeCCCCC
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR---GHADKNIIIM-LVGNKSDLE  114 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~---~~~~~~~p~i-vv~nK~D~~  114 (206)
                      .+.+.|+|+|+.-..  .....+..+|.+|+++..+. .++..+..++..+.   ...+.+.+++ +|+|+.|..
T Consensus       111 ~yD~iiiD~pp~~~~--~~~~~l~~aD~viiv~~~~~-~s~~~~~~~~~~l~~~~~~~~~~~~~~gvv~N~~~~~  182 (257)
T 1wcv_1          111 GYDLVLLDAPPSLSP--LTLNALAAAEGVVVPVQAEY-YALEGVAGLLATLEEVRAGLNPRLRLLGILVTMYDGR  182 (257)
T ss_dssp             TCSEEEEECCSSCCH--HHHHHHHHCSEEEEEEESST-HHHHHHHHHHHHHHHHHHHTCTTCEEEEEEEESBCTT
T ss_pred             CCCEEEEeCCCCCCH--HHHHHHHHCCeEEEEecCch-HHHHHHHHHHHHHHHHHHHhCCCceEEEEEEEeECCC
Confidence            367899999985332  23445567999999998764 33444444433333   2223456764 899999853

>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=95.35  E-value=0.0061  Score=43.15  Aligned_cols=19  Identities=16%  Similarity=0.177  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|.+||||||+++.|...
T Consensus         9 l~G~~GsGKsT~~~~L~~~   27 (204)
T 2v54_A            9 FEGLDKSGKTTQCMNIMES   27 (204)
T ss_dssp             EECCTTSSHHHHHHHHHHT
T ss_pred             EEcCCCCCHHHHHHHHHHH
Confidence            5799999999999998874

>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=95.34  E-value=0.0061  Score=43.89  Aligned_cols=18  Identities=28%  Similarity=0.466  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus         9 l~G~~GsGKsT~a~~La~   26 (220)
T 1aky_A            9 LIGPPGAGKGTQAPNLQE   26 (220)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>2pbr_A DTMP kinase, thymidylate kinase; transferase, nucleotide biosynthesis, TMP-binding, A binding, structural genomics, NPPSFA; 1.96A {Aquifex aeolicus}

Probab=95.33  E-value=0.0061  Score=42.72  Aligned_cols=18  Identities=17%  Similarity=0.244  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus         5 l~G~~GsGKsT~~~~L~~   22 (195)
T 2pbr_A            5 FEGIDGSGKTTQAKKLYE   22 (195)
T ss_dssp             EECSTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999876

>1qhl_A Protein (cell division protein MUKB); SMC, chromosome partitioning; 2.20A {Escherichia coli} SCOP: c.37.1.12

Probab=95.33  E-value=0.0029  Score=46.15  Aligned_cols=21  Identities=33%  Similarity=0.485  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||++.+.+-..
T Consensus        32 i~GpnGsGKSTll~~i~g~~~   52 (227)
T 1qhl_A           32 LSGGNGAGKSTTMAAFVTALI   52 (227)
T ss_dssp             HHSCCSHHHHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHhcccc
Confidence            579999999999999887433

>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=95.33  E-value=0.0061  Score=41.94  Aligned_cols=18  Identities=22%  Similarity=0.473  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus         7 l~G~~GsGKsT~a~~La~   24 (173)
T 1e6c_A            7 MVGARGCGMTTVGRELAR   24 (173)
T ss_dssp             EESCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>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=95.32  E-value=0.0057  Score=44.30  Aligned_cols=19  Identities=21%  Similarity=0.359  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        57 l~G~~G~GKT~la~~l~~~   75 (242)
T 3bos_A           57 LWGPVKSGRTHLIHAACAR   75 (242)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>2bwj_A Adenylate kinase 5; phosphoryl transfer reaction, transferase; HET: AMP; 2.3A {Homo sapiens}

Probab=95.31  E-value=0.0059  Score=43.03  Aligned_cols=18  Identities=22%  Similarity=0.477  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        17 l~G~~GsGKsT~a~~L~~   34 (199)
T 2bwj_A           17 IIGGPGSGKGTQCEKLVE   34 (199)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998875

>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=95.30  E-value=0.0061  Score=42.34  Aligned_cols=18  Identities=28%  Similarity=0.388  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+++.|..
T Consensus        10 l~G~~GsGKST~~~~L~~   27 (179)
T 2pez_A           10 LTGLSGAGKTTVSMALEE   27 (179)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998876

>1nij_A Hypothetical protein YJIA; structural genomics, P-loop protein, GTP binding, structure function project, S2F, unknown function; 2.00A {Escherichia coli} SCOP: c.37.1.10 d.237.1.1

Probab=95.29  E-value=0.0037  Score=47.93  Aligned_cols=20  Identities=30%  Similarity=0.464  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|..|||||||++.|.+..
T Consensus         9 i~G~~GaGKTTll~~l~~~~   28 (318)
T 1nij_A            9 LTGFLGAGKTTLLRHILNEQ   28 (318)
T ss_dssp             EEESSSSSCHHHHHHHHHSC
T ss_pred             EEecCCCCHHHHHHHHHhhc
Confidence            57999999999999999753

>2p65_A Hypothetical protein PF08_0063; CLPB, malaria, structural genomics, structural genomics consortium, SGC, unknown function; 1.70A {Plasmodium falciparum}

Probab=95.28  E-value=0.0041  Score=43.06  Aligned_cols=19  Identities=37%  Similarity=0.695  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        48 l~G~~G~GKT~la~~~~~~   66 (187)
T 2p65_A           48 LLGDPGVGKTAIVEGLAIK   66 (187)
T ss_dssp             EESCGGGCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999988764

>1zak_A Adenylate kinase; ATP:AMP-phosphotransferase, transferase; HET: AP5; 3.50A {Zea mays} SCOP: c.37.1.1 g.41.2.1

Probab=95.27  E-value=0.006  Score=44.03  Aligned_cols=18  Identities=22%  Similarity=0.268  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus        10 l~G~~GsGKsT~~~~La~   27 (222)
T 1zak_A           10 ISGAPASGKGTQCELIKT   27 (222)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2wwf_A Thymidilate kinase, putative; transferase, malaria; HET: TMP ADP; 1.89A {Plasmodium falciparum} PDB: 2wwg_A* 2wwh_A* 2wwi_A*

Probab=95.27  E-value=0.006  Score=43.49  Aligned_cols=18  Identities=22%  Similarity=0.169  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus        15 l~G~~GsGKST~~~~L~~   32 (212)
T 2wwf_A           15 FEGLDRSGKSTQSKLLVE   32 (212)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2vp4_A Deoxynucleoside kinase; ATP-binding, DNA synthesis, phosphoprotein, feedback inhibition, deoxyribonucleoside kinase, salvage pathway; HET: DCP; 2.20A {Drosophila melanogaster} SCOP: c.37.1.1 PDB: 1j90_A* 2jj8_A* 2vp2_A* 1oe0_A* 2vp5_A* 2vp6_A* 2vp9_A* 2vpp_A* 2vqs_A* 2vp0_A* 1ot3_A* 2jcs_A* 1zm7_A* 1zmx_A*

Probab=95.26  E-value=0.0047  Score=44.98  Aligned_cols=19  Identities=26%  Similarity=0.511  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+.|||||||++.|.+.
T Consensus        25 i~G~~GsGKSTl~~~L~~~   43 (230)
T 2vp4_A           25 IEGNIGSGKTTYLNHFEKY   43 (230)
T ss_dssp             EECSTTSCHHHHHHTTGGG
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5799999999999998875

>3qf7_A RAD50; ABC-ATPase, ATPase, hydrolase; HET: ANP; 1.90A {Thermotoga maritima} PDB: 3qg5_A 3tho_A*

Probab=95.26  E-value=0.0064  Score=47.55  Aligned_cols=17  Identities=29%  Similarity=0.514  Sum_probs=15.7

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||+++++
T Consensus        28 i~G~NGaGKTTll~ai~   44 (365)
T 3qf7_A           28 VEGPNGAGKSSLFEAIS   44 (365)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999977

>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=95.25  E-value=0.0068  Score=42.26  Aligned_cols=18  Identities=39%  Similarity=0.578  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus         7 l~G~~GsGKsT~a~~La~   24 (184)
T 2iyv_A            7 LVGLPGSGKSTIGRRLAK   24 (184)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>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=95.22  E-value=0.0022  Score=45.92  Aligned_cols=18  Identities=22%  Similarity=0.466  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+++.|..
T Consensus         5 i~G~~GsGKsTl~~~L~~   22 (214)
T 1gtv_A            5 IEGVDGAGKRTLVEKLSG   22 (214)
T ss_dssp             EEEEEEEEHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2pt5_A Shikimate kinase, SK; aromatic amino acid biosynthesis, P-loop kinase, SHI kinase, shikimate pathway; 2.10A {Aquifex aeolicus}

Probab=95.22  E-value=0.0069  Score=41.49  Aligned_cols=18  Identities=39%  Similarity=0.451  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus         5 l~G~~GsGKsT~a~~L~~   22 (168)
T 2pt5_A            5 LIGFMCSGKSTVGSLLSR   22 (168)
T ss_dssp             EESCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999876

>1ukz_A Uridylate kinase; transferase; HET: ADP AMP; 1.90A {Saccharomyces cerevisiae} SCOP: c.37.1.1 PDB: 1uky_A*

Probab=95.21  E-value=0.007  Score=42.90  Aligned_cols=18  Identities=17%  Similarity=0.499  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        20 l~G~~GsGKsT~~~~L~~   37 (203)
T 1ukz_A           20 VLGGPGAGKGTQCEKLVK   37 (203)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999998874

>2xb4_A Adenylate kinase; ATP-binding, nucleotide-binding, transferase; HET: SRT; 1.80A {Desulfovibrio gigas} PDB: 3l0s_A* 3l0p_A*

Probab=95.21  E-value=0.0071  Score=43.77  Aligned_cols=18  Identities=17%  Similarity=0.209  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++||||||+++.|..
T Consensus         5 l~G~~GsGKsT~a~~La~   22 (223)
T 2xb4_A            5 IFGPNGSGKGTQGNLVKD   22 (223)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999865

>4e22_A Cytidylate kinase; P-loop, CMP/ATP binding, transferase; 2.32A {Yersinia pseudotuberculosis}

Probab=95.19  E-value=0.0072  Score=44.66  Aligned_cols=17  Identities=35%  Similarity=0.448  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|++|||||||++.|.
T Consensus        32 I~G~~GsGKSTl~k~La   48 (252)
T 4e22_A           32 VDGPSGAGKGTLCKALA   48 (252)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            57999999999999988

>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=95.18  E-value=0.0068  Score=45.88  Aligned_cols=18  Identities=22%  Similarity=0.217  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||++.|..
T Consensus        36 I~G~sGsGKSTla~~L~~   53 (290)
T 1odf_A           36 FSGPQGSGKSFTSIQIYN   53 (290)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998765

>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=95.17  E-value=0.0067  Score=42.43  Aligned_cols=18  Identities=28%  Similarity=0.497  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        11 l~G~~GsGKsT~~~~L~~   28 (194)
T 1qf9_A           11 VLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>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=95.16  E-value=0.0067  Score=43.52  Aligned_cols=18  Identities=22%  Similarity=0.342  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus         5 l~G~~GsGKsT~a~~L~~   22 (214)
T 1e4v_A            5 LLGAPVAGKGTQAQFIME   22 (214)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999865

>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=95.15  E-value=0.0068  Score=43.26  Aligned_cols=18  Identities=28%  Similarity=0.333  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus        14 l~G~~GsGKsT~~~~L~~   31 (215)
T 1nn5_A           14 LEGVDRAGKSTQSRKLVE   31 (215)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>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=95.13  E-value=0.0077  Score=44.24  Aligned_cols=18  Identities=17%  Similarity=0.388  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus        34 l~G~~GsGKsT~a~~L~~   51 (243)
T 3tlx_A           34 FLGAPGSGKGTQSLNLKK   51 (243)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2r62_A Cell division protease FTSH homolog; ATPase domain, ATP-binding, cell CELL division, hydrolase, membrane, metal-binding; 3.30A {Helicobacter pylori} PDB: 2r65_A*

Probab=95.11  E-value=0.0094  Score=44.20  Aligned_cols=19  Identities=32%  Similarity=0.520  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        49 l~G~~GtGKT~la~~la~~   67 (268)
T 2r62_A           49 LVGPPGTGKTLLAKAVAGE   67 (268)
T ss_dssp             CBCSSCSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5799999999999998864

>2npi_A Protein CLP1; CLP1-PCF11 complex, ATP binding, ternary complex, transcript; HET: ATP; 2.95A {Saccharomyces cerevisiae}

Probab=95.11  E-value=0.0063  Score=49.11  Aligned_cols=19  Identities=26%  Similarity=0.469  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.|.+-
T Consensus       143 IvGpnGsGKSTLlr~L~Gl  161 (460)
T 2npi_A          143 IVGGSQTGKTSLSRTLCSY  161 (460)
T ss_dssp             EEESTTSSHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHhCc
Confidence            5899999999999998874

>2vli_A Antibiotic resistance protein; transferase, tunicamycin, phosphotransferase; 1.95A {Deinococcus radiodurans}

Probab=95.04  E-value=0.005  Score=42.82  Aligned_cols=18  Identities=22%  Similarity=0.327  Sum_probs=12.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        10 l~G~~GsGKST~a~~La~   27 (183)
T 2vli_A           10 INGPFGVGKTHTAHTLHE   27 (183)
T ss_dssp             EECCC----CHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999864

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=95.03  E-value=0.0078  Score=49.59  Aligned_cols=20  Identities=30%  Similarity=0.571  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.|.+..
T Consensus        30 LiGpNGaGKSTLlkiL~Gl~   49 (538)
T 3ozx_A           30 VLGKNGVGKTTVLKILAGEI   49 (538)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCcHHHHHHHHhcCC
Confidence            58999999999999998853

>2p5t_B PEZT; postsegregational killing system, phosphoryltransferase, HEL helix motif, transcription regulator; 3.20A {Streptococcus pneumoniae}

Probab=95.00  E-value=0.0045  Score=45.79  Aligned_cols=18  Identities=28%  Similarity=0.338  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++||||||+.+.|..
T Consensus        37 l~G~~GsGKSTla~~L~~   54 (253)
T 2p5t_B           37 LGGQSGAGKTTIHRIKQK   54 (253)
T ss_dssp             EESCGGGTTHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>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=94.97  E-value=0.0085  Score=42.90  Aligned_cols=18  Identities=44%  Similarity=0.510  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+|+||||+++.|..
T Consensus        30 ~~G~~GsGKsT~~~~l~~   47 (211)
T 1m7g_A           30 LTGLSASGKSTLAVELEH   47 (211)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.95  E-value=0.009  Score=49.24  Aligned_cols=20  Identities=25%  Similarity=0.410  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+..
T Consensus        52 LvG~NGaGKSTLlk~l~Gl~   71 (538)
T 1yqt_A           52 IVGPNGTGKSTAVKILAGQL   71 (538)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999998854

>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=94.95  E-value=0.0084  Score=43.19  Aligned_cols=19  Identities=26%  Similarity=0.492  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        50 l~G~~G~GKT~l~~~~~~~   68 (250)
T 1njg_A           50 FSGTRGVGKTSIARLLAKG   68 (250)
T ss_dssp             EECSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998753

>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=94.94  E-value=0.0096  Score=42.49  Aligned_cols=17  Identities=41%  Similarity=0.663  Sum_probs=15.3

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||++++.
T Consensus        28 I~G~NgsGKStil~ai~   44 (203)
T 3qks_A           28 IIGQNGSGKSSLLDAIL   44 (203)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHH
Confidence            57999999999999875

>2obl_A ESCN; ATPase, hydrolase; 1.80A {Escherichia coli O127} PDB: 2obm_A*

Probab=94.92  E-value=0.0079  Score=46.71  Aligned_cols=20  Identities=35%  Similarity=0.521  Sum_probs=17.9

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+..
T Consensus        76 IiG~nGaGKTTLl~~I~g~~   95 (347)
T 2obl_A           76 IFAGSGVGKSTLLGMICNGA   95 (347)
T ss_dssp             EEECTTSSHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHhcCC
Confidence            58999999999999999864

>1tue_A Replication protein E1; helicase, replication, E1E2 complex, AAA+ protein; 2.10A {Human papillomavirus type 18} SCOP: c.37.1.20

Probab=94.92  E-value=0.0062  Score=43.59  Aligned_cols=18  Identities=28%  Similarity=0.397  Sum_probs=15.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.|+||+|||+++.++..
T Consensus        63 i~GPPGtGKTt~a~ala~   80 (212)
T 1tue_A           63 FCGPANTGKSYFGMSFIH   80 (212)
T ss_dssp             EESCGGGCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999888766

>1zuh_A Shikimate kinase; alpha-beta protein, transferase; 1.80A {Helicobacter pylori} PDB: 1zui_A* 3hr7_A 3muf_A* 3mrs_A 3n2e_A*

Probab=94.91  E-value=0.0096  Score=40.84  Aligned_cols=18  Identities=39%  Similarity=0.440  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        12 l~G~~GsGKSTva~~La~   29 (168)
T 1zuh_A           12 LIGFMGSGKSSLAQELGL   29 (168)
T ss_dssp             EESCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>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=94.90  E-value=0.0087  Score=47.00  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+|||||++.+.+
T Consensus       174 l~G~~GsGKSTl~~~l~~  191 (377)
T 1svm_A          174 FKGPIDSGKTTLAAALLE  191 (377)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHh
Confidence            579999999999999886

>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=94.89  E-value=0.0092  Score=43.47  Aligned_cols=19  Identities=16%  Similarity=0.337  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++||||||+++.|...
T Consensus        31 i~G~~GsGKsT~~~~l~~~   49 (229)
T 4eaq_A           31 FEGPEGSGKTTVINEVYHR   49 (229)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHHH
Confidence            4799999999999998764

>3h4m_A Proteasome-activating nucleotidase; ATPase, PAN, ATP-binding, nucleotide-binding, HY; HET: ADP; 3.11A {Methanocaldococcus jannaschii}

Probab=94.88  E-value=0.0088  Score=44.78  Aligned_cols=19  Identities=32%  Similarity=0.468  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        56 l~G~~GtGKT~la~~la~~   74 (285)
T 3h4m_A           56 LYGPPGTGKTLLAKAVATE   74 (285)
T ss_dssp             EESSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4799999999999998764

>3be4_A Adenylate kinase; malaria, cryptosporidium parvum nonprotein inhibitors, nucleotide-binding, transferase; HET: AP5; 1.60A {Cryptosporidium parvum iowa II}

Probab=94.88  E-value=0.0092  Score=42.94  Aligned_cols=18  Identities=28%  Similarity=0.398  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        10 l~G~~GsGKsT~a~~La~   27 (217)
T 3be4_A           10 LIGAPGSGKGTQCEFIKK   27 (217)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>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=94.88  E-value=0.009  Score=48.43  Aligned_cols=18  Identities=39%  Similarity=0.597  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|+|||||++.+.+
T Consensus        34 liG~nGsGKSTLl~~l~G   51 (483)
T 3euj_A           34 LSGGNGAGKSTTMAGFVT   51 (483)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHhc
Confidence            589999999999999886

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.85  E-value=0.0098  Score=49.69  Aligned_cols=20  Identities=35%  Similarity=0.597  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.|.+-.
T Consensus       108 LvGpNGaGKSTLLkiL~Gll  127 (608)
T 3j16_B          108 LVGTNGIGKSTALKILAGKQ  127 (608)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCChHHHHHHHHhcCC
Confidence            58999999999999998853

>3b9p_A CG5977-PA, isoform A; AAA ATPase, ATP-binding, nucleotide-binding, hydrolase; 2.70A {Drosophila melanogaster}

Probab=94.84  E-value=0.009  Score=45.03  Aligned_cols=19  Identities=32%  Similarity=0.455  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        59 l~Gp~GtGKT~la~~la~~   77 (297)
T 3b9p_A           59 LFGPPGNGKTLLARAVATE   77 (297)
T ss_dssp             EESSSSSCHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHHH
Confidence            4799999999999998863

>1l8q_A Chromosomal replication initiator protein DNAA; AAA+, helix-turn-helix, nucleotide-binding, DNA binding, REP initiation, DNA binding protein; HET: ADP; 2.70A {Aquifex aeolicus} SCOP: a.4.12.2 c.37.1.20 PDB: 3r8f_A* 2hcb_A*

Probab=94.81  E-value=0.0093  Score=45.64  Aligned_cols=19  Identities=26%  Similarity=0.520  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        42 l~G~~GtGKT~la~~i~~~   60 (324)
T 1l8q_A           42 IYGSVGTGKTHLLQAAGNE   60 (324)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4799999999999998763

>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=94.79  E-value=0.01  Score=43.74  Aligned_cols=19  Identities=32%  Similarity=0.529  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        44 l~G~~GtGKT~la~~la~~   62 (262)
T 2qz4_A           44 LLGPPGCGKTLLAKAVATE   62 (262)
T ss_dssp             EESCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998763

>3nwj_A ATSK2; P loop, shikimate, nucleoside monophosphate kinase, shikimat ATP binding, chloroplast, transferase; 2.35A {Arabidopsis thaliana}

Probab=94.77  E-value=0.01  Score=43.91  Aligned_cols=18  Identities=33%  Similarity=0.434  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+||||+.+.|..
T Consensus        53 l~G~~GsGKSTl~~~La~   70 (250)
T 3nwj_A           53 LVGMMGSGKTTVGKIMAR   70 (250)
T ss_dssp             EECSTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999998865

>1ltq_A Polynucleotide kinase; phosphatase, alpha/beta, P-loop, transferase; HET: ADP; 2.33A {Enterobacteria phage T4} SCOP: c.108.1.9 c.37.1.1 PDB: 1rc8_A* 1rpz_A* 1rrc_A* 2ia5_A

Probab=94.76  E-value=0.011  Score=44.67  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus         7 l~G~~GsGKST~a~~L~~   24 (301)
T 1ltq_A            7 TIGCPGSGKSTWAREFIA   24 (301)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999886

>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=94.75  E-value=0.011  Score=42.95  Aligned_cols=18  Identities=28%  Similarity=0.578  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        21 l~G~~GsGKsT~a~~La~   38 (233)
T 1ak2_A           21 LLGPPGAGKGTQAPKLAK   38 (233)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998875

>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=94.75  E-value=0.0092  Score=44.69  Aligned_cols=18  Identities=33%  Similarity=0.477  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+|||||+..+..
T Consensus        35 i~G~~GsGKTtl~~~l~~   52 (279)
T 1nlf_A           35 LVSPGGAGKSMLALQLAA   52 (279)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            579999999999999886

>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=94.75  E-value=0.011  Score=42.50  Aligned_cols=18  Identities=39%  Similarity=0.530  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus         9 i~G~~GSGKST~~~~L~~   26 (218)
T 1vht_A            9 LTGGIGSGKSTVANAFAD   26 (218)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>2ph1_A Nucleotide-binding protein; alpha-beta protein, structural genomics, PSI-2, protein STRU initiative; 2.70A {Archaeoglobus fulgidus dsm 4304} PDB: 3kb1_A*

Probab=94.70  E-value=0.11  Score=38.25  Aligned_cols=91  Identities=14%  Similarity=0.117  Sum_probs=52.8

Q ss_pred             eEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcC----C
Q 040835           43 KNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETL----R  117 (206)
Q Consensus        43 ~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~----~  117 (206)
                      ..+.+.|+|+|+.-.........+..+|.+|++...+. .+...+...+..+..   .+.+++ +|+|+.|....    +
T Consensus       127 ~~yD~ViID~pp~~~~~~~~~~~~~~aD~viiv~~~~~-~s~~~~~~~~~~l~~---~~~~~~gvV~N~~~~~~~~~~~~  202 (262)
T 2ph1_A          127 GELDHLLIDLPPGTGDAPLTVMQDAKPTGVVVVSTPQE-LTAVIVEKAINMAEE---TNTSVLGLVENMSYFVCPNCGHK  202 (262)
T ss_dssp             CSCSEEEEECCSSSSSHHHHHHHHHCCSEEEEEECSSS-CCHHHHHHHHHHHHT---TTCCEEEEEETTCCEECTTTCCE
T ss_pred             cCCCEEEEECcCCCchHHHHHHhhccCCeEEEEecCcc-chHHHHHHHHHHHHh---CCCCEEEEEECCCccCCcccccc
Confidence            34678999999853221111222336899999987763 344555555555554   246666 89999884210    1


Q ss_pred             -CC-CHHHHHHHHHHcCCeEEE
Q 040835          118 -AV-PTEDAKEFAEKEGLCFME  137 (206)
Q Consensus       118 -~~-~~~~~~~~~~~~~~~~~~  137 (206)
                       .. .......+.+.++.+++.
T Consensus       203 ~~~~~~~~~~~~~~~~g~~~~~  224 (262)
T 2ph1_A          203 SYIFGEGKGESLAKKYNIGFFT  224 (262)
T ss_dssp             ECTTCCCCHHHHHHHTTCSEEE
T ss_pred             cccccccHHHHHHHHcCCCeEE
Confidence             01 112345666677887664

>3t15_A Ribulose bisphosphate carboxylase/oxygenase activ chloroplastic; photosynthesis, rubisco activase, AAA+ protein; 2.95A {Nicotiana tabacum} PDB: 3zw6_A

Probab=94.69  E-value=0.0099  Score=44.97  Aligned_cols=19  Identities=26%  Similarity=0.246  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||+|++.+...
T Consensus        41 l~GppGtGKT~la~aiA~~   59 (293)
T 3t15_A           41 IWGGKGQGKSFQCELVFRK   59 (293)
T ss_dssp             EEECTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            3599999999999998864

>3cf0_A Transitional endoplasmic reticulum ATPase; AAA, P97/VCP, ERAD, CDC48, ATP-binding, lipid-binding, nucle binding, nucleus, phosphoprotein, transport; HET: ADP; 3.00A {Mus musculus}

Probab=94.65  E-value=0.011  Score=44.89  Aligned_cols=19  Identities=26%  Similarity=0.457  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        54 L~Gp~GtGKT~la~ala~~   72 (301)
T 3cf0_A           54 FYGPPGCGKTLLAKAIANE   72 (301)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHHH
Confidence            4799999999999998864

>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=94.63  E-value=0.012  Score=41.62  Aligned_cols=19  Identities=26%  Similarity=0.309  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+||||||+.+.|...
T Consensus        13 i~G~~GsGKST~~~~La~~   31 (203)
T 1uf9_A           13 ITGNIGSGKSTVAALLRSW   31 (203)
T ss_dssp             EEECTTSCHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHC
Confidence            5799999999999998875

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.61  E-value=0.011  Score=49.31  Aligned_cols=20  Identities=20%  Similarity=0.398  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus       122 LiG~NGsGKSTLlkiL~Gll  141 (607)
T 3bk7_A          122 IVGPNGTGKTTAVKILAGQL  141 (607)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCChHHHHHHHHhCCC
Confidence            58999999999999988754

>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural genomics, center for structural genomics; 2.80A {Escherichia coli}

Probab=94.60  E-value=0.013  Score=39.33  Aligned_cols=20  Identities=15%  Similarity=0.132  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|++|+|||+|.+.+....
T Consensus        29 l~G~~GtGKt~lA~~i~~~~   48 (145)
T 3n70_A           29 LYGAPGTGRMTGARYLHQFG   48 (145)
T ss_dssp             EESSTTSSHHHHHHHHHHSS
T ss_pred             EECCCCCCHHHHHHHHHHhC
Confidence            47999999999999987643

>1pzn_A RAD51, DNA repair and recombination protein RAD51, RADA; heptameric ring, heptamer, ring, oligomer, RAD51 polymerizat motif; HET: DNA; 2.85A {Pyrococcus furiosus} SCOP: a.60.4.1 c.37.1.11

Probab=94.58  E-value=0.011  Score=46.03  Aligned_cols=20  Identities=30%  Similarity=0.370  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||||+..+....
T Consensus       136 I~G~~GsGKTTL~~~l~~~~  155 (349)
T 1pzn_A          136 VFGEFGSGKTQLAHTLAVMV  155 (349)
T ss_dssp             EEESTTSSHHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            57999999999999998753

>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer, structural genomics; HET: ADP; 2.00A {Pyrococcus horikoshii}

Probab=94.58  E-value=0.012  Score=42.86  Aligned_cols=19  Identities=26%  Similarity=0.471  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||||+..+...
T Consensus        28 i~G~~GsGKTtl~~~~~~~   46 (247)
T 2dr3_A           28 LSGGPGTGKTIFSQQFLWN   46 (247)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999998877653

>1sxj_C Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=94.56  E-value=0.012  Score=45.47  Aligned_cols=20  Identities=25%  Similarity=0.496  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+||||+++.+...-
T Consensus        51 l~Gp~G~GKTtla~~la~~l   70 (340)
T 1sxj_C           51 FYGPPGTGKTSTIVALAREI   70 (340)
T ss_dssp             EECSSSSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            47999999999999988753

>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=94.52  E-value=0.011  Score=44.78  Aligned_cols=86  Identities=12%  Similarity=0.115  Sum_probs=49.4

Q ss_pred             EEEEEEEeCCCchhhhhh----hHhHhc--CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           44 NVKAQIWDTAGQERYRAV----TSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~----~~~~~~--~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ...+.|+||+|.......    ....+.  ..+.+++|+|.+..  ...+..+...+..   .+ ..-+|+||.|...  
T Consensus       182 ~~dlvIiDT~G~~~~~~~~~~el~~~l~~~~~~~~~lVl~at~~--~~~~~~~~~~~~~---l~-~~giVltk~D~~~--  253 (296)
T 2px0_A          182 EYDHVFVDTAGRNFKDPQYIDELKETIPFESSIQSFLVLSATAK--YEDMKHIVKRFSS---VP-VNQYIFTKIDETT--  253 (296)
T ss_dssp             GSSEEEEECCCCCTTSHHHHHHHHHHSCCCTTEEEEEEEETTBC--HHHHHHHTTTTSS---SC-CCEEEEECTTTCS--
T ss_pred             CCCEEEEeCCCCChhhHHHHHHHHHHHhhcCCCeEEEEEECCCC--HHHHHHHHHHHhc---CC-CCEEEEeCCCccc--
Confidence            356899999996543211    112232  36778889987643  2333333332221   12 2356679999753  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEec
Q 040835          118 AVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                        ....+.......++|+..+.
T Consensus       254 --~~g~~~~~~~~~~~pi~~i~  273 (296)
T 2px0_A          254 --SLGSVFNILAESKIGVGFMT  273 (296)
T ss_dssp             --CCHHHHHHHHTCSCCCSEEC
T ss_pred             --chhHHHHHHHHHCcCEEEEE
Confidence              23366677778888876554

>3bk7_A ABC transporter ATP-binding protein; ABC ATPase, iron-sulfur cluster, adenosine diphosphate, nucleotide-binding; HET: ADP; 2.80A {Pyrococcus abyssi} PDB: 3j15_B*

Probab=94.45  E-value=0.014  Score=48.78  Aligned_cols=21  Identities=24%  Similarity=0.469  Sum_probs=18.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||++.|.+-..
T Consensus       387 i~G~NGsGKSTLlk~l~Gl~~  407 (607)
T 3bk7_A          387 IVGPNGIGKTTFVKMLAGVEE  407 (607)
T ss_dssp             EECCTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCCCHHHHHHHHhcCCC
Confidence            589999999999999988543

>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1; winged-helix domain, helix-turn-helix, AAA+ ATPase domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A {Sulfolobus solfataricus}

Probab=94.43  E-value=0.012  Score=45.70  Aligned_cols=19  Identities=16%  Similarity=0.300  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||||++.+...
T Consensus        50 i~G~~G~GKTtl~~~l~~~   68 (386)
T 2qby_A           50 IYGLTGTGKTAVVKFVLSK   68 (386)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998863

>3ozx_A RNAse L inhibitor; ATP binding cassette protein, hydrolase, translation; HET: ADP; 2.05A {Sulfolobus solfataricus}

Probab=94.42  E-value=0.014  Score=48.15  Aligned_cols=21  Identities=14%  Similarity=0.382  Sum_probs=18.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||++.+.+-..
T Consensus       299 i~G~nGsGKSTLl~~l~Gl~~  319 (538)
T 3ozx_A          299 ILGPNGIGKTTFARILVGEIT  319 (538)
T ss_dssp             EECCTTSSHHHHHHHHTTSSC
T ss_pred             EECCCCCCHHHHHHHHhCCCC
Confidence            589999999999999988533

>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=94.41  E-value=0.014  Score=48.50  Aligned_cols=20  Identities=40%  Similarity=0.522  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus       374 ivG~sGsGKSTll~~l~g~~  393 (582)
T 3b5x_A          374 LVGRSGSGKSTIANLFTRFY  393 (582)
T ss_pred             EECCCCCCHHHHHHHHhcCC
Confidence            58999999999999988743

>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=94.41  E-value=0.015  Score=44.98  Aligned_cols=17  Identities=41%  Similarity=0.663  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||+++++
T Consensus        28 i~G~NGsGKS~lleAi~   44 (339)
T 3qkt_A           28 IIGQNGSGKSSLLDAIL   44 (339)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999874

>1yqt_A RNAse L inhibitor; ATP-binding cassette, ribosome biogenesis, hydrolyase/translation complex; HET: ADP; 1.90A {Pyrococcus furiosus}

Probab=94.39  E-value=0.015  Score=47.94  Aligned_cols=20  Identities=25%  Similarity=0.557  Sum_probs=17.9

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+-.
T Consensus       317 i~G~NGsGKSTLlk~l~Gl~  336 (538)
T 1yqt_A          317 IVGPNGIGKTTFVKMLAGVE  336 (538)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCCCHHHHHHHHhCCC
Confidence            58999999999999999854

>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=94.37  E-value=0.013  Score=48.77  Aligned_cols=19  Identities=37%  Similarity=0.517  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus       374 ivG~sGsGKSTLl~~l~g~  392 (582)
T 3b60_A          374 LVGRSGSGKSTIASLITRF  392 (582)
T ss_dssp             EEECTTSSHHHHHHHHTTT
T ss_pred             EECCCCCCHHHHHHHHhhc
Confidence            5899999999999988774

>2dpy_A FLII, flagellum-specific ATP synthase; beta barrel, alpha-beta structure, hydrolase; HET: ADP; 2.40A {Salmonella typhimurium}

Probab=94.32  E-value=0.013  Score=46.94  Aligned_cols=20  Identities=50%  Similarity=0.581  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|+.|+|||||++.+.+..
T Consensus       162 IvG~sGsGKSTLl~~Iag~~  181 (438)
T 2dpy_A          162 LFAGSGVGKSVLLGMMARYT  181 (438)
T ss_dssp             EEECTTSSHHHHHHHHHHHS
T ss_pred             EECCCCCCHHHHHHHHhccc
Confidence            58999999999999988853

>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=94.32  E-value=0.017  Score=42.26  Aligned_cols=18  Identities=33%  Similarity=0.462  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|+||||+.+.|..
T Consensus        14 i~G~~GsGKsTla~~la~   31 (233)
T 3r20_A           14 VDGPAGTGKSSVSRGLAR   31 (233)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999998874

>1ofh_A ATP-dependent HSL protease ATP-binding subunit HSLU; chaperone, hydrolase, ATP-binding; HET: ADP; 2.5A {Haemophilus influenzae} SCOP: c.37.1.20 PDB: 1ofi_A*

Probab=94.32  E-value=0.015  Score=43.90  Aligned_cols=19  Identities=37%  Similarity=0.700  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        55 l~G~~GtGKT~la~~la~~   73 (310)
T 1ofh_A           55 MIGPTGVGKTEIARRLAKL   73 (310)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998763

>3syl_A Protein CBBX; photosynthesis, rubisco activase, AAA+ protein, calvin cycle chaperone; 3.00A {Rhodobacter sphaeroides} PDB: 3syk_A 3zuh_A*

Probab=94.29  E-value=0.014  Score=44.19  Aligned_cols=18  Identities=22%  Similarity=0.510  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|+|||+|++.+..
T Consensus        72 l~G~~GtGKT~la~~la~   89 (309)
T 3syl_A           72 FTGNPGTGKTTVALKMAG   89 (309)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999986655

>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=94.26  E-value=0.016  Score=44.21  Aligned_cols=85  Identities=18%  Similarity=0.119  Sum_probs=48.8

Q ss_pred             EEEEEEeCCCchhhhhh-------hHhHh-----cCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERYRAV-------TSAYY-----RGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~-------~~~~~-----~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ..+.|+||||.......       ....+     ...+.+++|+|.+... .+..++    .+....  + ..-+|+||.
T Consensus       187 ~dvvIiDtpg~~~~~~~l~~eL~~l~~~i~~~i~~~p~~vllVlda~t~~~~l~~a~----~~~~~~--~-i~gvVlTk~  259 (306)
T 1vma_A          187 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAK----IFKEAV--N-VTGIILTKL  259 (306)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHH----HHHHHS--C-CCEEEEECG
T ss_pred             CCEEEEECCCchhhHHHHHHHHHHHHHHHhhccCCCCcEEEEEEECCCCHHHHHHHH----HHHhcC--C-CCEEEEeCC
Confidence            45889999995221110       11111     2478889999987432 222222    222211  2 245678999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEecc
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      |...    ..-.+..+....++|+.++..
T Consensus       260 D~~~----~gG~~l~~~~~~~~Pi~~i~~  284 (306)
T 1vma_A          260 DGTA----KGGITLAIARELGIPIKFIGV  284 (306)
T ss_dssp             GGCS----CTTHHHHHHHHHCCCEEEEEC
T ss_pred             CCcc----chHHHHHHHHHHCCCEEEEeC
Confidence            9643    233477888888999877654

>3zvl_A Bifunctional polynucleotide phosphatase/kinase; hydrolase-transferase complex, base excision repair, BER, non-homologous END-joining, NHEJ; 1.65A {Mus musculus} PDB: 3zvm_A* 3zvn_A* 1yj5_A 3u7e_B* 3u7f_B* 3u7h_B* 3u7g_A*

Probab=94.25  E-value=0.016  Score=46.15  Aligned_cols=19  Identities=21%  Similarity=0.338  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.++|...
T Consensus       263 l~G~pGSGKSTla~~L~~~  281 (416)
T 3zvl_A          263 AVGFPGAGKSTFIQEHLVS  281 (416)
T ss_dssp             EESCTTSSHHHHHHHHTGG
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998763

>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=94.25  E-value=0.016  Score=43.20  Aligned_cols=19  Identities=37%  Similarity=0.550  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        69 l~G~~GtGKT~la~~ia~~   87 (272)
T 1d2n_A           69 LEGPPHSGKTALAAKIAEE   87 (272)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4799999999999998874

>2v1u_A Cell division control protein 6 homolog; DNA replication, nucleotide-binding, replication, archaea; HET: ADP; 3.10A {Aeropyrum pernix}

Probab=94.21  E-value=0.017  Score=44.99  Aligned_cols=19  Identities=26%  Similarity=0.354  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        49 l~G~~G~GKT~l~~~~~~~   67 (387)
T 2v1u_A           49 LYGLTGTGKTAVARLVLRR   67 (387)
T ss_dssp             ECBCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998863

>3gmt_A Adenylate kinase; ssgcid, ATP-BIN cytoplasm, nucleotide biosynthesis, nucleotide-BIND transferase, structural genomics; 2.10A {Burkholderia pseudomallei 1710B}

Probab=94.19  E-value=0.018  Score=41.92  Aligned_cols=18  Identities=22%  Similarity=0.353  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+...|..
T Consensus        13 ~~G~pGsGKsT~a~~L~~   30 (230)
T 3gmt_A           13 LLGAPGAGKGTQANFIKE   30 (230)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             eECCCCCCHHHHHHHHHH
Confidence            589999999999998865

>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=94.19  E-value=0.017  Score=40.83  Aligned_cols=19  Identities=21%  Similarity=0.340  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+||||||+.+.|...
T Consensus        17 ltG~~GSGKSTva~~L~~~   35 (192)
T 2grj_A           17 VTGKIGTGKSTVCEILKNK   35 (192)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999988764

>3j16_B RLI1P; ribosome recycling, translation, eukarya, ribosome; HET: ATP; 7.20A {Saccharomyces cerevisiae}

Probab=94.08  E-value=0.019  Score=48.02  Aligned_cols=21  Identities=24%  Similarity=0.453  Sum_probs=18.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |+|+.|+|||||++.+.+-..
T Consensus       383 iiG~NGsGKSTLlk~l~Gl~~  403 (608)
T 3j16_B          383 MMGENGTGKTTLIKLLAGALK  403 (608)
T ss_dssp             EESCTTSSHHHHHHHHHTSSC
T ss_pred             EECCCCCcHHHHHHHHhcCCC
Confidence            589999999999999988543

>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=94.08  E-value=0.018  Score=42.40  Aligned_cols=18  Identities=33%  Similarity=0.553  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        27 I~G~~GSGKST~a~~L~~   44 (252)
T 1uj2_A           27 VSGGTASGKSSVCAKIVQ   44 (252)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998865

>4fcw_A Chaperone protein CLPB; AAA domain; HET: ADP; 2.35A {Thermus thermophilus} PDB: 4fcv_A* 4fd2_A* 4fct_A*

Probab=94.06  E-value=0.018  Score=43.61  Aligned_cols=19  Identities=32%  Similarity=0.616  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||+|++.+...
T Consensus        52 l~G~~GtGKt~la~~la~~   70 (311)
T 4fcw_A           52 FLGPTGVGKTELAKTLAAT   70 (311)
T ss_dssp             EESCSSSSHHHHHHHHHHH
T ss_pred             EECCCCcCHHHHHHHHHHH
Confidence            5799999999999998774

>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=94.03  E-value=0.019  Score=40.68  Aligned_cols=18  Identities=44%  Similarity=0.506  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus         7 i~G~~GsGKst~~~~la~   24 (208)
T 3ake_A            7 IDGPSASGKSSVARRVAA   24 (208)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999999865

>1g3q_A MIND ATPase, cell division inhibitor; alpha-beta-alpha layered, protein-ADP complex, cell cycle, hydrolase; HET: ADP; 2.00A {Pyrococcus furiosus} SCOP: c.37.1.10 PDB: 1g3r_A* 1ion_A*

Probab=94.01  E-value=0.35  Score=34.77  Aligned_cols=83  Identities=11%  Similarity=0.043  Sum_probs=52.4

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|+|+|+...  ......+..+|.+|+++..+ ..++..+...+..+....  ...+.+|+|+.+..... ..   .
T Consensus       112 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~~~-~~---~  182 (237)
T 1g3q_A          112 FDFILIDCPAGLQ--LDAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKKAG--LAILGFVLNRYGRSDRD-IP---P  182 (237)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHHTT--CEEEEEEEEEETSCTTC-CC---H
T ss_pred             CCEEEEECCCCcC--HHHHHHHHHCCeEEEEecCC-cccHHHHHHHHHHHHhCC--CceEEEEEecCCcccch-hH---H
Confidence            5688999987533  33456778899999998775 445566666666665541  24467899999864322 22   2


Q ss_pred             HHHHHHcCCeEE
Q 040835          125 KEFAEKEGLCFM  136 (206)
Q Consensus       125 ~~~~~~~~~~~~  136 (206)
                      ..+.+..+.+++
T Consensus       183 ~~~~~~~~~~~~  194 (237)
T 1g3q_A          183 EAAEDVMEVPLL  194 (237)
T ss_dssp             HHHHHHHCSCEE
T ss_pred             HHHHHHhCccce
Confidence            333444566654

>2qgz_A Helicase loader, putative primosome component; structural genomics, PSI-2, protein structure initiative; 2.40A {Streptococcus pyogenes serotype M3}

Probab=93.98  E-value=0.019  Score=43.80  Aligned_cols=19  Identities=53%  Similarity=0.775  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|+.++...
T Consensus       157 l~G~~GtGKT~La~aia~~  175 (308)
T 2qgz_A          157 LYGDMGIGKSYLLAAMAHE  175 (308)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999988763

>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA sliding clamp, AAA+ at polymerase, DNA-binding protein; HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP: a.80.1.1 c.37.1.20

Probab=93.98  E-value=0.019  Score=44.27  Aligned_cols=19  Identities=16%  Similarity=0.480  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++.+...
T Consensus        63 l~G~~G~GKT~la~~la~~   81 (353)
T 1sxj_D           63 FYGPPGTGKTSTILALTKE   81 (353)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998764

>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=93.96  E-value=0.018  Score=43.27  Aligned_cols=18  Identities=39%  Similarity=0.503  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+.+.|..
T Consensus        80 I~G~~GSGKSTva~~La~   97 (281)
T 2f6r_A           80 LTGISGSGKSSVAQRLKN   97 (281)
T ss_dssp             EEECTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999873

>3q9l_A Septum site-determining protein MIND; ATPase, bacterial cell division inhibitor, MINC, MINE, cell hydrolase; HET: ATP; 2.34A {Escherichia coli} PDB: 3r9i_A* 3r9j_A*

Probab=93.93  E-value=0.07  Score=39.13  Aligned_cols=67  Identities=13%  Similarity=0.030  Sum_probs=46.5

Q ss_pred             EEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCC------CCCcEEEEEeCCCC
Q 040835           44 NVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD------KNIIIMLVGNKSDL  113 (206)
Q Consensus        44 ~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~------~~~p~ivv~nK~D~  113 (206)
                      .+.+.|+|+|+.-.  ......+..+|.+|+++..+ ..++..+..++..+.....      ....+.+|+|+.|.
T Consensus       113 ~yD~viiD~p~~~~--~~~~~~l~~ad~vi~v~~~~-~~s~~~~~~~~~~l~~~~~~~~~~~~~~~~~~v~N~~~~  185 (260)
T 3q9l_A          113 DFEFIVCDSPAGIE--TGALMALYFADEAIITTNPE-VSSVRDSDRILGILASKSRRAENGEEPIKEHLLLTRYNP  185 (260)
T ss_dssp             TCSEEEEECCSSSS--HHHHHHHHTCSEEEEEECSS-HHHHHHHHHHHHHHTTSSHHHHTTCSCCEEEEEEEEECH
T ss_pred             CCCEEEEcCCCCCC--HHHHHHHHhCCEEEEEecCC-hhHHHHHHHHHHHHHHhccccccccCCcceEEEEecCCc
Confidence            46789999997533  34566777899999998864 4556666666666654321      22567899999985

>1w5s_A Origin recognition complex subunit 2 ORC2; replication, CDC6, DNA replication initiation, DNA BIND protein, AAA+ ATPase; HET: ADP; 2.4A {Aeropyrum pernix} SCOP: a.4.5.11 c.37.1.20 PDB: 1w5t_A*

Probab=93.89  E-value=0.026  Score=44.43  Aligned_cols=19  Identities=26%  Similarity=0.380  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        57 i~G~~G~GKT~L~~~~~~~   75 (412)
T 1w5s_A           57 SIGRVGIGKTTLAKFTVKR   75 (412)
T ss_dssp             CTTCCSSSHHHHHHHHHHH
T ss_pred             CcCcCCCCHHHHHHHHHHH
Confidence            4799999999999998763

>2z4s_A Chromosomal replication initiator protein DNAA; AAA+ ATPase, domain III (ATPase domain), ATP-binding, cytoplasm, DNA replication; HET: ADP; 3.00A {Thermotoga maritima} PDB: 2z4r_A*

Probab=93.85  E-value=0.02  Score=45.98  Aligned_cols=19  Identities=26%  Similarity=0.513  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+.+.
T Consensus       135 l~Gp~G~GKTtLa~aia~~  153 (440)
T 2z4s_A          135 IYGGVGLGKTHLLQSIGNY  153 (440)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998763

>4b4t_K 26S protease regulatory subunit 6B homolog; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.84  E-value=0.021  Score=45.59  Aligned_cols=19  Identities=32%  Similarity=0.501  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||+|++++.+.
T Consensus       211 L~GPPGtGKT~lakAiA~~  229 (428)
T 4b4t_K          211 LYGPPGTGKTMLVKAVANS  229 (428)
T ss_dssp             EESCTTTTHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4699999999999998863

>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=93.83  E-value=0.02  Score=43.81  Aligned_cols=19  Identities=37%  Similarity=0.478  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||+|++++...
T Consensus        56 l~GppGtGKT~la~aia~~   74 (322)
T 3eie_A           56 LYGPPGTGKSYLAKAVATE   74 (322)
T ss_dssp             EECSSSSCHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4799999999999998764

>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=93.79  E-value=0.18  Score=37.21  Aligned_cols=64  Identities=9%  Similarity=-0.036  Sum_probs=45.4

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      +.+.|+|+|+.-  .......+..+|.+|+++..+. .+...+..++..+.... .+.++.+|+|+.+
T Consensus       145 yD~viiD~pp~~--~~~~~~~l~~aD~vivv~~~~~-~s~~~~~~~~~~l~~~~-~~~~~~vv~N~~~  208 (267)
T 3k9g_A          145 YDYIVIDTNPSL--DVTLKNALLCSDYVIIPMTAEK-WAVESLDLFNFFVRKLN-LFLPIFLIITRFK  208 (267)
T ss_dssp             CSEEEEEECSSC--SHHHHHHHTTCSEEEEEEESCT-THHHHHHHHHHHHHTTT-CCCCEEEEEEEEC
T ss_pred             CCEEEEECcCCc--cHHHHHHHHHCCeEEEEeCCCh-HHHHHHHHHHHHHHHHh-ccCCEEEEEeccc
Confidence            568999998754  2334566777999999998853 45566666666666543 4567889999994

>4a82_A Cystic fibrosis transmembrane conductance regulat; CFTR, ION channel, transport protein, casse protein; 2.00A {Homo sapiens} PDB: 2onj_A* 2hyd_A

Probab=93.79  E-value=0.012  Score=48.82  Aligned_cols=19  Identities=37%  Similarity=0.455  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus       372 ivG~sGsGKSTll~~l~g~  390 (578)
T 4a82_A          372 FVGMSGGGKSTLINLIPRF  390 (578)
T ss_dssp             EECSTTSSHHHHHTTTTTS
T ss_pred             EECCCCChHHHHHHHHhcC
Confidence            5899999999999977763

>3qf4_B Uncharacterized ABC transporter ATP-binding prote TM_0288; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.75  E-value=0.015  Score=48.60  Aligned_cols=19  Identities=26%  Similarity=0.508  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus       386 ivG~sGsGKSTll~~l~g~  404 (598)
T 3qf4_B          386 LVGPTGSGKTTIVNLLMRF  404 (598)
T ss_dssp             EECCTTSSTTHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhcC
Confidence            5899999999999988774

>4b4t_M 26S protease regulatory subunit 6A; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.69  E-value=0.023  Score=45.42  Aligned_cols=19  Identities=26%  Similarity=0.389  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||.|++++.+.
T Consensus       220 LyGPPGTGKTllAkAiA~e  238 (434)
T 4b4t_M          220 MYGPPGTGKTLLARACAAQ  238 (434)
T ss_dssp             EESCTTSSHHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHHHH
Confidence            4699999999999998873

>3uk6_A RUVB-like 2; hexameric AAA+ ATP-ASE, DNA unwinding, hydrolase; HET: ADP; 2.95A {Homo sapiens} PDB: 2xsz_D*

Probab=93.67  E-value=0.021  Score=44.36  Aligned_cols=19  Identities=21%  Similarity=0.468  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||+|++.+...
T Consensus        75 l~GppGtGKT~la~~la~~   93 (368)
T 3uk6_A           75 IAGQPGTGKTAIAMGMAQA   93 (368)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998764

>2qmh_A HPR kinase/phosphorylase; V267F mutation, ATP-binding, carbohydrate metabolism, magnesium, metal-binding, multifunctional enzyme; 2.60A {Lactobacillus casei} PDB: 1jb1_A 1kkl_A 1kkm_A*

Probab=93.67  E-value=0.024  Score=40.36  Aligned_cols=20  Identities=35%  Similarity=0.542  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |+|++|+|||+|...|....
T Consensus        39 I~GpsGsGKStLA~~La~~g   58 (205)
T 2qmh_A           39 ITGDSGVGKSETALELVQRG   58 (205)
T ss_dssp             EECCCTTTTHHHHHHHHTTT
T ss_pred             EECCCCCCHHHHHHHHHHhC
Confidence            57999999999999998754

>1e69_A Chromosome segregation SMC protein; structural maintenance of chromosomes, coiled coil; 3.1A {Thermotoga maritima} SCOP: c.37.1.12

Probab=93.65  E-value=0.015  Score=44.50  Aligned_cols=17  Identities=24%  Similarity=0.593  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||+|++++.
T Consensus        29 i~G~NGsGKS~ll~ai~   45 (322)
T 1e69_A           29 IVGPNGSGKSNIIDAIK   45 (322)
T ss_dssp             EECCTTTCSTHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHH
Confidence            58999999999999987

>3crm_A TRNA delta(2)-isopentenylpyrophosphate transferase; ATP-binding, nucleotide-binding, nucleotidyltransferase, tRNA processing; 1.90A {Pseudomonas aeruginosa} PDB: 3crq_A 3crr_A

Probab=93.64  E-value=0.026  Score=43.31  Aligned_cols=18  Identities=39%  Similarity=0.634  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||...|..
T Consensus        10 i~GptGsGKTtla~~La~   27 (323)
T 3crm_A           10 LMGPTAAGKTDLAMALAD   27 (323)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999998876

>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=93.63  E-value=0.023  Score=45.01  Aligned_cols=18  Identities=44%  Similarity=0.547  Sum_probs=15.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|+|||||+..|+.
T Consensus       183 I~G~sGsGKTTLl~~la~  200 (400)
T 3lda_A          183 LFGEFRTGKSQLCHTLAV  200 (400)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEcCCCCChHHHHHHHHH
Confidence            579999999999998764

>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=93.62  E-value=0.026  Score=44.01  Aligned_cols=18  Identities=28%  Similarity=0.475  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|+|||||++.+..
T Consensus        31 i~G~nG~GKttll~ai~~   48 (359)
T 2o5v_A           31 IYGENGAGKTNLLEAAYL   48 (359)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCChhHHHHHHHH
Confidence            589999999999999874

>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=93.61  E-value=0.023  Score=46.68  Aligned_cols=17  Identities=29%  Similarity=0.499  Sum_probs=0.0

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|++|+|||||++.|+
T Consensus        44 l~G~nGsGKSTL~~~~l   60 (525)
T 1tf7_A           44 VSGTSGTGKTLFSIQFL   60 (525)
T ss_dssp             EEESTTSSHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHH

>3qf4_A ABC transporter, ATP-binding protein; multidrug transporter, transport protein; HET: ANP; 2.90A {Thermotoga maritima}

Probab=93.55  E-value=0.017  Score=48.07  Aligned_cols=19  Identities=32%  Similarity=0.583  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus       374 ivG~sGsGKSTll~~l~g~  392 (587)
T 3qf4_A          374 VLGETGSGKSTLMNLIPRL  392 (587)
T ss_dssp             EECSSSSSHHHHHHTTTTS
T ss_pred             EECCCCCCHHHHHHHHhCC
Confidence            5899999999999987763

>1hyq_A MIND, cell division inhibitor (MIND-1); MINC, FTSZ, bacterial cell division, cell cycle; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.10

Probab=93.52  E-value=0.3  Score=35.78  Aligned_cols=83  Identities=10%  Similarity=-0.047  Sum_probs=52.8

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|+|+|+...  ......+..+|.+|+++..+ ..+...+..++..+....  ...+.+|+|+.|...    .....
T Consensus       111 yD~viiD~~~~~~--~~~~~~~~~ad~vi~v~~~~-~~~~~~~~~~~~~l~~~~--~~~~~vv~N~~~~~~----~~~~~  181 (263)
T 1hyq_A          111 TDILLLDAPAGLE--RSAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERLG--TKVLGVVVNRITTLG----IEMAK  181 (263)
T ss_dssp             CSEEEEECCSSSS--HHHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHHT--CEEEEEEEEEECTTT----HHHHH
T ss_pred             CCEEEEeCCCCCC--hHHHHHHHHCCEEEEEeCCC-hhHHHHHHHHHHHHHhcC--CCeeEEEEccCCccc----ccchH
Confidence            5689999997533  33455677899999988764 345556666666655541  245668999998542    11345


Q ss_pred             HHHHHHcCCeEE
Q 040835          125 KEFAEKEGLCFM  136 (206)
Q Consensus       125 ~~~~~~~~~~~~  136 (206)
                      ..+.+..+.+++
T Consensus       182 ~~~~~~~~~~~~  193 (263)
T 1hyq_A          182 NEIEAILEAKVI  193 (263)
T ss_dssp             HHHHHHTTSCEE
T ss_pred             HHHHHHhCCCeE
Confidence            555666676654

>3d3q_A TRNA delta(2)-isopentenylpyrophosphate transferase; alpha-beta protein, structural genomics, PSI-2; 2.70A {Staphylococcus epidermidis atcc 12228}

Probab=93.51  E-value=0.027  Score=43.46  Aligned_cols=18  Identities=33%  Similarity=0.637  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|++|||||||...|..
T Consensus        12 I~GptgSGKTtla~~La~   29 (340)
T 3d3q_A           12 IVGPTASGKTELSIEVAK   29 (340)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCcCcHHHHHHHHHH
Confidence            579999999999998875

>4b4t_L 26S protease subunit RPT4; hydrolase, AAA-atpases, protein degradation, ubiquitin-prote pathway; 7.40A {Saccharomyces cerevisiae}

Probab=93.50  E-value=0.026  Score=45.18  Aligned_cols=19  Identities=32%  Similarity=0.413  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||+|++++.+.
T Consensus       220 L~GPPGtGKTllAkAiA~e  238 (437)
T 4b4t_L          220 LYGPPGTGKTLLAKAVAAT  238 (437)
T ss_dssp             EESCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4699999999999998873

>1q3t_A Cytidylate kinase; nucleotide monophosphate kinase, CMP kinase, transferase; NMR {Streptococcus pneumoniae} SCOP: c.37.1.1

Probab=93.49  E-value=0.026  Score=41.05  Aligned_cols=18  Identities=28%  Similarity=0.409  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+|+||||+.+.|..
T Consensus        21 i~G~~gsGKst~~~~l~~   38 (236)
T 1q3t_A           21 IDGPASSGKSTVAKIIAK   38 (236)
T ss_dssp             EECSSCSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998875

>2dhr_A FTSH; AAA+ protein, hexameric Zn metalloprotease, hydrolase; HET: ADP; 3.90A {Thermus thermophilus}

Probab=93.46  E-value=0.025  Score=46.10  Aligned_cols=19  Identities=37%  Similarity=0.625  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||+|++.+.+.
T Consensus        69 L~GppGtGKTtLaraIa~~   87 (499)
T 2dhr_A           69 LVGPPGVGKTHLARAVAGE   87 (499)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998874

---

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	206
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	3e-49
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	4e-49
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	1e-48
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	1e-47
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	2e-46
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	3e-45
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	8e-45
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	3e-44
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	4e-44
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	1e-40
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	1e-40
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	1e-39
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	1e-39
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	5e-38
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	3e-37
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	3e-36
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	2e-34
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	7e-34
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	1e-33
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-33
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	3e-33
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	2e-32
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	2e-32
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-32
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	6e-32
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	6e-32
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	8e-32
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	1e-30
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	2e-30
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	8e-30
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	2e-29
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	8e-29
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	2e-28
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	7e-28
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	1e-27
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	4e-27
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	6e-27
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	7e-27
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	1e-26
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	5e-26
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	1e-24
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	1e-23
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	1e-23
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	2e-22
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	2e-22
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	6e-22
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	1e-21
d2bcjq2	200	c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha sub	2e-21
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	3e-21
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	4e-20
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-18
d1zcba2	200	c.37.1.8 (A:47-75,A:202-372) Transducin (alpha sub	3e-18
d1svsa1	195	c.37.1.8 (A:32-60,A:182-347) Transducin (alpha sub	3e-18
d2fh5b1	207	c.37.1.8 (B:63-269) Signal recognition particle re	2e-17
d1azta2	221	c.37.1.8 (A:35-65,A:202-391) Transducin (alpha sub	7e-16
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	2e-14
d1nrjb_	209	c.37.1.8 (B:) Signal recognition particle receptor	4e-11
d2gj8a1	161	c.37.1.8 (A:216-376) Probable tRNA modification GT	3e-07
d1udxa2	180	c.37.1.8 (A:157-336) Obg GTP-binding protein middl	6e-06
d1tq4a_	400	c.37.1.8 (A:) Interferon-inducible GTPase {Mouse (	3e-04
d1k9xa_	497	d.92.1.5 (A:) Thermostable carboxypeptidase 1 {Arc	7e-04
d1puia_	188	c.37.1.8 (A:) Probable GTPase EngB {Escherichia co	0.003

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  156 bits (394), Expect = 3e-49
 Identities = 116/166 (69%), Positives = 141/166 (84%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL+RF R+EF+L+SK+TIGVEF T+++ +  K +KAQIWDTAGQERYR 
Sbjct: 9   LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRR 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TSAYYRGAVGA+LVYDI K  +++NV RWL+ELR HAD NI+IMLVGNKSDL  LRAVP
Sbjct: 69  ITSAYYRGAVGALLVYDIAKHLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVP 128

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
           T++A+ FAEK  L F+ETSAL+STNVE AF  +LTEIYRIVS+K +
Sbjct: 129 TDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQI 174

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  156 bits (394), Expect = 4e-49
 Identities = 77/163 (47%), Positives = 109/163 (66%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGK+ +L RF+ D F+    +TIG++F+ +T+ +  K +K QIWDTAGQER+R 
Sbjct: 11  LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRT 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G MLVYDIT  +SFDN+  W+  +  HA  ++  M++GNK D+   R V 
Sbjct: 71  ITTAYYRGAMGIMLVYDITNEKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVS 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
            E  ++ A   G+ FMETSA  + NVE AF T+  +I   + K
Sbjct: 131 KERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 194

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  155 bits (392), Expect = 1e-48
 Identities = 87/182 (47%), Positives = 126/182 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG+S VGKS LL RF+ D ++ D  +TIGV+F+ KT+ +  K VK QIWDTAGQER+R 
Sbjct: 11  LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRT 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +TS+YYRG+ G ++VYD+T ++SF+ V  WL+E+  +A   ++ +LVGNK DL+  R V 
Sbjct: 71  ITSSYYRGSHGIIIVYDVTDQESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVE 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKALTANDESESGGSSSL 180
            + AKEFA+   + F+ETSAL+STNVE AFLT+  +I   +S++ L    + +    +  
Sbjct: 131 YDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVN 190

Query: 181 LK 182
           LK
Sbjct: 191 LK 192

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  151 bits (383), Expect = 1e-47
 Identities = 77/159 (48%), Positives = 107/159 (67%), Gaps = 1/159 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIGDS VGKS LL RF  D+F+     TIG++F+ KT+ I+ K VK QIWDTAGQER+R 
Sbjct: 7   LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRT 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +LVYDIT  ++F N+ +W + +  HA+    ++LVGNKSD+ET R V 
Sbjct: 67  ITTAYYRGAMGIILVYDITDERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVT 125

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  +  A++ G+ F+E+SA    NV   F T+   I  
Sbjct: 126 ADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE 164

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  148 bits (375), Expect = 2e-46
 Identities = 74/160 (46%), Positives = 104/160 (65%), Gaps = 1/160 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR 59
           L+GDS VGK+ LL RF    F   +  +T+G++F+ K L +    VK Q+WDTAGQER+R
Sbjct: 11  LVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFR 70

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +VT AYYR A   +L+YD+T + SFDN+  WL E+  +A  ++ +ML+GNK D    R V
Sbjct: 71  SVTHAYYRDAHALLLLYDVTNKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVV 130

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             ED ++ A++ GL FMETSA    NV+LAF  +  E+ R
Sbjct: 131 KREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKR 170

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  145 bits (367), Expect = 3e-45
 Identities = 81/158 (51%), Positives = 111/158 (70%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD  VGKS LL +F   +F  D   TIGVEF T+ + +  + +K QIWDTAGQER+RA
Sbjct: 9   IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRA 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA++VYDIT+R ++++++ WL + R   + N +I+L+GNK+DLE  R V 
Sbjct: 69  VTRSYYRGAAGALMVYDITRRSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVT 128

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
            E+AK+FAE+ GL F+E SA    NVE AFL    +IY
Sbjct: 129 YEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 166

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  145 bits (365), Expect = 8e-45
 Identities = 84/163 (51%), Positives = 114/163 (69%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IGD+ VGKS LL +F    F      TIGVEF  + + I  K +K QIWDTAGQE +R+
Sbjct: 8   IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRS 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA GA+LVYDIT+R++F+++  WLE+ R H+  N++IML+GNKSDLE+ R V 
Sbjct: 68  ITRSYYRGAAGALLVYDITRRETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVK 127

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
            E+ + FA + GL FMETSA  + NVE AF+    EIYR + +
Sbjct: 128 REEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ 170

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  143 bits (360), Expect = 3e-44
 Identities = 68/159 (42%), Positives = 106/159 (66%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S+VGK+  L R+A D F+    +T+G++F+ KT+  + K +K QIWDTAGQERYR 
Sbjct: 10  IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRT 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T+AYYRGA+G +L+YDIT  +SF+ V  W  +++ ++  N  ++LVGNK D+E  R V 
Sbjct: 70  ITTAYYRGAMGFILMYDITNEESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVS 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           +E  ++ A+  G  F E SA ++ NV+  F  ++  I  
Sbjct: 130 SERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE 168

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  143 bits (361), Expect = 4e-44
 Identities = 73/157 (46%), Positives = 102/157 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           LIG++ VGK+ L+ RF +  F     ATIGV+F  KT+ I+ + VK QIWDTAGQER+R+
Sbjct: 10  LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRS 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYR A   +L YDIT  +SF  +  WL E+  +A   +I +LVGNK DL   R V 
Sbjct: 70  ITQSYYRSANALILTYDITCEESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVS 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            + A+EF+E + + ++ETSA ES NVE  FL +   +
Sbjct: 130 QQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRL 166

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  134 bits (338), Expect = 1e-40
 Identities = 65/159 (40%), Positives = 95/159 (59%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG+S VGKS LL RF  D F  +  ATIGV+F+ KT+ +     K  IWDTAGQER+R 
Sbjct: 12  IIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRT 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T +YYRGA G +LVYD+T+R +F  +  WL EL  +  +N I+ ++      +  R V 
Sbjct: 72  LTPSYYRGAQGVILVYDVTRRDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKENREVD 131

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             +  +FA K  + F+E SA     V+ AF  ++ +I +
Sbjct: 132 RNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ 170

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  134 bits (338), Expect = 1e-40
 Identities = 66/175 (37%), Positives = 108/175 (61%), Gaps = 11/175 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK----------NVKAQIW 50
            +GDS VGK+  L R+  ++F+     T+G++F+ K +V + +           V  Q+W
Sbjct: 10  ALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLW 69

Query: 51  DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGH-ADKNIIIMLVGN 109
           DTAGQER+R++T+A++R A+G +L++D+T +QSF NV  W+ +L+ +   +N  I+L+GN
Sbjct: 70  DTAGQERFRSLTTAFFRDAMGFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGN 129

Query: 110 KSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           K+DL   R V    A+E A+K G+ + ETSA    NVE A  T+L  I + + + 
Sbjct: 130 KADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQC 184

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  131 bits (331), Expect = 1e-39
 Identities = 79/159 (49%), Positives = 107/159 (67%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           +IG++  GKS LL +F   +F  DS  TIGVEF +K + +  K VK QIWDTAGQER+R+
Sbjct: 10  VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRS 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           VT +YYRGA GA+LVYDIT R++++ +  WL + R  A +NI+I+L GNK DL+  R V 
Sbjct: 70  VTRSYYRGAAGALLVYDITSRETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVT 129

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             +A  FA++  L F+ETSAL   NVE AF+    +I  
Sbjct: 130 FLEASRFAQENELMFLETSALTGENVEEAFVQCARKILN 168

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  131 bits (330), Expect = 1e-39
 Identities = 61/157 (38%), Positives = 99/157 (63%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G+ +VGK+ L+ RF  D F    +ATIG++F +KT+ +  + ++ Q+WDTAGQER+R+
Sbjct: 5   FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRS 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +  +Y R +  A++VYDIT   SF    +W++++R     ++IIMLVGNK+DL   R V 
Sbjct: 65  LIPSYIRDSAAAVVVYDITNVNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVS 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            E+ +  A++  + F+ETSA    NV+  F  V   +
Sbjct: 125 IEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  127 bits (319), Expect = 5e-38
 Identities = 72/159 (45%), Positives = 103/159 (64%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+SAVGKS L+ RF + +F    ++TIG  F T+T+ +    VK +IWDTAGQERY +
Sbjct: 11  LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHS 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRGA  A++VYDIT  +SF     W++EL+  A  NI+I L GNK+DL   RAV 
Sbjct: 71  LAPMYYRGAQAAIVVYDITNEESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVD 130

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            ++A+ +A+   L FMETSA  S NV   F+ +  ++ +
Sbjct: 131 FQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLPK 169

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  125 bits (314), Expect = 3e-37
 Identities = 48/159 (30%), Positives = 82/159 (51%), Gaps = 2/159 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F    F      TI  +F  K + +       +I DTAG E++ +
Sbjct: 8   VLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFAS 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G +LVY +  +QSF ++    +++      + + ++LVGNK DLE+ R V
Sbjct: 67  MRDLYIKNGQGFILVYSLVNQQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREV 126

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
            + + +  AE+ G  FMETSA   T V+  F  ++ ++ 
Sbjct: 127 SSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 165

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  122 bits (307), Expect = 3e-36
 Identities = 65/158 (41%), Positives = 91/158 (57%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G+  VGK+ L+ R+  ++F+     T+G  F TK L I  K V   IWDTAGQER+ A
Sbjct: 8   LLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYR + GA+LVYDIT   SF  V  W++ELR      I + +VGNK DLE  R V 
Sbjct: 68  LGPIYYRDSNGAILVYDITDEDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVS 127

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY 158
            ++A+ +AE  G     TSA ++  +E  FL +   + 
Sbjct: 128 IQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 165

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

 Score =  118 bits (295), Expect = 2e-34
 Identities = 62/160 (38%), Positives = 91/160 (56%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F  DEF  D + T    ++ K  V+  + V+  I DTAGQE Y A
Sbjct: 9   MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSYRKKV-VLDGEEVQIDILDTAGQEDYAA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y+R   G + V+ IT+ +SF   A + E+ LR   D+N+  +LVGNKSDLE  R V
Sbjct: 68  IRDNYFRSGEGFLCVFSITEMESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQV 127

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E+AK  A++  + ++ETSA    NV+  F  ++ EI  
Sbjct: 128 SVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA 167

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]} Length = 174

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (292), Expect = 7e-34
 Identities = 61/162 (37%), Positives = 93/162 (57%), Gaps = 6/162 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD  VGKS L+ R+  ++F      TIGVEF  K L +    V  QIWDTAGQER+R+
Sbjct: 11  LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRS 70

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADK----NIIIMLVGNKSDLETL 116
           + + +YRG+   +L + +   QSF N++ W +E   +AD     +   +++GNK D+   
Sbjct: 71  LRTPFYRGSDCCLLTFSVDDSQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE- 129

Query: 117 RAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEI 157
           R V TE+A+ +    G   + ETSA ++TNV  AF   +  +
Sbjct: 130 RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRV 171

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 1e-33
 Identities = 50/161 (31%), Positives = 80/161 (49%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F      TI  +   K + +  +    +I DTAG E++ A
Sbjct: 8   VLGSGGVGKSALTVQFVQGIFVEKYDPTIE-DSYRKQVEVDCQQCMLEILDTAGTEQFTA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLE-ELRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y +   G  LVY IT + +F+++    E  LR    +++ ++LVGNK DLE  R V
Sbjct: 67  MRDLYMKNGQGFALVYSITAQSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVV 126

Query: 120 PTEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIYR 159
             E  +  A +     F+E+SA    NV   F  ++ +I R
Sbjct: 127 GKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQINR 167

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]} Length = 191

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  116 bits (290), Expect = 2e-33
 Identities = 39/177 (22%), Positives = 71/177 (40%), Gaps = 14/177 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  ++F  +   T+  +    T++I  +     ++DTAGQE Y  
Sbjct: 8   VVGDGAVGKTCLLISYTTNKFPSEYVPTVF-DNYAVTVMIGGEPYTLGLFDTAGQEDYDR 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV- 119
           +    Y      ++ + +    SF+NV         H       +LVG + DL    +  
Sbjct: 67  LRPLSYPQTDVFLVCFSVVSPSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTI 126

Query: 120 -----------PTEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
                        E A++ A   + + ++E SAL    ++  F   +         K
Sbjct: 127 EKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPK 183

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  115 bits (287), Expect = 3e-33
 Identities = 52/160 (32%), Positives = 87/160 (54%), Gaps = 3/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +  ++ F  +   TI   ++ +  VI  +     I DTAGQE Y A
Sbjct: 8   VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYRKQV-VIDGETCLLDILDTAGQEEYSA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRAV 119
           +   Y R   G + V+ I   +SF+++ ++ E+++   D  ++ ++LVGNK DL   R V
Sbjct: 67  MRDQYMRTGEGFLCVFAINNTKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTV 125

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            +  A++ A   G+ ++ETSA     VE AF T++ EI +
Sbjct: 126 ESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ 165

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score =  113 bits (282), Expect = 2e-32
 Identities = 71/160 (44%), Positives = 102/160 (63%), Gaps = 3/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G++AVGKS ++ RF  ++F+ + + TIG  F T+ + I+   VK +IWDTAGQER+ +
Sbjct: 8   LLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFAS 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL---ETLR 117
           +   YYR A  A++VYD+TK QSF     W++EL   A K+III LVGNK D+      R
Sbjct: 68  LAPMYYRNAQAALVVYDVTKPQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGER 127

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
            V  E+ ++ AE++GL F ETSA    NV   FL +  +I
Sbjct: 128 KVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  112 bits (281), Expect = 2e-32
 Identities = 66/157 (42%), Positives = 96/157 (61%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD+ VGKS ++ RF  D F  +   TIG  F TKT+   ++  K  IWDTAG ER+RA
Sbjct: 9   LLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRA 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YYRG+  A++VYDITK ++F  +  W+ ELR H   +I++ + GNK DL  +R V 
Sbjct: 69  LAPMYYRGSAAAIIVYDITKEETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVM 128

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             DAK++A+     F+ETSA  + N+   F+ +   I
Sbjct: 129 ERDAKDYADSIHAIFVETSAKNAININELFIEISRRI 165

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]} Length = 185

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  113 bits (283), Expect = 2e-32
 Identities = 40/170 (23%), Positives = 72/170 (42%), Gaps = 14/170 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +A D F  +   T+  +    ++ +  K     ++DTAGQE Y  
Sbjct: 14  VVGDGAVGKTCLLMSYANDAFPEEYVPTV-FDHYAVSVTVGGKQYLLGLYDTAGQEDYDR 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDL------- 113
           +    Y      ++ + +    SF NV             N+  +L+G + DL       
Sbjct: 73  LRPLSYPMTDVFLICFSVVNPASFQNVKEEWVPELKEYAPNVPFLLIGTQIDLRDDPKTL 132

Query: 114 -----ETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEI 157
                   + +  E  ++ A++ G C ++E SAL    ++  F   +  I
Sbjct: 133 ARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 182

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  111 bits (278), Expect = 6e-32
 Identities = 63/158 (39%), Positives = 97/158 (61%), Gaps = 5/158 (3%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-R 59
           +IGDS VGK+ L  RF    F   ++ATIGV+F+ + + I  + +K Q+WDTAGQER+ +
Sbjct: 7   VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRK 66

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLRA 118
           ++   YYR     + VYD+T   SF ++  W+EE + H    +I  +LVGNK DL +   
Sbjct: 67  SMVQHYYRNVHAVVFVYDMTNMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQ 126

Query: 119 VPTEDAKEFAEKEGLCFMETSAL---ESTNVELAFLTV 153
           VPT+ A++FA+   +   ETSA    ++ +VE  F+T+
Sbjct: 127 VPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL 164

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (279), Expect = 6e-32
 Identities = 53/161 (32%), Positives = 85/161 (52%), Gaps = 2/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  D   TI  +  TK  VI  +  +  I DTAGQE + A
Sbjct: 10  VVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGA 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LV+ +T R SF+ + ++  + LR        ++L+GNK+DL+  R V
Sbjct: 69  MREQYMRTGEGFLLVFSVTDRGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQV 128

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI 160
             E+ ++ A +  + +ME SA    NV+ AF  ++  I + 
Sbjct: 129 TQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF 169

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]} Length = 183

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  112 bits (279), Expect = 8e-32
 Identities = 41/170 (24%), Positives = 72/170 (42%), Gaps = 14/170 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD AVGK+ LL  +  + F  +   T+  +  +  +++  K V   +WDTAGQE Y  
Sbjct: 10  VVGDGAVGKTCLLISYTTNAFPGEYIPTV-FDNYSANVMVDGKPVNLGLWDTAGQEDYDR 68

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +    Y     +++ + +    SF+NV         H   N  I+LVG K DL   +   
Sbjct: 69  LRPLSYPQTDVSLICFSLVSPASFENVRAKWYPEVRHHCPNTPIILVGTKLDLRDDKDTI 128

Query: 121 TE------------DAKEFAEKEGLC-FMETSALESTNVELAFLTVLTEI 157
            +                 A++ G   ++E SAL    ++  F   +  +
Sbjct: 129 EKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  108 bits (270), Expect = 1e-30
 Identities = 52/160 (32%), Positives = 79/160 (49%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G   VGKS L  +F +  F  D       +  TK   +     +  I DTAGQE + A
Sbjct: 11  VVGGGGVGKSALTIQFIQSYFVSDYD-PTIEDSYTKICSVDGIPARLDILDTAGQEEFGA 69

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVA-RWLEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G +LV+ I  RQSF+ V   + + LR     +  ++LVGNK+DLE+ R V
Sbjct: 70  MREQYMRAGHGFLLVFAINDRQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQV 129

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           P  +A  F     + + E SA    NV+ AF  ++  + +
Sbjct: 130 PRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK 169

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 184

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score =  108 bits (269), Expect = 2e-30
 Identities = 59/163 (36%), Positives = 92/163 (56%), Gaps = 4/163 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS VGK+ L+ ++   +FS   KATIG +F TK +++  + V  QIWDTAGQER+++
Sbjct: 7   ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQS 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARW----LEELRGHADKNIIIMLVGNKSDLETL 116
           +  A+YRGA   +LV+D+T   +F  +  W    L +      +N   +++GNK DLE  
Sbjct: 67  LGVAFYRGADCCVLVFDVTAPNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLENR 126

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           +            K  + + ETSA E+ NVE AF T+     +
Sbjct: 127 QVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALK 169

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  106 bits (264), Expect = 8e-30
 Identities = 54/161 (33%), Positives = 85/161 (52%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD  VGKS L  +F +  F  D   TI   +   T  I ++     + DTAGQE + A
Sbjct: 9   VVGDGGVGKSALTIQFFQKIFVPDYDPTIEDSYLKHT-EIDNQWAILDVLDTAGQEEFSA 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLE-ELRGHADKNIIIMLVGNKSDLETLRAV 119
           +   Y R   G ++VY +T + SF++V R+ +  LR    ++  ++LV NK DL  LR V
Sbjct: 68  MREQYMRTGDGFLIVYSVTDKASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKV 127

Query: 120 PTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIYR 159
             +  KE A K  + ++ETSA +   NV+  F  ++  I +
Sbjct: 128 TRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ 168

>d1r8sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF1 [TaxId: 9606]} Length = 160

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF1 [TaxId: 9606]

 Score =  105 bits (262), Expect = 2e-29
 Identities = 25/161 (15%), Positives = 55/161 (34%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    E       T           + +KN+   +WD  GQ++ R 
Sbjct: 5   MVGLDAAGKTTILYKLKLGEIV-----TTIPTIGFNVETVEYKNISFTVWDVGGQDKIRP 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-LRGHADKNIIIMLVGNKS---DLETL 116
           +   Y++   G + V D   R+  +     L   L     ++ ++++  NK    +    
Sbjct: 60  LWRHYFQNTQGLIFVVDSNDRERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAMNA 119

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +  +               T A     +      +  ++
Sbjct: 120 AEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 160

>d1e0sa_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARF6 [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARF6 [TaxId: 9606]

 Score =  103 bits (258), Expect = 8e-29
 Identities = 33/161 (20%), Positives = 62/161 (38%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  A GK+ +L +    +    +  T+G   +T    + +KNVK  +WD  GQ++ R 
Sbjct: 17  MLGLDAAGKTTILYKLKLGQSV-TTIPTVGFNVET----VTYKNVKFNVWDVGGQDKIRP 71

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE---TL 116
           +   YY G  G + V D   R   D   + L  +    + ++ II++  NK DL      
Sbjct: 72  LWRHYYTGTQGLIFVVDCADRDRIDEARQELHRIINDREMRDAIILIFANKQDLPDAMKP 131

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +  +               + A     +      + +  
Sbjct: 132 HEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNY 172

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

 Score =  103 bits (256), Expect = 2e-28
 Identities = 43/172 (25%), Positives = 68/172 (39%), Gaps = 14/172 (8%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD A GK+ LL   ++D+F      T+  E     + +  K V+  +WDTAG E Y  
Sbjct: 7   IVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDR 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV- 119
           +    Y      ++ + I    S +N+         H   N+ I+LVGNK DL       
Sbjct: 66  LRPLSYPDTDVILMCFSIDSPDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTR 125

Query: 120 -----------PTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLTEIYR 159
                        E+ ++ A + G   +ME SA     V   F        +
Sbjct: 126 RELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAALQ 177

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  101 bits (251), Expect = 7e-28
 Identities = 57/159 (35%), Positives = 93/159 (58%), Gaps = 1/159 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G+ AVGKS ++ R+ +  F+ D K TIGV+F  + + ++ ++V+  +WDTAGQE + A
Sbjct: 7   VVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDA 66

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +T AYYRGA   +LV+  T R+SF+ ++ W E++      +I   LV NK DL     + 
Sbjct: 67  ITKAYYRGAQACVLVFSTTDRESFEAISSWREKVVAEVG-DIPTALVQNKIDLLDDSCIK 125

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            E+A+  A++  L F  TS  E  NV   F  +  +  +
Sbjct: 126 NEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ 164

>d1m7ba_ c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]} Length = 179

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoE (RND3)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score =  101 bits (251), Expect = 1e-27
 Identities = 47/178 (26%), Positives = 78/178 (43%), Gaps = 19/178 (10%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GDS  GK+ LL  FA+D F  +   T+  E  T +  I  + ++  +WDT+G   Y  
Sbjct: 7   VVGDSQCGKTALLHVFAKDCFPENYVPTV-FENYTASFEIDTQRIELSLWDTSGSPYYDN 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET----- 115
           V    Y  +   ++ +DI++ ++ D+V +  +        N  ++LVG KSDL T     
Sbjct: 66  VRPLSYPDSDAVLICFDISRPETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTL 125

Query: 116 -------LRAVPTEDAKEFAEKEGLC-FMETSALESTN-VELAFLTVLTEIYRIVSKK 164
                     V  +     A++ G   ++E SAL+S N V   F             K
Sbjct: 126 VELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIF----HVATLACVNK 179

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 99.8 bits (247), Expect = 4e-27
 Identities = 60/166 (36%), Positives = 95/166 (57%), Gaps = 7/166 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNV-KAQIWDTAGQERYR 59
           ++GDS VGK+ L+ R+  D++S   KATIG +F TK + +    V   Q+WDTAGQER++
Sbjct: 7   ILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQ 66

Query: 60  AVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKN----IIIMLVGNKSDLET 115
           ++  A+YRGA   +LVYD+T   SF+N+  W +E   HA+ N       +++GNK D E 
Sbjct: 67  SLGVAFYRGADCCVLVYDVTNASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEE 126

Query: 116 LRAVPTEDAKEFAEKE--GLCFMETSALESTNVELAFLTVLTEIYR 159
            + + +E + +   K    +    TSA  + NV+ AF  +     +
Sbjct: 127 SKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQ 172

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]} Length = 171

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 98.9 bits (245), Expect = 6e-27
 Identities = 49/161 (30%), Positives = 71/161 (44%), Gaps = 3/161 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G   VGKS L+ RF +  F      T+   ++             QI DT G  ++ A
Sbjct: 7   VFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTYRQVI-SCDKSICTLQITDTTGSHQFPA 65

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRA 118
           +           +LVY IT RQS + +    E++       ++I IMLVGNK D    R 
Sbjct: 66  MQRLSISKGHAFILVYSITSRQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSRE 125

Query: 119 VPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
           V + +A+  A      FMETSA  + NV+  F  +L    R
Sbjct: 126 VQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKR 166

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]} Length = 170

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 99.0 bits (245), Expect = 7e-27
 Identities = 49/157 (31%), Positives = 79/157 (50%), Gaps = 3/157 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+GD   GK+  + R    EF     AT+GVE        +   +K  +WDTAGQE++  
Sbjct: 8   LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGG 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
           +   YY  A  A++++D+T R ++ NV  W  +L    + NI I+L GNK D++  +   
Sbjct: 68  LRDGYYIQAQCAIIMFDVTSRVTYKNVPNWHRDLVRVCE-NIPIVLCGNKVDIKDRKVKA 126

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
                 F  K+ L + + SA  + N E  FL +  ++
Sbjct: 127 KSIV--FHRKKNLQYYDISAKSNYNFEKPFLWLARKL 161

>d1moza_ c.37.1.8 (A:) ADP-ribosylation factor {Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]} Length = 182

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Baker's yeast (Saccharomyces cerevisiae), ARL1 [TaxId: 4932]

 Score = 98.5 bits (244), Expect = 1e-26
 Identities = 33/161 (20%), Positives = 63/161 (39%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E    +K TIG   +T    + +KN+K  +WD  GQ   R 
Sbjct: 22  ILGLDGAGKTTILYRLQIGEVV-TTKPTIGFNVET----LSYKNLKLNVWDLGGQTSIRP 76

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE---TL 116
               YY      + V D T +      ++ L  +    + ++  +++  NK D     + 
Sbjct: 77  YWRCYYADTAAVIFVVDSTDKDRMSTASKELHLMLQEEELQDAALLVFANKQDQPGALSA 136

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             V  E      +      + +SA++   +      ++  I
Sbjct: 137 SEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVI 177

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 96.6 bits (239), Expect = 5e-26
 Identities = 53/161 (32%), Positives = 78/161 (48%), Gaps = 4/161 (2%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G + VGKS L+ RF    F  +   T+   ++ +   I  + V  +I DTAGQE    
Sbjct: 7   IFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYRHQA-TIDDEVVSMEILDTAGQEDTI- 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLE-ELRGHADKNIIIMLVGNKSDLETLRAV 119
               + R   G +LVYDIT R SF+ V             KN+ ++LVGNK+DL+  R V
Sbjct: 65  QREGHMRWGEGFVLVYDITDRGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQV 124

Query: 120 PTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIYR 159
            TE+ ++ A +    F E SA     N+   F  +  E+ R
Sbjct: 125 STEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRR 165

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]} Length = 167

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 92.9 bits (229), Expect = 1e-24
 Identities = 50/160 (31%), Positives = 75/160 (46%), Gaps = 2/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G  +VGKS L  +F   +F      TI     TK + ++ +    Q+ DTAGQ+ Y  
Sbjct: 9   ILGYRSVGKSSLTIQFVEGQFVDSYDPTI-ENTFTKLITVNGQEYHLQLVDTAGQDEYSI 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAV 119
               Y     G +LVY +T  +SF+ +     +L        I IMLVGNK DL   R +
Sbjct: 68  FPQTYSIDINGYILVYSVTSIKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVI 127

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             E+ K  AE     F+E+SA E+      F  ++ E  +
Sbjct: 128 SYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEK 167

>d2bmja1 c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {Human (Homo sapiens) [TaxId: 9606]} Length = 175

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Centaurin gamma 1, G domain
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 90.8 bits (224), Expect = 1e-23
 Identities = 33/169 (19%), Positives = 62/169 (36%), Gaps = 7/169 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++GD+  GKS L+ RF    +          E   K +++  +     I + AG    + 
Sbjct: 10  VLGDARSGKSSLIHRFLTGSY--QVLEKTESEQYKKEMLVDGQTHLVLIREEAGAPDAKF 67

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD--LETLRA 118
                    +    + D    Q+   +   L  LRG     + + LVG +      + R 
Sbjct: 68  SGW--ADAVIFVFSLEDENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRV 125

Query: 119 VPTEDAKEFA-EKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKKAL 166
           V    A+    + +   + ET A    NV+  F  V  ++  +  ++ L
Sbjct: 126 VGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQQL 174

>d1zj6a1 c.37.1.8 (A:2-178) ADP-ribosylation factor {Human (Homo sapiens), ARL5A [TaxId: 9606]} Length = 177

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL5A [TaxId: 9606]

 Score = 90.8 bits (224), Expect = 1e-23
 Identities = 29/161 (18%), Positives = 60/161 (37%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F+ +E              +    I   N +  +WD  GQE  R+
Sbjct: 20  IVGLDNAGKTTILYQFSMNEVV-----HTSPTIGSNVEEIVINNTRFLMWDIGGQESLRS 74

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE---TL 116
             + YY      ++V D T R+        L ++  H D +   +++  NK D++   T+
Sbjct: 75  SWNTYYTNTEFVIVVVDSTDRERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECMTV 134

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +         +          AL    +      +++ +
Sbjct: 135 AEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL 175

>d1fzqa_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL3 [TaxId: 10090]} Length = 176

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL3 [TaxId: 10090]

 Score = 87.7 bits (216), Expect = 2e-22
 Identities = 33/161 (20%), Positives = 58/161 (36%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+ LL + A ++ S  +  T G   ++    +  +  K  +WD  GQ + R 
Sbjct: 21  LLGLDNAGKTTLLKQLASEDISHITP-TQGFNIKS----VQSQGFKLNVWDIGGQRKIRP 75

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL---ETL 116
              +Y+      + V D   R+ F+   + L EL        + +++  NK DL      
Sbjct: 76  YWRSYFENTDILIYVIDSADRKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAAPA 135

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +                   SAL    V+     V   +
Sbjct: 136 SEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]} Length = 168

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 87.5 bits (215), Expect = 2e-22
 Identities = 42/160 (26%), Positives = 71/160 (44%), Gaps = 3/160 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G   VGKS L   F   E     +A        +++V+  +     ++D   Q+  R 
Sbjct: 6   LLGAPGVGKSALARIFGGVED--GPEAEAAGHTYDRSIVVDGEEASLMVYDIWEQDGGRW 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARW-LEELRGHADKNIIIMLVGNKSDLETLRAV 119
           +           ++VY +T + SF+  +   ++  R     ++ I+LVGNKSDL   R V
Sbjct: 64  LPGHCMAMGDAYVIVYSVTDKGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREV 123

Query: 120 PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
             ++ +  A      F+ETSA    NV+  F  V+ +I  
Sbjct: 124 SVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL 163

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]} Length = 172

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 86.0 bits (211), Expect = 6e-22
 Identities = 47/162 (29%), Positives = 76/162 (46%), Gaps = 3/162 (1%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSK-ATIGVEFQTKTLVIHHKNVKAQIWDTA-GQERY 58
           LIG+  VGKS L   FA    S+DS    +G +   +TL++  ++    + D    +   
Sbjct: 8   LIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGEN 67

Query: 59  RAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLETLR 117
             +     +     ++VY IT R SF+  +    +LR     ++I I+LVGNKSDL   R
Sbjct: 68  EWLHDHCMQVGDAYLIVYSITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCR 127

Query: 118 AVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR 159
            V   + +  A      F+ETSA    NV+  F  ++ ++  
Sbjct: 128 EVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRL 169

>d1ksha_ c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus musculus), ARL2 [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Mouse (Mus musculus), ARL2 [TaxId: 10090]

 Score = 85.1 bits (209), Expect = 1e-21
 Identities = 31/161 (19%), Positives = 54/161 (33%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L +F  ++       TI          + H+  K  IWD  GQ+  R+
Sbjct: 7   MLGLDNAGKTTILKKFNGEDVD-----TISPTLGFNIKTLEHRGFKLNIWDVGGQKSLRS 61

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARW-LEELRGHADKNIIIMLVGNKSDLETLRAV 119
               Y+    G + V D   RQ   +  R     L         +++  NK DL    + 
Sbjct: 62  YWRNYFESTDGLIWVVDSADRQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGALSC 121

Query: 120 PTEDAKE---FAEKEGLCFMETSALESTNVELAFLTVLTEI 157
                                 SA+   ++      +L +I
Sbjct: 122 NAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDI 162

>d2bcjq2 c.37.1.8 (Q:38-66,Q:184-354) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 85.8 bits (211), Expect = 2e-21
 Identities = 29/197 (14%), Positives = 60/197 (30%), Gaps = 43/197 (21%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GKS  + +            T G+           ++V  ++ D  GQ   R 
Sbjct: 7   LLGTGESGKSTFIKQMRIIHG--SGVPTTGIIEYP----FDLQSVIFRMVDVGGQRSERR 60

Query: 61  VTSAYYRGAVGAMLVYDIT-----------KRQSFDNVARWLEELRGHADKNIIIMLVGN 109
                +      M +  ++           + +  ++ A +   +     +N  ++L  N
Sbjct: 61  KWIHCFENVTSIMFLVALSEYDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLN 120

Query: 110 KSDLETLRAVPTEDAKEFAEKEG--------------------------LCFMETSALES 143
           K DL   + + +     F E +G                          +    T A ++
Sbjct: 121 KKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDT 180

Query: 144 TNVELAFLTVLTEIYRI 160
            N+   F  V   I ++
Sbjct: 181 ENIRFVFAAVKDTILQL 197

>d1zd9a1 c.37.1.8 (A:18-181) ADP-ribosylation factor {Human (Homo sapiens), ARL8A [TaxId: 9606]} Length = 164

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL8A [TaxId: 9606]

 Score = 84.0 bits (206), Expect = 3e-21
 Identities = 34/161 (21%), Positives = 66/161 (40%), Gaps = 8/161 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GK+  +   A  +F+ D   T+G   +     I   NV  ++WD  GQ R+R+
Sbjct: 7   LVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK----ITKGNVTIKLWDIGGQPRFRS 62

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDLE---TL 116
           +   Y RG    + + D   ++  +     L  L      + I ++++GNK DL      
Sbjct: 63  MWERYCRGVSAIVYMVDAADQEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGALDE 122

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
           + +  +      +   +C    S  E  N+++    ++   
Sbjct: 123 KELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHS 163

>d2qtvb1 c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 166

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 81.3 bits (199), Expect = 4e-20
 Identities = 30/161 (18%), Positives = 58/161 (36%), Gaps = 16/161 (9%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G    GK+ LL     D  +     T+   +   +  +   N+K   +D  G  + R 
Sbjct: 5   FLGLDNAGKTTLLHMLKNDRLA-----TLQPTWHPTSEELAIGNIKFTTFDLGGHIQARR 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNIIIMLVGNKSDL------ 113
           +   Y+    G + + D    + FD     L+ L   A+ K++  +++GNK D       
Sbjct: 60  LWKDYFPEVNGIVFLVDAADPERFDEARVELDALFNIAELKDVPFVILGNKIDAPNAVSE 119

Query: 114 ----ETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAF 150
                 L  + T  ++    +  +     S +       AF
Sbjct: 120 AELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAF 160

>d1upta_ c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo sapiens), ARL1 [TaxId: 9606]} Length = 169

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: ADP-ribosylation factor
species: Human (Homo sapiens), ARL1 [TaxId: 9606]

 Score = 77.4 bits (189), Expect = 1e-18
 Identities = 32/161 (19%), Positives = 56/161 (34%), Gaps = 9/161 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           ++G    GK+ +L R    E       T           + +KN+K Q+WD  G    R 
Sbjct: 10  ILGLDGAGKTTILYRLQVGEVV-----TTIPTIGFNVETVTYKNLKFQVWDLGGLTSIRP 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLE---TL 116
               YY      + V D   R         L  +      +  I+++  NK D+E   T 
Sbjct: 65  YWRCYYSNTDAVIYVVDSCDRDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMTS 124

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
             +         +       +TSA + T ++ A   ++  +
Sbjct: 125 SEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETL 165

>d1zcba2 c.37.1.8 (A:47-75,A:202-372) Transducin (alpha subunit) {Mouse (Mus musculus) [TaxId: 10090]} Length = 200

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 76.9 bits (188), Expect = 3e-18
 Identities = 35/197 (17%), Positives = 54/197 (27%), Gaps = 45/197 (22%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GKS  L +            T G+           KNV  ++ D  GQ   R 
Sbjct: 7   LLGAGESGKSTFLKQM---RIIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQRSERK 59

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-----------LRGHADKNIIIMLVGN 109
                +      + +   ++        R               +      N+ I+L  N
Sbjct: 60  RWFECFDSVTSILFLVSSSEFDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLN 119

Query: 110 KSDLETLRAVPTEDAKEFAEKEG---------------------------LCFMETSALE 142
           K+DL   +         F E EG                           L    T+A+ 
Sbjct: 120 KTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAIN 179

Query: 143 STNVELAFLTVLTEIYR 159
           + N+ L F  V   I  
Sbjct: 180 TENIRLVFRDVKDTILH 196

>d1svsa1 c.37.1.8 (A:32-60,A:182-347) Transducin (alpha subunit) {Rat (Rattus norvegicus) [TaxId: 10116]} Length = 195

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Rat (Rattus norvegicus) [TaxId: 10116]

 Score = 76.9 bits (188), Expect = 3e-18
 Identities = 27/196 (13%), Positives = 53/196 (27%), Gaps = 46/196 (23%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GKS ++ +      +       G+           K++  +++D  GQ   R 
Sbjct: 7   LLGAGESGKSTIVKQMKIIHEA-----GTGI----VETHFTFKDLHFKMFDVGGQRSERK 57

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVAR-----------WLEELRGHADKNIIIMLVGN 109
                + G    +    ++                     +          +  I+L  N
Sbjct: 58  KWIHCFEGVTAIIFCVALSDYDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLN 117

Query: 110 KSDLETLRAVPTEDAKEFAEKEG--------------------------LCFMETSALES 143
           K DL   +   +     + E  G                          +    T A ++
Sbjct: 118 KKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDT 177

Query: 144 TNVELAFLTVLTEIYR 159
            NV+  F  V   I +
Sbjct: 178 KNVQFVFDAVTDVIIK 193

>d2fh5b1 c.37.1.8 (B:63-269) Signal recognition particle receptor beta-subunit {Mouse (Mus musculus) [TaxId: 10090]} Length = 207

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 75.1 bits (183), Expect = 2e-17
 Identities = 24/151 (15%), Positives = 54/151 (35%), Gaps = 7/151 (4%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G    GK+ L  R    ++  D++ +I        +  +  N    I     +     
Sbjct: 5   FVGLCDSGKTLLFVRLLTGQYR-DTQTSITDSSAIYKVNNNRGNSLTLIDLPGHESLRFQ 63

Query: 61  VTSAYYRGAVGAMLVYDITKRQSF-DNVARWLEELRGHAD---KNIIIMLVGNKSDLETL 116
           +   +   A   + V D    Q    +VA +L ++   +     +  +++  NK D+   
Sbjct: 64  LLDRFKSSARAVVFVVDSAAFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM- 122

Query: 117 RAVPTEDAKEFAEKEGLCFMETSALESTNVE 147
            A   +  ++  EKE      T +   + ++
Sbjct: 123 -AKSAKLIQQQLEKELNTLRVTRSAAPSTLD 152

>d1azta2 c.37.1.8 (A:35-65,A:202-391) Transducin (alpha subunit) {Cow (Bos taurus) [TaxId: 9913]} Length = 221

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Transducin (alpha subunit)
species: Cow (Bos taurus) [TaxId: 9913]

 Score = 70.9 bits (173), Expect = 7e-16
 Identities = 28/180 (15%), Positives = 46/180 (25%), Gaps = 24/180 (13%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           L+G    GKS ++ +            T G+             V   ++D  GQ   R 
Sbjct: 11  LLGAGESGKSTIVKQMRILHVV----LTSGIFETK----FQVDKVNFHMFDVGGQRDERR 62

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEE-----------LRGHADKNIIIMLVGN 109
                +      + V   +                               + I ++L  N
Sbjct: 63  KWIQCFNDVTAIIFVVASSSYNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLN 122

Query: 110 KSDLETLRAVPTEDA-----KEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK 164
           K DL   + +  +        EFA             E   V  A   +  E  RI +  
Sbjct: 123 KQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTAS 182

>d1f6ba_ c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus griseus) [TaxId: 10029]} Length = 186

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: SAR1
species: Chinese hamster (Cricetulus griseus) [TaxId: 10029]

 Score = 66.3 bits (160), Expect = 2e-14
 Identities = 25/173 (14%), Positives = 45/173 (26%), Gaps = 21/173 (12%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
            +G    GK+ LL     D                 +  +    +    +D  G  + R 
Sbjct: 18  FLGLDNAGKTTLLHMLKDDRLG-----QHVPTLHPTSEELTIAGMTFTTFDLGGHIQARR 72

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWL-EELRGHADKNIIIMLVGNKSDLETLRAV 119
           V   Y     G + + D    +        L   +      N+ I+++GNK D     + 
Sbjct: 73  VWKNYLPAINGIVFLVDCADHERLLESKEELDSLMTDETIANVPILILGNKIDRPEAISE 132

Query: 120 ---------------PTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI 157
                              + +      L     S L+       F  +   I
Sbjct: 133 ERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

>d1nrjb_ c.37.1.8 (B:) Signal recognition particle receptor beta-subunit {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]} Length = 209

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Signal recognition particle receptor beta-subunit
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

 Score = 57.7 bits (138), Expect = 4e-11
 Identities = 31/184 (16%), Positives = 54/184 (29%), Gaps = 27/184 (14%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G    GK+ LL     D      + T+  +         +      + D  G  + R 
Sbjct: 8   IAGPQNSGKTSLLTLLTTDSV----RPTVVSQEPLS--AADYDGSGVTLVDFPGHVKLRY 61

Query: 61  VTSAYYRGAVGA-----MLVYDITKRQSFDNVARWLEELRGH----ADKNIIIMLVGNKS 111
             S Y +           +V      +     A +L ++        +  I I++  NKS
Sbjct: 62  KLSDYLKTRAKFVKGLIFMVDSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKS 121

Query: 112 DLETLRAVPTEDAKEFAEKE----------GLCFMETSALESTNVELAFLTVLTEIYRIV 161
           +L T  A P    K+  E E           L  +E    E    E     + +      
Sbjct: 122 ELFT--ARPPSKIKDALESEIQKVIERRKKSLNEVERKINEEDYAENTLDVLQSTDGFKF 179

Query: 162 SKKA 165
           +   
Sbjct: 180 ANLE 183

>d2gj8a1 c.37.1.8 (A:216-376) Probable tRNA modification GTPase TrmE (MnmE), G domain {Escherichia coli [TaxId: 562]} Length = 161

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable tRNA modification GTPase TrmE (MnmE), G domain
species: Escherichia coli [TaxId: 562]

 Score = 46.3 bits (108), Expect = 3e-07
 Identities = 25/147 (17%), Positives = 40/147 (27%), Gaps = 1/147 (0%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA 60
           + G    GKS LL   A  E ++ +    G         IH   +   I DTAG      
Sbjct: 6   IAGRPNAGKSSLLNALAGREAAIVTD-IAGTTRDVLREHIHIDGMPLHIIDTAGLREASD 64

Query: 61  VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP 120
                        +          D       +      + I  +       +   +A  
Sbjct: 65  EVERIGIERAWQEIEQADRVLFMVDGTTTDAVDPAEIWPEFIARLPAKLPITVVRNKADI 124

Query: 121 TEDAKEFAEKEGLCFMETSALESTNVE 147
           T +    +E  G   +  SA     V+
Sbjct: 125 TGETLGMSEVNGHALIRLSARTGEGVD 151

>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 = 42.7 bits (99), Expect = 6e-06
 Identities = 27/155 (17%), Positives = 42/155 (27%), Gaps = 11/155 (7%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAG------ 54
           L+G    GKS LLA   R    +       +      +V   +  +  + D  G      
Sbjct: 6   LVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLS-PNLGVVEVSEEERFTLADIPGIIEGAS 64

Query: 55  -QERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIML-VGNKSD 112
             +        +       + V D              E             L   NK D
Sbjct: 65  EGKGLGLEFLRHIARTRVLLYVLDAADEPLKTLETLRKEVGAYDPALLRRPSLVALNKVD 124

Query: 113 LETLRAVPTEDAKEFAEKEGLCFMETSALESTNVE 147
           L  L     +   +   +EGL  +  SAL    + 
Sbjct: 125 L--LEEEAVKALADALAREGLAVLPVSALTGAGLP 157

>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 = 38.6 bits (89), Expect = 3e-04
 Identities = 19/137 (13%), Positives = 36/137 (26%), Gaps = 8/137 (5%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQI--WDTAGQERY 58
           + G++  GKS  +          +  A  GV   T     +       +  WD  G    
Sbjct: 61  VTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHPNIPNVVFWDLPGIGST 120

Query: 59  RAVTSAYYR--GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL 116
                 Y              I+  +   N     + +            V  K D   +
Sbjct: 121 NFPPDTYLEKMKFYEYDFFIIISATRFKKNDIDIAKAIS---MMKKEFYFVRTKVD-SDI 176

Query: 117 RAVPTEDAKEFAEKEGL 133
                 + + F +++ L
Sbjct: 177 TNEADGEPQTFDKEKVL 193

>d1k9xa_ d.92.1.5 (A:) Thermostable carboxypeptidase 1 {Archaeon Pyrococcus furiosus [TaxId: 2261]} Length = 497

class: Alpha and beta proteins (a+b)
fold: Zincin-like
superfamily: Metalloproteases ("zincins"), catalytic domain
family: Neurolysin-like
domain: Thermostable carboxypeptidase 1
species: Archaeon Pyrococcus furiosus [TaxId: 2261]

 Score = 37.6 bits (87), Expect = 7e-04
 Identities = 18/122 (14%), Positives = 35/122 (28%), Gaps = 13/122 (10%)

Query: 50  WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD------KNII 103
           WD    E          R      L     +          +E+ +G  +        + 
Sbjct: 30  WD---LEVNMPKEGILERSVAQGELSVLSHELLLHPEFVNLVEKAKGLENLNEYERGIVR 86

Query: 104 IMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSK 163
           ++       +   RA P E  +E +E   L        ++ +    F   L +I  +  +
Sbjct: 87  VL----DRSIRIARAFPPEFIREVSETTSLATKAWEEAKAKDDFSKFEPWLDKIISLAKR 142

Query: 164 KA 165
            A
Sbjct: 143 AA 144

>d1puia_ c.37.1.8 (A:) Probable GTPase EngB {Escherichia coli [TaxId: 562]} Length = 188

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Probable GTPase EngB
species: Escherichia coli [TaxId: 562]

 Score = 35.1 bits (79), Expect = 0.003
 Identities = 17/157 (10%), Positives = 39/157 (24%), Gaps = 10/157 (6%)

Query: 1   LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ----- 55
             G S  GKS  L      +    +  T G         +        +           
Sbjct: 21  FAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEE 80

Query: 56  --ERYRAVTSAYYRGAVGAMLVYDITKRQSF--DNVARWLEELRGHADKNIIIMLVGNKS 111
              +++     Y         +  +   +    D   + +E         ++++   +K 
Sbjct: 81  MKRKWQRALGEYLEKRQSLQGLVVLMDIRHPLKDLDQQMIEWAVDSNIAVLVLLTKADKL 140

Query: 112 DLETLRAVPTEDAKEFAEKEGLC-FMETSALESTNVE 147
                +A      +      G       S+L+   V+
Sbjct: 141 ASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVD 177

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	206
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	100.0
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	100.0
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	100.0
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	100.0
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	100.0
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	100.0
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	100.0
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	100.0
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	100.0
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	100.0
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	100.0
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	100.0
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	100.0
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.98
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.97
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.97
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	99.96
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.95
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.95
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	99.94
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	99.92
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.91
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	99.9
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.9
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.9
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	99.9
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	99.9
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	99.89
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	99.88
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	99.87
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	99.87
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	99.86
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	99.86
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	99.85
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	99.84
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	99.84
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	99.84
d2fh5b1	207	Signal recognition particle receptor beta-subunit	99.83
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	99.82
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	99.8
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	99.78
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.78
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	99.77
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	99.75
d2c78a3	204	Elongation factor Tu (EF-Tu), N-terminal (G) domai	99.7
d2bv3a2	276	Elongation factor G (EF-G), N-terminal (G) domain	99.69
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	99.67
d1nrjb_	209	Signal recognition particle receptor beta-subunit	99.67
d2dy1a2	267	Elongation factor G (EF-G), N-terminal (G) domain	99.65
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	99.61
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	99.54
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	99.54
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	99.53
d1tq4a_	400	Interferon-inducible GTPase {Mouse (Mus musculus)	99.47
d1n0ua2	341	Elongation factor 2 (eEF-2), N-terminal (G) domain	99.43
d1h65a_	257	Chloroplast protein translocon GTPase Toc34 {Garde	99.43
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	99.34
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	99.28
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	99.23
d1jala1	278	YchF GTP-binding protein N-terminal domain {Haemop	99.13
d1ni3a1	296	YchF GTP-binding protein N-terminal domain {Fissio	99.07
d2akab1	299	Dynamin G domain {Rat (Rattus norvegicus) [TaxId:	99.01
d1jwyb_	306	Dynamin G domain {Dictyostelium discoideum [TaxId:	98.85
d1wxqa1	319	GTP-binding protein PH0525 {Pyrococcus horikoshii	98.82
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.49
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.43
d2qy9a2	211	GTPase domain of the signal recognition particle r	98.42
d1okkd2	207	GTPase domain of the signal recognition particle r	98.39
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	98.37
d1j8yf2	211	GTPase domain of the signal sequence recognition p	98.31
d1vmaa2	213	GTPase domain of the signal recognition particle r	98.31
d1ls1a2	207	GTPase domain of the signal sequence recognition p	98.29
d1nija1	222	Hypothetical protein YjiA, N-terminal domain {Esch	98.29
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.27
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	98.19
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	98.18
d1ye8a1	178	Hypothetical kinase-like protein Aq_1292 {Aquifex	98.1
d1np6a_	170	Molybdopterin-guanine dinucleotide biosynthesis pr	97.3
d1ly1a_	152	Polynucleotide kinase, kinase domain {Bacteriophag	97.1
d1lw7a2	192	Transcriptional regulator NadR, ribosylnicotinamid	97.09
d1xjca_	165	Molybdopterin-guanine dinucleotide biosynthesis pr	97.06
d1f5na2	277	Interferon-induced guanylate-binding protein 1 (GB	97.04
d1rkba_	173	Adenylate kinase {Human (Homo sapiens), isoenzyme	97.01
d2bdta1	176	Hypothetical protein BH3686 {Bacillus halodurans [	96.89
d1htwa_	158	Hypothetical protein HI0065 {Haemophilus influenza	96.79
d1bifa1	213	6-phosphofructo-2-kinase/fructose-2,6-bisphosphata	96.76
d1g6oa_	323	Hexameric traffic ATPase, HP0525 {Helicobacter pyl	96.76
d1yj5a2	172	5' polynucleotide kinase-3' phosphatase, C-termina	96.74
d2i3ba1	189	Cancer-related NTPase, C1orf57 {Human (Homo sapien	96.73
d1y63a_	174	Probable kinase LmjF30.1890 {Leishmania major [Tax	96.71
d1kgda_	178	Guanylate kinase-like domain of Cask {Human (Homo	96.65
d1kaga_	169	Shikimate kinase (AroK) {Escherichia coli [TaxId:	96.62
d1sgwa_	200	Putative ABC transporter PF0895 {Pyrococcus furios	96.62
d1l7vc_	231	ABC transporter involved in vitamin B12 uptake, Bt	96.57
d1qf9a_	194	UMP/CMP kinase {Dictyostelium discoideum [TaxId: 4	96.54
d1knqa_	171	Gluconate kinase {Escherichia coli [TaxId: 562]}	96.53
d1m8pa3	183	ATP sulfurylase C-terminal domain {Fungus (Penicil	96.49
d2awna2	232	Maltose transport protein MalK, N-terminal domain	96.47
d1zina1	182	Adenylate kinase {Bacillus stearothermophilus [Tax	96.46
d1khta_	190	Adenylate kinase {Archaeon Methanococcus voltae [T	96.43
d1l2ta_	230	MJ0796 {Archaeon Methanococcus jannaschii [TaxId:	96.43
d1zp6a1	176	Hypothetical protein Atu3015 {Agrobacterium tumefa	96.41
d2onka1	240	Molybdate/tungstate import ATP-binding protein Wtp	96.4
d1vpla_	238	Putative ABC transporter TM0544 {Thermotoga mariti	96.4
d1zaka1	189	Adenylate kinase {Maize (Zea mays) [TaxId: 4577]}	96.4
d1ji0a_	240	Branched chain aminoacid ABC transporter {Thermoto	96.36
d1s3ga1	182	Adenylate kinase {Bacillus globisporus [TaxId: 145	96.36
d1v43a3	239	Hypothetical protein PH0022, N-terminal domain {Py	96.35
d2cdna1	181	Adenylate kinase {Mycobacterium tuberculosis [TaxI	96.34
d1ixsb2	239	Holliday junction helicase RuvB {Thermus thermophi	96.31
d1in4a2	238	Holliday junction helicase RuvB {Thermotoga mariti	96.31
d2pmka1	241	Haemolysin B ATP-binding protein {Escherichia coli	96.31
d1gvnb_	273	Plasmid maintenance system epsilon/zeta, toxin zet	96.3
d1znwa1	182	Guanylate kinase {Mycobacterium tuberculosis [TaxI	96.29
d1ukza_	196	Uridylate kinase {Baker's yeast (Saccharomyces cer	96.28
d2ak3a1	189	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.28
d1g2912	240	Maltose transport protein MalK, N-terminal domain	96.28
d1w5sa2	287	CDC6-like protein APE0152, N-terminal domain {Aero	96.26
d1qhxa_	178	Chloramphenicol phosphotransferase {Streptomyces v	96.24
d1mv5a_	242	Multidrug resistance ABC transporter LmrA, C-termi	96.23
d1gkya_	186	Guanylate kinase {Baker's yeast (Saccharomyces cer	96.22
d1ak2a1	190	Adenylate kinase {Cow (Bos taurus), mitochondrial	96.21
d1viaa_	161	Shikimate kinase (AroK) {Campylobacter jejuni [Tax	96.19
d3dhwc1	240	Methionine import ATP-binding protein MetN {Escher	96.19
d1akya1	180	Adenylate kinase {Baker's yeast (Saccharomyces cer	96.18
d3d31a2	229	Sulfate/molybdate ABC transporter, ATP-binding pro	96.17
d2iyva1	165	Shikimate kinase (AroK) {Mycobacterium tuberculosi	96.17
d1e4va1	179	Adenylate kinase {Escherichia coli [TaxId: 562]}	96.17
d1jj7a_	251	Peptide transporter Tap1, C-terminal ABC domain {H	96.15
d1g6ha_	254	MJ1267 {Archaeon Methanococcus jannaschii [TaxId:	96.13
d1e6ca_	170	Shikimate kinase (AroK) {Erwinia chrysanthemi [Tax	96.12
d3adka_	194	Adenylate kinase {Pig (Sus scrofa) [TaxId: 9823]}	96.12
d1r0wa_	281	Cystic fibrosis transmembrane conductance regulato	96.12
d3b60a1	253	Multidrug resistance ABC transporter MsbA, C-termi	96.1
d1x6va3	195	Adenosine-5'phosphosulfate kinase (APS kinase) {Hu	96.07
d1teva_	194	UMP/CMP kinase {Human (Homo sapiens) [TaxId: 9606]	96.07
d1rz3a_	198	Hypothetical protein rbstp0775 {Bacillus stearothe	96.05
d1s96a_	205	Guanylate kinase {Escherichia coli [TaxId: 562]}	96.04
d1b0ua_	258	ATP-binding subunit of the histidine permease {Sal	95.95
d1lvga_	190	Guanylate kinase {Mouse (Mus musculus) [TaxId: 100	95.93
d1nksa_	194	Adenylate kinase {Archaeon Sulfolobus acidocaldari	95.9
g1f2t.1	292	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	95.84
d1sxja2	253	Replication factor C1 {Baker's yeast (Saccharomyce	95.83
d1iqpa2	231	Replication factor C {Archaeon Pyrococcus furiosus	95.83
d1fnna2	276	CDC6, N-domain {Archaeon Pyrobaculum aerophilum [T	95.73
d1jbka_	195	ClpB, AAA+ modules {Escherichia coli [TaxId: 562]}	95.69
d1oxxk2	242	Glucose transport protein GlcV, N-terminal domain	95.69
d1ofha_	309	HslU {Haemophilus influenzae [TaxId: 727]}	95.62
d1qhla_	222	Cell division protein MukB {Escherichia coli [TaxI	95.58
d1m7ga_	208	Adenosine-5'phosphosulfate kinase (APS kinase) {Fu	95.56
d2hyda1	255	Putative multidrug export ATP-binding/permease pro	95.54
d1d2na_	246	Hexamerization domain of N-ethylmalemide-sensitive	95.48
d1sxjd2	237	Replication factor C2 {Baker's yeast (Saccharomyce	95.44
d1r6bx2	268	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	95.4
d1sxjb2	224	Replication factor C4 {Baker's yeast (Saccharomyce	95.31
d1uj2a_	213	Uridine-cytidine kinase 2 {Human (Homo sapiens) [T	95.28
d1sxje2	252	Replication factor C5 {Baker's yeast (Saccharomyce	95.27
d1sxjc2	227	Replication factor C3 {Baker's yeast (Saccharomyce	95.23
d2fnaa2	283	Archaeal ATPase SSO1545 {Sulfolobus solfataricus [	95.2
d1ixza_	247	AAA domain of cell division protein FtsH {Thermus	95.07
d1e32a2	258	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.89
d1lv7a_	256	AAA domain of cell division protein FtsH {Escheric	94.88
d1ckea_	225	CMP kinase {Escherichia coli [TaxId: 562]}	94.85
d1uf9a_	191	Dephospho-CoA kinase {Thermus thermophilus [TaxId:	94.78
d1n0wa_	242	DNA repair protein Rad51, catalytic domain {Human	94.73
d1q3ta_	223	CMP kinase {Streptococcus pneumoniae [TaxId: 1313]	94.65
g1ii8.1	369	Rad50 {Archaeon Pyrococcus furiosus [TaxId: 2261]}	94.58
d1r7ra3	265	Membrane fusion ATPase VCP/p97 {Mouse (Mus musculu	94.47
g1xew.1	329	Smc head domain {Pyrococcus furiosus [TaxId: 2261]	94.42
d2vp4a1	197	Deoxyribonucleoside kinase {Fruit fly (Drosophila	94.41
d1qvra2	387	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	94.15
d1szpa2	251	DNA repair protein Rad51, catalytic domain {Baker'	94.13
d2a5yb3	277	CED-4, NB-ARC domain {Caenorhabditis elegans [TaxI	94.12
d1l8qa2	213	Chromosomal replication initiation factor DnaA {Aq	94.05
d1gsia_	208	Thymidylate kinase {Mycobacterium tuberculosis [Ta	94.02
d1svma_	362	Papillomavirus large T antigen helicase domain {Si	93.96
d1e69a_	308	Smc head domain {Thermotoga maritima [TaxId: 2336]	93.87
d1sq5a_	308	Pantothenate kinase PanK {Escherichia coli [TaxId:	93.78
d1pzna2	254	DNA repair protein Rad51, catalytic domain {Archae	93.71
d1g3qa_	237	Cell division regulator MinD {Archaeon Pyrococcus	93.7
d1w1wa_	427	Smc head domain {Baker's yeast (Saccharomyces cere	93.67
d1vhta_	208	Dephospho-CoA kinase {Escherichia coli [TaxId: 562	93.62
d1odfa_	286	Hypothetical protein Ygr205W {Baker's yeast (Sacch	93.56
d1g8pa_	333	ATPase subunit of magnesium chelatase, BchI {Rhodo	93.38
d4tmka_	210	Thymidylate kinase {Escherichia coli [TaxId: 562]}	93.38
d1g41a_	443	HslU {Haemophilus influenzae [TaxId: 727]}	93.34
d1tf7a2	242	Circadian clock protein KaiC {Synechococcus sp. st	93.23
d1jjva_	205	Dephospho-CoA kinase {Haemophilus influenzae [TaxI	93.06
d1r6bx3	315	ClpA, an Hsp100 chaperone, AAA+ modules {Escherich	93.05
d1p9ra_	401	Extracellular secretion NTPase EpsE {Vibrio choler	92.93
d2i1qa2	258	DNA repair protein Rad51, catalytic domain {Archae	92.9
d1kkma_	176	HPr kinase HprK C-terminal domain {Lactobacillus c	92.79
d1w44a_	321	NTPase P4 {Bacteriophage phi-12 [TaxId: 161736]}	92.7
d1knxa2	177	HPr kinase HprK C-terminal domain {Mycoplasma pneu	92.67
d2ocpa1	241	Deoxyguanosine kinase {Human (Homo sapiens) [TaxId	92.52
d1xp8a1	268	RecA protein, ATPase-domain {Deinococcus radiodura	92.52
d1v5wa_	258	Meiotic recombination protein DMC1/LIM15 homolog {	92.5
d1uaaa1	306	DEXX box DNA helicase {Escherichia coli, RepD [Tax	92.37
d1nn5a_	209	Thymidylate kinase {Human (Homo sapiens) [TaxId: 9	92.34
d1p5zb_	241	Deoxycytidine kinase {Human (Homo sapiens) [TaxId:	92.33
d1tf7a1	242	Circadian clock protein KaiC {Synechococcus sp. st	92.31
d1a5ta2	207	delta prime subunit of DNA polymerase III, N-domai	92.27
d1njfa_	239	delta prime subunit of DNA polymerase III, N-domai	92.09
d1um8a_	364	ClpX {Helicobacter pylori [TaxId: 210]}	92.06
d1cp2a_	269	Nitrogenase iron protein {Clostridium pasteurianum	91.85
d1a7ja_	288	Phosphoribulokinase {Rhodobacter sphaeroides [TaxI	91.76
d1ko7a2	169	HPr kinase HprK C-terminal domain {Staphylococcus	91.64
d1tuea_	205	Replication protein E1 helicase domain {Human papi	91.33
d1cr2a_	277	Gene 4 protein (g4p, DNA primase), helicase domain	91.15
d1nlfa_	274	Hexameric replicative helicase repA {Escherichia c	90.93
d1pjra1	318	DEXX box DNA helicase {Bacillus stearothermophilus	90.66
d1p6xa_	333	Thymidine kinase {Equine herpesvirus type 4 [TaxId	90.31
d1tmka_	214	Thymidylate kinase {Baker's yeast (Saccharomyces c	90.3
d1w36d1	359	Exodeoxyribonuclease V alpha chain (RecD) {Escheri	90.11
d1e9ra_	433	Bacterial conjugative coupling protein TrwB {Esche	89.61
d1e2ka_	329	Thymidine kinase {Herpes simplex virus type 1, dif	89.51
d1qvra3	315	ClpB, AAA+ modules {Thermus thermophilus [TaxId: 2	89.48
d1u0ja_	267	Rep 40 protein helicase domain {Adeno-associated v	89.25
d1osna_	331	Thymidine kinase {Varicella-zoster virus [TaxId: 1	88.7
d1u94a1	263	RecA protein, ATPase-domain {Escherichia coli [Tax	88.23
d1hyqa_	232	Cell division regulator MinD {Archaeon Archaeoglob	88.06
d2afhe1	289	Nitrogenase iron protein {Azotobacter vinelandii [	88.02
d1deka_	241	Deoxynucleoside monophosphate kinase {Bacteriophag	88.01
d1zpda1	175	Pyruvate decarboxylase {Zymomonas mobilis [TaxId:	86.15
d1xpua3	289	Transcription termination factor Rho, ATPase domai	84.04
d2olra1	313	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	83.72
d1j3ba1	318	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.54
d1ii2a1	323	Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxalo	82.29
d1a1va1	136	HCV helicase domain {Human hepatitis C virus (HCV)	81.66
d2b8ta1	139	Thymidine kinase, TK1, N-terminal domain {Ureaplas	81.65
d1mo6a1	269	RecA protein, ATPase-domain {Mycobacterium tubercu	81.19
d1wb9a2	234	DNA repair protein MutS, the C-terminal domain {Es	80.85
d1g8fa3	122	ATP sulfurylase C-terminal domain {Baker's yeast (	80.01

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=6.2e-36  Score=210.53  Aligned_cols=159  Identities=43%  Similarity=0.757  Sum_probs=148.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+.+.....+......+.+.+|||||++.+..++..+++.+|++|+|||+++
T Consensus        10 vvG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~wDt~G~e~~~~~~~~~~~~ad~~ilv~d~~~   89 (169)
T d3raba_          10 IIGNSSVGKTSFLFRYADDSFTPAFVSTVGIDFKVKTIYRNDKRIKLQIWDTAGQERYRTITTAYYRGAMGFILMYDITN   89 (169)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTTTTCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHcCCCCcccccccccceeeEEEEeecceEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECcc
Confidence            58999999999999999999998999998888888888888899999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+........|+++++||+|+...+.+..++++.+++.+++++++|||++|.||+++|+++++.+++
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_          90 EESFNAVQDWSTQIKTYSWDNAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             HHHHHTHHHHHHHHHHHCCSCCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             chhhhhhhhhhhhhhcccCCcceEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            9999999988887776666789999999999998878889999999999999999999999999999999999998764

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=3.1e-36  Score=211.12  Aligned_cols=158  Identities=36%  Similarity=0.624  Sum_probs=147.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.+|.+.+........++..+.+.+||++|++.+..++..+++.+|++++|||+++
T Consensus         7 liG~~~vGKSsLi~rl~~~~~~~~~~~ti~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (164)
T d1z2aa1           7 VVGNGAVGKSSMIQRYCKGIFTKDYKKTIGVDFLERQIQVNDEDVRLMLWDTAGQEEFDAITKAYYRGAQACVLVFSTTD   86 (164)
T ss_dssp             EECSTTSSHHHHHHHHHHCCCCCCSSCCCSSSEEEEEEEETTEEEEEEEECCTTGGGTTCCCHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccccccccceeeeeecCceeeeeeeccCCccchhhhhhhhhccCceEEEEEeccc
Confidence            58999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+.... .++|+++|+||+|+...+.+..++++.++++++++++++||++|.||+++|+.|++.+++
T Consensus        87 ~~s~~~~~~~~~~i~~~~-~~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~lq  164 (164)
T d1z2aa1          87 RESFEAISSWREKVVAEV-GDIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  164 (164)
T ss_dssp             HHHHHTHHHHHHHHHHHH-CSCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             hhhhhhcccccccccccC-CCceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHhC
Confidence            999999999999987765 479999999999998878899999999999999999999999999999999999998763

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.2e-36  Score=210.04  Aligned_cols=161  Identities=45%  Similarity=0.723  Sum_probs=149.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+.++....+.+++..+.+.+|||+|++.+..++..++++++++++|+|+++
T Consensus        10 lvG~~~vGKTsLi~~l~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~~~~i~v~d~~~   89 (171)
T d2ew1a1          10 LIGNAGVGKTCLVRRFTQGLFPPGQGATIGVDFMIKTVEINGEKVKLQIWDTAGQERFRSITQSYYRSANALILTYDITC   89 (171)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHGGGSTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCcccccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhccceEEEeeeccc
Confidence            58999999999999999999998888888888888889999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+........|+++|+||+|+...+.+..+++..+++.+++++++|||++|.||+++|.++++.++..
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1          90 EESFRCLPEWLREIEQYASNKVITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             chhhhhhhhhhhhhcccccccccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            99999999999888776667899999999999987788899999999999999999999999999999999999888765


Q ss_pred             h
Q 040835          161 V  161 (206)
Q Consensus       161 ~  161 (206)
                      .
T Consensus       170 ~  170 (171)
T d2ew1a1         170 A  170 (171)
T ss_dssp             H
T ss_pred             c
Confidence            3

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-35  Score=208.48  Aligned_cols=161  Identities=26%  Similarity=0.320  Sum_probs=129.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+... .++ ....+...+.+++..+.+.+||++|++.+..++..+++.+|++|+|||+++
T Consensus         6 lvG~~~vGKTsLi~~~~~~~~~~~-~~~-~~~~~~~~i~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~~d~~ilv~d~t~   83 (168)
T d2gjsa1           6 LLGAPGVGKSALARIFGGVEDGPE-AEA-AGHTYDRSIVVDGEEASLMVYDIWEQDGGRWLPGHCMAMGDAYVIVYSVTD   83 (168)
T ss_dssp             EECCTTSSHHHHHHHHHTC-----------CEEEEEEEEETTEEEEEEEEECC-------CHHHHHTSCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHhCCccCCc-CCe-eeeeecceeeccccccceeeeecccccccceecccchhhhhhhceeccccc
Confidence            589999999999999998876443 333 334445667788999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+.... ...+|+++|+||+|+...+.+...+++.++..+++++++|||++|.||+++|..+++.+..
T Consensus        84 ~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~  163 (168)
T d2gjsa1          84 KGSFEKASELRVQLRRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRL  163 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHCC--CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             cccccccccccchhhcccccccceEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHH
Confidence            999999999999886654 4678999999999998878889999999999999999999999999999999999998876


Q ss_pred             Hhhh
Q 040835          160 IVSK  163 (206)
Q Consensus       160 ~~~~  163 (206)
                      ++..
T Consensus       164 ~~~~  167 (168)
T d2gjsa1         164 RRDS  167 (168)
T ss_dssp             HHHH
T ss_pred             HhhC
Confidence            6543

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=5.2e-35  Score=210.17  Aligned_cols=169  Identities=50%  Similarity=0.797  Sum_probs=155.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.++.+.+.....+.+++..+.+.+|||+|++.+..++..+++.++++|+|+|+++
T Consensus        11 vvG~~~vGKTsli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~a~~~i~v~d~t~   90 (194)
T d2bcgy1          11 LIGNSGVGKSCLLLRFSDDTYTNDYISTIGVDFKIKTVELDGKTVKLQIWDTAGQERFRTITSSYYRGSHGIIIVYDVTD   90 (194)
T ss_dssp             EEESTTSSHHHHHHHHHHCCCCTTCCCSSCCCEEEEEEEETTEEEEEEEECCTTTTTTTCCCGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHhhCCCCCCcCCccceeEEEEEEEEeeEEEEEEEEECCCchhhHHHHHHHhccCCEEEEEEeCcc
Confidence            68999999999999999999999999998888888888899999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|...+........|+++++||+|+...+.+..++...++...+++++++||++|.||+++|+.+++.+.+.
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~  170 (194)
T d2bcgy1          91 QESFNGVKMWLQEIDRYATSTVLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKES  170 (194)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             hhhhhhHhhhhhhhhhcccCCceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHH
Confidence            99999999988888776668899999999999988888999999999999999999999999999999999999999887


Q ss_pred             hhhhhcccC
Q 040835          161 VSKKALTAN  169 (206)
Q Consensus       161 ~~~~~~~~~  169 (206)
                      .........
T Consensus       171 ~~~~~~~~~  179 (194)
T d2bcgy1         171 MSQQNLNET  179 (194)
T ss_dssp             CCHHHHHTT
T ss_pred             hhhcccCcc
Confidence            766655433

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.7e-36  Score=209.99  Aligned_cols=159  Identities=41%  Similarity=0.682  Sum_probs=142.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+..........++..+.+.+||++|++.+..++..+++++|++|+|||+++
T Consensus         8 lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   87 (167)
T d1z08a1           8 LLGEGCVGKTSLVLRYCENKFNDKHITTLGASFLTKKLNIGGKRVNLAIWDTAGQERFHALGPIYYRDSNGAILVYDITD   87 (167)
T ss_dssp             EECCTTSCHHHHHHHHHHCCCCSSCCCCCSCEEEEEEEESSSCEEEEEEEECCCC-------CCSSTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccccccchheeeeccCCccceeeeeccCCcceecccchhhccCCceeEEEEeCCc
Confidence            58999999999999999999999999998888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+........|+++++||+|+...+.++.++++.+++++++++++|||++|.||+++|.+|++.+++
T Consensus        88 ~~Sf~~~~~~~~~~~~~~~~~~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1          88 EDSFQKVKNWVKELRKMLGNEICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHGGGSEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             hhHHHhhhhhhhhcccccccccceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            9999999999988776655678999999999998888899999999999999999999999999999999999998864

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.2e-35  Score=205.68  Aligned_cols=157  Identities=51%  Similarity=0.862  Sum_probs=147.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+.+........++..+.+.+||++|++.+..++..+++.+|++|+|+|+++
T Consensus         9 lvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   88 (166)
T d1z0fa1           9 IIGDMGVGKSCLLHQFTEKKFMADCPHTIGVEFGTRIIEVSGQKIKLQIWDTAGQERFRAVTRSYYRGAAGALMVYDITR   88 (166)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSSCTTSCCCCEEEEEEEETTEEEEEEEEECTTGGGTCHHHHHHHHTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCcccccccccceeEEEEECCEEEEEEEeccCCchhHHHHHHHHhcCCcEEEEEeccCc
Confidence            58999999999999999999999888888888888888899999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .+++..+..|+..+........|+++++||+|+...+....++++.+++.+++++++|||++|.||+++|..|++.+
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i  165 (166)
T d1z0fa1          89 RSTYNHLSSWLTDARNLTNPNTVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI  165 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHhhccccceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            99999999999888877778899999999999988788889999999999999999999999999999999999876

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6e-35  Score=206.37  Aligned_cols=163  Identities=48%  Similarity=0.781  Sum_probs=151.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|..+.+.+.+.++.+.+.....+..+.....+.+||++|++.+..++..+++.+|++|+|+|.++
T Consensus        10 lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (174)
T d2bmea1          10 VIGNAGTGKSCLLHQFIEKKFKDDSNHTIGVEFGSKIINVGGKYVKLQIWDTAGQERFRSVTRSYYRGAAGALLVYDITS   89 (174)
T ss_dssp             EEESTTSSHHHHHHHHHHSSCCTTCCCCSEEEEEEEEEEETTEEEEEEEEEECCSGGGHHHHHTTSTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccccccceeeEEEEecCcceeEEEEECCCchhhhhhHHHHhhhCCEEEEEEeccc
Confidence            58999999999999999999999999998888888888888999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+......++|+++++||+|+........++...+++.++++++++||++|+||+++|.++++.++++
T Consensus        90 ~~s~~~~~~~~~~~~~~~~~~~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~  169 (174)
T d2bmea1          90 RETYNALTNWLTDARMLASQNIVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNK  169 (174)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             chhHHHHhhhhcccccccCCceEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHH
Confidence            99999999999988877777899999999999987788889999999999999999999999999999999999998876


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ...
T Consensus       170 ~~~  172 (174)
T d2bmea1         170 IES  172 (174)
T ss_dssp             HHS
T ss_pred             Hhc
Confidence            543

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4e-35  Score=207.12  Aligned_cols=160  Identities=33%  Similarity=0.510  Sum_probs=145.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.++. .......+.+++..+.+.+||++|.+.+...+..+++.+|++|+|||+++
T Consensus        11 lvG~~~vGKTsLi~r~~~~~f~~~~~~t~-~~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   89 (173)
T d2fn4a1          11 VVGGGGVGKSALTIQFIQSYFVSDYDPTI-EDSYTKICSVDGIPARLDILDTAGQEEFGAMREQYMRAGHGFLLVFAIND   89 (173)
T ss_dssp             EEECTTSSHHHHHHHHHHSSCCSSCCTTC-CEEEEEEEEETTEEEEEEEEECCCTTTTSCCHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCccccccc-ccceeeEeccCCeeeeeeccccccccccccccchhhccceeeeeeccccc
Confidence            58999999999999999999988887774 45556778889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ..++|+++|+||+|+...+....+++..++...++++++|||++|.||+++|+.|++.+.+
T Consensus        90 ~~s~~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k  169 (173)
T d2fn4a1          90 RQSFNEVGKLFTQILRVKDRDDFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRK  169 (173)
T ss_dssp             HHHHHHHHHHHHHHHHHHTSSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             ccccchhhhhhHHHHHHhccCCCceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHH
Confidence            999999999998876543 4678999999999998778888999999999999999999999999999999999999876


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      .+
T Consensus       170 ~~  171 (173)
T d2fn4a1         170 YQ  171 (173)
T ss_dssp             HT
T ss_pred             Hh
Confidence            54

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.6e-34  Score=204.43  Aligned_cols=165  Identities=70%  Similarity=1.104  Sum_probs=149.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.++.+...+.++.+.......+..++..+.+.+||++|++.|...+..+++.+|++|+|||.++
T Consensus         9 vvG~~~vGKTsLi~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~e~~~~~~~~~~~~~~~~i~v~d~~~   88 (175)
T d2f9la1           9 LIGDSGVGKSNLLSRFTRNEFNLESKSTIGVEFATRSIQVDGKTIKAQIWDTAGQERYRRITSAYYRGAVGALLVYDIAK   88 (175)
T ss_dssp             EESSTTSSHHHHHHHHHHSCCCC---CCCSCEEEEEEEEETTEEEEEEEEECSSGGGTTCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCcccccccceeeeEEEEECCEEEEEEecccCCcHHHHHHHHHHhhccCeEEEEEECCC
Confidence            58999999999999999999998888888888888888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ++++..+..|+..+......++|+++|+||+|+...+....+....+....+.++++|||++|.|++++|.++++.+.+.
T Consensus        89 ~~S~~~~~~~~~~i~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~  168 (175)
T d2f9la1          89 HLTYENVERWLKELRDHADSNIVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRI  168 (175)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHhcCCCCcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHH
Confidence            99999999999998887777899999999999987777788888889999999999999999999999999999999877


Q ss_pred             hhhhh
Q 040835          161 VSKKA  165 (206)
Q Consensus       161 ~~~~~  165 (206)
                      ..++.
T Consensus       169 ~~~~q  173 (175)
T d2f9la1         169 VSQKQ  173 (175)
T ss_dssp             HHTSC
T ss_pred             hhhcc
Confidence            66543

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6.6e-35  Score=204.26  Aligned_cols=157  Identities=39%  Similarity=0.726  Sum_probs=146.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.++.+...+.++.+..........++..+.+.+||++|++.+...+..++..+|++++|+|+++
T Consensus         5 vvG~~~vGKTsLi~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   84 (164)
T d1yzqa1           5 FLGEQSVGKTSLITRFMYDSFDNTYQATIGIDFLSKTMYLEDRTIRLQLWDTAGQERFRSLIPSYIRDSAAAVVVYDITN   84 (164)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEECSSCEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccccceeeeccceeeccCCCceeeeecccCCcchhccchHHHhhccceEEEeecccc
Confidence            58999999999999999999999999998888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+......++|+++|+||+|+...+....+++..+++.+++++++|||++|.||+++|.+|++.+
T Consensus        85 ~~s~~~i~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l  161 (164)
T d1yzqa1          85 VNSFQQTTKWIDDVRTERGSDVIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL  161 (164)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHS
T ss_pred             ccchhhhHhhHHHHHHhcCCCceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhh
Confidence            99999999999888776667899999999999987788889999999999999999999999999999999998865

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.6e-34  Score=202.94  Aligned_cols=157  Identities=42%  Similarity=0.738  Sum_probs=148.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|..+.+.+.+.++.+..........+.....+.+||++|++.+..++..+++.+|++|+|||+++
T Consensus         9 lvG~~~vGKTsli~rl~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~v~d~~~   88 (167)
T d1z0ja1           9 LLGDTGVGKSSIMWRFVEDSFDPNINPTIGASFMTKTVQYQNELHKFLIWDTAGLERFRALAPMYYRGSAAAIIVYDITK   88 (167)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGTHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccccccccccccccccccccceeeeecCCchhhhHHHHHHHhhccceEEEeeech
Confidence            58999999999999999999999999998888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+........|+++|+||+|+...+.+..++++.++..+++++++|||++|.||+++|.+|++.+
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1          89 EETFSTLKNWVRELRQHGPPSIVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTSEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             hhhhhhHHHhhhhhhhccCCcceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            99999999999888877778899999999999988888999999999999999999999999999999999998875

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.5e-34  Score=204.13  Aligned_cols=163  Identities=52%  Similarity=0.875  Sum_probs=147.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+.+.+.++.+..............+.+.+||++|++.+..++..++..+|++|+|+|+++
T Consensus         8 vvG~~~vGKTsli~r~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   87 (173)
T d2a5ja1           8 IIGDTGVGKSCLLLQFTDKRFQPVHDLTIGVEFGARMVNIDGKQIKLQIWDTAGQESFRSITRSYYRGAAGALLVYDITR   87 (173)
T ss_dssp             EESSTTSSHHHHHHHHHHSCCCC-----CCSSEEEEEEEETTEEEEEEEECCTTGGGTSCCCHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHhcCCCCCCcccceeeccceeeeeeeeeEEEEEeecccCccchhhHHHHHhhccCEEEEEEeecC
Confidence            68999999999999999999999888888888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +++++.+..|+..+......++|+++|+||+|+...+....++...+++.++++++++||++|.||+++|..+++.++++
T Consensus        88 ~~sf~~~~~~~~~~~~~~~~~~piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~  167 (173)
T d2a5ja1          88 RETFNHLTSWLEDARQHSSSNMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRK  167 (173)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             hHHHHhHHHHHHHHHHhCCCCCeEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            99999999999888877777899999999999987788899999999999999999999999999999999999998876


Q ss_pred             hhh
Q 040835          161 VSK  163 (206)
Q Consensus       161 ~~~  163 (206)
                      ..+
T Consensus       168 ~~~  170 (173)
T d2a5ja1         168 IQQ  170 (173)
T ss_dssp             HHT
T ss_pred             HHc
Confidence            544

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=100.00  E-value=6.7e-35  Score=205.00  Aligned_cols=158  Identities=38%  Similarity=0.580  Sum_probs=141.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.+|.+..+ ...+.+++..+.+.+||++|.+.+..++..+++.+|++|+|||+++
T Consensus         9 lvG~~~vGKTsli~~~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (168)
T d1u8za_           9 MVGSGGVGKSALTLQFMYDEFVEDYEPTKADSY-RKKVVLDGEEVQIDILDTAGQEDYAAIRDNYFRSGEGFLCVFSITE   87 (168)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCSCCCTTCCEEE-EEEEEETTEEEEEEEEECCC---CHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccCCcccccc-ccccccccccccccccccccccchhhhhhhcccccceeEEEeeccc
Confidence            589999999999999999999888888877554 4567788999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+.+.. ..++|+++|+||+|+...+.+..++++.+++.+++++++|||++|.||+++|.+|++.+.+
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~~  167 (168)
T d1u8za_          88 MESFAATADFREQILRVKEDENVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRA  167 (168)
T ss_dssp             HHHHHHHHHHHHHHHHHHCCTTSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             hhhhhhHHHHHHHHHHhhCCCCCcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHHC
Confidence            999999999999887654 4679999999999998878899999999999999999999999999999999999988753

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=2.9e-34  Score=201.92  Aligned_cols=158  Identities=33%  Similarity=0.487  Sum_probs=143.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|+++.+.+.+.++.+.. ....+..++..+.+.+||++|.+.+...+..+++.+|++++|||+++
T Consensus         9 lvG~~~vGKTsll~~~~~~~~~~~~~~t~~~~-~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~llv~d~~d   87 (169)
T d1x1ra1           9 VVGDGGVGKSALTIQFFQKIFVPDYDPTIEDS-YLKHTEIDNQWAILDVLDTAGQEEFSAMREQYMRTGDGFLIVYSVTD   87 (169)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCCTTCCTTCCEE-EEEEEEETTEEEEEEEEECCSCGGGCSSHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccCcceeec-cccccccccccccccccccccccccccchhhhhhhccEEEEeccccc
Confidence            58999999999999999999988888886544 45667788999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCC-CHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|+..+.+.. ...+|+++++||+|+...+.++.+++.+++++++++++++||+++. ||+++|..|++.+.
T Consensus        88 ~~Sf~~~~~~~~~i~~~~~~~~~p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~  167 (169)
T d1x1ra1          88 KASFEHVDRFHQLILRVKDRESFPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIR  167 (169)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHH
T ss_pred             chhhhccchhhHHHHhhccccCccEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHH
Confidence            999999999999876653 4679999999999998888899999999999999999999999886 99999999999887


Q ss_pred             H
Q 040835          159 R  159 (206)
Q Consensus       159 ~  159 (206)
                      +
T Consensus       168 ~  168 (169)
T d1x1ra1         168 Q  168 (169)
T ss_dssp             H
T ss_pred             h
Confidence            5

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.1e-34  Score=203.80  Aligned_cols=157  Identities=32%  Similarity=0.450  Sum_probs=143.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.||.+..+ ...+.+++..+.+.+||++|.+.+..++..++..+|++|+|||+++
T Consensus         9 liG~~~vGKTsLl~~~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~d~~ilv~d~~~   87 (167)
T d1xtqa1           9 ILGYRSVGKSSLTIQFVEGQFVDSYDPTIENTF-TKLITVNGQEYHLQLVDTAGQDEYSIFPQTYSIDINGYILVYSVTS   87 (167)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSCCCSSCCEEE-EEEEEETTEEEEEEEEECCCCCTTCCCCGGGTSSCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccCcceeccc-ceEEecCcEEEEeeecccccccccccccchhhhhhhhhhhhcccch
Confidence            589999999999999999999888888877664 4667889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+...+.++.+++..+++++++++++|||++|.||+++|+.|++.+.
T Consensus        88 ~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1          88 IKSFEVIKVIHGKLLDMVGKVQIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHHCSSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhhhhcccccccceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            999999999998886554 467999999999999887889999999999999999999999999999999999998765

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=6.8e-35  Score=205.91  Aligned_cols=162  Identities=47%  Similarity=0.790  Sum_probs=121.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.++.+.+.....+.+++..+.+.+||+||++.+..++..+++.+|++|+|||+++
T Consensus        11 vvG~~~vGKTsLi~~l~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~i~D~~G~e~~~~~~~~~~~~~~~~i~v~d~~~   90 (173)
T d2fu5c1          11 LIGDSGVGKTCVLFRFSEDAFNSTFISTIGIDFKIRTIELDGKRIKLQIWDTAGQERFRTITTAYYRGAMGIMLVYDITN   90 (173)
T ss_dssp             EECCCCC----------------CHHHHHCEEEEEEEEEETTEEEEEEEEEC---------CCTTTTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccCccccceEEEEEEEECCEEEEEEEEECCCchhhHHHHHHhccCCCEEEEEEECCC
Confidence            58999999999999999999988888898888888899999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.++..+..|+..+......+.|+++++||.|+...+....+++..++..+++++++|||++++||+++|.+|++.+.++
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k  170 (173)
T d2fu5c1          91 EKSFDNIRNWIRNIEEHASADVEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAK  170 (173)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHH
T ss_pred             hhhHHHHHHHHHHhhhhccCCceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            99999999998888776667899999999999988778888889999999999999999999999999999999998766


Q ss_pred             hh
Q 040835          161 VS  162 (206)
Q Consensus       161 ~~  162 (206)
                      ..
T Consensus       171 ~~  172 (173)
T d2fu5c1         171 MD  172 (173)
T ss_dssp             HH
T ss_pred             cC
Confidence            54

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.9e-34  Score=201.43  Aligned_cols=158  Identities=46%  Similarity=0.760  Sum_probs=147.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+..............+.+.+||++|++.+..++..+++.+|++|+|+|+++
T Consensus        11 vvG~~~vGKTsLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   90 (170)
T d1r2qa_          11 LLGESAVGKSSLVLRFVKGQFHEFQESTIGAAFLTQTVCLDDTTVKFEIWDTAGQERYHSLAPMYYRGAQAAIVVYDITN   90 (170)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccccccccccceeeccceEEEEEeccCCCchhhhhhHHHHhhCcceEEEEeccch
Confidence            58999999999999999999999999998888888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|...+.+....+.|+++|+||+|+...+.++.+++..++..+++++++|||++|.||+++|..|++.+.
T Consensus        91 ~~s~~~~~~~~~~~~~~~~~~~~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_          91 EESFARAKNWVKELQRQASPNIVIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             hhHHHHHHHHhhhhhhccCCCceEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            999999999988887766678999999999999888889999999999999999999999999999999999987654

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=6e-34  Score=200.65  Aligned_cols=159  Identities=32%  Similarity=0.527  Sum_probs=140.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.++.+ ......+.+++..+.+.+||++|.+.+...+..+++.+|++++|+|.++
T Consensus        10 lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   88 (171)
T d2erya1          10 VVGGGGVGKSALTIQFIQSYFVTDYDPTIE-DSYTKQCVIDDRAARLDILDTAGQEEFGAMREQYMRTGEGFLLVFSVTD   88 (171)
T ss_dssp             EEECTTSSHHHHHHHHHHSCCCSSCCTTCC-EEEEEEEEETTEEEEEEEEECC----CCHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCcccCcccc-cceeeeeeecccccccccccccccccccccccccccccceEEEeecccc
Confidence            589999999999999999999888888855 4556777888999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ++++..+..|+..+.... ....|+++|+||+|+...+.+..+++..+++.+++++++|||++|.||+++|..|++.+.+
T Consensus        89 ~~s~~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k  168 (171)
T d2erya1          89 RGSFEEIYKFQRQILRVKDRDEFPMILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRK  168 (171)
T ss_dssp             HHHHHTHHHHHHHHHHHHTSSCCSEEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             ccchhhHHHHhHHHHhhcccCCCCEEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHH
Confidence            999999999988765443 4679999999999998888899999999999999999999999999999999999998865


Q ss_pred             H
Q 040835          160 I  160 (206)
Q Consensus       160 ~  160 (206)
                      .
T Consensus       169 ~  169 (171)
T d2erya1         169 F  169 (171)
T ss_dssp             H
T ss_pred             h
Confidence            4

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=2.6e-34  Score=202.52  Aligned_cols=156  Identities=31%  Similarity=0.396  Sum_probs=139.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.+|.+..+ .....+++..+.+.+||++|.+.+...+..+++.+|++|+|||+++
T Consensus         7 viG~~~vGKTsLi~r~~~~~f~~~~~~T~~~~~-~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~   85 (171)
T d2erxa1           7 VFGAGGVGKSSLVLRFVKGTFRESYIPTVEDTY-RQVISCDKSICTLQITDTTGSHQFPAMQRLSISKGHAFILVYSITS   85 (171)
T ss_dssp             EECCTTSSHHHHHHHHHTCCCCSSCCCCSCEEE-EEEEEETTEEEEEEEEECCSCSSCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccCcceeecc-ccceeeccccceeccccccccccccccccccccceeEEEEEeeccc
Confidence            589999999999999999999888888877544 4456778889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC--CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA--DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~--~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      ++++..+..|+..+....  ..++|+++|+||+|+...+.+..++++.+++.+++++++|||++|.||+++|..|++.+
T Consensus        86 ~~s~~~~~~~~~~~~~~~~~~~~~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1          86 RQSLEELKPIYEQICEIKGDVESIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             HHHHHTTHHHHHHHHHHHC---CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             ccchhcccchhhhhhhhhccCCCCcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            999999999988776533  36789999999999988788999999999999999999999999999999999988644

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.3e-34  Score=203.56  Aligned_cols=163  Identities=41%  Similarity=0.695  Sum_probs=144.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECC----------eEEEEEEEeCCCchhhhhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHH----------KNVKAQIWDTAGQERYRAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~----------~~~~~~i~D~~G~~~~~~~~~~~~~~~d   70 (206)
                      |+|++|||||||+++|+++.+...+.++.+.++....+.+++          ..+.+.+|||+|++.+..++..+++++|
T Consensus        10 ivG~~~vGKTsLi~~l~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~i~dt~G~e~~~~~~~~~~~~~~   89 (186)
T d2f7sa1          10 ALGDSGVGKTTFLYRYTDNKFNPKFITTVGIDFREKRVVYNAQGPNGSSGKAFKVHLQLWDTAGQERFRSLTTAFFRDAM   89 (186)
T ss_dssp             EESCTTSSHHHHHHHHHCSCCCCEEEEEEEEEEEEEEEEEEC-------CCEEEEEEEEEEEESHHHHHHHHHHHHTTCC
T ss_pred             EECCCCcCHHHHHHHHhcCCCCCccCCcccceeeEEEEEEecccccccccccceEEeccccCCcchhhHHHHHHHHhcCC
Confidence            589999999999999999999888888877776666655433          3467999999999999999999999999


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELA  149 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~  149 (206)
                      ++|+|||++++.+++.+..|+..+.... ....|+++|+||.|+...+.+..+++.++++++++++++|||++|+||+++
T Consensus        90 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~~~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~i~e~  169 (186)
T d2f7sa1          90 GFLLMFDLTSQQSFLNVRNWMSQLQANAYCENPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKA  169 (186)
T ss_dssp             EEEEEEETTCHHHHHHHHHHHHTCCCCCTTTCCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHH
T ss_pred             EEEEEEeccccccceeeeeccchhhhhccCCCceEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCCHHHH
Confidence            9999999999999999999988766543 356889999999999888899999999999999999999999999999999


Q ss_pred             HHHHHHHHHHHhhh
Q 040835          150 FLTVLTEIYRIVSK  163 (206)
Q Consensus       150 ~~~l~~~i~~~~~~  163 (206)
                      |+++++.+.++..+
T Consensus       170 f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         170 VETLLDLIMKRMEQ  183 (186)
T ss_dssp             HHHHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHh
Confidence            99999999876544

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=8.9e-34  Score=200.85  Aligned_cols=158  Identities=28%  Similarity=0.413  Sum_probs=136.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.+|.+ .........++..+.+.+||++|++.+...+..+++++|++|+|||+++
T Consensus         7 vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (177)
T d1kmqa_           7 IVGDGACGKTCLLIVNSKDQFPEVYVPTVF-ENYVADIEVDGKQVELALWDTAGLEDYDRLRPLSYPDTDVILMCFSIDS   85 (177)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCSE-EEEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCCcCCcee-eeccccccccccceeeeccccCccchhcccchhhcccchhhhhhcccch
Confidence            589999999999999999999888888866 4445666778889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  147 (206)
                      +++|+.+..|...+......++|+++++||+|+..            .+.+..++...+++.++ .+|++|||++|.||+
T Consensus        86 ~~Sf~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~  165 (177)
T d1kmqa_          86 PDSLENIPEKWTPEVKHFCPNVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVR  165 (177)
T ss_dssp             HHHHHHHHHTHHHHHHHHSTTSCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHH
T ss_pred             hHHHHHHHHHHHHHHHHhCCCCceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHH
Confidence            99999887654443333346899999999999853            34578889999999998 589999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          148 LAFLTVLTEIYR  159 (206)
Q Consensus       148 ~~~~~l~~~i~~  159 (206)
                      ++|+.+++.+++
T Consensus       166 e~F~~i~~~~l~  177 (177)
T d1kmqa_         166 EVFEMATRAALQ  177 (177)
T ss_dssp             HHHHHHHHHHHC
T ss_pred             HHHHHHHHHHhC
Confidence            999999988763

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.1e-34  Score=199.16  Aligned_cols=159  Identities=34%  Similarity=0.477  Sum_probs=138.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.||.+..+. ..+..++..+.+.+||++|.+.+. .+..+++.+|++++|||+++
T Consensus         7 lvG~~~vGKTsli~r~~~~~f~~~~~pTi~~~~~-~~~~~~~~~~~l~i~D~~g~~~~~-~~~~~~~~~~~~ilv~d~~~   84 (168)
T d2atva1           7 IFGRAGVGKSALVVRFLTKRFIWEYDPTLESTYR-HQATIDDEVVSMEILDTAGQEDTI-QREGHMRWGEGFVLVYDITD   84 (168)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSCCCTTCCEEEE-EEEEETTEEEEEEEEECCCCCCCH-HHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccCCceecccc-ccccccccceEEEEeecccccccc-cchhhhcccccceeecccCC
Confidence            5899999999999999999999999999876654 455668888999999999998764 46678899999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCC-CHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALEST-NVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~-~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|+....... ..+.|+++|+||+|+...+.++.+++..+++++++++++|||++|. ||+++|..+++.+.
T Consensus        85 ~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~  164 (168)
T d2atva1          85 RGSFEEVLPLKNILDEIKKPKNVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVR  164 (168)
T ss_dssp             HHHHHTHHHHHHHHHHHHTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHH
T ss_pred             ccchhhhhhhcccccccccccCcceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHH
Confidence            999999988776554332 3679999999999998878899999999999999999999999998 59999999999887


Q ss_pred             HHh
Q 040835          159 RIV  161 (206)
Q Consensus       159 ~~~  161 (206)
                      +++
T Consensus       165 ~~r  167 (168)
T d2atva1         165 RRR  167 (168)
T ss_dssp             HHH
T ss_pred             Hhc
Confidence            654

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-33  Score=201.46  Aligned_cols=157  Identities=24%  Similarity=0.344  Sum_probs=135.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.+|.+. ........++..+.+.+||++|+++|...+..+++.+|++|+|||+++
T Consensus         8 llG~~~vGKTSli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (191)
T d2ngra_           8 VVGDGAVGKTCLLISYTTNKFPSEYVPTVFD-NYAVTVMIGGEPYTLGLFDTAGQEDYDRLRPLSYPQTDVFLVCFSVVS   86 (191)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEEETTEEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCCcCCceee-ecceeEeeCCceeeeeccccccchhhhhhhhhcccccceeecccccch
Confidence            5899999999999999999999898888764 445566778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~  147 (206)
                      +++|+.+..|..........+.|+++|+||+|+..            .+.+..+++..++..++ .++++|||+++.||+
T Consensus        87 ~~Sf~~~~~~~~~~~~~~~~~~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~  166 (191)
T d2ngra_          87 PSSFENVKEKWVPEITHHCPKTPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLK  166 (191)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHH
T ss_pred             HHHHHHHHHHHHHHHhhcCCCCceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHH
Confidence            99999998754444333446899999999999842            34578899999999974 789999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          148 LAFLTVLTEIY  158 (206)
Q Consensus       148 ~~~~~l~~~i~  158 (206)
                      ++|+.+++.++
T Consensus       167 e~f~~l~~~~~  177 (191)
T d2ngra_         167 NVFDEAILAAL  177 (191)
T ss_dssp             HHHHHHHHHHT
T ss_pred             HHHHHHHHHHh
Confidence            99999887553

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.2e-33  Score=201.55  Aligned_cols=156  Identities=28%  Similarity=0.481  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+.+.+...+.+|.+. .....+...+..+.+.+||++|++.+...+..+++.+|++++|||+++
T Consensus        14 lvG~~~vGKTsLi~r~~~~~f~~~~~~Ti~~-~~~~~~~~~~~~~~l~i~D~~g~e~~~~~~~~~~~~a~~~ilv~d~t~   92 (185)
T d2atxa1          14 VVGDGAVGKTCLLMSYANDAFPEEYVPTVFD-HYAVSVTVGGKQYLLGLYDTAGQEDYDRLRPLSYPMTDVFLICFSVVN   92 (185)
T ss_dssp             EEECTTSSHHHHHHHHHHSSCCCSCCCSSCC-CEEEEEESSSCEEEEEEECCCCSSSSTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhhCCCCCcCCCceee-eeeEEEeeCCceEEeecccccccchhhhhhhhcccccceeeeccccch
Confidence            5899999999999999999999888888764 455666777888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccCCCCCH
Q 040835           81 RQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v  146 (206)
                      +++|+.+.. |...+... ..+.|+++|+||+|+..            .+.+..+++.+++++++ ++|+||||+++.||
T Consensus        93 ~~Sf~~~~~~~~~~~~~~-~~~~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv  171 (185)
T d2atxa1          93 PASFQNVKEEWVPELKEY-APNVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGL  171 (185)
T ss_dssp             HHHHHHHHHTHHHHHHHH-STTCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHhc-CCCCCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCH
Confidence            999988765 54445444 46899999999999853            45778899999999987 68999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIY  158 (206)
Q Consensus       147 ~~~~~~l~~~i~  158 (206)
                      +++|+.+++.++
T Consensus       172 ~e~F~~li~~il  183 (185)
T d2atxa1         172 KTVFDEAIIAIL  183 (185)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHc
Confidence            999999998875

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1e-33  Score=198.67  Aligned_cols=157  Identities=31%  Similarity=0.503  Sum_probs=142.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+ +.......+++..+.+.+||++|++.+...+..+++++|++++|||+++
T Consensus         8 lvG~~~vGKTsLi~r~~~~~f~~~~~~t~~-~~~~~~~~~~~~~~~l~~~d~~g~~~~~~~~~~~~~~a~~~ilv~d~~~   86 (167)
T d1kaoa_           8 VLGSGGVGKSALTVQFVTGTFIEKYDPTIE-DFYRKEIEVDSSPSVLEILDTAGTEQFASMRDLYIKNGQGFILVYSLVN   86 (167)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSCCCTTCC-EEEEEEEEETTEEEEEEEEECCCTTCCHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccCCcee-eeeeeeeecCcceEeeccccCCCccccccchHHHhhcccceeeeeeecc
Confidence            589999999999999999999888888866 4455667788899999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      ++++..+..|+..+.... ..++|+++|+||+|+...+....+++..+++.+++++++|||++|.||+++|..+++.+.
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_          87 QQSFQDIKPMRDQIIRVKRYEKVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             HHHHHHHHHHHHHHHHHTTTSCCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             hhhhhhhhchhhhhhhhccCCCCCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            999999999998876544 367899999999999877888899999999999999999999999999999999998764

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=2.6e-33  Score=197.18  Aligned_cols=157  Identities=45%  Similarity=0.752  Sum_probs=144.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+.++....+..++..+.+.+||++|++.+..++..++..+|++|+|||.++
T Consensus         8 vvG~~~vGKTsLi~~~~~~~f~~~~~~t~~~~~~~~~i~~~~~~~~l~i~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (170)
T d1ek0a_           8 LLGEAAVGKSSIVLRFVSNDFAENKEPTIGAAFLTQRVTINEHTVKFEIWDTAGQERFASLAPMYYRNAQAALVVYDVTK   87 (170)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCSSEEEEEEEEEETTEEEEEEEEEECCSGGGGGGHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCccccccccceeeccccccccccccccccccCCchhHHHHHHHHHhccceEEEEEeCCc
Confidence            58999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc---CCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET---LRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~---~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +.++..+..|+..+........|+++++||+|+..   .+.+..+++.++++.++++++++||++|.||+++|..|++.|
T Consensus        88 ~~s~~~~~~~~~~~~~~~~~~~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_          88 PQSFIKARHWVKELHEQASKDIIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             HHHHHHHHHHHHHHHHHSCTTCEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             ccchhhhhhhhhhhccccccccceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            99999999998877766667899999999999843   467888999999999999999999999999999999988654

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=1.8e-33  Score=197.32  Aligned_cols=159  Identities=48%  Similarity=0.813  Sum_probs=140.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.++.+.++....+.+++..+.+.+|||||++.+..++..+++++|++|+|+|.++
T Consensus         7 vvG~~~vGKTSli~~l~~~~~~~~~~~t~~~~~~~~~i~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~~i~v~d~~~   86 (166)
T d1g16a_           7 LIGDSGVGKSCLLVRFVEDKFNPSFITTIGIDFKIKTVDINGKKVKLQIWDTAGQERFRTITTAYYRGAMGIILVYDITD   86 (166)
T ss_dssp             EEESTTSSHHHHHHHHHHCCCCC-------CCEEEEEEESSSCEEEEEEECCTTGGGTSCCCHHHHTTEEEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccCCccceeEEEEEEEECCEEEEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            58999999999999999999999999999999998999999999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      +.+++.+..|+..+........|++++++|.|+.. +....+++..++..+++++++|||++++||+++|.+|++.+.++
T Consensus        87 ~~s~~~~~~~~~~~~~~~~~~~~~i~~~~k~d~~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~k  165 (166)
T d1g16a_          87 ERTFTNIKQWFKTVNEHANDEAQLLLVGNKSDMET-RVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  165 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHSCTTCEEEEEEECTTCTT-CCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             ccCHHHHHhhhhhhhccccCcceeeeecchhhhhh-hhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHhc
Confidence            99999999988888777777889999999999865 66678899999999999999999999999999999999888653

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=3.4e-33  Score=196.59  Aligned_cols=158  Identities=46%  Similarity=0.768  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|+.+.+.... .++.+.+.....+..++..+.+.+|||+|++.+..++..+++.+|++++|+|++
T Consensus        11 vvG~~~vGKTsli~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~i~Dt~G~e~~~~~~~~~~~~~d~~i~v~d~~   90 (170)
T d2g6ba1          11 LVGDSGVGKTCLLVRFKDGAFLAGTFISTVGIDFRNKVLDVDGVKVKLQMWDTAGQERFRSVTHAYYRDAHALLLLYDVT   90 (170)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCCCCCCCCSCEEEEEEEEETTEEEEEEEEECCCC--------CCGGGCSEEEEEEETT
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccceeeeeeEEEEEEecCcEEEEEEEECCCchhhHHHHHHhhcCCceeEEEecCC
Confidence            5899999999999999998876544 555677888888888999999999999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++..+..|...+........|+++++||.|+.....+..+++..+++.++++++++||++|.||+++|.+|++.+.
T Consensus        91 ~~~s~~~~~~~~~~~~~~~~~~~~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1          91 NKASFDNIQAWLTEIHEYAQHDVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             CHHHHHTHHHHHHHHHHHSCTTCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             cccchhhhhhhhhhhhhccCCCceEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            9999999999888877766678999999999999888889999999999999999999999999999999999998764

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.8e-34  Score=203.15  Aligned_cols=156  Identities=31%  Similarity=0.551  Sum_probs=136.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.+|++.++....+..++..+.+.+||++|++.+..++..+++.+|++++|||+++
T Consensus         8 vvG~~~vGKTsli~~~~~~~f~~~~~~Ti~~~~~~~~~~~~~~~~~l~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   87 (170)
T d1i2ma_           8 LVGDGGTGKTTFVKRHLTGEFEKKYVATLGVEVHPLVFHTNRGPIKFNVWDTAGQEKFGGLRDGYYIQAQCAIIMFDVTS   87 (170)
T ss_dssp             EEECTTSSHHHHHHTTC-----CCEEEETTEEEEEEEECBTTCCEEEEEEECTTHHHHSSCGGGGTTTCCEEEEEEETTS
T ss_pred             EECCCCcCHHHHHHHHHhCCCCcccccceeccccccccccccccccccccccccccccceecchhcccccchhhcccccc
Confidence            58999999999999999999999999999988888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +++++.+..|+..+.+.. .++|+++|+||+|+...+..  ++...++...++++++|||+++.||+++|.+|++.++.
T Consensus        88 ~~Sf~~~~~~~~~~~~~~-~~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_          88 RVTYKNVPNWHRDLVRVC-ENIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             GGGGTTHHHHHHHHHHHH-CSCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             ccccchhHHHHHHHhhcc-CCCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            999999999998887655 57999999999999764433  34557788889999999999999999999999998864

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=4.6e-33  Score=195.37  Aligned_cols=157  Identities=30%  Similarity=0.489  Sum_probs=141.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+..+ ...+..+...+.+.+||++|++.+...+..+++.+|++|+|||+++
T Consensus         8 vvG~~~vGKTsli~r~~~~~f~~~~~~t~~~~~-~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   86 (167)
T d1c1ya_           8 VLGSGGVGKSALTVQFVQGIFVEKYDPTIEDSY-RKQVEVDCQQCMLEILDTAGTEQFTAMRDLYMKNGQGFALVYSITA   86 (167)
T ss_dssp             EECSTTSSHHHHHHHHHHCCCCCSCCCCSEEEE-EEEEESSSCEEEEEEEEECSSCSSTTHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCccCCcccccc-ceeEEeeeeEEEeccccccCcccccccccccccccceeEEeeeccc
Confidence            589999999999999999999988888877554 4556778888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-CCeEEEeccCCCCCHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-GLCFMETSALESTNVELAFLTVLTEIY  158 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-~~~~~~~Sa~~~~~v~~~~~~l~~~i~  158 (206)
                      +++++.+..|+..+.+.. ...+|+++|+||+|+...+....++...+++++ ++++++|||++|.||+++|.+|++.+.
T Consensus        87 ~~sf~~~~~~~~~~~~~~~~~~~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_          87 QSTFNDLQDLREQILRVKDTEDVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             hhhhHhHHHHHHHHHHhcCCCCCeEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            999999999998876543 467899999999999887888899999999885 789999999999999999999998764

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.4e-32  Score=194.56  Aligned_cols=160  Identities=45%  Similarity=0.766  Sum_probs=147.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.++.+...+.++.+.......+.+++..+.+.+|||+|++.+..++..++..+|++|+|+|+++
T Consensus        12 vvG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~Dt~G~~~~~~~~~~~~~~~~~ii~v~d~~~   91 (177)
T d1x3sa1          12 IIGESGVGKSSLLLRFTDDTFDPELAATIGVDFKVKTISVDGNKAKLAIWDTAGQERFRTLTPSYYRGAQGVILVYDVTR   91 (177)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCTTCCCCCSEEEEEEEEEETTEEEEEEEEEECSSGGGCCSHHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccccceeecceeEEEEEeccccEEEEEECCCchhhHHHHHHHHhcCCEEEEEEECCC
Confidence            58999999999999999999999988888888888888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.++..+..|+..+.... ....|+++++||.|... +.+...+...+++.++++++++||++|+||+++|+++++.+++
T Consensus        92 ~~s~~~~~~~~~~i~~~~~~~~~~i~~~~nk~d~~~-~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~  170 (177)
T d1x3sa1          92 RDTFVKLDNWLNELETYCTRNDIVNMLVGNKIDKEN-REVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQ  170 (177)
T ss_dssp             HHHHHTHHHHHHHHTTCCSCSCCEEEEEEECTTSSS-CCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             ccccccchhhhhhhcccccccceeeEEEeecccccc-ccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            999999999999887655 35689999999999754 7788999999999999999999999999999999999999886


Q ss_pred             Hh
Q 040835          160 IV  161 (206)
Q Consensus       160 ~~  161 (206)
                      ..
T Consensus       171 ~p  172 (177)
T d1x3sa1         171 TP  172 (177)
T ss_dssp             SG
T ss_pred             Cc
Confidence            64

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.9e-33  Score=194.61  Aligned_cols=157  Identities=33%  Similarity=0.556  Sum_probs=140.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+...+.++.+.... ......+..+.+.+||++|.+.+...+..+++.++++++|+|+++
T Consensus         8 viG~~~vGKTsli~~l~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~l~~~d~~~~~~~~~~~~~~~~~~~~~iiv~d~~~   86 (166)
T d1ctqa_           8 VVGAGGVGKSALTIQLIQNHFVDEYDPTIEDSYR-KQVVIDGETCLLDILDTAGQEEYSAMRDQYMRTGEGFLCVFAINN   86 (166)
T ss_dssp             EEESTTSSHHHHHHHHHHCCCCCSCCCCSEEEEE-EEEEETTEEEEEEEEEECCCGGGHHHHHHHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccCCccceeec-cceeeeceeeeeeeeeccCccccccchhhhhhcccccceeecccc
Confidence            5899999999999999999998888888776554 345667888999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      +.+++.+..|+..+.... ..++|+++|+||+|+.. +....+++..+++.+++++++|||++|+||+++|.++++.+.+
T Consensus        87 ~~s~~~~~~~~~~i~~~~~~~~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_          87 TKSFEDIHQYREQIKRVKDSDDVPMVLVGNKCDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSSCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cccHHHHHHHHHHHHHhcCCCCCeEEEEeccccccc-ccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            999999999999887654 35789999999999864 6678899999999999999999999999999999999988754

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=1.9e-32  Score=193.07  Aligned_cols=159  Identities=28%  Similarity=0.369  Sum_probs=135.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-CCccccceeeEEEEEEECCeEEEEEEEeCCC---chhhhhhhHhHhcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-DSKATIGVEFQTKTLVIHHKNVKAQIWDTAG---QERYRAVTSAYYRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G---~~~~~~~~~~~~~~~d~~i~v~   76 (206)
                      |+|++|||||||+++|.+..+.. ...++.+.......+.+++....+.+||+++   ++++  ++..+++.+|++|+||
T Consensus         8 lvG~~~vGKTsLi~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~~~~g~e~~--~~~~~~~~~~~~ilvf   85 (172)
T d2g3ya1           8 LIGEQGVGKSTLANIFAGVHDSMDSDCEVLGEDTYERTLMVDGESATIILLDMWENKGENEW--LHDHCMQVGDAYLIVY   85 (172)
T ss_dssp             EECCTTSSHHHHHHHHHCCCCTTCCC---CCTTEEEEEEEETTEEEEEEEECCTTTTHHHHH--HHHCCCCCCSEEEEEE
T ss_pred             EECCCCcCHHHHHHHHHhCcCCccccccceeeecceeeeccCCceeeeeeeccccccccccc--cccccccccceeeeee
Confidence            58999999999999999876643 3445556677777888899999999999765   4544  4677899999999999


Q ss_pred             eCCChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           77 DITKRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        77 d~~~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      |+++++++..+..|+..+.... ..++|+++|+||+|+...+.+..++++.++..+++++++|||++|.||+++|..|++
T Consensus        86 d~t~~~s~~~~~~~~~~i~~~~~~~~~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~  165 (172)
T d2g3ya1          86 SITDRASFEKASELRIQLRRARQTEDIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVR  165 (172)
T ss_dssp             ETTCHHHHHHHHHHHHHHHTSGGGTTSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHH
T ss_pred             cccccchhhhhhhhhhhhhhccccCCceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHHHHHH
Confidence            9999999999999998887653 367999999999999887889999999999999999999999999999999999999


Q ss_pred             HHHHHh
Q 040835          156 EIYRIV  161 (206)
Q Consensus       156 ~i~~~~  161 (206)
                      .+..++
T Consensus       166 ~i~~rr  171 (172)
T d2g3ya1         166 QVRLRR  171 (172)
T ss_dssp             HHHHHC
T ss_pred             HHHHcc
Confidence            886654

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=9.3e-32  Score=189.86  Aligned_cols=158  Identities=38%  Similarity=0.667  Sum_probs=139.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.++.+..........++..+.+.+||++|...+...+..++..+|++++++|.++
T Consensus        11 vvG~~~vGKSSli~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   90 (174)
T d1wmsa_          11 LLGDGGVGKSSLMNRYVTNKFDTQLFHTIGVEFLNKDLEVDGHFVTMQIWDTAGQERFRSLRTPFYRGSDCCLLTFSVDD   90 (174)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCC----CCSEEEEEEEEEETTEEEEEEEEECCCCGGGHHHHGGGGTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCccccceeeeeeeeeeeecCceeeEeeecccCcceehhhhhhhhhccceEEEEEeeec
Confidence            58999999999999999999999999998888888888889999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      +.++..+..|+..+....    ..++|+++|+||+|+.. +.+..+++..++++.+ +++++|||+++.||+++|+++++
T Consensus        91 ~~s~~~~~~~~~~i~~~~~~~~~~~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~  169 (174)
T d1wmsa_          91 SQSFQNLSNWKKEFIYYADVKEPESFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVR  169 (174)
T ss_dssp             HHHHHTHHHHHHHHHHHHTCSCTTTSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHH
T ss_pred             ccccchhhhHHHHHHHHhccccCCCceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHH
Confidence            999999999988775432    35689999999999865 6788999999998874 89999999999999999999999


Q ss_pred             HHHH
Q 040835          156 EIYR  159 (206)
Q Consensus       156 ~i~~  159 (206)
                      .++.
T Consensus       170 ~il~  173 (174)
T d1wmsa_         170 RVLA  173 (174)
T ss_dssp             HHHT
T ss_pred             HHhc
Confidence            8863

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=100.00  E-value=1.2e-31  Score=187.75  Aligned_cols=153  Identities=42%  Similarity=0.718  Sum_probs=138.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh-hhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA-VTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|+.+.+...+.++.+.........+......+.+||++|...+.. .++.+++++|++|+|||++
T Consensus         7 liG~~~vGKTsLl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~ilv~d~~   86 (165)
T d1z06a1           7 VIGDSNVGKTCLTYRFCAGRFPDRTEATIGVDFRERAVDIDGERIKIQLWDTAGQERFRKSMVQHYYRNVHAVVFVYDMT   86 (165)
T ss_dssp             EECCTTSSHHHHHHHHHHSSCCSSCCCCCSCCEEEEEEEETTEEEEEEEEECCCSHHHHTTTHHHHHTTCCEEEEEEETT
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccCcccccccceeeeeeeccceEEEEEeccCchhhccccceeeecCCCceEEEEEee
Confidence            589999999999999999999999999988888888888889999999999999877654 4678899999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCC---CCCHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALE---STNVELAFLTV  153 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~---~~~v~~~~~~l  153 (206)
                      ++++++.+..|+..+.... ..++|+++|+||+|+...+.++.++++++++.+++++++|||++   ++||+++|.+|
T Consensus        87 ~~~s~~~~~~~~~~i~~~~~~~~~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~l  164 (165)
T d1z06a1          87 NMASFHSLPAWIEECKQHLLANDIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTL  164 (165)
T ss_dssp             CHHHHHTHHHHHHHHHHHCCCSCCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHH
T ss_pred             hhhhhhhhhhhhHHHHhhccCCCCeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHHHHh
Confidence            9999999999998886643 46799999999999988788999999999999999999999987   56999999876

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=100.00  E-value=3e-32  Score=192.54  Aligned_cols=161  Identities=39%  Similarity=0.651  Sum_probs=126.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEE-CCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVI-HHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|+++.+...+.++.+.......... +.....+.+||++|++.+...+..+++.+|++++|||++
T Consensus         7 ~vG~~~vGKSsLi~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~   86 (175)
T d1ky3a_           7 ILGDSGVGKTSLMHRYVNDKYSQQYKATIGADFLTKEVTVDGDKVATMQVWDTAGQERFQSLGVAFYRGADCCVLVYDVT   86 (175)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCTTC---CCCSCEEEEECCSSSCCEEEEEECCC----------CCSTTCCEEEEEEETT
T ss_pred             EECCCCcCHHHHHHHHHcCCCCCccCcccccceeeeeeeecCcccccceeeccCCchhhhhHHHHHhhccceEEEEeecc
Confidence            5899999999999999999998888887776666555543 345577899999999999999999999999999999999


Q ss_pred             ChhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcC-CCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHHHHH
Q 040835           80 KRQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETL-RAVPTEDAKEFAEKEG-LCFMETSALESTNVELAFLTV  153 (206)
Q Consensus        80 ~~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~-~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~~~l  153 (206)
                      ++.++..+..|+..+....    ...+|+++++||+|+... +.+..+++.+++..++ +++++|||++|.||+++|++|
T Consensus        87 ~~~s~~~~~~~~~~i~~~~~~~~~~~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l  166 (175)
T d1ky3a_          87 NASSFENIKSWRDEFLVHANVNSPETFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEI  166 (175)
T ss_dssp             CHHHHHTHHHHHHHHHHHHCCSCTTTCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHH
T ss_pred             cccccchhhhcchhhhhhhhhcccccCcEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHH
Confidence            9999999999998875432    257899999999998654 4467888999999986 789999999999999999999


Q ss_pred             HHHHHHHh
Q 040835          154 LTEIYRIV  161 (206)
Q Consensus       154 ~~~i~~~~  161 (206)
                      ++.++++.
T Consensus       167 ~~~~l~~~  174 (175)
T d1ky3a_         167 ARSALQQN  174 (175)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHhcc
Confidence            99887764

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=100.00  E-value=3.9e-32  Score=193.44  Aligned_cols=165  Identities=39%  Similarity=0.657  Sum_probs=145.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|+++.+...+.+|.+.+.........+..+.+.+||++|...+...+..++..+|++++++|.++
T Consensus         7 vvG~~~vGKSSLi~~l~~~~f~~~~~~t~~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   86 (184)
T d1vg8a_           7 ILGDSGVGKTSLMNQYVNKKFSNQYKATIGADFLTKEVMVDDRLVTMQIWDTAGQERFQSLGVAFYRGADCCVLVFDVTA   86 (184)
T ss_dssp             EECCTTSSHHHHHHHHHHSCCCSSCCCCCSEEEEEEEEESSSCEEEEEEEEECSSGGGSCSCCGGGTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCCcCCccceeeeeeeeeeCCceEEEEeeecCCcccccccccccccCccEEEEeecccc
Confidence            58999999999999999999999999998988888888888889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC----CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-cCCeEEEeccCCCCCHHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA----DKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELAFLTVLT  155 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~----~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~~~~~l~~  155 (206)
                      ..++..+..|+..+....    ...+|+++|+||+|+.. +....++...++.. .++++++|||++|.||+++|+++++
T Consensus        87 ~~~~~~~~~~~~~i~~~~~~~~~~~ip~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~  165 (184)
T d1vg8a_          87 PNTFKTLDSWRDEFLIQASPRDPENFPFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIAR  165 (184)
T ss_dssp             HHHHHTHHHHHHHHHHHHCCSSGGGSCEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHH
T ss_pred             hhhhhcchhhHHHHHHHhccccccCCCEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHH
Confidence            999999999998775532    24689999999999876 55666777777654 5789999999999999999999999


Q ss_pred             HHHHHhhhhhc
Q 040835          156 EIYRIVSKKAL  166 (206)
Q Consensus       156 ~i~~~~~~~~~  166 (206)
                      .++++..+...
T Consensus       166 ~i~~~~~~~~~  176 (184)
T d1vg8a_         166 NALKQETEVEL  176 (184)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHhccccccc
Confidence            99887665543

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=100.00  E-value=5.5e-32  Score=192.53  Aligned_cols=156  Identities=29%  Similarity=0.504  Sum_probs=135.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.+|.+ ......+..++..+.+.+||++|++.+...+..+++.+|++|+|||+++
T Consensus        10 viG~~~vGKTsli~~~~~~~f~~~~~~ti~-~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   88 (183)
T d1mh1a_          10 VVGDGAVGKTCLLISYTTNAFPGEYIPTVF-DNYSANVMVDGKPVNLGLWDTAGQEDYDRLRPLSYPQTDVSLICFSLVS   88 (183)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCSSCCCCSC-CEEEEEEEETTEEEEEEEECCCCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCccccccee-eceeeeeeccCcceEEEeecccccccchhhhhhcccccceeeeeeccch
Confidence            589999999999999999999998888876 4445667788999999999999999999999999999999999999999


Q ss_pred             hhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccCCCCCH
Q 040835           81 RQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSALESTNV  146 (206)
Q Consensus        81 ~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v  146 (206)
                      +++|+.+.. |...+... ..++|+++|+||+|+..            .+.....+...+++.++ ++|+||||++|.||
T Consensus        89 ~~sf~~i~~~~~~~~~~~-~~~~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V  167 (183)
T d1mh1a_          89 PASFENVRAKWYPEVRHH-CPNTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGL  167 (183)
T ss_dssp             HHHHHHHHHTHHHHHHHH-STTSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTH
T ss_pred             HHHHHHHHHHHHHHHHHh-CCCCcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCH
Confidence            999999876 55555544 36799999999999743            23456778888998887 78999999999999


Q ss_pred             HHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIY  158 (206)
Q Consensus       147 ~~~~~~l~~~i~  158 (206)
                      +++|..+++.++
T Consensus       168 ~e~F~~l~~~il  179 (183)
T d1mh1a_         168 KTVFDEAIRAVL  179 (183)
T ss_dssp             HHHHHHHHHHHS
T ss_pred             HHHHHHHHHHHc
Confidence            999999998875

>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=99.98  E-value=7.2e-32  Score=191.22  Aligned_cols=158  Identities=28%  Similarity=0.418  Sum_probs=135.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+.+.+...+.|+.+. .......+++..+.+.+||++|++.+...++.+++.+|++|+|||+++
T Consensus         7 liG~~~vGKTsli~r~~~~~f~~~~~~t~~~-~~~~~~~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~~ilv~d~~~   85 (179)
T d1m7ba_           7 VVGDSQCGKTALLHVFAKDCFPENYVPTVFE-NYTASFEIDTQRIELSLWDTSGSPYYDNVRPLSYPDSDAVLICFDISR   85 (179)
T ss_dssp             EEESTTSSHHHHHHHHHHSCCCSSCCCCSEE-EEEEEEECSSCEEEEEEEEECCSGGGTTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCcCHHHHHHHHHhCCCCCccCCceee-cccccccccceEEeeccccccccccccccccchhhhhhhhheeeeccc
Confidence            5899999999999999999998888888654 444566778889999999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc------------CCCCCHHHHHHHHHHcC-CeEEEeccCCCC-CH
Q 040835           81 RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLET------------LRAVPTEDAKEFAEKEG-LCFMETSALEST-NV  146 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~------------~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~-~v  146 (206)
                      +++|+.+..|..........+.|+++|+||+|+..            .+.+..++...++++++ .+|+||||+++. ++
T Consensus        86 ~~Sf~~~~~~~~~~~~~~~~~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i  165 (179)
T d1m7ba_          86 PETLDSVLKKWKGEIQEFCPNTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSV  165 (179)
T ss_dssp             HHHHHHHHHTHHHHHHHHCTTCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHH
T ss_pred             CCCHHHHHHHHHHHHhccCCcceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCH
Confidence            99999987754443333346899999999999842            45678899999999987 479999999998 59


Q ss_pred             HHHHHHHHHHHHH
Q 040835          147 ELAFLTVLTEIYR  159 (206)
Q Consensus       147 ~~~~~~l~~~i~~  159 (206)
                      +++|+.+++.+++
T Consensus       166 ~~~F~~~~~~~l~  178 (179)
T d1m7ba_         166 RDIFHVATLACVN  178 (179)
T ss_dssp             HHHHHHHHHHHHT
T ss_pred             HHHHHHHHHHHhc
Confidence            9999999998864

>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=99.97  E-value=2.3e-30  Score=182.60  Aligned_cols=159  Identities=22%  Similarity=0.355  Sum_probs=132.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|+++.+... .++.+ ......+.+++..+.+.+|||+|+..+     .+++.+|++|+|||+++
T Consensus        10 vlG~~~vGKTsLi~~~~~~~f~~~-~~t~~-~~~~~~i~v~~~~~~l~i~Dt~g~~~~-----~~~~~ad~~ilVfd~~~   82 (175)
T d2bmja1          10 VLGDARSGKSSLIHRFLTGSYQVL-EKTES-EQYKKEMLVDGQTHLVLIREEAGAPDA-----KFSGWADAVIFVFSLED   82 (175)
T ss_dssp             EECCTTTTHHHHHHHHHHSCCCCC-CCSSC-EEEEEEEEETTEEEEEEEEECSSCCCH-----HHHHHCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHhCCCCCc-CCccc-eeEEEEeecCceEEEEEEeeccccccc-----ccccccceeEEEeeccc
Confidence            589999999999999999998554 44434 444567788999999999999998764     37888999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC---CCCCcEEEEEeCCCCC--cCCCCCHHHHHHHHHH-cCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA---DKNIIIMLVGNKSDLE--TLRAVPTEDAKEFAEK-EGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~---~~~~p~ivv~nK~D~~--~~~~~~~~~~~~~~~~-~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +++|+.+..|+..+....   ....|+++|+||.|+.  ..+.+..+++..++.+ ++++|++|||+++.||+++|..++
T Consensus        83 ~~Sf~~~~~~~~~i~~~~~~~~~~~pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~  162 (175)
T d2bmja1          83 ENSFQAVSRLHGQLSSLRGEGRGGLALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVA  162 (175)
T ss_dssp             HHHHHHHHHHHHHHHHHCC--CCCCEEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHH
T ss_pred             chhhhhhHHHHHHHHHHhhcccCCccEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHH
Confidence            999999999988875443   3567999999988874  4466788888888765 478999999999999999999999


Q ss_pred             HHHHHHhhhhhc
Q 040835          155 TEIYRIVSKKAL  166 (206)
Q Consensus       155 ~~i~~~~~~~~~  166 (206)
                      +.+++...++.+
T Consensus       163 ~~i~~~~~~~~l  174 (175)
T d2bmja1         163 QKVVTLRKQQQL  174 (175)
T ss_dssp             HHHHHHHHHHHH
T ss_pred             HHHHHhhhhccc
Confidence            999988876643

>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=99.97  E-value=7e-31  Score=183.58  Aligned_cols=150  Identities=23%  Similarity=0.442  Sum_probs=122.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|..+.+...+.||.+.+...  +.  ..++.+.+||+||++.+...+..++..++++++|+|+++
T Consensus         7 i~G~~~~GKTsLl~~l~~~~~~~~~~~T~~~~~~~--~~--~~~~~~~i~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~~   82 (164)
T d1zd9a1           7 LVGLQYSGKTTFVNVIASGQFNEDMIPTVGFNMRK--IT--KGNVTIKLWDIGGQPRFRSMWERYCRGVSAIVYMVDAAD   82 (164)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCSCCCCCSEEEEE--EE--ETTEEEEEEEECCSHHHHTTHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHHcCCCCCcccccceeeeee--ee--eeeEEEEEeeccccccccccccccccccchhhccccccc
Confidence            58999999999999999999988888887765543  33  345889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ++++.....|+..+.... ..++|+++|+||+|+...  ....+..+..     ...+++++++||++|+|++++|++|+
T Consensus        83 ~~~~~~~~~~~~~~~~~~~~~~~pi~lv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~  160 (164)
T d1zd9a1          83 QEKIEASKNELHNLLDKPQLQGIPVLVLGNKRDLPGA--LDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLI  160 (164)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCCEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             ccccchhhhhhhhhhhhhcccCCcEEEEEeccccchh--hhHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHH
Confidence            999999988877665433 467999999999998642  2333333222     22356799999999999999999998


Q ss_pred             HH
Q 040835          155 TE  156 (206)
Q Consensus       155 ~~  156 (206)
                      +.
T Consensus       161 ~~  162 (164)
T d1zd9a1         161 QH  162 (164)
T ss_dssp             HT
T ss_pred             Hc
Confidence            75

>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=99.96  E-value=4.9e-29  Score=174.25  Aligned_cols=152  Identities=23%  Similarity=0.374  Sum_probs=117.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.+..+ ....+|.+.....    +....+.+.+||++|++.+...+..+++.++++++++|+++
T Consensus         7 ivG~~~~GKTsLi~~l~~~~~-~~~~~t~~~~~~~----~~~~~~~~~~~D~~G~~~~~~~~~~~~~~~~~~i~v~d~~d   81 (165)
T d1ksha_           7 MLGLDNAGKTTILKKFNGEDV-DTISPTLGFNIKT----LEHRGFKLNIWDVGGQKSLRSYWRNYFESTDGLIWVVDSAD   81 (165)
T ss_dssp             EECSTTSSHHHHHHHHTTCCC-SSCCCCSSEEEEE----EEETTEEEEEEEECCSHHHHTTGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHcCCCC-CcccceEeeeeee----ccccccceeeeecCcchhhhhHHHhhhhhhhcceeeeeccc
Confidence            589999999999999998766 3445565544332    33456889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHH-hcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~-~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++.....++..+. .....+.|+++|+||+|+....  ..++......     ..++++++|||++|+||+++|++|+
T Consensus        82 ~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~  159 (165)
T d1ksha_          82 RQRMQDCQRELQSLLVEERLAGATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLL  159 (165)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             chhHHHHHHhhhhhhhhcccCCCceEEEEecccccccc--CHHHHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHH
Confidence            999988877655543 3334679999999999986423  3333333221     2245799999999999999999999


Q ss_pred             HHHHH
Q 040835          155 TEIYR  159 (206)
Q Consensus       155 ~~i~~  159 (206)
                      +++.+
T Consensus       160 ~~i~~  164 (165)
T d1ksha_         160 DDISS  164 (165)
T ss_dssp             HHHHT
T ss_pred             HHHHc
Confidence            88764

>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=99.96  E-value=4e-29  Score=176.42  Aligned_cols=150  Identities=24%  Similarity=0.358  Sum_probs=116.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.++.+.... ++.+.+..  .+.  ..++.+.+||++|++.+...+..+++.+|++|+|||+++
T Consensus        21 vvG~~~vGKSsLi~~l~~~~~~~~~-~~~~~~~~--~i~--~~~~~~~i~d~~g~~~~~~~~~~~~~~~~~ii~v~d~~d   95 (176)
T d1fzqa_          21 LLGLDNAGKTTLLKQLASEDISHIT-PTQGFNIK--SVQ--SQGFKLNVWDIGGQRKIRPYWRSYFENTDILIYVIDSAD   95 (176)
T ss_dssp             EEESTTSSHHHHHHHHCCSCCEEEE-EETTEEEE--EEE--ETTEEEEEEECSSCGGGHHHHHHHHTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCcce-eeeeeeEE--Eec--cCCeeEeEeeccccccchhHHHHHhhccceeEEeecccc
Confidence            5899999999999999998874333 33344333  233  345789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++..+..|+..+.... ..++|+++++||+|+....  ......+..     ...++++++|||++|+|++++|+||+
T Consensus        96 ~~s~~~~~~~~~~~~~~~~~~~~pillv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~  173 (176)
T d1fzqa_          96 RKRFEETGQELTELLEEEKLSCVPVLIFANKQDLLTAA--PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVC  173 (176)
T ss_dssp             GGGHHHHHHHHHHHTTCGGGTTCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             ccchhhhhhhhhhhhhhhccCCCeEEEEEEeccccccc--cHHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            999999888776665433 3578999999999996422  223322221     22346799999999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +.+
T Consensus       174 ~~i  176 (176)
T d1fzqa_         174 KNV  176 (176)
T ss_dssp             HTC
T ss_pred             hcC
Confidence            753

>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=99.95  E-value=5.8e-29  Score=176.58  Aligned_cols=154  Identities=21%  Similarity=0.357  Sum_probs=116.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|....+.. ..+|.+.....  .  ....+.+.+||++|++.+...+..++..+|++++|+|+++
T Consensus        22 lvG~~~vGKTsLi~~l~~~~~~~-~~~t~~~~~~~--~--~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~d~~d   96 (182)
T d1moza_          22 ILGLDGAGKTTILYRLQIGEVVT-TKPTIGFNVET--L--SYKNLKLNVWDLGGQTSIRPYWRCYYADTAAVIFVVDSTD   96 (182)
T ss_dssp             EEEETTSSHHHHHHHTCCSEEEE-ECSSTTCCEEE--E--EETTEEEEEEEEC----CCTTGGGTTTTEEEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCc-cccccceEEEE--E--eeCCEEEEEEecccccccchhHHhhhccceeEEEEeeecc
Confidence            58999999999999998877643 34554544332  2  2345789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHH-----HHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTEDAKEFA-----EKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~-----~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++.....|+..+.. ....+.|++|++||+|+..  ....+++....     ...++++++|||++|+||+++|++|+
T Consensus        97 ~~s~~~~~~~l~~~~~~~~~~~~piliv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~  174 (182)
T d1moza_          97 KDRMSTASKELHLMLQEEELQDAALLVFANKQDQPG--ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLI  174 (182)
T ss_dssp             TTTHHHHHHHHHHHTTSSTTSSCEEEEEEECTTSTT--CCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHH
T ss_pred             cccchhHHHHHHHHHHhhccCCcceEEEEEeecccc--ccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHH
Confidence            9999888887766543 3346799999999999863  33344443322     23356799999999999999999999


Q ss_pred             HHHHHHh
Q 040835          155 TEIYRIV  161 (206)
Q Consensus       155 ~~i~~~~  161 (206)
                      +.+.+.+
T Consensus       175 ~~i~~~~  181 (182)
T d1moza_         175 DVIKEEQ  181 (182)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHcC
Confidence            9886653

>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=99.95  E-value=1.7e-28  Score=172.78  Aligned_cols=150  Identities=23%  Similarity=0.404  Sum_probs=115.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.++.+.. ..+|.+....    ......+.+.+||+||...+...+..+++.++++|+|+|+++
T Consensus        17 lvG~~~vGKTSli~rl~~~~~~~-~~~t~~~~~~----~~~~~~~~~~i~D~~g~~~~~~~~~~~~~~~~~ii~v~D~s~   91 (173)
T d1e0sa_          17 MLGLDAAGKTTILYKLKLGQSVT-TIPTVGFNVE----TVTYKNVKFNVWDVGGQDKIRPLWRHYYTGTQGLIFVVDCAD   91 (173)
T ss_dssp             EEEETTSSHHHHHHHTTCCCCEE-EEEETTEEEE----EEEETTEEEEEEEESCCGGGHHHHGGGTTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCC-ccceeeeeEE----EeeccceeeEEecCCCcchhhhHHHhhhcccceEEEEEeccc
Confidence            58999999999999999877643 3344343332    223345789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHh-cCCCCCcEEEEEeCCCCCcCCCCCHHHHHHH-----HHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRG-HADKNIIIMLVGNKSDLETLRAVPTEDAKEF-----AEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~-~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~-----~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      .+++..+..|+..+.. ......|+++++||+|+..  .....++...     +...++.+++|||++|+||+++|++|.
T Consensus        92 ~~~~~~~~~~l~~~~~~~~~~~~piiiv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~  169 (173)
T d1e0sa_          92 RDRIDEARQELHRIINDREMRDAIILIFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLT  169 (173)
T ss_dssp             GGGHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTT--CCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             chhHHHHHHHHHHHhhhcccccceeeeeeecccccc--cccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHH
Confidence            9999988887766543 3346799999999999864  2233333322     222355799999999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +.+
T Consensus       170 ~~~  172 (173)
T d1e0sa_         170 SNY  172 (173)
T ss_dssp             HHC
T ss_pred             Hhc
Confidence            753

>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=99.94  E-value=1.4e-26  Score=160.36  Aligned_cols=150  Identities=17%  Similarity=0.279  Sum_probs=118.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|++|||||||+++|.++.+..........     ....+...+.+.+||++|...+...+..++..++++++++|.++
T Consensus         5 lvG~~~vGKSsLi~~l~~~~~~~~~~~~~~~-----~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~d~~~   79 (160)
T d1r8sa_           5 MVGLDAAGKTTILYKLKLGEIVTTIPTIGFN-----VETVEYKNISFTVWDVGGQDKIRPLWRHYFQNTQGLIFVVDSND   79 (160)
T ss_dssp             EECSTTSSHHHHHHHHHHHCSSCCCCCSSCC-----EEEEECSSCEEEEEECCCCGGGHHHHHHHTTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCccccceeeE-----EEEEeeeeEEEEEecCCCcccchhhhhhhhccceeEEEEEEecC
Confidence            5899999999999999998886655443221     22344567889999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHH-----HHHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAK-----EFAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~-----~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      +.++..+..|+..+.... ....|+++++||.|+....  ...++.     .+++..+++++++||++|+||+++|++|.
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~i~~v~~k~d~~~~~--~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~  157 (160)
T d1r8sa_          80 RERVNEAREELMRMLAEDELRDAVLLVFANKQDLPNAM--NAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLS  157 (160)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhhcccCceEEEEeecccccccc--cHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHH
Confidence            999998888777665433 3678999999999986422  222222     23334467899999999999999999998


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +.+
T Consensus       158 ~~l  160 (160)
T d1r8sa_         158 NQL  160 (160)
T ss_dssp             HHC
T ss_pred             hcC
Confidence            753

>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=99.92  E-value=1.2e-24  Score=153.62  Aligned_cols=150  Identities=21%  Similarity=0.194  Sum_probs=101.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchh--------hhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------YRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++....... .+............  ..+..+.+|||||...        +.......+..+|+
T Consensus        10 lvG~~~~GKSSLin~l~~~~~~~~~~~~~tt~~~~~~~~~--~~~~~~~~~DtpG~~~~~~~~~~~~~~~~~~~~~~ad~   87 (178)
T d1wf3a1          10 IVGKPNVGKSTLLNNLLGVKVAPISPRPQTTRKRLRGILT--EGRRQIVFVDTPGLHKPMDALGEFMDQEVYEALADVNA   87 (178)
T ss_dssp             EECSTTSSHHHHHHHHHTSCCSCCCSSSCCCCSCEEEEEE--ETTEEEEEEECCCCCCCCSHHHHHHHHHHHHHTSSCSE
T ss_pred             EECCCCCCHHHHHHHHhCCCceeecccCCcccccccceee--eeeeeeeecccccccccccccchhcccccccccccccc
Confidence            5899999999999999997654332 22212222222222  3346789999999633        23334456789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~  150 (206)
                      +|+|+|++++..... ..|...+.... .++|+++|+||+|+...   ..+....+.+..+ ..++++||+++.|+++++
T Consensus        88 il~v~D~~~~~~~~~-~~i~~~l~~~~-~~~piilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~  162 (178)
T d1wf3a1          88 VVWVVDLRHPPTPED-ELVARALKPLV-GKVPILLVGNKLDAAKY---PEEAMKAYHELLPEAEPRMLSALDERQVAELK  162 (178)
T ss_dssp             EEEEEETTSCCCHHH-HHHHHHHGGGT-TTSCEEEEEECGGGCSS---HHHHHHHHHHTSTTSEEEECCTTCHHHHHHHH
T ss_pred             eeeeechhhhhcccc-cchhhheeccc-cchhhhhhhcccccccC---HHHHHHHHHhhcccCceEEEecCCCCCHHHHH
Confidence            999999987644322 33444554433 57899999999998541   1233344444444 578999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      ++|++.+
T Consensus       163 ~~i~~~l  169 (178)
T d1wf3a1         163 ADLLALM  169 (178)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHhC
Confidence            9997644

>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=99.91  E-value=2.1e-24  Score=151.96  Aligned_cols=150  Identities=21%  Similarity=0.361  Sum_probs=110.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|.+|||||||+++|.+..+.... ++.+....  ...  .....+.+||+++.+.+...+..++..++++++++|.++
T Consensus        20 vvG~~~~GKSsLi~rl~~~~~~~~~-~~~~~~~~--~~~--~~~~~~~~~d~~~~~~~~~~~~~~~~~~~~~i~v~d~~d   94 (177)
T d1zj6a1          20 IVGLDNAGKTTILYQFSMNEVVHTS-PTIGSNVE--EIV--INNTRFLMWDIGGQESLRSSWNTYYTNTEFVIVVVDSTD   94 (177)
T ss_dssp             EEESTTSSHHHHHHHHHTTSCEEEE-CCSCSSCE--EEE--ETTEEEEEEECCC----CGGGHHHHTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhcCCCCccc-cccceeEE--EEe--ecceEEEEeccccccccccchhhhhccceeeeeeccccc
Confidence            5899999999999999998875433 22232222  222  235789999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhc-CCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH-----HcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEELRGH-ADKNIIIMLVGNKSDLETLRAVPTEDAKEFAE-----KEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~-~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~-----~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++.....+....... .....|+++|+||+|+....  ...+......     ..+++++++||++|+|++++|++|.
T Consensus        95 ~~~~~~~~~~~~~~~~~~~~~~~p~iiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~  172 (177)
T d1zj6a1          95 RERISVTREELYKMLAHEDLRKAGLLIFANKQDVKECM--TVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMM  172 (177)
T ss_dssp             TTTHHHHHHHHHHHHTSGGGTTCEEEEEEECTTSTTCC--CHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHH
T ss_pred             ccchhhhhhhhhhhhhcccccceEEEEEEEcccccccC--cHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHH
Confidence            99888776655544332 23689999999999986422  2333333322     2346799999999999999999999


Q ss_pred             HHH
Q 040835          155 TEI  157 (206)
Q Consensus       155 ~~i  157 (206)
                      +++
T Consensus       173 ~~l  175 (177)
T d1zj6a1         173 SRL  175 (177)
T ss_dssp             HHH
T ss_pred             HHh
Confidence            875

>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=99.90  E-value=3.8e-23  Score=143.30  Aligned_cols=148  Identities=20%  Similarity=0.261  Sum_probs=114.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.++.+.. ..|+.+.+..    .....+..+.+||++|...+...+..++..++++++++|.++
T Consensus         5 liG~~nvGKSSLln~l~~~~~~~-~~~t~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~   79 (166)
T d2qtvb1           5 FLGLDNAGKTTLLHMLKNDRLAT-LQPTWHPTSE----ELAIGNIKFTTFDLGGHIQARRLWKDYFPEVNGIVFLVDAAD   79 (166)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCC-CCCCCSCEEE----EECCTTCCEEEEECCCSGGGGGGGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhCCCCCe-eeceeeEeEE----EeccCCeeEEEEeeccchhhhhhHhhhhhheeeeeeeccccc
Confidence            58999999999999999988753 4455444333    344456778999999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHHhcC-CCCCcEEEEEeCCCCCcCCCCCHHHHHHHHH------------HcCCeEEEeccCCCCCHH
Q 040835           81 RQSFDNVARWLEELRGHA-DKNIIIMLVGNKSDLETLRAVPTEDAKEFAE------------KEGLCFMETSALESTNVE  147 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~~~~-~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~------------~~~~~~~~~Sa~~~~~v~  147 (206)
                      ...+.....|........ ..+.|+++++||.|+..  .....++.....            ..++.+++|||++|+|++
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~~i~i~~~k~d~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~  157 (166)
T d2qtvb1          80 PERFDEARVELDALFNIAELKDVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYL  157 (166)
T ss_dssp             GGGHHHHHHHHHHHHTCTTTTTCCEEEEEECTTSSS--CCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHH
T ss_pred             hhhhhhhhHHHHhhhhhhccCCceEEEEeccccccc--cCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHH
Confidence            998887777666654433 46789999999999864  334444433321            123469999999999999


Q ss_pred             HHHHHHHH
Q 040835          148 LAFLTVLT  155 (206)
Q Consensus       148 ~~~~~l~~  155 (206)
                      ++|+||.+
T Consensus       158 e~~~~l~~  165 (166)
T d2qtvb1         158 EAFQWLSQ  165 (166)
T ss_dssp             HHHHHHTT
T ss_pred             HHHHHHhC
Confidence            99999865

>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=99.90  E-value=1.3e-23  Score=146.30  Aligned_cols=151  Identities=23%  Similarity=0.341  Sum_probs=113.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|+++.+.... ++.+...  ..  .....+.+.+||++|...+.......+..++++++++|+.+
T Consensus        10 ivG~~~vGKSSLi~~~~~~~~~~~~-~~~~~~~--~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   84 (169)
T d1upta_          10 ILGLDGAGKTTILYRLQVGEVVTTI-PTIGFNV--ET--VTYKNLKFQVWDLGGLTSIRPYWRCYYSNTDAVIYVVDSCD   84 (169)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCCCC-CCSSEEE--EE--EEETTEEEEEEEECCCGGGGGGGGGGCTTCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhCCCCccee-cccceee--ee--eccCceEEEEeeccccccccccchhhhhhhhhhhhhhhhhh
Confidence            5899999999999999999886433 3333222  22  22345788999999999999999999999999999999998


Q ss_pred             hhhHHHHHHHHHH-HHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHH-----HHHHcCCeEEEeccCCCCCHHHHHHHHH
Q 040835           81 RQSFDNVARWLEE-LRGHADKNIIIMLVGNKSDLETLRAVPTEDAKE-----FAEKEGLCFMETSALESTNVELAFLTVL  154 (206)
Q Consensus        81 ~~s~~~~~~~~~~-~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~-----~~~~~~~~~~~~Sa~~~~~v~~~~~~l~  154 (206)
                      ..++.....+... +........|+++++||.|+.....  ..+...     ++...+++++++||++|+||+++|++|+
T Consensus        85 ~~~~~~~~~~~~~~~~~~~~~~~~i~iv~nk~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~  162 (169)
T d1upta_          85 RDRIGISKSELVAMLEEEELRKAILVVFANKQDMEQAMT--SSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLV  162 (169)
T ss_dssp             CTTHHHHHHHHHHHHTCGGGTTCEEEEEEECTTSTTCCC--HHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHH
T ss_pred             cchhhhccchhhhhhhhhccccceEEEEEeecccccccc--HHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHH
Confidence            8887777665444 3333346789999999999964222  222222     2333467899999999999999999998


Q ss_pred             HHHH
Q 040835          155 TEIY  158 (206)
Q Consensus       155 ~~i~  158 (206)
                      +.+.
T Consensus       163 ~~l~  166 (169)
T d1upta_         163 ETLK  166 (169)
T ss_dssp             HHHH
T ss_pred             HHHH
Confidence            8764

>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=99.90  E-value=1.7e-24  Score=155.10  Aligned_cols=155  Identities=20%  Similarity=0.195  Sum_probs=120.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..|||||||+++|....+.  +.||+|..+..    +....+.+.+||++|++.+...+..+++.++++++++|.++
T Consensus         7 ~lG~~~vGKTsll~r~~~~~~~--~~pTiG~~~~~----~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~i~~~~~~~   80 (200)
T d2bcjq2           7 LLGTGESGKSTFIKQMRIIHGS--GVPTTGIIEYP----FDLQSVIFRMVDVGGQRSERRKWIHCFENVTSIMFLVALSE   80 (200)
T ss_dssp             EEESTTSSHHHHHHHHHHHTSS--CCCCCSCEEEE----EECSSCEEEEEECCCSTTGGGGGGGGCSSCSEEEEEEEGGG
T ss_pred             EECCCCCCHHHHHHHHhCCCCC--CCceeeEEEEE----EeccceeeeeccccccccccccccccccccceeeEeeeccc
Confidence            5899999999999999988774  56888766543    34566889999999999999999999999999999999987


Q ss_pred             hh-----------hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC----------------CCCCHHHHHHHHHH---
Q 040835           81 RQ-----------SFDNVARWLEELRGHADKNIIIMLVGNKSDLETL----------------RAVPTEDAKEFAEK---  130 (206)
Q Consensus        81 ~~-----------s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~~~~~---  130 (206)
                      ..           .++....|...+......+.|+++++||.|+...                ...+......+...   
T Consensus        81 ~~~~~~~~~~~~~~~e~~~~~~~~l~~~~~~~~~~~~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~  160 (200)
T d2bcjq2          81 YDQVLVESDNENRMEESKALFRTIITYPWFQNSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFV  160 (200)
T ss_dssp             GGCBCSSCTTSBHHHHHHHHHHHHHHCGGGSSSEEEEEEECHHHHHHHTTTSCHHHHSTTCCSCSSCHHHHHHHHHHHHH
T ss_pred             hhhhhhhhccccchHHHHHHHHHHHhhhhccCccEEEecchhhhhhhcccchHHHHhcccccCCchhHHHHHHHHHHHHH
Confidence            53           3455677877777666678999999999997311                12223333333221   


Q ss_pred             -------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          131 -------EGLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       131 -------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                             ..+.+|+|||++++||.++|+.+.+.|++..
T Consensus       161 ~~~~~~~~~~~~~~tSAk~~~ni~~vF~~i~~~I~~~n  198 (200)
T d2bcjq2         161 DLNPDSDKIIYSHFTCATDTENIRFVFAAVKDTILQLN  198 (200)
T ss_dssp             TTCSCTTSCEEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCCCceEEEEeEEEcCHhHHHHHHHHHHHHHHHh
Confidence                   1245789999999999999999998887653

>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=99.90  E-value=1.6e-23  Score=147.93  Aligned_cols=154  Identities=16%  Similarity=0.112  Sum_probs=103.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchh-------hhhhhHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQER-------YRAVTSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~-------~~~~~~~~~~~~d~~i   73 (206)
                      |+|.+|||||||+|+|++........+..+... ............+.+|||||...       +.......+..+++++
T Consensus         6 ivG~~nvGKSTLin~L~~~~~~~~~~~~~t~~~-~~~~~~~~~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~~~   84 (180)
T d1udxa2           6 LVGYPNAGKSSLLAAMTRAHPKIAPYPFTTLSP-NLGVVEVSEEERFTLADIPGIIEGASEGKGLGLEFLRHIARTRVLL   84 (180)
T ss_dssp             EECCGGGCHHHHHHHHCSSCCEECCCTTCSSCC-EEEEEECSSSCEEEEEECCCCCCCGGGSCCSCHHHHHHHTSSSEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCceeccCCCceee-eeceeeecCCCeEEEcCCCeeecCchHHHHHHHHHHHHHHhhhhhh
Confidence            589999999999999998765444333322222 23333444456789999999432       1122335578899999


Q ss_pred             EEeeCCChh--hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           74 LVYDITKRQ--SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        74 ~v~d~~~~~--s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      +++|.....  .+.....|+...... ..++|+++|+||+|+....  ..++..+.....+.++|.+||++|+|++++++
T Consensus        85 ~~~d~~~~~~~~~~~~~~~~~~~~~~-~~~~p~iiv~NK~D~~~~~--~~~~~~~~~~~~~~~~~~iSA~tg~gid~L~~  161 (180)
T d1udxa2          85 YVLDAADEPLKTLETLRKEVGAYDPA-LLRRPSLVALNKVDLLEEE--AVKALADALAREGLAVLPVSALTGAGLPALKE  161 (180)
T ss_dssp             EEEETTSCHHHHHHHHHHHHHHHCHH-HHHSCEEEEEECCTTSCHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHH
T ss_pred             hhcccccccccchhhhhhhhhccccc-cchhhhhhhhhhhhhhhHH--HHHHHHHHHHhcCCeEEEEEcCCCCCHHHHHH
Confidence            999986542  333334444332221 1358999999999986422  12334455556688999999999999999999


Q ss_pred             HHHHHHH
Q 040835          152 TVLTEIY  158 (206)
Q Consensus       152 ~l~~~i~  158 (206)
                      .|.+.+.
T Consensus       162 ~i~~~l~  168 (180)
T d1udxa2         162 ALHALVR  168 (180)
T ss_dssp             HHHHHHH
T ss_pred             HHHHHHh
Confidence            8877664

>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=99.90  E-value=2.8e-24  Score=149.12  Aligned_cols=148  Identities=22%  Similarity=0.223  Sum_probs=104.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhh--------hhhhHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY--------RAVTSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~--------~~~~~~~~~~~d~~   72 (206)
                      ++|.+|||||||+|+|++.........+ +.+.......+...+..+.+||++|....        ......++..+|++
T Consensus         6 lvG~~nvGKSsLin~l~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~d~~   84 (161)
T d2gj8a1           6 IAGRPNAGKSSLLNALAGREAAIVTDIA-GTTRDVLREHIHIDGMPLHIIDTAGLREASDEVERIGIERAWQEIEQADRV   84 (161)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCSCCCSST-TCCCSCEEEEEEETTEEEEEEECCCCSCCSSHHHHHHHHHHHHHHHTCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCceEeeccc-ccccceEeeeeeccCceeeeccccccccccccchhHHHHHHHHHHHhcccc
Confidence            5899999999999999987765333221 22222222233334467889999994322        12234567899999


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHHH
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFLT  152 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~  152 (206)
                      ++++|..+..++.....|...+.... .++|+++|+||+|+.......       .+..+.+++++||++++|+++++++
T Consensus        85 i~~~d~~~~~~~~~~~~~~~~~~~~~-~~~~iilv~NK~Dl~~~~~~~-------~~~~~~~~~~iSAk~~~gi~~L~~~  156 (161)
T d2gj8a1          85 LFMVDGTTTDAVDPAEIWPEFIARLP-AKLPITVVRNKADITGETLGM-------SEVNGHALIRLSARTGEGVDVLRNH  156 (161)
T ss_dssp             EEEEETTTCCCCSHHHHCHHHHHHSC-TTCCEEEEEECHHHHCCCCEE-------EEETTEEEEECCTTTCTTHHHHHHH
T ss_pred             ceeeccccccchhhhhhhhhhhhhcc-cccceeeccchhhhhhhHHHH-------HHhCCCcEEEEECCCCCCHHHHHHH
Confidence            99999998877766666666555544 579999999999985432211       1123568999999999999999999


Q ss_pred             HHHHH
Q 040835          153 VLTEI  157 (206)
Q Consensus       153 l~~~i  157 (206)
                      |.+.+
T Consensus       157 l~~~l  161 (161)
T d2gj8a1         157 LKQSM  161 (161)
T ss_dssp             HHHHC
T ss_pred             HHhhC
Confidence            98753

>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=99.89  E-value=1.7e-23  Score=149.27  Aligned_cols=151  Identities=18%  Similarity=0.223  Sum_probs=110.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      |+|..|||||||+++|....++..     +..    ...+....+.+.+||++|++.+...+..+++.++++++|+|.++
T Consensus         7 llG~~~vGKTsl~~r~~~~~~~t~-----~~~----~~~~~~~~~~~~i~D~~Gq~~~~~~~~~~~~~~~~~i~v~d~~~   77 (195)
T d1svsa1           7 LLGAGESGKSTIVKQMKIIHEAGT-----GIV----ETHFTFKDLHFKMFDVGGQRSERKKWIHCFEGVTAIIFCVALSD   77 (195)
T ss_dssp             EECSTTSSHHHHHHHHHHHHSCCC-----SEE----EEEEEETTEEEEEEEECCSGGGGGGGGGGCTTCSEEEEEEEGGG
T ss_pred             EECCCCCCHHHHHHHHhhCCCCCc-----cEE----EEEEEeeeeeeeeeccccccccccchhhcccCCceeeeEEeecc
Confidence            589999999999999988766433     222    22234456889999999999999999999999999999999988


Q ss_pred             hhhH-----------HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC---------------CCCCHHHHHHHHH----H
Q 040835           81 RQSF-----------DNVARWLEELRGHADKNIIIMLVGNKSDLETL---------------RAVPTEDAKEFAE----K  130 (206)
Q Consensus        81 ~~s~-----------~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~---------------~~~~~~~~~~~~~----~  130 (206)
                      ..++           +....|...+........|+++++||+|+...               ......+......    .
T Consensus        78 ~~~~~~~~~~~~~~~e~~~~~~~i~~~~~~~~~~~~lv~Nk~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~  157 (195)
T d1svsa1          78 YDLVLAEDEEMNRMHESMKLFDSICNNKWFTDTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFED  157 (195)
T ss_dssp             GGCBCSSCTTSBHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSHHHHHHHHHHHHHT
T ss_pred             cchHHHHhhhhHHHHHHHHHHHHHhcccccCCCCEEEEeccchhhhhhccchHHHHHhhhhcCcccHHHHHHHHHHHHHH
Confidence            7654           33344555555555578999999999996210               1112222221111    1


Q ss_pred             -------cCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          131 -------EGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       131 -------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                             ..+.+++|||+++.||+++|+.+.+.+++.
T Consensus       158 ~~~~~~~~~~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         158 LNKRKDTKEIYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             TCSCTTTCCEEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             HhcccCCCcceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence                   134578999999999999999999888764

>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=99.88  E-value=6.1e-23  Score=143.73  Aligned_cols=153  Identities=19%  Similarity=0.177  Sum_probs=95.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch---------hhhhhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE---------RYRAVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------~~~~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+++|++.......... +.+.......+......+.+||++|..         .+......++..+|+
T Consensus         5 liG~~n~GKSsLi~~L~~~~~~~~~~~~-~~t~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~ad~   83 (171)
T d1mkya1           5 IVGRPNVGKSTLFNKLVKKKKAIVEDEE-GVTRDPVQDTVEWYGKTFKLVDTCGVFDNPQDIISQKMKEVTLNMIREADL   83 (171)
T ss_dssp             EECCTTSSHHHHHHHHHC---------------CCSEEEEEETTEEEEEEECTTTTSSGGGCCCHHHHHHHHHHHTTCSE
T ss_pred             EECCCCCCHHHHHHHHhCCCcceecccC-ceeeccccccccccccccccccccceeeeeccccccccccccccccccCcE
Confidence            5899999999999999987654322111 222222222333445678999999832         223344556789999


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAFL  151 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~  151 (206)
                      ++++++.++..... ...++..+..   .++|+++|+||+|+...  ...+...++.+.....++++||++|.|++++++
T Consensus        84 i~~~~~~~~~~~~~-~~~~~~~l~~---~~~pviiv~NK~Dl~~~--~~~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~  157 (171)
T d1mkya1          84 VLFVVDGKRGITKE-DESLADFLRK---STVDTILVANKAENLRE--FEREVKPELYSLGFGEPIPVSAEHNINLDTMLE  157 (171)
T ss_dssp             EEEEEETTTCCCHH-HHHHHHHHHH---HTCCEEEEEESCCSHHH--HHHHTHHHHGGGSSCSCEECBTTTTBSHHHHHH
T ss_pred             EEEeeccccccccc-cccccccccc---ccccccccchhhhhhhh--hhhHHHHHHHhcCCCCeEEEecCCCCCHHHHHH
Confidence            99999987654432 2334444443   35899999999998531  111112222222234678999999999999999


Q ss_pred             HHHHHHHHH
Q 040835          152 TVLTEIYRI  160 (206)
Q Consensus       152 ~l~~~i~~~  160 (206)
                      +|.+.+.+.
T Consensus       158 ~i~~~l~e~  166 (171)
T d1mkya1         158 TIIKKLEEK  166 (171)
T ss_dssp             HHHHHHHHT
T ss_pred             HHHHhCCCC
Confidence            999877654

>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=99.87  E-value=3e-22  Score=141.23  Aligned_cols=155  Identities=15%  Similarity=0.106  Sum_probs=100.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcccc-----ceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATI-----GVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLV   75 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v   75 (206)
                      ++|.+|+|||||+|+|++.......+.+.     +.+...........+..+.++|++|+..|.......+..+|+++++
T Consensus        10 iiG~~naGKSTL~n~L~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~~~~~~d~~g~~~~~~~~~~~l~~~d~~ilv   89 (179)
T d1wb1a4          10 IFGHIDHGKTTLSKVLTEIASTSAHDKLPESQKRGITIDIGFSAFKLENYRITLVDAPGHADLIRAVVSAADIIDLALIV   89 (179)
T ss_dssp             EEECTTSSHHHHHHHHHTTC--------------------CCCEEEETTEEEEECCCSSHHHHHHHHHHHTTSCCEEEEE
T ss_pred             EEeCCCCcHHHHHHHHHHhcCceecccccceeeeeeeccccccccccCCccccccccccccccccchhhhhhhccccccc
Confidence            58999999999999999744322221111     1111111112223346688999999999988888999999999999


Q ss_pred             eeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHHc----CCeEEEeccCCCCCHHHH
Q 040835           76 YDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TEDAKEFAEKE----GLCFMETSALESTNVELA  149 (206)
Q Consensus        76 ~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~----~~~~~~~Sa~~~~~v~~~  149 (206)
                      +|+.++..... ......+..   .++|+++++||+|+.......  .+....+....    +.+++++||++|+|++++
T Consensus        90 ~d~~~g~~~~~-~~~~~~~~~---~~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL  165 (179)
T d1wb1a4          90 VDAKEGPKTQT-GEHMLILDH---FNIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDEL  165 (179)
T ss_dssp             EETTTCSCHHH-HHHHHHHHH---TTCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHH
T ss_pred             cccccccchhh-hhhhhhhhh---cCCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHH
Confidence            99987643222 222222333   468999999999986422111  11222333222    358999999999999999


Q ss_pred             HHHHHHHHHH
Q 040835          150 FLTVLTEIYR  159 (206)
Q Consensus       150 ~~~l~~~i~~  159 (206)
                      ++.|++.+.+
T Consensus       166 ~~~I~~~l~~  175 (179)
T d1wb1a4         166 KNLIITTLNN  175 (179)
T ss_dssp             HHHHHHHHHH
T ss_pred             HHHHHhcCCc
Confidence            9999887754

>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=99.87  E-value=2.8e-22  Score=143.59  Aligned_cols=154  Identities=21%  Similarity=0.258  Sum_probs=104.9

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|.+|||||||+++|.   +...+.||+|.....    ++.....+.+||++|++.+...+..+++.+++++++++.++
T Consensus         7 llG~~~vGKTsll~r~~---f~~~~~pTiG~~~~~----~~~~~~~~~~~D~~gq~~~~~~~~~~~~~~~~~~~~~~~~~   79 (200)
T d1zcba2           7 LLGAGESGKSTFLKQMR---IIHGQDPTKGIHEYD----FEIKNVPFKMVDVGGQRSERKRWFECFDSVTSILFLVSSSE   79 (200)
T ss_dssp             EECSTTSSHHHHHHHHH---HHHSCCCCSSEEEEE----EEETTEEEEEEEECC-------CTTSCTTCCEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHh---cCCCCCCeeeeEEEE----EeeeeeeeeeecccceeeecccccccccccceeEEEEEcCC
Confidence            58999999999999993   456677887754432    33456889999999999999999999999999999999987


Q ss_pred             hhh----------HHHHHHHHHH-HHhcCCCCCcEEEEEeCCCCCcC----------------CCCCHHHHHHHHHH---
Q 040835           81 RQS----------FDNVARWLEE-LRGHADKNIIIMLVGNKSDLETL----------------RAVPTEDAKEFAEK---  130 (206)
Q Consensus        81 ~~s----------~~~~~~~~~~-~~~~~~~~~p~ivv~nK~D~~~~----------------~~~~~~~~~~~~~~---  130 (206)
                      ...          +.....++.. +......++|+++++||+|+...                .....+.+.++...   
T Consensus        80 ~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~piilv~NK~Dl~~~~~~~~~~~~~f~~~~~~~~~~~~~~~~~~~~f~  159 (200)
T d1zcba2          80 FDQVLMEDRQTNRLTESLNIFETIVNNRVFSNVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFR  159 (200)
T ss_dssp             TTCEETTEEEEEHHHHHHHHHHHHHTCGGGTTSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHH
T ss_pred             cceeeeecccchhhhHHHHHHHHHhhChhhcCceEEEEeccchhhhhhccccHHHHhCccccCCcchHHHHHHHHHHHHH
Confidence            432          3333334343 33333468999999999997310                01122333333222   


Q ss_pred             --------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHh
Q 040835          131 --------EGLCFMETSALESTNVELAFLTVLTEIYRIV  161 (206)
Q Consensus       131 --------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~  161 (206)
                              ..+.+++|||+++.||+++|+.+.+.|++..
T Consensus       160 ~~~~~~~~~~iy~~~TsA~d~~ni~~vf~~v~d~i~~~~  198 (200)
T d1zcba2         160 GKRRDQQQRPLYHHFTTAINTENIRLVFRDVKDTILHDN  198 (200)
T ss_dssp             TTCSSCC--CCEEEECCTTCHHHHHHHHHHHHHHHHHHH
T ss_pred             HhccCCCCCceEEEEeeeeCcHHHHHHHHHHHHHHHHHh
Confidence                    1245778999999999999999988887653

>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=99.86  E-value=1.9e-21  Score=137.31  Aligned_cols=150  Identities=21%  Similarity=0.265  Sum_probs=106.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|++|||||||+++|.+..+... .++.+.+...  +..++  ..+.+||+.+...+...+..++...+++++++|.++
T Consensus        18 lvG~~~vGKTsLl~~l~~~~~~~~-~~~~~~~~~~--~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~d   92 (186)
T d1f6ba_          18 FLGLDNAGKTTLLHMLKDDRLGQH-VPTLHPTSEE--LTIAG--MTFTTFDLGGHIQARRVWKNYLPAINGIVFLVDCAD   92 (186)
T ss_dssp             EEEETTSSHHHHHHHHSCC-------CCCCCSCEE--EEETT--EEEEEEEECC----CCGGGGGGGGCSEEEEEEETTC
T ss_pred             EECCCCCCHHHHHHHHhCCCCcce-ecccccceeE--EEecc--cccccccccchhhhhhHHhhhhcccceeeeeeeccC
Confidence            589999999999999999887543 3443444432  33433  567899999999999999999999999999999999


Q ss_pred             hhhHHHHHHHHHHHH-hcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH-----------------cCCeEEEeccCC
Q 040835           81 RQSFDNVARWLEELR-GHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK-----------------EGLCFMETSALE  142 (206)
Q Consensus        81 ~~s~~~~~~~~~~~~-~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~-----------------~~~~~~~~Sa~~  142 (206)
                      ...+.....+..... .....+.|+++++||.|+..  .....++......                 .++++++|||++
T Consensus        93 ~~~~~~~~~~~~~~~~~~~~~~~~~li~~~K~D~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~t  170 (186)
T d1f6ba_          93 HERLLESKEELDSLMTDETIANVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLK  170 (186)
T ss_dssp             GGGHHHHHHHHHHHHTCGGGTTSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTT
T ss_pred             ccchHHHHHHHHHhhcccccCCCceEEEEeccCccc--cCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCC
Confidence            988877765444433 33346799999999999853  3344554444332                 234699999999


Q ss_pred             CCCHHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTEI  157 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i  157 (206)
                      |+|++++|+||.+.+
T Consensus       171 g~Gi~e~~~~l~~~i  185 (186)
T d1f6ba_         171 RQGYGEGFRWMAQYI  185 (186)
T ss_dssp             TBSHHHHHHHHHTTC
T ss_pred             CCCHHHHHHHHHHhh
Confidence            999999999998753

>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=99.86  E-value=9.3e-22  Score=139.06  Aligned_cols=146  Identities=21%  Similarity=0.175  Sum_probs=94.4

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch---------------hhhhhhHhH
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE---------------RYRAVTSAY   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~---------------~~~~~~~~~   65 (206)
                      |+|.+|||||||+|+|++........+.  +|.....+...    .+.+|||||..               .+.......
T Consensus         5 lvG~~nvGKSsLin~l~~~~~~~~~~~g--~T~~~~~~~~~----~~~ivDtpG~~~~~~~~~~~~~~~~~~~~~~~~~~   78 (184)
T d2cxxa1           5 FAGRSNVGKSTLIYRLTGKKVRRGKRPG--VTRKIIEIEWK----NHKIIDMPGFGFMMGLPKEVQERIKDEIVHFIEDN   78 (184)
T ss_dssp             EEEBTTSSHHHHHHHHHSCCCSSSSSTT--CTTSCEEEEET----TEEEEECCCBSCCTTSCHHHHHHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeCCCC--Eeecccccccc----cceecccCCceeccccccccccccchhhhhhhhhc
Confidence            5899999999999999998765444332  33333333222    35789999941               112223445


Q ss_pred             hcCCcEEEEEeeCCChhhHHHH----------HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHH-HHHHHHHcC--
Q 040835           66 YRGAVGAMLVYDITKRQSFDNV----------ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTED-AKEFAEKEG--  132 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~----------~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~-~~~~~~~~~--  132 (206)
                      ++.+|++++|+|..........          ..++..+..   .++|+++|+||+|+..    ..++ ...+.....  
T Consensus        79 ~~~~d~~~~vvD~~~~~~~~~~~~~~~~~~~d~~~~~~l~~---~~~p~iiv~NK~D~~~----~~~~~~~~~~~~~~~~  151 (184)
T d2cxxa1          79 AKNIDVAVLVVDGKAAPEIIKRWEKRGEIPIDVEFYQFLRE---LDIPTIVAVNKLDKIK----NVQEVINFLAEKFEVP  151 (184)
T ss_dssp             GGGCCEEEEEEETTHHHHHHHHHHHTTCCCHHHHHHHHHHH---TTCCEEEEEECGGGCS----CHHHHHHHHHHHHTCC
T ss_pred             ccccchheeeeeccccchhhhhhhhccccHHHHHHHHHHHH---cCCCEEEEEeeeehhh----hHHHHHHHHHHHhccc
Confidence            6789999999998754322111          112222322   4789999999999754    2222 222233322  


Q ss_pred             -----CeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          133 -----LCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       133 -----~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                           ..++++||++|+|++++++.|.+.+.+
T Consensus       152 ~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         152 LSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             GGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             ccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence                 248899999999999999999887764

>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=99.85  E-value=1.6e-21  Score=138.15  Aligned_cols=152  Identities=16%  Similarity=0.097  Sum_probs=95.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhh----h---hHhHhcCCcEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRA----V---TSAYYRGAVGAM   73 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~----~---~~~~~~~~d~~i   73 (206)
                      |+|.+|||||||+|+|++........+..+........... ....+.+|||||......    .   ....+..++.++
T Consensus         6 iiG~~nvGKSSLin~L~~~~~~~~~~~~~T~~~~~~~~~~~-~~~~~~~~DtpG~~~~~~~~~~~~~~~l~~~~~~~~i~   84 (185)
T d1lnza2           6 LVGFPSVGKSTLLSVVSSAKPKIADYHFTTLVPNLGMVETD-DGRSFVMADLPGLIEGAHQGVGLGHQFLRHIERTRVIV   84 (185)
T ss_dssp             EESSTTSSHHHHHHHSEEECCEESSTTSSCCCCCEEEEECS-SSCEEEEEEHHHHHHHTTCTTTTHHHHHHHHHHCCEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCceecCCCceEeeeeceeEec-CCcEEEEecCCCcccCchHHHHHHHHHHHHHHHhhhhh
Confidence            58999999999999999876544433332222222222222 235688999999632211    1   122345688888


Q ss_pred             EEeeCCChhhH---HHHH--HHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc--CCeEEEeccCCCCCH
Q 040835           74 LVYDITKRQSF---DNVA--RWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE--GLCFMETSALESTNV  146 (206)
Q Consensus        74 ~v~d~~~~~s~---~~~~--~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~--~~~~~~~Sa~~~~~v  146 (206)
                      ++++.......   ....  ............++|+++|+||+|+..    ..+....+....  +.+++.+||++|.|+
T Consensus        85 ~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~kp~ivv~NK~Dl~~----~~~~~~~~~~~~~~~~~v~~iSA~~g~Gi  160 (185)
T d1lnza2          85 HVIDMSGLEGRDPYDDYLTINQELSEYNLRLTERPQIIVANKMDMPE----AAENLEAFKEKLTDDYPVFPISAVTREGL  160 (185)
T ss_dssp             EEEESSCSSCCCHHHHHHHHHHHHHHSCSSTTTSCBCBEEECTTSTT----HHHHHHHHHHHCCSCCCBCCCSSCCSSTT
T ss_pred             heeeecccccchhhhhhhhhhhccchhhhhccCCcchhhccccchHh----HHHHHHHHHHHhccCCcEEEEECCCCCCH
Confidence            88876543321   1111  111112222235689999999999864    233344454444  678999999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++++.+.+.+
T Consensus       161 ~~L~~~i~~~L  171 (185)
T d1lnza2         161 RELLFEVANQL  171 (185)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHhh
Confidence            99999988765

>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=99.84  E-value=2.7e-21  Score=141.13  Aligned_cols=159  Identities=16%  Similarity=0.144  Sum_probs=101.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEE----------------EECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTL----------------VIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~----------------~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|.+++|||||+++|++....................                .+......+.++||||+..|......
T Consensus        10 IiGh~d~GKSTL~~~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~   89 (227)
T d1g7sa4          10 VLGHVDHGKTTLLDHIRGSAVASREAGGITQHIGATEIPMDVIEGICGDFLKKFSIRETLPGLFFIDTPGHEAFTTLRKR   89 (227)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHSCC----CCCBTTEEEEEHHHHHHHSCGGGGGCGGGGTCCEEEEECCCTTSCCTTSBCS
T ss_pred             EEeCCCccHHHHHHHHHhhcchheecCceeeeccccccccccccccccccccceeecccccccccccccceecccccchh
Confidence            58999999999999998754322211111111111111                12234457899999999999888888


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCH--------------------HHH
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPT--------------------EDA  124 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~--------------------~~~  124 (206)
                      .+..+|++|+|+|+.+.-.... ...+..+..   .++|+++++||+|+........                    ...
T Consensus        90 ~~~~~D~~ilVvda~~g~~~~~-~~~~~~~~~---~~~p~iivlNK~D~~~~~~~~~~~~~~~~~~~~~~~v~~~~~~~~  165 (227)
T d1g7sa4          90 GGALADLAILIVDINEGFKPQT-QEALNILRM---YRTPFVVAANKIDRIHGWRVHEGRPFMETFSKQDIQVQQKLDTKV  165 (227)
T ss_dssp             SSBSCSEEEEEEETTTCCCHHH-HHHHHHHHH---TTCCEEEEEECGGGSTTCCCCTTCCHHHHHTTSCHHHHHHHHHHH
T ss_pred             cccccceEEEEEecccCcccch-hHHHHHhhc---CCCeEEEEEECccCCCchhhhhhHHHHHhhhcchHHHHHHHHHHH
Confidence            8899999999999987543322 222233333   4689999999999854222110                    001


Q ss_pred             HHHHH----H--------------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHhhh
Q 040835          125 KEFAE----K--------------EGLCFMETSALESTNVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       125 ~~~~~----~--------------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~  163 (206)
                      .....    .              ..++++.+||++|.|++++++.+.....+...+
T Consensus       166 ~~~~~~l~~~~~~~~~~~~~~~~~~~~~i~pvSa~~G~gid~Ll~~l~~l~~~~~~~  222 (227)
T d1g7sa4         166 YELVGKLHEEGFESERFDRVTDFASQVSIIPISAITGEGIPELLTMLMGLAQQYLRE  222 (227)
T ss_dssp             HHHHHHHHHTTCEEEEGGGCSCTTTEEEEEECCTTTCTTHHHHHHHHHHHHHHHCSG
T ss_pred             HHHHHHHHHhhhhhhhhcccccccCCCeEEEeeCCCCCCHHHHHHHHHHHHHHHHHH
Confidence            11111    0              013689999999999999999888766554444

>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=99.84  E-value=1.4e-21  Score=135.12  Aligned_cols=144  Identities=22%  Similarity=0.229  Sum_probs=94.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchh--------h-hhhhHhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQER--------Y-RAVTSAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~--------~-~~~~~~~~~~~d   70 (206)
                      |+|.+|||||||+|+|++....... .+.............  .+..+.+|||||...        + .......+..+|
T Consensus         5 liG~~n~GKSSLin~l~g~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~Dt~G~~~~~~~~~~~~~~~~~~~~~~~ad   82 (160)
T d1xzpa2           5 IVGKPNVGKSTLLNRLLNEDRAIVTDIPGTTRDVISEEIVI--RGILFRIVDTAGVRSETNDLVERLGIERTLQEIEKAD   82 (160)
T ss_dssp             EECCHHHHTCHHHHHHHHHTBCCCCCSSCCSSCSCCEEEEE--TTEEEEEEESSCCCSSCCTTCCCCCHHHHHHHHHHCS
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeeccccccccceeEEEEe--CCeeEEeccccccccCCccHHHHHHHHHHHHHHHhCC
Confidence            5899999999999999987654332 222122222222333  346789999999421        1 112233467899


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHHHH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVELAF  150 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~  150 (206)
                      ++++|+|++++........+. .+     ...++++++||+|+...  ...++..... ..+.+++++||++|.|+++++
T Consensus        83 ~ii~v~d~~~~~~~~~~~~~~-~~-----~~~~~i~~~~k~d~~~~--~~~~~~~~~~-~~~~~~~~vSA~~g~gi~~L~  153 (160)
T d1xzpa2          83 IVLFVLDASSPLDEEDRKILE-RI-----KNKRYLVVINKVDVVEK--INEEEIKNKL-GTDRHMVKISALKGEGLEKLE  153 (160)
T ss_dssp             EEEEEEETTSCCCHHHHHHHH-HH-----TTSSEEEEEEECSSCCC--CCHHHHHHHH-TCSTTEEEEEGGGTCCHHHHH
T ss_pred             EEEEEEeCCCCcchhhhhhhh-hc-----ccccceeeeeeccccch--hhhHHHHHHh-CCCCcEEEEECCCCCCHHHHH
Confidence            999999999876544333221 11     35789999999998652  2333333222 235689999999999999999


Q ss_pred             HHHHH
Q 040835          151 LTVLT  155 (206)
Q Consensus       151 ~~l~~  155 (206)
                      ++|.+
T Consensus       154 ~~I~k  158 (160)
T d1xzpa2         154 ESIYR  158 (160)
T ss_dssp             HHHHH
T ss_pred             HHHHh
Confidence            98865

>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=99.84  E-value=1.1e-20  Score=133.71  Aligned_cols=152  Identities=20%  Similarity=0.127  Sum_probs=97.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEECCeEEEEEEEeCCCchhh------------hhhhHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERY------------RAVTSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~------------~~~~~~~~~   67 (206)
                      |+|.+|||||||+|+|++....... .+.............+  +..+.++|+||....            .......++
T Consensus        13 iiG~~~~GKSTLin~l~~~~~~~~~~~~~t~~~~~~~~~~~~--~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~~~~~~~   90 (186)
T d1mkya2          13 IVGRPNVGKSTLFNAILNKERALVSPIPGTTRDPVDDEVFID--GRKYVFVDTAGLRRKSRVEPRTVEKYSNYRVVDSIE   90 (186)
T ss_dssp             EECSTTSSHHHHHHHHHTSTTEEECCCC------CCEEEEET--TEEEEESSCSCC-----------CCSCCHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHCCCcceeecccccccccceeeeccC--CceeeeeccCCccccccccccccccchhHHHHHHHh
Confidence            5899999999999999987643221 1111112222233333  355788899985322            223445578


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHc-----CCeEEEeccCC
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKE-----GLCFMETSALE  142 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~-----~~~~~~~Sa~~  142 (206)
                      .+|++++|+|++.+.. .....++..+..   .+.|+++++||+|+.........+......+.     ..+++++||++
T Consensus        91 ~~dvii~v~d~~~~~~-~~~~~~~~~~~~---~~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~  166 (186)
T d1mkya2          91 KADVVVIVLDATQGIT-RQDQRMAGLMER---RGRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADK  166 (186)
T ss_dssp             HCSEEEEEEETTTCCC-HHHHHHHHHHHH---TTCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTT
T ss_pred             cCCEEEEeecccccch-hhHHHHHHHHHH---cCCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCC
Confidence            8999999999986533 222333333433   46899999999998654444444444444332     35799999999


Q ss_pred             CCCHHHHHHHHHHHHH
Q 040835          143 STNVELAFLTVLTEIY  158 (206)
Q Consensus       143 ~~~v~~~~~~l~~~i~  158 (206)
                      |.|++++++.|.+.+.
T Consensus       167 g~gv~~L~~~i~~~~~  182 (186)
T d1mkya2         167 GWNIDRMIDAMNLAYA  182 (186)
T ss_dssp             TBSHHHHHHHHHHHHH
T ss_pred             CCCHHHHHHHHHHHHH
Confidence            9999999999965443

>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=99.83  E-value=1.2e-19  Score=130.46  Aligned_cols=113  Identities=18%  Similarity=0.265  Sum_probs=83.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh-hhhHhHhcCCcEEEEEeeCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR-AVTSAYYRGAVGAMLVYDIT   79 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~-~~~~~~~~~~d~~i~v~d~~   79 (206)
                      |+|++|||||||+++|++..+.... ++.+.+.....+ .....+.+.+||++|++.+. ..+..++..++++++|+|++
T Consensus         5 ivG~~~~GKTsLl~~l~~~~~~~~~-~t~~~~~~~~~~-~~~~~~~~~~~d~~g~~~~~~~~~~~~~~~~~~~i~v~D~~   82 (207)
T d2fh5b1           5 FVGLCDSGKTLLFVRLLTGQYRDTQ-TSITDSSAIYKV-NNNRGNSLTLIDLPGHESLRFQLLDRFKSSARAVVFVVDSA   82 (207)
T ss_dssp             EECSTTSSHHHHHHHHHHSCCCCBC-CCCSCEEEEEEC-SSTTCCEEEEEECCCCHHHHHHHHHHHGGGEEEEEEEEETT
T ss_pred             EECCCCCCHHHHHHHHHcCCCCccc-CCeeEEEEEEEE-eeeeeeeeeeeeccccccccchhhhhhhhhccccceEEEcc
Confidence            5899999999999999998876544 454544443322 24456889999999998875 56788889999999999999


Q ss_pred             ChhhH-HHHHHHHHHH-Hh--cCCCCCcEEEEEeCCCCCc
Q 040835           80 KRQSF-DNVARWLEEL-RG--HADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        80 ~~~s~-~~~~~~~~~~-~~--~~~~~~p~ivv~nK~D~~~  115 (206)
                      +..++ .....++..+ ..  .....+|++|++||+|+..
T Consensus        83 d~~~~~~~~~~~l~~~l~~~~~~~~~~pilvv~NK~Dl~~  122 (207)
T d2fh5b1          83 AFQREVKDVAEFLYQVLIDSMALKNSPSLLIACNKQDIAM  122 (207)
T ss_dssp             THHHHHHHHHHHHHHHHHHHHTSTTCCEEEEEEECTTSTT
T ss_pred             cccccHHHHHHHHHHHHHhHHHhhcCCcEEEEEECcccCC
Confidence            97653 4444444333 22  2235689999999999964

>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=99.82  E-value=4.9e-21  Score=139.22  Aligned_cols=154  Identities=18%  Similarity=0.193  Sum_probs=109.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ++|+.|||||||+++|....+    .||+|....  .+.+  ..+.+.+||++|++.+...|..++..++++++++|.++
T Consensus        11 llG~~~vGKTsll~~~~~~~~----~pTiG~~~~--~~~~--~~~~~~~~D~~Gq~~~r~~w~~~~~~~~~ii~v~d~s~   82 (221)
T d1azta2          11 LLGAGESGKSTIVKQMRILHV----VLTSGIFET--KFQV--DKVNFHMFDVGGQRDERRKWIQCFNDVTAIIFVVASSS   82 (221)
T ss_dssp             EECSTTSSHHHHHHHHHHHHC----CCCCSCEEE--EEEE--TTEEEEEEECCCSTTTTTGGGGGCTTCSEEEEEEETTG
T ss_pred             EECCCCCCHHHHHHHHhcCCc----CCCCCeEEE--EEEE--CcEEEEEEecCccceeccchhhhcccccceEEEEEccc
Confidence            589999999999999987654    366665433  3333  35789999999999999999999999999999999986


Q ss_pred             hh----------hH-HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC----CC--------------------------
Q 040835           81 RQ----------SF-DNVARWLEELRGHADKNIIIMLVGNKSDLETLR----AV--------------------------  119 (206)
Q Consensus        81 ~~----------s~-~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~----~~--------------------------  119 (206)
                      ..          .+ +....|...+......++|++|++||+|+...+    ..                          
T Consensus        83 ~~~~~~~~~~~~r~~e~~~~~~~il~~~~~~~~~iil~~NK~Dl~~~k~~~~~~~~~~~f~~~~~~~~~~~~~~~~g~~~  162 (221)
T d1azta2          83 YNMVIREDNQTNRLQEALNLFKSIWNNRWLRTISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDP  162 (221)
T ss_dssp             GGCBCTTTSCSBHHHHHHHHHHHHHTCGGGSSCEEEEEEECHHHHHHHHHHCSSCHHHHCGGGGGCCCCTTCCCCTTCCH
T ss_pred             cccccccccchHHHHHHHHHHHHHhcChhhCCCcEEEEechhhhhhhhhccCcccHHHhCccccccCCcccccccCCCch
Confidence            42          22 223334444444334679999999999983210    00                          


Q ss_pred             CHHHHHHHHH-----H--------cCCeEEEeccCCCCCHHHHHHHHHHHHHHHhh
Q 040835          120 PTEDAKEFAE-----K--------EGLCFMETSALESTNVELAFLTVLTEIYRIVS  162 (206)
Q Consensus       120 ~~~~~~~~~~-----~--------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~  162 (206)
                      ...++..+..     .        ..+..++|||.++.+|+.+|..+.+.|++..-
T Consensus       163 ~~~~a~~~i~~~f~~~~~~~~~~~~~~y~h~T~A~Dt~ni~~vf~~v~d~I~~~~l  218 (221)
T d1azta2         163 RVTRAKYFIRDEFLRISTASGDGRHYCYPHFTCAVDTENIRRVFNDCRDIIQRMHL  218 (221)
T ss_dssp             HHHHHHHHHHHHHHHHHTSSCTTSCCEEEEECCTTCHHHHHHHHHTTHHHHHHHHH
T ss_pred             hHHHHHHHHHHHHHHHhccCCCCCCceeeeecceeccHHHHHHHHHHHHHHHHHHh
Confidence            1222222221     1        12346789999999999999999888887643

>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=99.80  E-value=5.3e-19  Score=125.92  Aligned_cols=149  Identities=15%  Similarity=0.136  Sum_probs=88.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch----------hh---hhhhHhHhc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE----------RY---RAVTSAYYR   67 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~----------~~---~~~~~~~~~   67 (206)
                      |+|.+|||||||+|+|++...........+.+.........   ..+.+.|++|..          .+   .......+.
T Consensus        28 lvG~~n~GKSTLin~L~g~~~~~~~~~~~~~t~~~~~~~~~---~~~~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  104 (195)
T d1svia_          28 LAGRSNVGKSSFINSLINRKNLARTSSKPGKTQTLNFYIIN---DELHFVDVPGYGFAKVSKSEREAWGRMIETYITTRE  104 (195)
T ss_dssp             EEEBTTSSHHHHHHHHHTC-------------CCEEEEEET---TTEEEEECCCBCCCSSCHHHHHHHHHHHHHHHHHCT
T ss_pred             EECCCCCCHHHHHHHhcCCCceEEeecccceeeeccccccc---ccceEEEEEeeccccccccccchhhhHHhhhhcccc
Confidence            58999999999999999865422222222233333333332   223456665521          11   112234456


Q ss_pred             CCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH----cCCeEEEeccCCC
Q 040835           68 GAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK----EGLCFMETSALES  143 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~----~~~~~~~~Sa~~~  143 (206)
                      .+|++++++|++++.. .....++..+..   .++|+++|+||+|+...... .+....+.+.    .+.+++.+||+++
T Consensus       105 ~~~~vi~viD~~~~~~-~~~~~~~~~l~~---~~~piivv~NK~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~SA~~~  179 (195)
T d1svia_         105 ELKAVVQIVDLRHAPS-NDDVQMYEFLKY---YGIPVIVIATKADKIPKGKW-DKHAKVVRQTLNIDPEDELILFSSETK  179 (195)
T ss_dssp             TEEEEEEEEETTSCCC-HHHHHHHHHHHH---TTCCEEEEEECGGGSCGGGH-HHHHHHHHHHHTCCTTSEEEECCTTTC
T ss_pred             chhhhhhhhhcccccc-cccccccccccc---ccCcceechhhccccCHHHH-HHHHHHHHHHhcccCCCCEEEEeCCCC
Confidence            7899999999986543 222344444444   36899999999998542322 1222333333    3457999999999


Q ss_pred             CCHHHHHHHHHHHH
Q 040835          144 TNVELAFLTVLTEI  157 (206)
Q Consensus       144 ~~v~~~~~~l~~~i  157 (206)
                      +|+++++++|.+.+
T Consensus       180 ~gi~el~~~i~~~l  193 (195)
T d1svia_         180 KGKDEAWGAIKKMI  193 (195)
T ss_dssp             TTHHHHHHHHHHHH
T ss_pred             CCHHHHHHHHHHHh
Confidence            99999999998775

>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=99.78  E-value=1.7e-18  Score=123.25  Aligned_cols=155  Identities=19%  Similarity=0.168  Sum_probs=97.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc---cccc--eeeEEEEEEE-------------------CCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK---ATIG--VEFQTKTLVI-------------------HHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~---~~~~--~~~~~~~~~~-------------------~~~~~~~~i~D~~G~~   56 (206)
                      ++|..++|||||+++|++........   ....  ..+.......                   ......+.++||||+.
T Consensus        10 iiGhvd~GKSTL~~~L~g~~~~~~~~~~~~g~t~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iDtPGh~   89 (195)
T d1kk1a3          10 MVGHVDHGKTTLTKALTGVWTDTHSEELRRGITIKIGFADAEIRRCPNCGRYSTSPVCPYCGHETEFVRRVSFIDAPGHE   89 (195)
T ss_dssp             EECSTTSSHHHHHHHHHTCCCC--CGGGGSCSSSCCEEEEEEEEECTTTCCEESSSBCTTTCCBCEEEEEEEEEECSSHH
T ss_pred             EEeccCCcHHHHHHHHHhhhhhhhHHHHHcCcccccchhhhhhhccchhhhccceeeeeeeeeeecCceeEeeeccchhh
Confidence            48999999999999998743221111   1000  1111100000                   1123568999999999


Q ss_pred             hhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHHHHHHHHHc---
Q 040835           57 RYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTEDAKEFAEKE---  131 (206)
Q Consensus        57 ~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~~~~~~~~~---  131 (206)
                      .|.......+..+|++++|+|+.+........+.+..+....  ..++++++||+|+......  ....+..+....   
T Consensus        90 ~f~~~~~~~~~~~d~~ilvvda~~g~~~~~t~e~~~~~~~~~--~~~iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~  167 (195)
T d1kk1a3          90 ALMTTMLAGASLMDGAILVIAANEPCPRPQTREHLMALQIIG--QKNIIIAQNKIELVDKEKALENYRQIKEFIEGTVAE  167 (195)
T ss_dssp             HHHHHHHHCGGGCSEEEEEEETTSCSSCHHHHHHHHHHHHHT--CCCEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTT
T ss_pred             hhhHHhhcccccccccccccchhhhhhhhhhHHHHHHHHHhc--CccceeeeecccchhhHHHHHHHHHHHHHhccccCC
Confidence            998888888899999999999987632233333333333322  2458889999998642211  122233333333   


Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          132 GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       132 ~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      .++++++||++|+|++++++.+.+.+
T Consensus       168 ~~~iIpiSA~~G~ni~~Ll~~I~~~i  193 (195)
T d1kk1a3         168 NAPIIPISALHGANIDVLVKAIEDFI  193 (195)
T ss_dssp             TCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CCeEEEEECCCCCCHHHHHHHHHHHC
Confidence            36799999999999999988887653

>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=99.78  E-value=2.6e-19  Score=127.26  Aligned_cols=153  Identities=17%  Similarity=0.097  Sum_probs=103.8

Q ss_pred             CccCCCCCHHHHHHHHhcC-----CC---------CCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhHh
Q 040835            1 LIGDSAVGKSQLLARFARD-----EF---------SLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAYY   66 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~-----~~---------~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~~   66 (206)
                      ++|..++|||||+++|+..     ..         ........|.++......+.+....+.++||||+..|.......+
T Consensus         8 iiGHvd~GKSTL~~~l~~~~~~~~~~~~~~~~~~~~~~~Er~rgiTi~~~~~~~~~~~~~~~~iDtPGh~~f~~~~~~~~   87 (196)
T d1d2ea3           8 TIGHVDHGKTTLTAAITKILAEGGGAKFKKYEEIDNAPEERARGITINAAHVEYSTAARHYAHTDCPGHADYVKNMITGT   87 (196)
T ss_dssp             EESSTTSSHHHHHHHHHHHHHHTTSBCCCCHHHHHSCCEEEETTEEEECEEEEEECSSCEEEEEECSSHHHHHHHHHHTS
T ss_pred             EEeCCCCcHHHHHHHHHHHHHHcCcchhhhhhhcccchhhcCCCccCCcceEEEEeceeeEEeecCcchHHHHHHHHHHH
Confidence            5899999999999999851     00         001112235566666666777778899999999999988888888


Q ss_pred             cCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEEEe
Q 040835           67 RGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFMET  138 (206)
Q Consensus        67 ~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~~~  138 (206)
                      ..+|++|+|+|+.+... ...++.+..+..+.  ..|++|++||+|+..+...   -..+++.+....+     ++++.+
T Consensus        88 ~~aD~allVVda~~G~~-~QT~~~~~~a~~~~--~~~iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~i  164 (196)
T d1d2ea3          88 APLDGCILVVAANDGPM-PQTREHLLLARQIG--VEHVVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVG  164 (196)
T ss_dssp             SCCSEEEEEEETTTCSC-HHHHHHHHHHHHTT--CCCEEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEEC
T ss_pred             hhcCeEEEEEEcCCCCc-hhHHHHHHHHHHhc--CCcEEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEE
Confidence            99999999999997643 22233333333332  3578999999998642221   1123445554443     579999


Q ss_pred             ccCCC----------CCHHHHHHHHHHH
Q 040835          139 SALES----------TNVELAFLTVLTE  156 (206)
Q Consensus       139 Sa~~~----------~~v~~~~~~l~~~  156 (206)
                      |+++|          .++.++++.+...
T Consensus       165 Sa~~g~~~~~~~~~~~~~~~Lldai~~~  192 (196)
T d1d2ea3         165 SALCALEQRDPELGLKSVQKLLDAVDTY  192 (196)
T ss_dssp             CHHHHHTTCCTTTTHHHHHHHHHHHHHH
T ss_pred             EccccccccCcccccCCHHHHHHHHHhh
Confidence            99987          4777777666543

>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=99.77  E-value=5.9e-18  Score=121.38  Aligned_cols=111  Identities=18%  Similarity=0.138  Sum_probs=76.3

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TE  122 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~  122 (206)
                      ..+.++|+||+..|.......+..+|++|+|+|+.+.-.....++.+..+..+.  -.|++|++||+|+.......  ..
T Consensus        86 r~~~iiD~PGH~df~~~~~~~~~~ad~ailvVda~~gi~~~~t~e~~~~~~~~~--i~~iIV~vNK~Dl~~~~~~~~~~~  163 (205)
T d2qn6a3          86 RRISFIDAPGHEVLMATMLSGAALMDGAILVVAANEPFPQPQTREHFVALGIIG--VKNLIIVQNKVDVVSKEEALSQYR  163 (205)
T ss_dssp             EEEEEEECSCHHHHHHHHHHTSSCCSEEEEEEETTSCSSCHHHHHHHHHHHHTT--CCCEEEEEECGGGSCHHHHHHHHH
T ss_pred             EEEEEeccchHHHHHhhhhcceeccccccccccccccccchhHHHHHHHHHHcC--CceeeeccccCCCccchHHHHHHH
Confidence            468999999999998888888899999999999987532222233333333322  25889999999986422111  11


Q ss_pred             HHHHHHHHc---CCeEEEeccCCCCCHHHHHHHHHHHH
Q 040835          123 DAKEFAEKE---GLCFMETSALESTNVELAFLTVLTEI  157 (206)
Q Consensus       123 ~~~~~~~~~---~~~~~~~Sa~~~~~v~~~~~~l~~~i  157 (206)
                      +...+....   +++++.+||++|.|++++++.+...+
T Consensus       164 ~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~i  201 (205)
T d2qn6a3         164 QIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  201 (205)
T ss_dssp             HHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             HHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhhC
Confidence            122222222   36899999999999999998877654

>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=99.75  E-value=2.3e-18  Score=120.78  Aligned_cols=151  Identities=21%  Similarity=0.180  Sum_probs=92.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhh---------hhhHhHhcCCcE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR---------AVTSAYYRGAVG   71 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~---------~~~~~~~~~~d~   71 (206)
                      |+|.+|||||||+|+|++........+..+........... ....+..||++|.....         .........+++
T Consensus        10 iiG~~nvGKSSLin~L~~~~~~~~~~~~~t~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (179)
T d1egaa1          10 IVGRPNVGKSTLLNKLLGQKISITSRKAQTTRHRIVGIHTE-GAYQAIYVDTPGLHMEEKRAINRLMNKAASSSIGDVEL   88 (179)
T ss_dssp             EECSSSSSHHHHHHHHHTCSEEECCCCSSCCSSCEEEEEEE-TTEEEEEESSSSCCHHHHHHHHHHHTCCTTSCCCCEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCceeeccCCCceEEEEEeeeec-CCceeEeecCCCceecchhhhhhhhhhccccchhhcce
Confidence            58999999999999999876554433222222222222222 22446678888743221         112223356788


Q ss_pred             EEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC-CeEEEeccCCCCCHHHHH
Q 040835           72 AMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG-LCFMETSALESTNVELAF  150 (206)
Q Consensus        72 ~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~-~~~~~~Sa~~~~~v~~~~  150 (206)
                      ++++.|..+...  ....+...+..   ...|.++++||.|+.............+...++ .+++++||++|.|+++++
T Consensus        89 ~l~~~d~~~~~~--~~~~~~~~l~~---~~~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~  163 (179)
T d1egaa1          89 VIFVVEGTRWTP--DDEMVLNKLRE---GKAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIA  163 (179)
T ss_dssp             EEEEEETTCCCH--HHHHHHHHHHS---SSSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHH
T ss_pred             eEEEEecCccch--hHHHHHHHhhh---ccCceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHH
Confidence            888888775432  22223333332   457889999999976532222333444455555 589999999999999999


Q ss_pred             HHHHHHH
Q 040835          151 LTVLTEI  157 (206)
Q Consensus       151 ~~l~~~i  157 (206)
                      +.|.+.+
T Consensus       164 ~~i~~~l  170 (179)
T d1egaa1         164 AIVRKHL  170 (179)
T ss_dssp             HHHHTTC
T ss_pred             HHHHHhC
Confidence            9887654

>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=99.70  E-value=1e-17  Score=119.83  Aligned_cols=137  Identities=17%  Similarity=0.149  Sum_probs=89.5

Q ss_pred             CccCCCCCHHHHHHHHhcC------CCCCCC----c-----cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhH
Q 040835            1 LIGDSAVGKSQLLARFARD------EFSLDS----K-----ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAY   65 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~------~~~~~~----~-----~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~   65 (206)
                      ++|..++|||||+++|+..      ......    +     ...++++......+.+.+..+.|+||||+..|.......
T Consensus         8 iiGhvd~GKSTL~~~Ll~~~g~~~~~~~~~~~~~~d~~~eE~~rgiTi~~~~~~~~~~~~~i~iiDtPGh~df~~~~~~~   87 (204)
T d2c78a3           8 TIGHVDHGKTTLTAALTYVAAAENPNVEVKDYGDIDKAPEERARGITINTAHVEYETAKRHYSHVDCPGHADYIKNMITG   87 (204)
T ss_dssp             EECSTTSSHHHHHHHHHHHHHHSCTTSCCCCHHHHSCSHHHHHHTCCCSCEEEEEECSSCEEEEEECCCSGGGHHHHHHH
T ss_pred             EEeCCCCcHHHHHHHHHHHhhhccCCcchhhhhhcccchHHhcCCeEEEeeEEEEEeCCeEEEEEeCCCchhhHHHHHHH
Confidence            5899999999999999732      000000    0     001445555555666777889999999999999888888


Q ss_pred             hcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCC---CHHHHHHHHHHcC-----CeEE
Q 040835           66 YRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNII-IMLVGNKSDLETLRAV---PTEDAKEFAEKEG-----LCFM  136 (206)
Q Consensus        66 ~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~---~~~~~~~~~~~~~-----~~~~  136 (206)
                      +..+|++|+|+|+.++......+.| ..+..   .++| ++|++||+|+....+.   -..++..+....+     ++++
T Consensus        88 ~~~aD~avlVvda~~Gv~~qt~~~~-~~~~~---~gi~~iiv~iNK~D~~~~~~~~~~~~~~i~~~l~~~~~~~~~i~~i  163 (204)
T d2c78a3          88 AAQMDGAILVVSAADGPMPQTREHI-LLARQ---VGVPYIVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVI  163 (204)
T ss_dssp             HTTCSSEEEEEETTTCCCHHHHHHH-HHHHH---TTCCCEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEE
T ss_pred             HHHCCEEEEEEECCCCCcHHHHHHH-HHHHH---cCCCeEEEEEEecccCCCHHHHHHHHHHHHHHHHhcCCCcccceee
Confidence            9999999999999876544333333 33333   3565 7788999998542211   1123344444433     4578


Q ss_pred             EeccC
Q 040835          137 ETSAL  141 (206)
Q Consensus       137 ~~Sa~  141 (206)
                      ..|+.
T Consensus       164 ~~sa~  168 (204)
T d2c78a3         164 RGSAL  168 (204)
T ss_dssp             ECCHH
T ss_pred             eeech
Confidence            77764

>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=99.69  E-value=8.5e-17  Score=119.18  Aligned_cols=110  Identities=15%  Similarity=0.208  Sum_probs=79.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC----------------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS----------------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~----------------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      ++|+.++|||||+.+|+...-....                ....++++......+.+.+..+.|+||||+..|......
T Consensus        11 i~gh~~~GKTtL~e~ll~~~g~~~~~g~v~~~~~~~D~~~~E~~r~~si~~~~~~~~~~~~~~n~iDtPG~~dF~~e~~~   90 (276)
T d2bv3a2          11 IAAHIDAGKTTTTERILYYTGRIHKIGEVHEGAATMDFMEQERERGITITAAVTTCFWKDHRINIIDAPGHVDFTIEVER   90 (276)
T ss_dssp             EEECTTSCHHHHHHHHHHHHTSSCC-------------------CCCCCCCSEEEEEETTEEEEEECCCSSSSCSTTHHH
T ss_pred             EEeCCCCCHHHHHHHHHHhcCccccccceecCceEEeccHHHHhcCCccccceeeeccCCeEEEEecCCchhhhHHHHHH
Confidence            5899999999999999752110000                001123333334455566788999999999999999999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .++.+|++|+|+|+.+.-.....+.|.. ...   .++|.++++||+|..
T Consensus        91 ~l~~~D~avlVvda~~Gv~~~T~~~w~~-a~~---~~lP~i~fINKmDr~  136 (276)
T d2bv3a2          91 SMRVLDGAIVVFDSSQGVEPQSETVWRQ-AEK---YKVPRIAFANKMDKT  136 (276)
T ss_dssp             HHHHCCEEEEEEETTTSSCHHHHHHHHH-HHT---TTCCEEEEEECTTST
T ss_pred             HHHhhhheEEeccccCCcchhHHHHHHH-HHH---cCCCEEEEEeccccc
Confidence            9999999999999998765555555532 232   479999999999974

>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=99.67  E-value=4.1e-16  Score=112.53  Aligned_cols=143  Identities=24%  Similarity=0.212  Sum_probs=91.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC-------------------------------CccccceeeEEEEEEECCeEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD-------------------------------SKATIGVEFQTKTLVIHHKNVKAQI   49 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~-------------------------------~~~~~~~~~~~~~~~~~~~~~~~~i   49 (206)
                      ++|..++|||||+++|+...-...                               .....+.+.......+......+.+
T Consensus        14 viGHVd~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~g~~~~~~~~~~~~d~~~~e~~~g~ti~~~~~~~~~~~~~~~i   93 (222)
T d1zunb3          14 TCGNVDDGKSTLIGRLLHDSKMIYEDHLEAITRDSKKSGTTGDDVDLALLVDGLQAEREQGITIDVAYRYFSTAKRKFII   93 (222)
T ss_dssp             EECCTTSSHHHHHHHHHHHTTCC------------------CCC--CHHHHHHHHC-----CCCCCEEEEEECSSEEEEE
T ss_pred             EEcCCCCCHHHHHHHHHHHcCCcchHHHHHHHHHHHhcCccccceeeeeccccchhhhccCCCceeeEEEEeccceEEEE
Confidence            589999999999999974211000                               0000122222223333344577899


Q ss_pred             EeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCCCCCH----HHH
Q 040835           50 WDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNI-IIMLVGNKSDLETLRAVPT----EDA  124 (206)
Q Consensus        50 ~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~-p~ivv~nK~D~~~~~~~~~----~~~  124 (206)
                      +|+||+..|-.....-+..+|++|+|+|+.+...-.. .+.+..+..   .++ .+++++||+|+....+...    .++
T Consensus        94 iD~PGH~dfv~~~~~g~~~aD~ailVvda~~G~~~Qt-~e~~~~~~~---~gv~~iiv~vNK~D~~~~~~~~~~~~~~~l  169 (222)
T d1zunb3          94 ADTPGHEQYTRNMATGASTCDLAIILVDARYGVQTQT-RRHSYIASL---LGIKHIVVAINKMDLNGFDERVFESIKADY  169 (222)
T ss_dssp             EECCCSGGGHHHHHHHHTTCSEEEEEEETTTCSCHHH-HHHHHHHHH---TTCCEEEEEEECTTTTTSCHHHHHHHHHHH
T ss_pred             EeccchhhhhhhhccccccCceEEEEeccccCcccch-HHHHHHHHH---cCCCEEEEEEEccccccccceehhhhHHHH
Confidence            9999999999888888999999999999987543222 222222222   244 4889999999864322111    234


Q ss_pred             HHHHHHcCC-----eEEEeccCCCCCHH
Q 040835          125 KEFAEKEGL-----CFMETSALESTNVE  147 (206)
Q Consensus       125 ~~~~~~~~~-----~~~~~Sa~~~~~v~  147 (206)
                      ..+....++     +++++||++|.|+.
T Consensus       170 ~~~~~~~~~~~~~i~~IPiSA~~G~ni~  197 (222)
T d1zunb3         170 LKFAEGIAFKPTTMAFVPMSALKGDNVV  197 (222)
T ss_dssp             HHHHHTTTCCCSEEEEEECCTTTCTTTS
T ss_pred             hhhhHhhccCCCceEEEEEEcccCccCC
Confidence            455555543     67899999999884

>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=99.67  E-value=4.7e-17  Score=116.68  Aligned_cols=109  Identities=21%  Similarity=0.242  Sum_probs=75.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHhH----hcCCcEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSAY----YRGAVGAMLVY   76 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~~----~~~~d~~i~v~   76 (206)
                      |+|++|||||||+|+|++..+.+..    +....  ...+...+..+.+||+||++.+...+..+    ...++.+++++
T Consensus         8 lvG~~n~GKTSLln~l~~~~~~~~t----t~~~~--~~~~~~~~~~~~l~D~~g~~~~~~~~~~~~~~~~~~~~~~i~~v   81 (209)
T d1nrjb_           8 IAGPQNSGKTSLLTLLTTDSVRPTV----VSQEP--LSAADYDGSGVTLVDFPGHVKLRYKLSDYLKTRAKFVKGLIFMV   81 (209)
T ss_dssp             EECSTTSSHHHHHHHHHHSSCCCBC----CCSSC--EEETTGGGSSCEEEECCCCGGGTHHHHHHHHHHGGGEEEEEEEE
T ss_pred             EECCCCCCHHHHHHHHhCCCCCCeE----Eecce--EEEEEeCCeEEEEEecccccchhhHHHHHHHHHhhhccccceEE
Confidence            5899999999999999998764321    22222  22344556678999999998765555444    45568888888


Q ss_pred             eCCC-hhhHHHHHHHHH----HHHhcCCCCCcEEEEEeCCCCCc
Q 040835           77 DITK-RQSFDNVARWLE----ELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        77 d~~~-~~s~~~~~~~~~----~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      |..+ ..++.....|+.    .+......++|+++++||+|+..
T Consensus        82 d~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~piiiv~NK~D~~~  125 (209)
T d1nrjb_          82 DSTVDPKKLTTTAEFLVDILSITESSCENGIDILIACNKSELFT  125 (209)
T ss_dssp             ETTSCTTCCHHHHHHHHHHHHHHHHHSTTCCCEEEEEECTTSTT
T ss_pred             EEecccccHHHHHHHHHHHHHHHHHHHhccCCeEEEEEeecccc
Confidence            8764 445555555443    33444457899999999999864

>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=99.65  E-value=9e-16  Score=113.34  Aligned_cols=110  Identities=14%  Similarity=0.148  Sum_probs=78.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC--------c--------cccceeeEEEEEEECCeEEEEEEEeCCCchhhhhhhHh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS--------K--------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAVTSA   64 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~--------~--------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~~~~   64 (206)
                      |+|+.++|||||+.+|+...-....        .        .-.+.++......+.+.+..+.++||||+..|......
T Consensus         7 iiGh~~~GKTtL~e~ll~~~g~~~~~g~v~~g~~~~D~~~~E~~r~~ti~~~~~~~~~~~~~~n~iDtPGh~dF~~e~~~   86 (267)
T d2dy1a2           7 LVGHAGSGKTTLTEALLYKTGAKERRGRVEEGTTTTDYTPEAKLHRTTVRTGVAPLLFRGHRVFLLDAPGYGDFVGEIRG   86 (267)
T ss_dssp             EEESTTSSHHHHHHHHHHHTTSSSSCCCGGGTCCSSCCSHHHHHTTSCCSCEEEEEEETTEEEEEEECCCSGGGHHHHHH
T ss_pred             EEcCCCCcHHHHHHHHHHHcCCchhhccchhccccccchHHHHHhCCeEEeecccccccccceeEEccCchhhhhhhhhh
Confidence            5899999999999999642111000        0        00123333344445566678999999999999999999


Q ss_pred             HhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           65 YYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        65 ~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      .++.+|++|+|+|+.++-.....+.|.. ...   .++|.++++||+|..
T Consensus        87 al~~~D~avlvvda~~Gv~~~t~~~~~~-~~~---~~~p~~i~iNk~D~~  132 (267)
T d2dy1a2          87 ALEAADAALVAVSAEAGVQVGTERAWTV-AER---LGLPRMVVVTKLDKG  132 (267)
T ss_dssp             HHHHCSEEEEEEETTTCSCHHHHHHHHH-HHH---TTCCEEEEEECGGGC
T ss_pred             hhcccCceEEEeeccCCccchhHHHHHh-hhh---ccccccccccccccc
Confidence            9999999999999998765544444533 333   469999999999963

>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=99.61  E-value=1.5e-15  Score=106.64  Aligned_cols=153  Identities=15%  Similarity=0.070  Sum_probs=75.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCch-------hhhhhh---HhHhcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQE-------RYRAVT---SAYYRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~-------~~~~~~---~~~~~~~d   70 (206)
                      |+|.+|||||||+|+|++...........+................+..++.++..       ......   .......+
T Consensus        21 lvG~~NvGKSSL~n~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  100 (188)
T d1puia_          21 FAGRSNAGKSSALNTLTNQKSLARTSKTPGRTQLINLFEVADGKRLVDLPGYGYAEVPEEMKRKWQRALGEYLEKRQSLQ  100 (188)
T ss_dssp             EEECTTSSHHHHHTTTCCC-------------CCEEEEEEETTEEEEECCCCC------CCHHHHHHHHHHHHHHCTTEE
T ss_pred             EECCCCCCHHHHHHHHhCCCceEeecccccceeeccceecccccceeeeecccccchhhhhhhhhhhhhhhhhhhhhhee
Confidence            58999999999999999876544433222222222222222222222222222211       111111   12223444


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHHc--CCeEEEeccCCCCCH
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TEDAKEFAEKE--GLCFMETSALESTNV  146 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~--~~~~~~~Sa~~~~~v  146 (206)
                      .++.+.+....... ....++..+..   ...++++++||+|+.......  .+...+.....  ..+++.+||++|.|+
T Consensus       101 ~~~~~~~~~~~~~~-~~~~~~~~~~~---~~~~~~~v~~k~D~~~~~~~~~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gi  176 (188)
T d1puia_         101 GLVVLMDIRHPLKD-LDQQMIEWAVD---SNIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGV  176 (188)
T ss_dssp             EEEEEEETTSCCCH-HHHHHHHHHHH---TTCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSH
T ss_pred             EEEEeecccccchh-HHHHHHHHhhh---ccccccchhhhhhccCHHHHHHHHHHHHHHHHhhCCCCcEEEEeCCCCCCH
Confidence            55566666543322 22333333333   357899999999985421111  11122222222  347899999999999


Q ss_pred             HHHHHHHHHHH
Q 040835          147 ELAFLTVLTEI  157 (206)
Q Consensus       147 ~~~~~~l~~~i  157 (206)
                      +++++.|.+.+
T Consensus       177 d~L~~~i~~~~  187 (188)
T d1puia_         177 DKLRQKLDTWF  187 (188)
T ss_dssp             HHHHHHHHHHH
T ss_pred             HHHHHHHHHHh
Confidence            99999886543

>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=99.54  E-value=6.4e-15  Score=107.85  Aligned_cols=147  Identities=17%  Similarity=0.131  Sum_probs=78.0

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCC-----------------------------CCccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSL-----------------------------DSKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|..++|||||+.+|+...-..                             ......+.+..............+.++|
T Consensus        29 iiGHVD~GKSTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~i~~iD  108 (245)
T d1r5ba3          29 FIGHVDAGKSTLGGNILFLTGMVDKRTMEKIEREAKEAGKESWYLSWALDSTSEEREKGKTVEVGRAYFETEHRRFSLLD  108 (245)
T ss_dssp             EEECGGGTHHHHHHHHHHHTTSSCHHHHHHHHHHTCC----------------------------CCEEECSSEEEEECC
T ss_pred             EEeeCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCCccchhhhhhhccccccccCccccccccccccccceeeeec
Confidence            57999999999999995311000                             0000112222222223334556799999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhH------HHHHHHHHHHHhcCCCCC-cEEEEEeCCCCCcCCC--CCHH
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSF------DNVARWLEELRGHADKNI-IIMLVGNKSDLETLRA--VPTE  122 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~~~~~~~~~~-p~ivv~nK~D~~~~~~--~~~~  122 (206)
                      |||+..|..........+|++++|+|+.+..--      ....+.+..+..   .++ ++++++||+|+.....  ....
T Consensus       109 tPGH~df~~~~~~g~~~aD~ailVVda~~G~~~~~~~~~~QT~e~l~l~~~---~~i~~iiv~iNKmD~~~~~~~e~~~~  185 (245)
T d1r5ba3         109 APGHKGYVTNMINGASQADIGVLVISARRGEFEAGFERGGQTREHAVLART---QGINHLVVVINKMDEPSVQWSEERYK  185 (245)
T ss_dssp             CCC-----------TTSCSEEEEEEECSTTHHHHTTSTTCCHHHHHHHHHH---TTCSSEEEEEECTTSTTCSSCHHHHH
T ss_pred             ccccccchhhhhhhhhhhcceeeEEEcCCCccCCccccccchHHHHHHHHH---cCCCeEEEEEEcCCCCccchhHHHHH
Confidence            999999998888889999999999999874210      012222222222   234 4789999999863221  1111


Q ss_pred             ----HHHHHHHHc-------CCeEEEeccCCCCCHHHHH
Q 040835          123 ----DAKEFAEKE-------GLCFMETSALESTNVELAF  150 (206)
Q Consensus       123 ----~~~~~~~~~-------~~~~~~~Sa~~~~~v~~~~  150 (206)
                          ++..+..+.       .++++++||++|+||.+++
T Consensus       186 ei~~~l~~~l~~i~~~~~~~~v~~VPiSA~~G~nI~~~~  224 (245)
T d1r5ba3         186 ECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRV  224 (245)
T ss_dssp             HHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCC
T ss_pred             HHHHHHHHHHHHHhCcCcccCCEEEEeeccCCCCcccch
Confidence                222232332       2479999999999997653

>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=99.54  E-value=6.3e-15  Score=106.70  Aligned_cols=145  Identities=20%  Similarity=0.189  Sum_probs=89.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCC-----------------------------CccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLD-----------------------------SKATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~-----------------------------~~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      |+|.-++|||||+.+|+...-...                             .....+.+.......+......+.++|
T Consensus         8 viGHVd~GKTTL~~~Ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~~e~~rg~ti~~~~~~~~~~~~~i~iiD   87 (224)
T d1jnya3           8 VIGHVDHGKSTLVGRLLMDRGFIDEKTVKEAEEAAKKLGKESEKFAFLLDRLKEERERGVTINLTFMRFETKKYFFTIID   87 (224)
T ss_dssp             EEESTTSSHHHHHHHHHHHHBCCCHHHHHHHHHHHHHHTCTHHHHHHHHHHHHHC-----------CEEECSSCEEEECC
T ss_pred             EEecCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHhcCcccccccccccCchhhhcCCccccceEEEEecCCceeEEee
Confidence            589999999999999964110000                             000113333334444556668899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhhH------HHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CH--
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQSF------DNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PT--  121 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~------~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~--  121 (206)
                      |||+..|.......+..+|++|+|+|+.+...-      ....+.+......  .-.++++++||+|+......  ..  
T Consensus        88 tPGH~df~~~~~~g~~~~D~allVVda~~G~~~~t~~~~~qt~e~l~~~~~~--~~~~iIv~iNK~D~~~~~~~~~~~~~  165 (224)
T d1jnya3          88 APGHRDFVKNMITGASQADAAILVVSAKKGEYEAGMSVEGQTREHIILAKTM--GLDQLIVAVNKMDLTEPPYDEKRYKE  165 (224)
T ss_dssp             CSSSTTHHHHHHHTSSCCSEEEEEEECSTTHHHHHHSTTCHHHHHHHHHHHT--TCTTCEEEEECGGGSSSTTCHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHhhceEEEEEecccCcccccccccchhHHHHHHHHHh--CCCceEEEEEcccCCCccccHHHHHH
Confidence            999999999999999999999999999975311      1122222222222  12468889999998642211  11  


Q ss_pred             --HHHHHHHHHcC-----CeEEEeccCCCCCHH
Q 040835          122 --EDAKEFAEKEG-----LCFMETSALESTNVE  147 (206)
Q Consensus       122 --~~~~~~~~~~~-----~~~~~~Sa~~~~~v~  147 (206)
                        .++..+...++     ++++.+||..|.|+.
T Consensus       166 v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~  198 (224)
T d1jnya3         166 IVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNIT  198 (224)
T ss_dssp             HHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTT
T ss_pred             HHHHHHhHHHhcCCCcccCeEEEEEccCCCCcc
Confidence              22334444443     468999999999875

>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=99.53  E-value=7e-15  Score=107.16  Aligned_cols=145  Identities=14%  Similarity=0.133  Sum_probs=94.3

Q ss_pred             CccCCCCCHHHHHHHHhcC--CCC------------------CCC---------ccccceeeEEEEEEECCeEEEEEEEe
Q 040835            1 LIGDSAVGKSQLLARFARD--EFS------------------LDS---------KATIGVEFQTKTLVIHHKNVKAQIWD   51 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~--~~~------------------~~~---------~~~~~~~~~~~~~~~~~~~~~~~i~D   51 (206)
                      ++|..++|||||+.+|+..  ...                  ..+         ....+.++......+...+..+.|+|
T Consensus        11 iiGHvD~GKsTl~~~ll~~~g~i~~~~~~~~~~~~~~~~~~~~~~~~~~D~~~~Er~rGiTi~~~~~~~~~~~~~i~iiD   90 (239)
T d1f60a3          11 VIGHVDSGKSTTTGHLIYKCGGIDKRTIEKFEKEAAELGKGSFKYAWVLDKLKAERERGITIDIALWKFETPKYQVTVID   90 (239)
T ss_dssp             EEECTTSCHHHHHHHHHHHHSCSSHHHHHHHHHHGGGGSSSCCCHHHHHHHHHHHHHTTCCCSCSCEEEECSSEEEEEEE
T ss_pred             EEeCCCCCHHHHHHHHHHHcCCccHHHHHHHHHHHHHhcCCccceeeecccchhhhcceeccccceeEeccCCEEEEEEE
Confidence            5899999999999999731  100                  000         01123444444444556678899999


Q ss_pred             CCCchhhhhhhHhHhcCCcEEEEEeeCCChhh---H---HHHHHHHHHHHhcCCCCCc-EEEEEeCCCCCcCCCCCH---
Q 040835           52 TAGQERYRAVTSAYYRGAVGAMLVYDITKRQS---F---DNVARWLEELRGHADKNII-IMLVGNKSDLETLRAVPT---  121 (206)
Q Consensus        52 ~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s---~---~~~~~~~~~~~~~~~~~~p-~ivv~nK~D~~~~~~~~~---  121 (206)
                      |||+..|......-+..+|++|+|+|+.+..-   +   ...+..+.....   .++| +++++||+|+........   
T Consensus        91 tPGH~df~~~~~~g~~~~D~ailvvda~~G~~e~g~~~~~QT~eh~~~~~~---~gv~~iiv~iNKmD~~~~d~~~~~~~  167 (239)
T d1f60a3          91 APGHRDFIKNMITGTSQADCAILIIAGGVGEFEAGISKDGQTREHALLAFT---LGVRQLIVAVNKMDSVKWDESRFQEI  167 (239)
T ss_dssp             CCCCTTHHHHHHHSSSCCSEEEEEEECSHHHHHHHTCTTSHHHHHHHHHHH---TTCCEEEEEEECGGGGTTCHHHHHHH
T ss_pred             CCCcHHHHHHHHHHHHHhCEEEEEEECCCCccccccCchHhHHHHHHHHHH---cCCCeEEEEEECCCCCCCCHHHHHHH
Confidence            99999999888888999999999999986521   0   112222222222   2454 788999999864332222   


Q ss_pred             -HHHHHHHHHcC-----CeEEEeccCCCCCHHH
Q 040835          122 -EDAKEFAEKEG-----LCFMETSALESTNVEL  148 (206)
Q Consensus       122 -~~~~~~~~~~~-----~~~~~~Sa~~~~~v~~  148 (206)
                       .++..+....+     ++++.+|+..+.|+-+
T Consensus       168 ~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         168 VKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             HHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             HHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence             33445555544     4689999999988654

>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=99.47  E-value=2.8e-13  Score=105.84  Aligned_cols=153  Identities=10%  Similarity=0.114  Sum_probs=86.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccc---cceeeEEEEEEECCeEEEEEEEeCCCchhhhhh-----hHhHhcCCcEE
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKAT---IGVEFQTKTLVIHHKNVKAQIWDTAGQERYRAV-----TSAYYRGAVGA   72 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~~~-----~~~~~~~~d~~   72 (206)
                      |+|.+|||||||+|+|++..........   .+++......... ....+.+|||||.......     ....+..+|++
T Consensus        61 i~G~~n~GKSSLiNaL~G~~~~~~~~~~~g~~~tT~~~~~~~~~-~~~~~~l~DtPG~~~~~~~~~~~~~~~~~~~~d~~  139 (400)
T d1tq4a_          61 VTGETGSGKSSFINTLRGIGNEEEGAAKTGVVEVTMERHPYKHP-NIPNVVFWDLPGIGSTNFPPDTYLEKMKFYEYDFF  139 (400)
T ss_dssp             EEECTTSSHHHHHHHHHTCCTTSTTSCCCCC----CCCEEEECS-SCTTEEEEECCCGGGSSCCHHHHHHHTTGGGCSEE
T ss_pred             EECCCCCCHHHHHHHHhCCCcCCCccCCCCCCCCceeeeeeecc-CCCeEEEEeCCCcccccccHHHHHHHhhhhcceEE
Confidence            5899999999999999986543222111   1122222222222 2334789999996543221     22235678988


Q ss_pred             EEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC-------cCCCCCHHH----HH----HHHHHcCC---e
Q 040835           73 MLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE-------TLRAVPTED----AK----EFAEKEGL---C  134 (206)
Q Consensus        73 i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~-------~~~~~~~~~----~~----~~~~~~~~---~  134 (206)
                      |++.|..-.+   ....+...+..   .++|+++|.||+|..       .......+.    ++    ......++   +
T Consensus       140 l~~~~~~~~~---~d~~l~~~l~~---~~k~~~~V~nK~D~~~~~~~~~~~~~~~~e~~l~~ir~~~~~~l~~~~~~~~~  213 (400)
T d1tq4a_         140 IIISATRFKK---NDIDIAKAISM---MKKEFYFVRTKVDSDITNEADGEPQTFDKEKVLQDIRLNCVNTFRENGIAEPP  213 (400)
T ss_dssp             EEEESSCCCH---HHHHHHHHHHH---TTCEEEEEECCHHHHHHHHHTTCCTTCCHHHHHHHHHHHHHHHHHHTTCSSCC
T ss_pred             EEecCCCCCH---HHHHHHHHHHH---cCCCEEEEEeCcccccchhhhcccccccHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence            8887754322   11233334444   368999999999962       111122222    21    11222333   5


Q ss_pred             EEEeccCC--CCCHHHHHHHHHHHHHHH
Q 040835          135 FMETSALE--STNVELAFLTVLTEIYRI  160 (206)
Q Consensus       135 ~~~~Sa~~--~~~v~~~~~~l~~~i~~~  160 (206)
                      +|.+|..+  ..++.++.+.+.+.+.+.
T Consensus       214 vflvS~~~~~~~d~~~L~~~l~~~L~~~  241 (400)
T d1tq4a_         214 IFLLSNKNVCHYDFPVLMDKLISDLPIY  241 (400)
T ss_dssp             EEECCTTCTTSTTHHHHHHHHHHHSCGG
T ss_pred             EEEecCCcccccCHHHHHHHHHHHhHHH
Confidence            88888765  358888888877766443

>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=99.43  E-value=2e-13  Score=103.89  Aligned_cols=110  Identities=19%  Similarity=0.202  Sum_probs=75.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCC----------------CCCCccccceeeEEEEEEE--------------CCeEEEEEEE
Q 040835            1 LIGDSAVGKSQLLARFARDEF----------------SLDSKATIGVEFQTKTLVI--------------HHKNVKAQIW   50 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~----------------~~~~~~~~~~~~~~~~~~~--------------~~~~~~~~i~   50 (206)
                      |+|+.++|||||+++|+...-                ..+.....++.........              ++..+.+.++
T Consensus        22 iiGhvd~GKTTL~d~Ll~~~g~i~~~~~~~~~~~D~~~~E~eRgiTi~~~~~~l~~~~~~~~~~~~~~~~~~~~~~inli  101 (341)
T d1n0ua2          22 VIAHVDHGKSTLTDSLVQRAGIISAAKAGEARFTDTRKDEQERGITIKSTAISLYSEMSDEDVKEIKQKTDGNSFLINLI  101 (341)
T ss_dssp             EECCGGGTHHHHHHHHHHHHBCCBC------------------CCCBCCCEEEEEEECCHHHHHHCSSCCCSSEEEEEEE
T ss_pred             EEeCCCCcHHHHHHHHHHHCCCccccccccccccccchhHHhcCceEeCCEEEEEeccCcccccchhccccccceEEEEE
Confidence            589999999999999973110                0111111111112222211              2356779999


Q ss_pred             eCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCC
Q 040835           51 DTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLE  114 (206)
Q Consensus        51 D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~  114 (206)
                      ||||+..|.......++.+|++|+|+|+.++-.......|.....    .++|+++++||+|..
T Consensus       102 DtPGh~dF~~ev~~al~~~D~allVVda~eGv~~qT~~~~~~a~~----~~~p~i~viNKiDr~  161 (341)
T d1n0ua2         102 DSPGHVDFSSEVTAALRVTDGALVVVDTIEGVCVQTETVLRQALG----ERIKPVVVINKVDRA  161 (341)
T ss_dssp             CCCCCCSSCHHHHHHHHTCSEEEEEEETTTBSCHHHHHHHHHHHH----TTCEEEEEEECHHHH
T ss_pred             cCCCcHHHHHHHHHHHhhcCceEEEEecccCcchhHHHHHHHHHH----cCCCeEEEEECcccc
Confidence            999999999999999999999999999998765555455544333    469999999999973

>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=99.43  E-value=2.7e-13  Score=99.88  Aligned_cols=118  Identities=11%  Similarity=0.036  Sum_probs=67.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCcc-ccceeeEEEEEEECCeEEEEEEEeCCCchhh-------hhhhHhH--hcCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKA-TIGVEFQTKTLVIHHKNVKAQIWDTAGQERY-------RAVTSAY--YRGAV   70 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~-------~~~~~~~--~~~~d   70 (206)
                      |+|.+|||||||+|+|++......... ..+..........+  +..+.+|||||....       ......+  ....+
T Consensus        37 LvG~tg~GKSSliN~ilg~~~~~vs~~~~~T~~~~~~~~~~~--g~~i~viDTPGl~~~~~~~~~~~~~i~~~~~~~~~~  114 (257)
T d1h65a_          37 VMGKGGVGKSSTVNSIIGERVVSISPFQSEGPRPVMVSRSRA--GFTLNIIDTPGLIEGGYINDMALNIIKSFLLDKTID  114 (257)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCSCCCSSSCCCSSCEEEEEEET--TEEEEEEECCCSEETTEECHHHHHHHHHHTTTCEEC
T ss_pred             EECCCCCcHHHHHHHHhCCCceeecCCCCcceeEEEEEEEec--cEEEEEEeeecccCCcchHHHHHHHHHHHHhcCCCC
Confidence            589999999999999999876544322 21222333333444  357899999995321       1111111  24567


Q ss_pred             EEEEEeeCCChhhHHHHHHHHHHHHhcCC--CCCcEEEEEeCCCCCcCCCCC
Q 040835           71 GAMLVYDITKRQSFDNVARWLEELRGHAD--KNIIIMLVGNKSDLETLRAVP  120 (206)
Q Consensus        71 ~~i~v~d~~~~~s~~~~~~~~~~~~~~~~--~~~p~ivv~nK~D~~~~~~~~  120 (206)
                      +++||++++...--......+..+....+  ...+++||+||.|...+....
T Consensus       115 ~il~v~~~~~~r~~~~~~~~l~~l~~~fg~~~~~~~ivv~t~~D~~~~~~~~  166 (257)
T d1h65a_         115 VLLYVDRLDAYRVDNLDKLVAKAITDSFGKGIWNKAIVALTHAQFSPPDGLP  166 (257)
T ss_dssp             EEEEEEESSCCCCCHHHHHHHHHHHHHHCGGGGGGEEEEEECCSCCCGGGCC
T ss_pred             eEEEEEECCCCCCCHHHHHHHHHHHHHcchhhhhCEEEEEECcccCCcCCCc
Confidence            88888887653200111222222222221  235789999999986544433

>d1yrba1 c.37.1.10 (A:1-244) ATP(GTP)-binding protein PAB0955 {Pyrococcus abyssi [TaxId: 29292]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: ATP(GTP)-binding protein PAB0955
species: Pyrococcus abyssi [TaxId: 29292]

Probab=99.34  E-value=4e-13  Score=97.98  Aligned_cols=110  Identities=13%  Similarity=-0.077  Sum_probs=64.5

Q ss_pred             EEEEEEeCCCchhhhhhhHh---H--hcCCcEEEEEeeCCC---hhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcC
Q 040835           45 VKAQIWDTAGQERYRAVTSA---Y--YRGAVGAMLVYDITK---RQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETL  116 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~---~--~~~~d~~i~v~d~~~---~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~  116 (206)
                      ..+.++|+||+..+......   +  ....+.+++++|+..   +..+............  ....|.++++||+|+...
T Consensus        95 ~~~~~id~~g~~~~~~~~~~~~~~~~~~~~~~~v~vvd~~~~~~~~~~~~~~l~~~~~~~--~~~~~~ivvinK~D~~~~  172 (244)
T d1yrba1          95 NDYVLIDTPGQMETFLFHEFGVRLMENLPYPLVVYISDPEILKKPNDYCFVRFFALLIDL--RLGATTIPALNKVDLLSE  172 (244)
T ss_dssp             CSEEEEECCSSHHHHHHSHHHHHHHHTSSSCEEEEEECGGGCCSHHHHHHHHHHHHHHHH--HHTSCEEEEECCGGGCCH
T ss_pred             cceeeeccccchhHHHHHHHHHHHHhhccCceEEEEeccccccCchhHhhHHHHHHHHHH--HhCCCceeeeeccccccH
Confidence            34889999998765432222   1  224567889998753   3322222111111111  236899999999998632


Q ss_pred             CCCCH-----------------------HHHH---HHHHH--cCCeEEEeccCCCCCHHHHHHHHHHH
Q 040835          117 RAVPT-----------------------EDAK---EFAEK--EGLCFMETSALESTNVELAFLTVLTE  156 (206)
Q Consensus       117 ~~~~~-----------------------~~~~---~~~~~--~~~~~~~~Sa~~~~~v~~~~~~l~~~  156 (206)
                      .....                       ....   .....  ..++++.+||++++|+++++..|.++
T Consensus       173 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         173 EEKERHRKYFEDIDYLTARLKLDPSMQGLMAYKMCSMMTEVLPPVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             HHHHHHHHHHHCHHHHHHHHHHCCSHHHHHHHHHHHHHHHHSCCCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             HHHHHHHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHHH
Confidence            11100                       0000   11111  24689999999999999999888765

>d2qm8a1 c.37.1.10 (A:5-327) Metallochaperone MeaB {Methylobacterium extorquens [TaxId: 408]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Metallochaperone MeaB
species: Methylobacterium extorquens [TaxId: 408]

Probab=99.28  E-value=6.3e-12  Score=95.09  Aligned_cols=105  Identities=10%  Similarity=0.045  Sum_probs=63.5

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|++|.|.-.-.   ......+|.+++|..+...+.....+.-+.   +     ..-++|+||+|+...........
T Consensus       144 ~d~iiiETVG~gq~e---~~~~~~~D~~v~v~~p~~GD~iQ~~k~gil---E-----~aDi~vvNKaD~~~~~~~~~~~~  212 (323)
T d2qm8a1         144 FDVILVETVGVGQSE---TAVADLTDFFLVLMLPGAGDELQGIKKGIF---E-----LADMIAVNKADDGDGERRASAAA  212 (323)
T ss_dssp             CCEEEEEECSSSSCH---HHHHTTSSEEEEEECSCC------CCTTHH---H-----HCSEEEEECCSTTCCHHHHHHHH
T ss_pred             CCeEEEeehhhhhhh---hhhhcccceEEEEeeccchhhhhhhhhhHh---h-----hhheeeEeccccccchHHHHHHH
Confidence            457788888743222   234556999999999987754433322211   1     23489999999754222211111


Q ss_pred             HHHHHH----------cCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q 040835          125 KEFAEK----------EGLCFMETSALESTNVELAFLTVLTEIYRI  160 (206)
Q Consensus       125 ~~~~~~----------~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~  160 (206)
                      ..+...          +..+++.+||.++.|++++++++.++....
T Consensus       213 ~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~~~~  258 (323)
T d2qm8a1         213 SEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHRSKL  258 (323)
T ss_dssp             HHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             HHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHHHHH
Confidence            122221          445799999999999999999998775443

>d2p67a1 c.37.1.10 (A:1-327) LAO/AO transport system kinase ArgK {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: LAO/AO transport system kinase ArgK
species: Escherichia coli [TaxId: 562]

Probab=99.23  E-value=8.7e-12  Score=94.43  Aligned_cols=103  Identities=15%  Similarity=0.078  Sum_probs=59.5

Q ss_pred             EEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCC--CHHH
Q 040835           46 KAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAV--PTED  123 (206)
Q Consensus        46 ~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~--~~~~  123 (206)
                      .+.+++|.|.-.-.   ..+...+|.+++|.++...+.....+.-+..        .+-++|+||+|+......  ...+
T Consensus       148 d~iliEtvG~gq~e---~~i~~~aD~~l~v~~P~~Gd~iq~~k~gi~e--------~aDi~VvNKaD~~~~~~~~~~~~~  216 (327)
T d2p67a1         148 DVVIVETVGVGQSE---TEVARMVDCFISLQIAGGGDDLQGIKKGLME--------VADLIVINKDDGDNHTNVAIARHM  216 (327)
T ss_dssp             SEEEEEEECCTTHH---HHHHTTCSEEEEEECC------CCCCHHHHH--------HCSEEEECCCCTTCHHHHHHHHHH
T ss_pred             CeEEEeeccccccc---hhhhhccceEEEEecCCCchhhhhhchhhhc--------cccEEEEEeecccchHHHHHHHHH
Confidence            35666776532211   2356779999999988765544333333222        223788999998531111  1111


Q ss_pred             HHHHHH-------HcCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q 040835          124 AKEFAE-------KEGLCFMETSALESTNVELAFLTVLTEIYR  159 (206)
Q Consensus       124 ~~~~~~-------~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~  159 (206)
                      ......       .+..+++.|||.+++|++++++.|.++...
T Consensus       217 ~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~~~~  259 (327)
T d2p67a1         217 YESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKTA  259 (327)
T ss_dssp             HHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHHH
T ss_pred             HHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHHHHH
Confidence            222221       234579999999999999999999876543

>d1jala1 c.37.1.8 (A:1-278) YchF GTP-binding protein N-terminal domain {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: YchF GTP-binding protein N-terminal domain
species: Haemophilus influenzae [TaxId: 727]

Probab=99.13  E-value=3.2e-10  Score=84.14  Aligned_cols=78  Identities=18%  Similarity=0.136  Sum_probs=46.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCe---------------EEEEEEEeCCCchh-------h
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHK---------------NVKAQIWDTAGQER-------Y   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~---------------~~~~~i~D~~G~~~-------~   58 (206)
                      ++|.|+||||||++++++........|..+..-....+.+...               ...+.++|+||.-.       .
T Consensus         7 ivG~Pn~GKSTlf~~lt~~~~~~~~ypf~ti~pn~gvv~v~d~r~~~l~~~~~~~~~~~a~i~~~Di~GLi~ga~~g~Gl   86 (278)
T d1jala1           7 IVGLPNVGKSTLFNALTKAGIEAANYPFCTIEPNTGVVPMPDPRLDALAEIVKPERILPTTMEFVDIAGLVAGASKGEGL   86 (278)
T ss_dssp             EECCTTSSHHHHHHHHHHTC------CCCCCCCCSSEEECCCHHHHHHHHHHCCSEEECCEEEEEECCSCCTTHHHHGGG
T ss_pred             EECCCCCCHHHHHHHHHCCCCccccCCCCCCCCceEEEecccHhHHHHHHhcCCCceeeeeEEEEEccccCCCcccCCCc
Confidence            5899999999999999987665443333222211122222211               13578999999422       1


Q ss_pred             hhhhHhHhcCCcEEEEEeeC
Q 040835           59 RAVTSAYYRGAVGAMLVYDI   78 (206)
Q Consensus        59 ~~~~~~~~~~~d~~i~v~d~   78 (206)
                      .......++.+|++|.|+|.
T Consensus        87 g~~FL~~ir~~d~LihVVr~  106 (278)
T d1jala1          87 GNKFLANIRETDAIGHVVRC  106 (278)
T ss_dssp             TCCHHHHHHTCSEEEEEEEC
T ss_pred             cHHHHHHHHhccceEEEeec
Confidence            11233557899999999986

>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=99.07  E-value=9.1e-10  Score=82.34  Aligned_cols=80  Identities=13%  Similarity=0.166  Sum_probs=50.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC-CCCccccceeeEEEEEEECC---------------eEEEEEEEeCCCchh-------
Q 040835            1 LIGDSAVGKSQLLARFARDEFS-LDSKATIGVEFQTKTLVIHH---------------KNVKAQIWDTAGQER-------   57 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~-~~~~~~~~~~~~~~~~~~~~---------------~~~~~~i~D~~G~~~-------   57 (206)
                      ++|.|+||||||+|+|++.... ....|..+.+-....+.+..               ....+.++|.||...       
T Consensus        15 ivG~Pn~GKSTlfnalT~~~~~~~anypftTi~pn~g~v~v~d~r~~~l~~~~~~~~~~~~~i~~~DvaGLv~gA~~g~G   94 (296)
T d1ni3a1          15 IVGMPNVGKSTFFRAITKSVLGNPANYPYATIDPEEAKVAVPDERFDWLCEAYKPKSRVPAFLTVFDIAGLTKGASTGVG   94 (296)
T ss_dssp             EEECSSSSHHHHHHHHHHSTTTSTTCCSSCCCCTTEEEEEECCHHHHHHHHHHCCSEEECEEEEEECTGGGCCCCCSSSS
T ss_pred             EECCCCCCHHHHHHHHHCCCCCCcCCCCccCccCCeEEEeccccchhhhhhcccCCceecccceeeeccccccccccccc
Confidence            5899999999999999986542 23233322222222233322               235688999998432       


Q ss_pred             hhhhhHhHhcCCcEEEEEeeCCC
Q 040835           58 YRAVTSAYYRGAVGAMLVYDITK   80 (206)
Q Consensus        58 ~~~~~~~~~~~~d~~i~v~d~~~   80 (206)
                      ........++.+|++|+|+|+.+
T Consensus        95 LGn~fL~~ir~~d~lihVV~~f~  117 (296)
T d1ni3a1          95 LGNAFLSHVRAVDAIYQVVRAFD  117 (296)
T ss_dssp             SCHHHHHHHTTCSEEEEEEECCC
T ss_pred             cHHHHHHHhhccceeEEEEeccC
Confidence            12233455789999999998754

>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=99.01  E-value=1.3e-09  Score=81.61  Aligned_cols=114  Identities=14%  Similarity=0.133  Sum_probs=67.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-ccccceeeEEEEEEEC----------C---------------------------
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-KATIGVEFQTKTLVIH----------H---------------------------   42 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-~~~~~~~~~~~~~~~~----------~---------------------------   42 (206)
                      |+|..++|||||+|+|++..+.+.. .+++............          +                           
T Consensus        31 vvG~~SsGKSsliNaLlg~~~lP~~~~~~T~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~  110 (299)
T d2akab1          31 VVGGQSAGKSSVLENFVGRDFLPRGSGIVTRRPLVLQLVNSTTEYAEFLHCKGKKFTDFEEVRLEIEAETDRVTGTNKGI  110 (299)
T ss_dssp             EEEBTTSCHHHHHHHHHTSCCSCCCSSCSCSSCEEEEEEECSSCEEEETTSTTCCBCCHHHHHHHHHHHHHHHCSSTTCC
T ss_pred             EEcCCCCCHHHHHHHHhCCCcCCCCCCccccCCEEEEEeccccceeEEEeCCCCeeCCHHHHHHHHHHHHHHhhCCCcCc
Confidence            5899999999999999998874443 3332221111111000          0                           


Q ss_pred             ------------eEEEEEEEeCCCch-------------hhhhhhHhHhcCCcEEE-EEeeCCChhhHHHHHHHHHHHHh
Q 040835           43 ------------KNVKAQIWDTAGQE-------------RYRAVTSAYYRGAVGAM-LVYDITKRQSFDNVARWLEELRG   96 (206)
Q Consensus        43 ------------~~~~~~i~D~~G~~-------------~~~~~~~~~~~~~d~~i-~v~d~~~~~s~~~~~~~~~~~~~   96 (206)
                                  ....+.++|+||..             ....+...|+...+.++ +|.+.....+......+...+..
T Consensus       111 ~~~~i~l~~~~p~~~~l~liD~PG~~~~~~~~~~~~~~~~i~~~~~~y~~~~~~~il~v~~a~~~~~~~~~~~~~~~~~~  190 (299)
T d2akab1         111 SPVPINLRVYSPHVLNLTLVDLPGMTKVPVGDQPPDIEFQIRDMLMQFVTKENCLILAVSPANSDLANSDALKIAKEVDP  190 (299)
T ss_dssp             CSCCEEEEEEETTCCSEEEEECCCBCSSCCSSSCTTHHHHHHHHHHHHHTSTTEEEEEEEESSSCGGGCHHHHHHHHHCT
T ss_pred             CCccEEEEEcCCCCCCeeEEccCCccccccCCcchhHHHHHHHHHHHHhcCccceeeeecccccchhhhHHHHHHHHhCc
Confidence                        01126799999942             12345566777777554 55555544443444455444433


Q ss_pred             cCCCCCcEEEEEeCCCCCcCC
Q 040835           97 HADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        97 ~~~~~~p~ivv~nK~D~~~~~  117 (206)
                         ...++++|+||+|...+.
T Consensus       191 ---~~~r~i~Vltk~D~~~~~  208 (299)
T d2akab1         191 ---QGQRTIGVITKLDLMDEG  208 (299)
T ss_dssp             ---TCSSEEEEEECGGGSCTT
T ss_pred             ---CCCceeeEEeccccccch
Confidence               456899999999986543

>d1jwyb_ c.37.1.8 (B:) Dynamin G domain {Dictyostelium discoideum [TaxId: 44689]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Dynamin G domain
species: Dictyostelium discoideum [TaxId: 44689]

Probab=98.85  E-value=5.8e-09  Score=78.23  Aligned_cols=66  Identities=15%  Similarity=0.153  Sum_probs=41.1

Q ss_pred             EEEEeCCCchh-------------hhhhhHhHhcCCcEEEEEee-CCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCC
Q 040835           47 AQIWDTAGQER-------------YRAVTSAYYRGAVGAMLVYD-ITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSD  112 (206)
Q Consensus        47 ~~i~D~~G~~~-------------~~~~~~~~~~~~d~~i~v~d-~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D  112 (206)
                      +.++|+||...             ...+...|+..++.+|+++. ......-.....+...+.   .....+++|+||+|
T Consensus       133 l~iiDtPG~~~~~~~~~~~~~~~~~~~~~~~yi~~~~~~il~v~~~~~~~~~~~~~~~~~~~~---~~~~r~i~Vitk~D  209 (306)
T d1jwyb_         133 LTLVDLPGITKVPVGDQPTDIEQQIRRMVMAYIKKQNAIIVAVTPANTDLANSDALQLAKEVD---PEGKRTIGVITKLD  209 (306)
T ss_dssp             EEEEECCCCC---------CSHHHHHHHHHHHHHSTTEEEEEEEESSSCSTTCSHHHHHHHHC---SSCSSEEEEEECTT
T ss_pred             ceEecCCCccccccCCcchhHHHHHHHHHHHHHhCCCceeEEeecccccccccHHHHHHHHhC---cCCCeEEEEEeccc
Confidence            67999999432             34566778899998776654 332222222333433333   24568999999999


Q ss_pred             CCc
Q 040835          113 LET  115 (206)
Q Consensus       113 ~~~  115 (206)
                      ...
T Consensus       210 ~~~  212 (306)
T d1jwyb_         210 LMD  212 (306)
T ss_dssp             SSC
T ss_pred             ccc
Confidence            854

>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=98.82  E-value=2e-09  Score=81.30  Aligned_cols=80  Identities=19%  Similarity=0.147  Sum_probs=41.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceee--EEEEE--------------------EECCeEEEEEEEeCCCchhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEF--QTKTL--------------------VIHHKNVKAQIWDTAGQERY   58 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~--~~~~~--------------------~~~~~~~~~~i~D~~G~~~~   58 (206)
                      ++|.|+||||||+|+|++........|..+.+-  .....                    ........+.++|+||.-..
T Consensus         5 lvG~pn~GKStlfn~lt~~~~~v~nypftT~~pn~Gv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~D~pGli~g   84 (319)
T d1wxqa1           5 VVGKPNVGKSTFFSAATLVDVEIANYPFTTIEANVGVTYAITDHPCKELGCSPNPQNYEYRNGLALIPVKMVDVAGLVPG   84 (319)
T ss_dssp             EEECTTSSHHHHHHHHHC--------------CCEEEEEEEEECSCSSSCCSCCCSSSCEETTEEEEEEEEEECC-----
T ss_pred             EECCCCCCHHHHHHHHHCCCCchhcCCCCcccCccceeeCCCCchhhhhhhccCccccccccccccccEEEEECCCcccc
Confidence            589999999999999999766544434322111  11110                    00123467999999995321


Q ss_pred             ----hhhh---HhHhcCCcEEEEEeeCCC
Q 040835           59 ----RAVT---SAYYRGAVGAMLVYDITK   80 (206)
Q Consensus        59 ----~~~~---~~~~~~~d~~i~v~d~~~   80 (206)
                          ....   ...++.+|++++|+|+.+
T Consensus        85 a~~g~~~~~~~l~~i~~~d~ii~VVd~~~  113 (319)
T d1wxqa1          85 AHEGRGLGNKFLDDLRMASALIHVVDATG  113 (319)
T ss_dssp             ----------CCCSSTTCSEEEEEEETTC
T ss_pred             hhcccchHHHHHHhhccceEEEEEecccc
Confidence                1112   233578999999999853

>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=98.49  E-value=1.3e-07  Score=67.02  Aligned_cols=85  Identities=18%  Similarity=0.097  Sum_probs=61.3

Q ss_pred             hHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHH--cCCeEEEecc
Q 040835           64 AYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEK--EGLCFMETSA  140 (206)
Q Consensus        64 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~--~~~~~~~~Sa  140 (206)
                      ....+.|.+++|+++.+++ +...+.+++.....   .+++.+||+||+|+..+.  ..+....+...  .+++++.+|+
T Consensus         6 P~vANiD~vliV~s~~~P~~~~~~ldR~Lv~a~~---~~i~pvIvlnK~DL~~~~--~~~~~~~~~~~~~~~~~v~~vSa   80 (225)
T d1u0la2           6 PHVANVDQVILVVTVKMPETSTYIIDKFLVLAEK---NELETVMVINKMDLYDED--DLRKVRELEEIYSGLYPIVKTSA   80 (225)
T ss_dssp             TTEESCCEEEEEECSSTTCCCHHHHHHHHHHHHH---TTCEEEEEECCGGGCCHH--HHHHHHHHHHHHTTTSCEEECCT
T ss_pred             CCcccCCEEEEEEeCCCCCCCHHHHHHHHHHHHH---cCCCEEEEEeCcccCCHH--HHHHHHHhhcccccceeEEEecc
Confidence            3457899999999988754 56677777766655   468999999999996411  12223333333  3578999999


Q ss_pred             CCCCCHHHHHHHH
Q 040835          141 LESTNVELAFLTV  153 (206)
Q Consensus       141 ~~~~~v~~~~~~l  153 (206)
                      +++.|++++..++
T Consensus        81 ~~~~g~~~L~~~l   93 (225)
T d1u0la2          81 KTGMGIEELKEYL   93 (225)
T ss_dssp             TTCTTHHHHHHHH
T ss_pred             ccchhHhhHHHHh
Confidence            9999999877665

>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=98.43  E-value=5.1e-08  Score=71.79  Aligned_cols=51  Identities=25%  Similarity=0.438  Sum_probs=31.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCccccceeeEEEEEEECCeEEEEEEEeCCCc
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSKATIGVEFQTKTLVIHHKNVKAQIWDTAGQ   55 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~   55 (206)
                      |+|.||||||||+|+|.+.........+ |.|.....+..+   -.+.++||||.
T Consensus       117 vvG~PNvGKSsliN~L~~~~~~~~~~~p-G~Tr~~~~i~~~---~~~~l~DTPGi  167 (273)
T d1puja_         117 IIGIPNVGKSTLINRLAKKNIAKTGDRP-GITTSQQWVKVG---KELELLDTPGI  167 (273)
T ss_dssp             EEESTTSSHHHHHHHHHTSCCC-------------CCEEET---TTEEEEECCCC
T ss_pred             EEecCccchhhhhhhhhccceEEECCcc-cccccceEEECC---CCeEEecCCCc
Confidence            5899999999999999998775544333 555554444432   23799999994

>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=98.42  E-value=6.4e-08  Score=68.10  Aligned_cols=91  Identities=16%  Similarity=0.118  Sum_probs=55.1

Q ss_pred             EEEEEEeCCCchhhhh----hhH---hHhc-----CCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERYRA----VTS---AYYR-----GAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~----~~~---~~~~-----~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ..+.++||+|......    ...   ..++     ..+-.++|+|++... ....+..++..+       -+--+|++|.
T Consensus        92 ~d~ilIDTaGr~~~d~~~~~el~~l~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~-------~~~~lIlTKl  164 (211)
T d2qy9a2          92 IDVLIADTAGRLQNKSHLMEELKKIVRVMKKLDVEAPHEVMLTIDASTGQNAVSQAKLFHEAV-------GLTGITLTKL  164 (211)
T ss_dssp             CSEEEECCCCCGGGHHHHHHHHHHHHHHHTTTCTTCCSEEEEEEEGGGTHHHHHHHHHHHHHS-------CCCEEEEECC
T ss_pred             CCEEEeccCCCccccHHHHHHHHHHHHHHhhhcccCcceeeeehhcccCcchHHHHhhhhhcc-------CCceEEEeec
Confidence            4689999999433221    111   1222     245788999987543 333333333322       1335789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      |...    ..-.+.......++|+..++  .|++|++
T Consensus       165 De~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  195 (211)
T d2qy9a2         165 DGTA----KGGVIFSVADQFGIPIRYIG--VGERIED  195 (211)
T ss_dssp             TTCT----TTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             CCCC----CccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9754    34456778888899988777  5666644

>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=98.39  E-value=4.3e-08  Score=68.90  Aligned_cols=91  Identities=12%  Similarity=0.041  Sum_probs=54.4

Q ss_pred             EEEEEEeCCCchhhhhh----hHhH---h-----cCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERYRAV----TSAY---Y-----RGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~----~~~~---~-----~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ..+.++||+|...+...    ...+   .     ...+-+++|+|++... ....+..++..+.       +--+|+||.
T Consensus        89 ~d~ilIDTaGr~~~d~~l~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~~~~~-------~~~lI~TKl  161 (207)
T d1okkd2          89 YDLLFVDTAGRLHTKHNLMEELKKVKRAIAKADPEEPKEVWLVLDAVTGQNGLEQAKKFHEAVG-------LTGVIVTKL  161 (207)
T ss_dssp             CSEEEECCCCCCTTCHHHHHHHHHHHHHHHHHCTTCCSEEEEEEETTBCTHHHHHHHHHHHHHC-------CSEEEEECT
T ss_pred             CCEEEcCccccchhhHHHHHHHHHHHHHhhhcccCCCceEEEEeecccCchHHHHHHHhhhccC-------CceEEEecc
Confidence            46899999995332211    1111   1     2456788999987543 4444444444432       224789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      |...    ..-.+..+....++|+..++  +|+++++
T Consensus       162 Det~----~~G~~l~~~~~~~~Pi~~i~--~Gq~p~D  192 (207)
T d1okkd2         162 DGTA----KGGVLIPIVRTLKVPIKFVG--VGEGPDD  192 (207)
T ss_dssp             TSSC----CCTTHHHHHHHHCCCEEEEE--CSSSTTC
T ss_pred             CCCC----CccHHHHHHHHHCCCEEEEe--CCCChHh
Confidence            9754    33346777888899987666  3444443

>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=98.37  E-value=4.4e-08  Score=69.47  Aligned_cols=56  Identities=23%  Similarity=0.163  Sum_probs=33.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCCc------cccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDSK------ATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|.+|||||||+|+|.+........      ....+|.....+.++..   -.++||||...+.
T Consensus       100 ~~G~SGVGKSTLiN~L~~~~~~~T~~vs~~~~rGrHTTt~~~l~~l~~g---g~iiDTPG~r~~~  161 (225)
T d1u0la2         100 MAGLSGVGKSSLLNAINPGLKLRVSEVSEKLQRGRHTTTTAQLLKFDFG---GYVVDTPGFANLE  161 (225)
T ss_dssp             EECSTTSSHHHHHHHHSTTCCCC-------------CCCSCCEEECTTS---CEEESSCSSTTCC
T ss_pred             EECCCCCCHHHHHHhhcchhhhhccCcccccCCCCccccceeEEEECCC---cEEEeCCcccccc
Confidence            58999999999999998754322211      11122333333344333   3789999976543

>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=98.31  E-value=8.5e-08  Score=67.54  Aligned_cols=91  Identities=18%  Similarity=0.146  Sum_probs=55.7

Q ss_pred             EEEEEEeCCCchhhhh------hhHhH--hcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCc
Q 040835           45 VKAQIWDTAGQERYRA------VTSAY--YRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLET  115 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~------~~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~  115 (206)
                      ..+.++||+|...+..      ....+  .-..+-+++|++++... ....+...+   ...    -+--+|+||.|...
T Consensus        95 ~d~IlIDTaGr~~~~~~~~~~~el~~~~~~~~~~~~~LVl~a~~~~~~~~~~~~~~---~~~----~~~~lI~TKlDet~  167 (211)
T d1j8yf2          95 MEIIIVDTAGRHGYGEEAALLEEMKNIYEAIKPDEVTLVIDASIGQKAYDLASKFN---QAS----KIGTIIITKMDGTA  167 (211)
T ss_dssp             CSEEEEECCCSCCTTCHHHHHHHHHHHHHHHCCSEEEEEEEGGGGGGHHHHHHHHH---HHC----TTEEEEEECTTSCS
T ss_pred             CceEEEecCCcCccchhhHHHHHHHHHHhhcCCceEEEEEecccCcchHHHHhhhh---ccc----CcceEEEecccCCC
Confidence            4689999999533221      11111  12356788898887653 233333222   221    12347799999654


Q ss_pred             CCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          116 LRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       116 ~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                          ..-.+..+....++|+..++  +|++|++
T Consensus       168 ----~~G~~l~~~~~~~lPi~~it--~Gq~v~D  194 (211)
T d1j8yf2         168 ----KGGGALSAVAATGATIKFIG--TGEKIDE  194 (211)
T ss_dssp             ----CHHHHHHHHHTTTCCEEEEE--CSSSTTC
T ss_pred             ----cccHHHHHHHHHCcCEEEEe--CCCCccc
Confidence                56778888889999987777  4666654

>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=98.31  E-value=7.4e-08  Score=67.96  Aligned_cols=91  Identities=16%  Similarity=0.076  Sum_probs=54.0

Q ss_pred             EEEEEEeCCCchhhhhh----hHhHh---c-----CCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCC
Q 040835           45 VKAQIWDTAGQERYRAV----TSAYY---R-----GAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKS  111 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~----~~~~~---~-----~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~  111 (206)
                      ..+.++||+|...+...    ...+.   .     ..+-.++|+|++... .+..+...+   ...    -+--+|++|.
T Consensus        94 ~d~ilIDTaGr~~~d~~~~~el~~~~~~~~~~~~~~p~~~~LVl~a~~~~~~~~~~~~~~---~~~----~~~~lI~TKl  166 (213)
T d1vmaa2          94 KDVVIIDTAGRLHTKKNLMEELRKVHRVVKKKIPDAPHETLLVIDATTGQNGLVQAKIFK---EAV----NVTGIILTKL  166 (213)
T ss_dssp             CSEEEEEECCCCSCHHHHHHHHHHHHHHGGGTCTTCCSEEEEEEEGGGHHHHHHHHHHHH---HHS----CCCEEEEECG
T ss_pred             CCEEEEeccccccchHHHHHHHHHHHhhhhhccccccceeEEeeccccCcchhhhhhhhc---ccc----CCceEEEecc
Confidence            45899999994322211    11111   1     246788999987543 233333332   221    2345789999


Q ss_pred             CCCcCCCCCHHHHHHHHHHcCCeEEEeccCCCCCHHH
Q 040835          112 DLETLRAVPTEDAKEFAEKEGLCFMETSALESTNVEL  148 (206)
Q Consensus       112 D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~  148 (206)
                      |...    ..-.+..+....++|+..++  +|+++++
T Consensus       167 De~~----~~G~~l~~~~~~~~Pi~~i~--~Gq~v~D  197 (213)
T d1vmaa2         167 DGTA----KGGITLAIARELGIPIKFIG--VGEKAED  197 (213)
T ss_dssp             GGCS----CTTHHHHHHHHHCCCEEEEE--CSSSGGG
T ss_pred             cCCC----cccHHHHHHHHHCCCEEEEe--CCCCccc
Confidence            9643    33456778888899987776  4666644

>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=98.29  E-value=1.9e-07  Score=65.55  Aligned_cols=84  Identities=19%  Similarity=0.116  Sum_probs=51.3

Q ss_pred             EEEEEEeCCCchhhhh----hhHhH--hcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCC
Q 040835           45 VKAQIWDTAGQERYRA----VTSAY--YRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLR  117 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~----~~~~~--~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~  117 (206)
                      ..+.+|||+|...+..    .+..+  ....+-+++|.|.+... ....+..++..+.       +--+|++|.|...  
T Consensus        93 ~d~vlIDTaGr~~~d~~~~~el~~~~~~~~~~~~llv~~a~~~~~~~~~~~~f~~~~~-------~~~~I~TKlDe~~--  163 (207)
T d1ls1a2          93 RDLILVDTAGRLQIDEPLMGELARLKEVLGPDEVLLVLDAMTGQEALSVARAFDEKVG-------VTGLVLTKLDGDA--  163 (207)
T ss_dssp             CCEEEEECCCCSSCCHHHHHHHHHHHHHHCCSEEEEEEEGGGTHHHHHHHHHHHHHTC-------CCEEEEECGGGCS--
T ss_pred             CcceeecccccchhhhhhHHHHHHHHhhcCCceEEEEeccccchhHHHHHHHHHhhCC-------CCeeEEeecCccc--
Confidence            4689999999433222    11112  23567889999987654 2333333322221       2247889999643  


Q ss_pred             CCCHHHHHHHHHHcCCeEEEec
Q 040835          118 AVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus       118 ~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                        ..-.+..+....++|+..++
T Consensus       164 --~~G~~l~~~~~~~~Pi~~i~  183 (207)
T d1ls1a2         164 --RGGAALSARHVTGKPIYFAG  183 (207)
T ss_dssp             --SCHHHHHHHHHHCCCEEEEC
T ss_pred             --cchHHHHHHHHHCCCEEEEe
Confidence              34567788888899987665

>d1nija1 c.37.1.10 (A:2-223) Hypothetical protein YjiA, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nitrogenase iron protein-like
domain: Hypothetical protein YjiA, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=98.29  E-value=4.9e-06  Score=58.98  Aligned_cols=72  Identities=13%  Similarity=0.031  Sum_probs=41.9

Q ss_pred             CCcEEEEEeeCCChhhHHHH-HHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcC--CeEEEeccCCCC
Q 040835           68 GAVGAMLVYDITKRQSFDNV-ARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEG--LCFMETSALEST  144 (206)
Q Consensus        68 ~~d~~i~v~d~~~~~s~~~~-~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~--~~~~~~Sa~~~~  144 (206)
                      ..+.+|.++|+......... ..+..++...      =++++||+|+..+    .+.+++..+..+  +++++++ +-..
T Consensus       121 ~l~~vi~vVDa~~~~~~~~~~~~~~~Qi~~A------D~ivlNK~Dl~~~----~~~~~~~l~~lNP~a~Ii~~~-~g~v  189 (222)
T d1nija1         121 LLDGVIALVDAVHADEQMNQFTIAQSQVGYA------DRILLTKTDVAGE----AEKLHERLARINARAPVYTVT-HGDI  189 (222)
T ss_dssp             EEEEEEEEEETTTHHHHHHHCHHHHHHHHTC------SEEEEECTTTCSC----THHHHHHHHHHCSSSCEEECC-SSCC
T ss_pred             cccchhhhhhhhhhhhhhhhhHHHHHHHHhC------CcccccccccccH----HHHHHHHHHHHhCCCeEEEee-CCcc
Confidence            35788999999875432221 2233333322      3688999998652    345666666664  5677655 3344


Q ss_pred             CHHHHH
Q 040835          145 NVELAF  150 (206)
Q Consensus       145 ~v~~~~  150 (206)
                      .++.+|
T Consensus       190 ~~~~ll  195 (222)
T d1nija1         190 DLGLLF  195 (222)
T ss_dssp             CGGGGS
T ss_pred             CHHHhh
Confidence            555543

>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=98.27  E-value=1.1e-07  Score=67.62  Aligned_cols=87  Identities=16%  Similarity=0.085  Sum_probs=62.5

Q ss_pred             hHhcCCcEEEEEeeCCChh-hHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCC--HHHHHHHHHHcCCeEEEecc
Q 040835           64 AYYRGAVGAMLVYDITKRQ-SFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVP--TEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus        64 ~~~~~~d~~i~v~d~~~~~-s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~--~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      ....+.|.+++|+++.+++ +...+.+++.....   .+++.+||+||+|+..+....  .+.........|++++.+|+
T Consensus         6 P~vANiD~~~iV~s~~~P~~~~~~idR~Lv~a~~---~~i~pvIvlnK~DL~~~~~~~~~~~~~~~~y~~~g~~v~~~Sa   82 (231)
T d1t9ha2           6 PPICNVDQAVLVFSAVQPSFSTALLDRFLVLVEA---NDIQPIICITKMDLIEDQDTEDTIQAYAEDYRNIGYDVYLTSS   82 (231)
T ss_dssp             TTEECCCEEEEEEESTTTTCCHHHHHHHHHHHHT---TTCEEEEEEECGGGCCCHHHHHHHHHHHHHHHHHTCCEEECCH
T ss_pred             CCccccCEEEEEEECCCCCCCHHHHHHHHHHHHH---cCCCEEEEEecccccccHHHHHHHHHHHHHHhhccccceeeec
Confidence            3457899999999988764 56777777766554   468999999999996522211  11223344556999999999


Q ss_pred             CCCCCHHHHHHHH
Q 040835          141 LESTNVELAFLTV  153 (206)
Q Consensus       141 ~~~~~v~~~~~~l  153 (206)
                      +++.|++++..++
T Consensus        83 ~~~~gl~~L~~~l   95 (231)
T d1t9ha2          83 KDQDSLADIIPHF   95 (231)
T ss_dssp             HHHTTCTTTGGGG
T ss_pred             CChhHHHHHHHhh
Confidence            9999998876654

>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=98.19  E-value=2.9e-06  Score=62.11  Aligned_cols=95  Identities=15%  Similarity=0.091  Sum_probs=64.7

Q ss_pred             hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEecc
Q 040835           61 VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETSA  140 (206)
Q Consensus        61 ~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa  140 (206)
                      .....+..+|++|+|+|+.++.+...  ..+..+.    .++|.++|+||+|+.+..  ..++..++....+...+.+|+
T Consensus         8 ~i~~~i~~~DvIl~V~DaR~P~ss~~--~~l~~~~----~~Kp~IlVlNK~DLv~~~--~~~~w~~~f~~~~~~~i~isa   79 (273)
T d1puja_           8 EVTEKLKLIDIVYELVDARIPMSSRN--PMIEDIL----KNKPRIMLLNKADKADAA--VTQQWKEHFENQGIRSLSINS   79 (273)
T ss_dssp             HHHHHGGGCSEEEEEEETTSTTTTSC--HHHHHHC----SSSCEEEEEECGGGSCHH--HHHHHHHHHHTTTCCEEECCT
T ss_pred             HHHHHHHhCCEEEEEEECCCCCCCCC--HHHHHHH----cCCCeEEEEECccCCchH--HHHHHHHHHHhcCCccceeec
Confidence            34567899999999999988764321  1222222    268999999999997411  112223333444678999999


Q ss_pred             CCCCCHHHHHHHHHHHHHHHhhh
Q 040835          141 LESTNVELAFLTVLTEIYRIVSK  163 (206)
Q Consensus       141 ~~~~~v~~~~~~l~~~i~~~~~~  163 (206)
                      .++.++..+...+.+.+.+....
T Consensus        80 ~~~~~~~~~~~~~~~~l~~~~~~  102 (273)
T d1puja_          80 VNGQGLNQIVPASKEILQEKFDR  102 (273)
T ss_dssp             TTCTTGGGHHHHHHHHHHHHHHH
T ss_pred             ccCCCccccchhhhhhhhhhhhh
Confidence            99999998888887776655443

>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=98.18  E-value=9.6e-08  Score=67.93  Aligned_cols=55  Identities=20%  Similarity=0.156  Sum_probs=29.7

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC------ccccceeeEEEEEEECCeEEEEEEEeCCCchhhh
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS------KATIGVEFQTKTLVIHHKNVKAQIWDTAGQERYR   59 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~------~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~~~~   59 (206)
                      |+|++|||||||+|+|.+.......      .....+|.....+..++.    .|+||||...+.
T Consensus       102 l~G~SGVGKSSLiN~L~~~~~~~t~~vs~~~~rGrHTTt~~~l~~~~gg----~iiDTPG~r~~~  162 (231)
T d1t9ha2         102 FAGQSGVGKSSLLNAISPELGLRTNEISEHLGRGKHTTRHVELIHTSGG----LVADTPGFSSLE  162 (231)
T ss_dssp             EEESHHHHHHHHHHHHCC-------------------CCCCCEEEETTE----EEESSCSCSSCC
T ss_pred             EECCCCccHHHHHHhhccHhHhhhcccccccCCCceeeeeEEEEecCCC----EEEECCcccccc
Confidence            5899999999999999986332211      111112222222233432    588999987654

>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=98.10  E-value=1.6e-05  Score=53.84  Aligned_cols=19  Identities=26%  Similarity=0.639  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||||++.+++.
T Consensus         5 I~G~~G~GKSTLl~~i~~~   23 (178)
T d1ye8a1           5 ITGEPGVGKTTLVKKIVER   23 (178)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCcHHHHHHHHHHhc
Confidence            5799999999999999873

>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=97.30  E-value=3.6e-05  Score=51.44  Aligned_cols=18  Identities=28%  Similarity=0.392  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+|||||||+++|..
T Consensus         7 itG~~GSGKTTL~~~L~~   24 (170)
T d1np6a_           7 FAAWSGTGKTTLLKKLIP   24 (170)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            589999999999999986

>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=97.10  E-value=8.1e-05  Score=48.84  Aligned_cols=18  Identities=33%  Similarity=0.399  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+||||||||+++|..
T Consensus         7 i~G~pGsGKTTla~~L~~   24 (152)
T d1ly1a_           7 TIGCPGSGKSTWAREFIA   24 (152)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999865

>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=97.09  E-value=6.3e-05  Score=50.87  Aligned_cols=38  Identities=13%  Similarity=0.208  Sum_probs=26.5

Q ss_pred             HHHHHHHcCCeEEEeccCCCCCHHHHHHHHHHHHHHHhhhh
Q 040835          124 AKEFAEKEGLCFMETSALESTNVELAFLTVLTEIYRIVSKK  164 (206)
Q Consensus       124 ~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~  164 (206)
                      ..++.++++.+++.+..   .++++.+..+++.|.+.....
T Consensus       148 ~~~~l~~~~~~~i~i~~---~~~~e~~~~i~~~I~~ll~~~  185 (192)
T d1lw7a2         148 LKKLLDKYKVPYIEIES---PSYLDRYNQVKAVIEKVLNEE  185 (192)
T ss_dssp             HHHHHHGGGCCCEEEEC---SSHHHHHHHHHHHHHHHTSCC
T ss_pred             HHHHHHHCCCCEEEeCC---CCHHHHHHHHHHHHHHHHCcC
Confidence            45556667888877764   368888888888876665443

>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=97.06  E-value=9.3e-05  Score=49.48  Aligned_cols=18  Identities=22%  Similarity=0.573  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+|||||||+++|..
T Consensus         6 I~G~~gSGKTTli~~l~~   23 (165)
T d1xjca_           6 VVGYKHSGKTTLMEKWVA   23 (165)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            589999999999999876

>d1f5na2 c.37.1.8 (A:7-283) Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Interferon-induced guanylate-binding protein 1 (GBP1), N-terminal domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=97.04  E-value=0.0002  Score=52.17  Aligned_cols=55  Identities=20%  Similarity=0.203  Sum_probs=34.5

Q ss_pred             CccCCCCCHHHHHHHHhcCCCCCCC-----ccccceeeEEEEEEECCeEEEEEEEeCCCch
Q 040835            1 LIGDSAVGKSQLLARFARDEFSLDS-----KATIGVEFQTKTLVIHHKNVKAQIWDTAGQE   56 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~~~~-----~~~~~~~~~~~~~~~~~~~~~~~i~D~~G~~   56 (206)
                      |+|+.++|||+|+|.|++....-..     ..|.|.-.....+ ..+....+.++||.|..
T Consensus        37 i~G~~~sGKS~llN~l~~~~~~f~~~~~~~~~T~Giw~~~~~~-~~~~~~~~~~lDteG~~   96 (277)
T d1f5na2          37 IVGLYRTGKSYLMNKLAGKKKGFSLGSTVQSHTKGIWMWCVPH-PKKPGHILVLLDTEGLG   96 (277)
T ss_dssp             EEEBTTSSHHHHHHHHTTCSSCSCCCCSSSCCCCSEEEEEEEC-SSSTTCEEEEEEECCBC
T ss_pred             EECCCCCCHHHHHHHHcCCCCCCccCCCCCCCCCceEEEEeec-cCCCCceEEEEeccccc
Confidence            5899999999999999987642211     2222322221111 13445678999999853

>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=97.01  E-value=0.00011  Score=49.15  Aligned_cols=18  Identities=39%  Similarity=0.545  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+++.|..
T Consensus         9 i~G~pGsGKTTia~~La~   26 (173)
T d1rkba_           9 LTGTPGVGKTTLGKELAS   26 (173)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999999875

>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=96.89  E-value=0.00015  Score=48.26  Aligned_cols=19  Identities=37%  Similarity=0.550  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++||||||+++.|...
T Consensus         7 i~G~~GsGKTTva~~L~~~   25 (176)
T d2bdta1           7 ITGPAGVGKSTTCKRLAAQ   25 (176)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998753

>d1htwa_ c.37.1.18 (A:) Hypothetical protein HI0065 {Haemophilus influenzae [TaxId: 727]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: YjeE-like
domain: Hypothetical protein HI0065
species: Haemophilus influenzae [TaxId: 727]

Probab=96.79  E-value=0.00074  Score=44.58  Aligned_cols=18  Identities=28%  Similarity=0.398  Sum_probs=16.1

Q ss_pred             ccCCCCCHHHHHHHHhcC
Q 040835            2 IGDSAVGKSQLLARFARD   19 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~   19 (206)
                      -|+-|||||||++.++..
T Consensus        39 ~G~LGaGKTtfvr~~~~~   56 (158)
T d1htwa_          39 NGDLGAGKTTLTRGMLQG   56 (158)
T ss_dssp             ECSTTSSHHHHHHHHHHH
T ss_pred             ecCCCccHHHHHHHHHhh
Confidence            599999999999998864

>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=96.76  E-value=0.00022  Score=49.24  Aligned_cols=18  Identities=28%  Similarity=0.541  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|.||||||||.++|..
T Consensus         7 l~GlpgsGKSTla~~L~~   24 (213)
T d1bifa1           7 MVGLPARGKTYISKKLTR   24 (213)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999885

>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=96.76  E-value=0.00062  Score=50.56  Aligned_cols=19  Identities=16%  Similarity=0.319  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|||||||+++|+..
T Consensus       171 i~G~tgSGKTT~l~al~~~  189 (323)
T d1g6oa_         171 VCGGTGSGKTTYIKSIMEF  189 (323)
T ss_dssp             EEESTTSSHHHHHHHHGGG
T ss_pred             EEeeccccchHHHHHHhhh
Confidence            5799999999999999863

>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=96.74  E-value=0.00024  Score=47.94  Aligned_cols=18  Identities=22%  Similarity=0.348  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|.||||||||+.++..
T Consensus        19 l~G~pGsGKST~a~~l~~   36 (172)
T d1yj5a2          19 AVGFPGAGKSTFIQEHLV   36 (172)
T ss_dssp             EECCTTSSHHHHHHHHTG
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999864

>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=96.73  E-value=0.00025  Score=47.68  Aligned_cols=19  Identities=32%  Similarity=0.525  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||||+..+...
T Consensus         6 ItG~~GtGKTtl~~~i~~~   24 (189)
T d2i3ba1           6 LTGPPGVGKTTLIHKASEV   24 (189)
T ss_dssp             EESCCSSCHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5799999999999998863

>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=96.71  E-value=0.00026  Score=47.28  Aligned_cols=19  Identities=21%  Similarity=0.468  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus        10 i~G~~GsGKTT~~~~La~~   28 (174)
T d1y63a_          10 ITGTPGTGKTSMAEMIAAE   28 (174)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>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=96.65  E-value=0.00015  Score=49.27  Aligned_cols=19  Identities=21%  Similarity=0.506  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.||||+||+++|+..
T Consensus         8 l~Gpsg~GK~tl~~~L~~~   26 (178)
T d1kgda_           8 LLGAHGVGRRHIKNTLITK   26 (178)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5899999999999999853

>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=96.62  E-value=0.00033  Score=46.07  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus         7 l~G~~GsGKSTvak~La~~   25 (169)
T d1kaga_           7 LVGPMGAGKSTIGRQLAQQ   25 (169)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999988763

>d1sgwa_ c.37.1.12 (A:) Putative ABC transporter PF0895 {Pyrococcus furiosus [TaxId: 2261]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter PF0895
species: Pyrococcus furiosus [TaxId: 2261]

Probab=96.62  E-value=0.00031  Score=48.53  Aligned_cols=19  Identities=26%  Similarity=0.492  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+++-
T Consensus        32 l~G~NGsGKSTLl~~i~gl   50 (200)
T d1sgwa_          32 FHGPNGIGKTTLLKTISTY   50 (200)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCChHHHHHHHHhcc
Confidence            5899999999999998874

>d1l7vc_ c.37.1.12 (C:) ABC transporter involved in vitamin B12 uptake, BtuD {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: ABC transporter involved in vitamin B12 uptake, BtuD
species: Escherichia coli [TaxId: 562]

Probab=96.57  E-value=0.0005  Score=48.59  Aligned_cols=18  Identities=56%  Similarity=0.826  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|+.|+|||||++.+.+
T Consensus        30 iiG~nGaGKSTLl~~l~G   47 (231)
T d1l7vc_          30 LVGPNGAGKSTLLARMAG   47 (231)
T ss_dssp             CBCCTTSSHHHHHHHHHT
T ss_pred             EECCCCCcHHHHHHHHhC
Confidence            689999999999999987

>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=96.54  E-value=0.00035  Score=47.76  Aligned_cols=18  Identities=28%  Similarity=0.497  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+++.|..
T Consensus        11 i~G~pGSGKsT~a~~La~   28 (194)
T d1qf9a_          11 VLGGPGSGKGTQCANIVR   28 (194)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999876

>d1knqa_ c.37.1.17 (A:) Gluconate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Gluconate kinase
domain: Gluconate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.53  E-value=0.0004  Score=46.19  Aligned_cols=19  Identities=37%  Similarity=0.524  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++||||||+.+.|...
T Consensus        11 l~G~~GsGKsT~a~~La~~   29 (171)
T d1knqa_          11 LMGVSGSGKSAVASEVAHQ   29 (171)
T ss_dssp             EECSTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>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=96.49  E-value=0.00044  Score=46.21  Aligned_cols=18  Identities=22%  Similarity=0.276  Sum_probs=15.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|.+||||||+.+.|..
T Consensus        11 l~G~~GsGKTTia~~La~   28 (183)
T d1m8pa3          11 LTGYMNSGKDAIARALQV   28 (183)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999988775

>d2awna2 c.37.1.12 (A:4-235) Maltose transport protein MalK, N-terminal domain {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Escherichia coli [TaxId: 562]

Probab=96.47  E-value=0.00048  Score=48.60  Aligned_cols=19  Identities=42%  Similarity=0.524  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        31 liGpsGsGKSTLl~~i~Gl   49 (232)
T d2awna2          31 FVGPSGCGKSTLLRMIAGL   49 (232)
T ss_dssp             EECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCChHHHHHHHHhcC
Confidence            5899999999999988874

>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=96.46  E-value=0.00047  Score=46.46  Aligned_cols=19  Identities=21%  Similarity=0.359  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+.+.|...
T Consensus         5 i~G~pGSGKsT~a~~La~~   23 (182)
T d1zina1           5 LMGLPGAGKGTQAEKIVAA   23 (182)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999988653

>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=96.43  E-value=0.0005  Score=46.22  Aligned_cols=18  Identities=17%  Similarity=0.141  Sum_probs=15.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++||||||+++.|..
T Consensus         6 i~G~~GsGKsT~~~~L~~   23 (190)
T d1khta_           6 VTGVPGVGSTTSSQLAMD   23 (190)
T ss_dssp             EECCTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            469999999999998864

>d1l2ta_ c.37.1.12 (A:) MJ0796 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ0796
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.43  E-value=0.00048  Score=48.56  Aligned_cols=19  Identities=32%  Similarity=0.427  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        36 iiG~sGsGKSTLl~~i~gl   54 (230)
T d1l2ta_          36 IMGPSGSGKSTMLNIIGCL   54 (230)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCcchhhHhccCC
Confidence            5899999999999977764

>d1zp6a1 c.37.1.25 (A:6-181) Hypothetical protein Atu3015 {Agrobacterium tumefaciens [TaxId: 358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Atu3015-like
domain: Hypothetical protein Atu3015
species: Agrobacterium tumefaciens [TaxId: 358]

Probab=96.41  E-value=0.00052  Score=45.74  Aligned_cols=19  Identities=32%  Similarity=0.401  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++||||||+.+.|...
T Consensus         9 l~G~~GsGKSTia~~La~~   27 (176)
T d1zp6a1           9 LSGHPGSGKSTIAEALANL   27 (176)
T ss_dssp             EEECTTSCHHHHHHHHHTC
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999988764

>d2onka1 c.37.1.12 (A:1-240) Molybdate/tungstate import ATP-binding protein WtpC (ModC) {Archaeoglobus fulgidus [TaxId: 2234]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Molybdate/tungstate import ATP-binding protein WtpC (ModC)
species: Archaeoglobus fulgidus [TaxId: 2234]

Probab=96.40  E-value=0.00055  Score=48.45  Aligned_cols=19  Identities=37%  Similarity=0.487  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        29 liGpnGaGKSTll~~i~Gl   47 (240)
T d2onka1          29 LLGPTGAGKSVFLELIAGI   47 (240)
T ss_dssp             EECCTTSSHHHHHHHHHTS
T ss_pred             EECCCCChHHHHHHHHHcC
Confidence            5899999999999998884

>d1vpla_ c.37.1.12 (A:) Putative ABC transporter TM0544 {Thermotoga maritima [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Putative ABC transporter TM0544
species: Thermotoga maritima [TaxId: 2336]

Probab=96.40  E-value=0.00051  Score=48.72  Aligned_cols=20  Identities=30%  Similarity=0.361  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        33 lvG~nGaGKSTLl~~l~G~~   52 (238)
T d1vpla_          33 LIGPNGAGKTTTLRIISTLI   52 (238)
T ss_dssp             EECCTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCCHHHHHHHHhcCC
Confidence            58999999999999988854

>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=96.40  E-value=0.00048  Score=46.86  Aligned_cols=19  Identities=21%  Similarity=0.263  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+++.|...
T Consensus         8 i~GppGsGKsT~a~~La~~   26 (189)
T d1zaka1           8 ISGAPASGKGTQCELIKTK   26 (189)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999988753

>d1ji0a_ c.37.1.12 (A:) Branched chain aminoacid ABC transporter {Thermotoga maritima, TM1139 [TaxId: 2336]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Branched chain aminoacid ABC transporter
species: Thermotoga maritima, TM1139 [TaxId: 2336]

Probab=96.36  E-value=0.00054  Score=48.65  Aligned_cols=20  Identities=35%  Similarity=0.448  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        37 liGpnGaGKSTl~~~i~Gl~   56 (240)
T d1ji0a_          37 LIGANGAGKTTTLSAIAGLV   56 (240)
T ss_dssp             EECSTTSSHHHHHHHHTTSS
T ss_pred             EECCCCCcHHHHHHHHhCCC
Confidence            58999999999999988843

>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=96.36  E-value=0.00058  Score=46.14  Aligned_cols=19  Identities=26%  Similarity=0.421  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+++.|...
T Consensus         5 i~G~pGSGKsT~a~~La~~   23 (182)
T d1s3ga1           5 LMGLPGAGKGTQADRIVEK   23 (182)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999988864

>d1v43a3 c.37.1.12 (A:7-245) Hypothetical protein PH0022, N-terminal domain {Pyrococcus horikoshii [TaxId: 53953]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Hypothetical protein PH0022, N-terminal domain
species: Pyrococcus horikoshii [TaxId: 53953]

Probab=96.35  E-value=0.00062  Score=48.22  Aligned_cols=20  Identities=40%  Similarity=0.486  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        37 liGpsGaGKSTLl~~i~Gl~   56 (239)
T d1v43a3          37 LLGPSGCGKTTTLRMIAGLE   56 (239)
T ss_dssp             EECCTTSSHHHHHHHHHTSS
T ss_pred             EECCCCChHHHHHHHHHcCC
Confidence            58999999999999888743

>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=96.34  E-value=0.00062  Score=45.94  Aligned_cols=19  Identities=26%  Similarity=0.513  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+.+.|...
T Consensus         5 i~G~pGsGKsT~a~~La~~   23 (181)
T d2cdna1           5 LLGPPGAGKGTQAVKLAEK   23 (181)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998764

>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=96.31  E-value=0.00059  Score=48.20  Aligned_cols=19  Identities=32%  Similarity=0.555  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+||+|||||++.+...
T Consensus        40 l~GPpG~GKTtla~~la~~   58 (239)
T d1ixsb2          40 LFGPPGLGKTTLAHVIAHE   58 (239)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4799999999999998763

>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=96.31  E-value=0.00059  Score=48.16  Aligned_cols=19  Identities=32%  Similarity=0.503  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+||+|||||++.+...
T Consensus        40 ~~GPpGtGKT~lA~~la~~   58 (238)
T d1in4a2          40 LAGPPGLGKTTLAHIIASE   58 (238)
T ss_dssp             EESSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHhc
Confidence            4799999999999998763

>d2pmka1 c.37.1.12 (A:467-707) Haemolysin B ATP-binding protein {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Haemolysin B ATP-binding protein
species: Escherichia coli [TaxId: 562]

Probab=96.31  E-value=0.00061  Score=48.39  Aligned_cols=19  Identities=37%  Similarity=0.475  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        34 IvG~sGsGKSTLl~ll~gl   52 (241)
T d2pmka1          34 IVGRSGSGKSTLTKLIQRF   52 (241)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHHhc
Confidence            5899999999999988874

>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=96.30  E-value=0.00048  Score=49.43  Aligned_cols=20  Identities=25%  Similarity=0.375  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|+||+|||||+.++.+..
T Consensus        37 L~GpPGtGKT~la~~la~~~   56 (273)
T d1gvnb_          37 LGGQPGSGKTSLRSAIFEET   56 (273)
T ss_dssp             EECCTTSCTHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHHh
Confidence            57999999999999988743

>d1znwa1 c.37.1.1 (A:20-201) Guanylate kinase {Mycobacterium tuberculosis [TaxId: 1773]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Mycobacterium tuberculosis [TaxId: 1773]

Probab=96.29  E-value=0.00063  Score=46.03  Aligned_cols=19  Identities=42%  Similarity=0.534  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||++.|...
T Consensus         7 l~GpsG~GK~tl~~~L~~~   25 (182)
T d1znwa1           7 LSGPSAVGKSTVVRCLRER   25 (182)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            5799999999999998764

>d1ukza_ c.37.1.1 (A:) Uridylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Uridylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.28  E-value=0.00068  Score=46.34  Aligned_cols=18  Identities=17%  Similarity=0.499  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+...|..
T Consensus        13 i~GppGSGKsT~a~~La~   30 (196)
T d1ukza_          13 VLGGPGAGKGTQCEKLVK   30 (196)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999876

>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=96.28  E-value=0.0007  Score=46.19  Aligned_cols=19  Identities=21%  Similarity=0.560  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+...|...
T Consensus        11 liG~PGSGKtT~a~~La~~   29 (189)
T d2ak3a1          11 IMGAPGSGKGTVSSRITKH   29 (189)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998873

>d1g2912 c.37.1.12 (1:1-240) Maltose transport protein MalK, N-terminal domain {Archaeon Thermococcus litoralis [TaxId: 2265]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Maltose transport protein MalK, N-terminal domain
species: Archaeon Thermococcus litoralis [TaxId: 2265]

Probab=96.28  E-value=0.0007  Score=47.98  Aligned_cols=20  Identities=40%  Similarity=0.486  Sum_probs=17.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        34 liG~sGaGKSTll~~i~gl~   53 (240)
T d1g2912          34 LLGPSGCGKTTTLRMIAGLE   53 (240)
T ss_dssp             EECSTTSSHHHHHHHHHTSS
T ss_pred             EECCCCChHHHHHHHHhcCC
Confidence            58999999999999988743

>d1w5sa2 c.37.1.20 (A:7-293) CDC6-like protein APE0152, N-terminal domain {Aeropyrum pernix [TaxId: 56636]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: CDC6-like protein APE0152, N-terminal domain
species: Aeropyrum pernix [TaxId: 56636]

Probab=96.26  E-value=0.0009  Score=48.05  Aligned_cols=19  Identities=26%  Similarity=0.380  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+||+|||++++.+...
T Consensus        51 l~GppGtGKT~l~~~l~~~   69 (287)
T d1w5sa2          51 SIGRVGIGKTTLAKFTVKR   69 (287)
T ss_dssp             CTTCCSSSHHHHHHHHHHH
T ss_pred             eECCCCCCHHHHHHHHHHH
Confidence            4699999999999998864

>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=96.24  E-value=0.0007  Score=45.03  Aligned_cols=19  Identities=32%  Similarity=0.401  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++||||||+.+.|...
T Consensus         8 l~G~~GsGKsTva~~L~~~   26 (178)
T d1qhxa_           8 LNGGSSAGKSGIVRCLQSV   26 (178)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4699999999999998874

>d1mv5a_ c.37.1.12 (A:) Multidrug resistance ABC transporter LmrA, C-terminal domain {Lactococcus lactis [TaxId: 1358]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter LmrA, C-terminal domain
species: Lactococcus lactis [TaxId: 1358]

Probab=96.23  E-value=0.00073  Score=48.05  Aligned_cols=19  Identities=32%  Similarity=0.429  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        33 ivG~sGsGKSTLl~ll~gl   51 (242)
T d1mv5a_          33 FAGPSGGGKSTIFSLLERF   51 (242)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5899999999999988773

>d1gkya_ c.37.1.1 (A:) Guanylate kinase {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=96.22  E-value=0.00079  Score=45.76  Aligned_cols=19  Identities=37%  Similarity=0.592  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||+++|+..
T Consensus         6 l~GpsG~GK~tl~~~L~~~   24 (186)
T d1gkya_           6 ISGPSGTGKSTLLKKLFAE   24 (186)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5899999999999999764

>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=96.21  E-value=0.0008  Score=45.73  Aligned_cols=18  Identities=28%  Similarity=0.578  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+...|..
T Consensus         8 l~G~pGSGKsT~a~~La~   25 (190)
T d1ak2a1           8 LLGPPGAGKGTQAPKLAK   25 (190)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999998875

>d1viaa_ c.37.1.2 (A:) Shikimate kinase (AroK) {Campylobacter jejuni [TaxId: 197]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Shikimate kinase (AroK)
domain: Shikimate kinase (AroK)
species: Campylobacter jejuni [TaxId: 197]

Probab=96.19  E-value=0.00083  Score=44.50  Aligned_cols=19  Identities=42%  Similarity=0.555  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++||||||+.+.|...
T Consensus         5 liG~~GsGKsTi~k~La~~   23 (161)
T d1viaa_           5 FIGFMGSGKSTLARALAKD   23 (161)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999987653

>d3dhwc1 c.37.1.12 (C:1-240) Methionine import ATP-binding protein MetN {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Methionine import ATP-binding protein MetN
species: Escherichia coli [TaxId: 562]

Probab=96.19  E-value=0.0007  Score=47.97  Aligned_cols=19  Identities=37%  Similarity=0.431  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        36 iiG~sGsGKSTLl~~i~Gl   54 (240)
T d3dhwc1          36 VIGASGAGKSTLIRCVNLL   54 (240)
T ss_dssp             EEESTTSSHHHHHHHHTTS
T ss_pred             EECCCCCCHHHHHHHHcCC
Confidence            5899999999999988774

>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=96.18  E-value=0.00085  Score=45.24  Aligned_cols=19  Identities=26%  Similarity=0.436  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||+.+.|...
T Consensus         7 l~G~pGSGKtT~a~~La~~   25 (180)
T d1akya1           7 LIGPPGAGKGTQAPNLQER   25 (180)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5799999999999998763

>d3d31a2 c.37.1.12 (A:1-229) Sulfate/molybdate ABC transporter, ATP-binding protein {Methanosarcina acetivorans [TaxId: 2214]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Sulfate/molybdate ABC transporter, ATP-binding protein
species: Methanosarcina acetivorans [TaxId: 2214]

Probab=96.17  E-value=0.0005  Score=48.35  Aligned_cols=20  Identities=25%  Similarity=0.424  Sum_probs=17.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        31 liGpsGaGKSTll~~l~Gl~   50 (229)
T d3d31a2          31 ILGPTGAGKTLFLELIAGFH   50 (229)
T ss_dssp             EECCCTHHHHHHHHHHHTSS
T ss_pred             EECCCCCcHHHHHHHHhcCc
Confidence            58999999999999998843

>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=96.17  E-value=0.00085  Score=44.56  Aligned_cols=18  Identities=39%  Similarity=0.578  Sum_probs=15.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|++||||||+.+.|..
T Consensus         6 liG~~G~GKSTig~~La~   23 (165)
T d2iyva1           6 LVGLPGSGKSTIGRRLAK   23 (165)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999988765

>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=96.17  E-value=0.00077  Score=45.35  Aligned_cols=18  Identities=22%  Similarity=0.342  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||+.+.|..
T Consensus         5 i~G~pGSGKsT~~~~La~   22 (179)
T d1e4va1           5 LLGAPVAGKGTQAQFIME   22 (179)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999988865

>d1jj7a_ c.37.1.12 (A:) Peptide transporter Tap1, C-terminal ABC domain {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Peptide transporter Tap1, C-terminal ABC domain
species: Human (Homo sapiens) [TaxId: 9606]

Probab=96.15  E-value=0.00082  Score=48.04  Aligned_cols=19  Identities=32%  Similarity=0.427  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        45 ivG~sGsGKSTLl~li~gl   63 (251)
T d1jj7a_          45 LVGPNGSGKSTVAALLQNL   63 (251)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHhcc
Confidence            5899999999999988773

>d1g6ha_ c.37.1.12 (A:) MJ1267 {Archaeon Methanococcus jannaschii [TaxId: 2190]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: MJ1267
species: Archaeon Methanococcus jannaschii [TaxId: 2190]

Probab=96.13  E-value=0.00084  Score=48.07  Aligned_cols=19  Identities=32%  Similarity=0.452  Sum_probs=17.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|+.|+|||||++.+.+-
T Consensus        35 liG~nGaGKSTLl~~i~Gl   53 (254)
T d1g6ha_          35 IIGPNGSGKSTLINVITGF   53 (254)
T ss_dssp             EECSTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHHCC
Confidence            5899999999999999885

>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=96.12  E-value=0.00095  Score=44.55  Aligned_cols=18  Identities=22%  Similarity=0.473  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|++||||||+.+.|..
T Consensus         7 l~G~~GsGKSTia~~LA~   24 (170)
T d1e6ca_           7 MVGARGCGMTTVGRELAR   24 (170)
T ss_dssp             EESCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999998864

>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=96.12  E-value=0.00085  Score=45.81  Aligned_cols=19  Identities=16%  Similarity=0.429  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+|||||||++..|...
T Consensus        13 l~G~pGSGKsT~a~~La~~   31 (194)
T d3adka_          13 VVGGPGSGKGTQCEKIVQK   31 (194)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            5899999999999998763

>d1r0wa_ c.37.1.12 (A:) Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Cystic fibrosis transmembrane conductance regulator, CFTR, nucleotide-binding domain
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=96.12  E-value=0.00084  Score=48.81  Aligned_cols=19  Identities=26%  Similarity=0.499  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+++-
T Consensus        67 ivG~nGsGKSTLl~~i~Gl   85 (281)
T d1r0wa_          67 ITGSTGSGKTSLLMLILGE   85 (281)
T ss_dssp             EEESTTSSHHHHHHHHHTS
T ss_pred             EECCCCChHHHHHHHHhCC
Confidence            5899999999999998874

>d3b60a1 c.37.1.12 (A:329-581) Multidrug resistance ABC transporter MsbA, C-terminal domain {Salmonella typhimurium [TaxId: 90371]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: ABC transporter ATPase domain-like
domain: Multidrug resistance ABC transporter MsbA, C-terminal domain
species: Salmonella typhimurium [TaxId: 90371]

Probab=96.10  E-value=0.00083  Score=48.05  Aligned_cols=19  Identities=37%  Similarity=0.517  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        46 ivG~sGsGKSTLl~ll~gl   64 (253)
T d3b60a1          46 LVGRSGSGKSTIASLITRF   64 (253)
T ss_dssp             EEECTTSSHHHHHHHHTTT
T ss_pred             EECCCCChHHHHHHHHhcc
Confidence            5899999999999988763

>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=96.07  E-value=0.0004  Score=47.21  Aligned_cols=18  Identities=28%  Similarity=0.388  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|.+||||||+.+.|..
T Consensus        24 L~G~pGSGKTTiAk~La~   41 (195)
T d1x6va3          24 LTGLSGAGKTTVSMALEE   41 (195)
T ss_dssp             EESSCHHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            469999999999999865

>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=96.07  E-value=0.00096  Score=45.42  Aligned_cols=18  Identities=28%  Similarity=0.519  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+|||||||....|..
T Consensus         6 i~GppGSGKsT~a~~La~   23 (194)
T d1teva_           6 VLGGPGAGKGTQCARIVE   23 (194)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999998876

>d1rz3a_ c.37.1.6 (A:) Hypothetical protein rbstp0775 {Bacillus stearothermophilus [TaxId: 1422]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Phosphoribulokinase/pantothenate kinase
domain: Hypothetical protein rbstp0775
species: Bacillus stearothermophilus [TaxId: 1422]

Probab=96.05  E-value=0.00096  Score=45.26  Aligned_cols=18  Identities=28%  Similarity=0.410  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|||||||++.|..
T Consensus        27 I~G~~GSGKSTla~~L~~   44 (198)
T d1rz3a_          27 IDGLSRSGKTTLANQLSQ   44 (198)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            469999999999999875

>d1s96a_ c.37.1.1 (A:) Guanylate kinase {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Nucleotide and nucleoside kinases
domain: Guanylate kinase
species: Escherichia coli [TaxId: 562]

Probab=96.04  E-value=0.0011  Score=45.92  Aligned_cols=19  Identities=26%  Similarity=0.427  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+||+|||||||+++|+..
T Consensus         7 i~GPSG~GK~tl~~~L~~~   25 (205)
T d1s96a_           7 VSAPSGAGKSSLIQALLKT   25 (205)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHhh
Confidence            5799999999999999864

>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=95.95  E-value=0.0012  Score=47.36  Aligned_cols=19  Identities=37%  Similarity=0.427  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|+.|+|||||++.+.+-
T Consensus        33 iiG~sGsGKSTLl~~i~Gl   51 (258)
T d1b0ua_          33 IIGSSGSGKSTFLRCINFL   51 (258)
T ss_dssp             EECCTTSSHHHHHHHHTTS
T ss_pred             EECCCCCcHHHHHHHHHcC
Confidence            5899999999999998864

>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=95.93  E-value=0.0013  Score=44.81  Aligned_cols=19  Identities=42%  Similarity=0.651  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|||||||+++|...
T Consensus         5 l~GPsGsGK~tl~~~L~~~   23 (190)
T d1lvga_           5 LSGPSGAGKSTLLKKLFQE   23 (190)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5899999999999998753

>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=95.90  E-value=0.0012  Score=44.41  Aligned_cols=18  Identities=39%  Similarity=0.580  Sum_probs=15.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+||||||+++.|..
T Consensus         6 i~G~~GsGKTT~~~~La~   23 (194)
T d1nksa_           6 VTGIPGVGKSTVLAKVKE   23 (194)
T ss_dssp             EEECTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            369999999999999864

>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=95.83  E-value=0.0013  Score=46.57  Aligned_cols=19  Identities=26%  Similarity=0.454  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+||||+++.+...
T Consensus        57 l~GPpG~GKTt~a~~la~~   75 (253)
T d1sxja2          57 LYGPPGIGKTTAAHLVAQE   75 (253)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            4699999999999998864

>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=95.83  E-value=0.0014  Score=45.93  Aligned_cols=19  Identities=32%  Similarity=0.532  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+|||||++.+...
T Consensus        50 l~Gp~G~GKTtla~~iak~   68 (231)
T d1iqpa2          50 FAGPPGVGKTTAALALARE   68 (231)
T ss_dssp             EESCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            4799999999999998764

>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=95.73  E-value=0.0017  Score=46.23  Aligned_cols=20  Identities=25%  Similarity=0.346  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||++++.+...-
T Consensus        48 l~GppGtGKT~l~~~l~~~l   67 (276)
T d1fnna2          48 LLGRPGTGKTVTLRKLWELY   67 (276)
T ss_dssp             EECCTTSSHHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            57999999999999988643

>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=95.69  E-value=0.0019  Score=44.13  Aligned_cols=20  Identities=35%  Similarity=0.654  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+||||||++++.|...-
T Consensus        48 LvG~pGVGKTalv~~LA~ri   67 (195)
T d1jbka_          48 LIGEPGVGKTAIVEGLAQRI   67 (195)
T ss_dssp             EECCTTSCHHHHHHHHHHHH
T ss_pred             EEecCCcccHHHHHHHHHHH
Confidence            58999999999998887643

>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=95.69  E-value=0.0008  Score=47.69  Aligned_cols=20  Identities=25%  Similarity=0.476  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      ++|+.|+|||||++.+.+-.
T Consensus        36 iiG~sGsGKSTll~~i~gl~   55 (242)
T d1oxxk2          36 ILGPSGAGKTTFMRIIAGLD   55 (242)
T ss_dssp             EECSCHHHHHHHHHHHHTSS
T ss_pred             EECCCCCcHHHHHHHHHcCc
Confidence            58999999999999988843

>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=95.62  E-value=0.0018  Score=47.63  Aligned_cols=19  Identities=37%  Similarity=0.700  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++||||+|||.|.+++...
T Consensus        54 l~GPpG~GKT~lAkalA~~   72 (309)
T d1ofha_          54 MIGPTGVGKTEIARRLAKL   72 (309)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHhhc
Confidence            5799999999999998874

>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=95.58  E-value=0.0011  Score=45.18  Aligned_cols=17  Identities=41%  Similarity=0.644  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||||++++.
T Consensus        29 i~G~NGsGKStil~Ai~   45 (222)
T d1qhla_          29 LSGGNGAGKSTTMAAFV   45 (222)
T ss_dssp             HHSCCSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            47999999999999986

>d1m7ga_ c.37.1.4 (A:) Adenosine-5'phosphosulfate kinase (APS kinase) {Fungus (Penicillium chrysogenum) [TaxId: 5076]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Adenosine-5'phosphosulfate kinase (APS kinase)
domain: Adenosine-5'phosphosulfate kinase (APS kinase)
species: Fungus (Penicillium chrysogenum) [TaxId: 5076]

Probab=95.56  E-value=0.0022  Score=44.40  Aligned_cols=18  Identities=44%  Similarity=0.510  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+|||||||.+.|..
T Consensus        29 ltGlsGsGKTTia~~L~~   46 (208)
T d1m7ga_          29 LTGLSASGKSTLAVELEH   46 (208)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            579999999999999875

>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=95.54  E-value=0.0012  Score=47.27  Aligned_cols=18  Identities=39%  Similarity=0.564  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |+|+.|+|||||++.+.+
T Consensus        49 ivG~sGsGKSTLl~ll~g   66 (255)
T d2hyda1          49 FVGMSGGGKSTLINLIPR   66 (255)
T ss_dssp             EECSTTSSHHHHHTTTTT
T ss_pred             EECCCCCcHHHHHHHHHh
Confidence            589999999999987666

>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=95.48  E-value=0.0022  Score=45.59  Aligned_cols=18  Identities=39%  Similarity=0.530  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.|+||+|||+|++.+..
T Consensus        45 L~GppGtGKT~la~alA~   62 (246)
T d1d2na_          45 LEGPPHSGKTALAAKIAE   62 (246)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECcCCCCHHHHHHHHhh
Confidence            479999999999999876

>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=95.44  E-value=0.0023  Score=44.76  Aligned_cols=19  Identities=16%  Similarity=0.480  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++|+|||||++.+...
T Consensus        38 l~Gp~G~GKTtl~~~i~~~   56 (237)
T d1sxjd2          38 FYGPPGTGKTSTILALTKE   56 (237)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCChHHHHHHHHHH
Confidence            4699999999999998864

>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=95.40  E-value=0.0027  Score=45.67  Aligned_cols=19  Identities=37%  Similarity=0.644  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|||||++++.|...
T Consensus        44 LVG~~GvGKTalv~~la~r   62 (268)
T d1r6bx2          44 LVGESGVGKTAIAEGLAWR   62 (268)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHH
Confidence            5899999999999988764

>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=95.31  E-value=0.0029  Score=44.00  Aligned_cols=19  Identities=21%  Similarity=0.427  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+||||+++.+...
T Consensus        41 l~Gp~G~GKTt~a~~la~~   59 (224)
T d1sxjb2          41 ISGMPGIGKTTSVHCLAHE   59 (224)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCchhhHHHHHHH
Confidence            4699999999999987753

>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=95.28  E-value=0.003  Score=43.53  Aligned_cols=18  Identities=33%  Similarity=0.553  Sum_probs=15.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|||||||.+.|..
T Consensus         7 I~G~~gSGKSTla~~L~~   24 (213)
T d1uj2a_           7 VSGGTASGKSSVCAKIVQ   24 (213)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            469999999999998865

>d1sxje2 c.37.1.20 (E:4-255) Replication factor C5 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Extended AAA-ATPase domain
domain: Replication factor C5
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=95.27  E-value=0.0024  Score=45.09  Aligned_cols=19  Identities=21%  Similarity=0.303  Sum_probs=16.8

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+||||++..+...
T Consensus        38 l~Gp~G~GKTt~~~~la~~   56 (252)
T d1sxje2          38 LYGPNGTGKKTRCMALLES   56 (252)
T ss_dssp             EECSTTSSHHHHHHTHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            4799999999999998764

>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=95.23  E-value=0.0031  Score=43.87  Aligned_cols=19  Identities=26%  Similarity=0.569  Sum_probs=16.9

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+||||++..+...
T Consensus        40 l~Gp~G~GKttl~~~la~~   58 (227)
T d1sxjc2          40 FYGPPGTGKTSTIVALARE   58 (227)
T ss_dssp             EECSSSSSHHHHHHHHHHH
T ss_pred             EECCCCCChhHHHHHHHHH
Confidence            4799999999999999874

>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=95.20  E-value=0.003  Score=44.98  Aligned_cols=18  Identities=22%  Similarity=0.292  Sum_probs=16.0

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|+|||||++++..
T Consensus        34 i~G~~G~GKTsLl~~~~~   51 (283)
T d2fnaa2          34 VLGLRRTGKSSIIKIGIN   51 (283)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEcCCCCcHHHHHHHHHH
Confidence            469999999999999875

>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=95.07  E-value=0.0036  Score=44.45  Aligned_cols=18  Identities=39%  Similarity=0.610  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.|+||+|||+|++++..
T Consensus        47 l~GppGtGKT~la~aia~   64 (247)
T d1ixza_          47 LVGPPGVGKTHLARAVAG   64 (247)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EecCCCCChhHHHHHHHH
Confidence            479999999999999986

>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=94.89  E-value=0.0043  Score=44.31  Aligned_cols=19  Identities=26%  Similarity=0.452  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||+|++++...
T Consensus        43 L~GppGtGKT~l~~ala~~   61 (258)
T d1e32a2          43 LYGPPGTGKTLIARAVANE   61 (258)
T ss_dssp             EECCTTSSHHHHHHHHHHH
T ss_pred             EecCCCCCchHHHHHHHHH
Confidence            4699999999999998873

>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=94.88  E-value=0.0043  Score=44.27  Aligned_cols=19  Identities=26%  Similarity=0.515  Sum_probs=16.6

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|+||+|||+|++.+...
T Consensus        50 L~GppGtGKT~la~~iA~~   68 (256)
T d1lv7a_          50 MVGPPGTGKTLLAKAIAGE   68 (256)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             eeCCCCCCccHHHHHHHHH
Confidence            4699999999999998863

>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=94.85  E-value=0.0045  Score=42.67  Aligned_cols=18  Identities=33%  Similarity=0.385  Sum_probs=15.9

Q ss_pred             ccCCCCCHHHHHHHHhcC
Q 040835            2 IGDSAVGKSQLLARFARD   19 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~   19 (206)
                      .|+|||||||+...|...
T Consensus         9 ~GppGSGKgT~ak~La~~   26 (225)
T d1ckea_           9 DGPSGAGKGTLCKAMAEA   26 (225)
T ss_dssp             ECCTTSSHHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHHH
Confidence            599999999999988763

>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=94.78  E-value=0.0055  Score=41.39  Aligned_cols=21  Identities=24%  Similarity=0.348  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|.+||||||+++.|....+
T Consensus         8 itG~~gSGKstva~~l~~~g~   28 (191)
T d1uf9a_           8 ITGNIGSGKSTVAALLRSWGY   28 (191)
T ss_dssp             EEECTTSCHHHHHHHHHHTTC
T ss_pred             EECCCCCCHHHHHHHHHHCCC
Confidence            469999999999998865433

>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=94.73  E-value=0.0054  Score=41.86  Aligned_cols=22  Identities=23%  Similarity=0.285  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEFS   22 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~~   22 (206)
                      |.|+||+|||+|+..|..+...
T Consensus        28 i~G~~GsGKT~l~l~la~~~~~   49 (242)
T d1n0wa_          28 MFGEFRTGKTQICHTLAVTCQL   49 (242)
T ss_dssp             EECCTTSSHHHHHHHHHHHTTS
T ss_pred             EEeCCCCCHHHHHHHHHHHHHH
Confidence            5799999999999998875443

>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=94.65  E-value=0.0057  Score=42.25  Aligned_cols=17  Identities=29%  Similarity=0.378  Sum_probs=15.4

Q ss_pred             ccCCCCCHHHHHHHHhc
Q 040835            2 IGDSAVGKSQLLARFAR   18 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~   18 (206)
                      -|++||||||+...|..
T Consensus         9 dGp~GsGKgT~ak~La~   25 (223)
T d1q3ta_           9 DGPASSGKSTVAKIIAK   25 (223)
T ss_dssp             ECSSCSSHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            39999999999998886

>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=94.47  E-value=0.0067  Score=43.45  Aligned_cols=20  Identities=25%  Similarity=0.385  Sum_probs=17.1

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|++|+|||+|++++...-
T Consensus        46 L~Gp~GtGKT~l~~ala~~~   65 (265)
T d1r7ra3          46 FYGPPGCGKTLLAKAIANEC   65 (265)
T ss_dssp             EBCCTTSSHHHHHHHHHHHT
T ss_pred             EECCCCCcchhHHHHHHHHh
Confidence            47999999999999987643

>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=94.41  E-value=0.005  Score=41.71  Aligned_cols=19  Identities=26%  Similarity=0.511  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |-|..||||||+++.|...
T Consensus        14 ieG~~GsGKTTl~~~L~~~   32 (197)
T d2vp4a1          14 IEGNIGSGKTTYLNHFEKY   32 (197)
T ss_dssp             EECSTTSCHHHHHHTTGGG
T ss_pred             EECCCCCCHHHHHHHHHHH
Confidence            3599999999999988753

>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=94.15  E-value=0.0076  Score=45.62  Aligned_cols=18  Identities=39%  Similarity=0.781  Sum_probs=14.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|+||||||++++.|..
T Consensus        48 lvG~~GvGKtaiv~~la~   65 (387)
T d1qvra2          48 LIGEPGVGKTAIVEGLAQ   65 (387)
T ss_dssp             EEECTTSCHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999865553

>d1szpa2 c.37.1.11 (A:145-395) DNA repair protein Rad51, catalytic domain {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: DNA repair protein Rad51, catalytic domain
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=94.13  E-value=0.0079  Score=41.89  Aligned_cols=21  Identities=38%  Similarity=0.381  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|+||+|||+|+-.|.....
T Consensus        39 i~G~pGsGKT~l~lq~~~~~~   59 (251)
T d1szpa2          39 LFGEFRTGKSQLCHTLAVTCQ   59 (251)
T ss_dssp             EEESTTSSHHHHHHHHTTTTT
T ss_pred             EEcCCCCCHHHHHHHHHHHhh
Confidence            579999999999999876543

>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=94.12  E-value=0.0081  Score=43.29  Aligned_cols=19  Identities=26%  Similarity=0.356  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+.|+|||||+..+++.
T Consensus        49 I~GmgGiGKTtLA~~v~~~   67 (277)
T d2a5yb3          49 LHGRAGSGKSVIASQALSK   67 (277)
T ss_dssp             EECSTTSSHHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHHh
Confidence            5799999999999998764

>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=94.05  E-value=0.0085  Score=41.43  Aligned_cols=20  Identities=25%  Similarity=0.494  Sum_probs=17.2

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +.|++|+|||.|++++....
T Consensus        41 l~G~~G~GKTHLl~A~~~~~   60 (213)
T d1l8qa2          41 IYGSVGTGKTHLLQAAGNEA   60 (213)
T ss_dssp             EECSSSSSHHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHHh
Confidence            46999999999999988743

>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=94.02  E-value=0.0088  Score=40.77  Aligned_cols=18  Identities=22%  Similarity=0.466  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |-|..||||||+++.|..
T Consensus         5 ieG~dGsGKST~~~~L~~   22 (208)
T d1gsia_           5 IEGVDGAGKRTLVEKLSG   22 (208)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            359999999999998775

>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=93.96  E-value=0.0089  Score=44.84  Aligned_cols=18  Identities=28%  Similarity=0.368  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.||||+|||+|+..+.+
T Consensus       159 ~~g~~~~gk~~~~~~~~~  176 (362)
T d1svma_         159 FKGPIDSGKTTLAAALLE  176 (362)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            479999999999999876

>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=93.87  E-value=0.0063  Score=44.22  Aligned_cols=17  Identities=24%  Similarity=0.593  Sum_probs=15.3

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      ++|+.|+|||++++++.
T Consensus        29 lvG~NgsGKS~iL~Ai~   45 (308)
T d1e69a_          29 IVGPNGSGKSNIIDAIK   45 (308)
T ss_dssp             EECCTTTCSTHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHH
Confidence            58999999999999873

>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=93.78  E-value=0.0097  Score=43.55  Aligned_cols=18  Identities=33%  Similarity=0.409  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|||||||.+.|..
T Consensus        85 IaG~sgSGKSTla~~L~~  102 (308)
T d1sq5a_          85 IAGSVAVGKSTTARVLQA  102 (308)
T ss_dssp             EEECTTSSHHHHHHHHHH
T ss_pred             EeCCCCCCCcHHHHHHHH
Confidence            479999999999888764

>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=93.71  E-value=0.01  Score=41.53  Aligned_cols=21  Identities=29%  Similarity=0.311  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|+||+|||+|.-.++....
T Consensus        41 i~G~pGsGKT~~~lq~~~~~~   61 (254)
T d1pzna2          41 VFGEFGSGKTQLAHTLAVMVQ   61 (254)
T ss_dssp             EEESTTSSHHHHHHHHHHHTT
T ss_pred             EEcCCCCCHHHHHHHHHHHhh
Confidence            579999999999999886544

>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=93.70  E-value=0.21  Score=34.12  Aligned_cols=76  Identities=16%  Similarity=0.163  Sum_probs=48.7

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEE-EEEeCCCCCcCCCCCHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIM-LVGNKSDLETLRAVPTED  123 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~i-vv~nK~D~~~~~~~~~~~  123 (206)
                      +.+.++|+++.-..  .....+..+|.++++...+ ..++..+.+....+.+   .+.|++ +|+|+.+... .......
T Consensus       112 ~d~IiiD~~~~~~~--~~~~~l~~aD~viiv~~~~-~~s~~~~~~~~~~~~~---~~~~~~giv~N~~~~~~-~~~~~~~  184 (237)
T d1g3qa_         112 FDFILIDCPAGLQL--DAMSAMLSGEEALLVTNPE-ISCLTDTMKVGIVLKK---AGLAILGFVLNRYGRSD-RDIPPEA  184 (237)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHTTCSEEEEEECSC-HHHHHHHHHHHHHHHH---TTCEEEEEEEEEETSCT-TCCCHHH
T ss_pred             CCEEEEcccccccc--cchhhhhhhhccccccccc-ceecchhhHHHHHHhh---hhhhhhhhhhccccccc-chhhhHH
Confidence            46899999876432  3445567899999988864 4556666666555554   356654 8899998654 3344444


Q ss_pred             HHHH
Q 040835          124 AKEF  127 (206)
Q Consensus       124 ~~~~  127 (206)
                      .+.+
T Consensus       185 ~~~~  188 (237)
T d1g3qa_         185 AEDV  188 (237)
T ss_dssp             HHHH
T ss_pred             HHhh
Confidence            4333

>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=93.67  E-value=0.011  Score=44.66  Aligned_cols=17  Identities=29%  Similarity=0.640  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |+|+.|+|||+|+.++.
T Consensus        30 i~G~NGsGKS~ileAi~   46 (427)
T d1w1wa_          30 IIGPNGSGKSNMMDAIS   46 (427)
T ss_dssp             EECSTTSSHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHH
Confidence            58999999999999974

>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=93.62  E-value=0.014  Score=40.08  Aligned_cols=21  Identities=33%  Similarity=0.395  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|..||||||+++.|....+
T Consensus         8 itG~igSGKStv~~~l~~~G~   28 (208)
T d1vhta_           8 LTGGIGSGKSTVANAFADLGI   28 (208)
T ss_dssp             EECCTTSCHHHHHHHHHHTTC
T ss_pred             EECCCcCCHHHHHHHHHHCCC
Confidence            479999999999998875544

>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=93.56  E-value=0.013  Score=42.35  Aligned_cols=17  Identities=24%  Similarity=0.223  Sum_probs=14.4

Q ss_pred             CccCCCCCHHHHHHHHh
Q 040835            1 LIGDSAVGKSQLLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~   17 (206)
                      |.|.+|||||||...|.
T Consensus        32 i~G~qGSGKSTl~~~l~   48 (286)
T d1odfa_          32 FSGPQGSGKSFTSIQIY   48 (286)
T ss_dssp             EECCTTSSHHHHHHHHH
T ss_pred             eECCCCCCHHHHHHHHH
Confidence            46999999999998764

>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=93.38  E-value=0.006  Score=45.13  Aligned_cols=18  Identities=33%  Similarity=0.549  Sum_probs=15.9

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|+||+|||+|++++..
T Consensus        33 l~G~pG~GKT~lar~~~~   50 (333)
T d1g8pa_          33 VFGDRGTGKSTAVRALAA   50 (333)
T ss_dssp             EECCGGGCTTHHHHHHHH
T ss_pred             EECCCCccHHHHHHHHHH
Confidence            479999999999998864

>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=93.38  E-value=0.015  Score=39.83  Aligned_cols=17  Identities=18%  Similarity=0.137  Sum_probs=15.0

Q ss_pred             ccCCCCCHHHHHHHHhc
Q 040835            2 IGDSAVGKSQLLARFAR   18 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~   18 (206)
                      -|..||||||+++.|..
T Consensus         8 EG~dGsGKsT~~~~L~~   24 (210)
T d4tmka_           8 EGLEGAGKTTARNVVVE   24 (210)
T ss_dssp             EECTTSCHHHHHHHHHH
T ss_pred             ECCCCCCHHHHHHHHHH
Confidence            49999999999998775

>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=93.34  E-value=0.014  Score=44.92  Aligned_cols=18  Identities=39%  Similarity=0.813  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++||+|||||-|+++|..
T Consensus        54 liGPTGvGKTlLAr~LAk   71 (443)
T d1g41a_          54 MIGPTGVGKTEIARRLAK   71 (443)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            589999999999999875

>d1tf7a2 c.37.1.11 (A:256-497) Circadian clock protein KaiC {Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: RecA protein-like (ATPase-domain)
domain: Circadian clock protein KaiC
species: Synechococcus sp. strain PCC 7942 (Anacystis nidulans R2) [TaxId: 1140]

Probab=93.23  E-value=0.014  Score=40.64  Aligned_cols=19  Identities=32%  Similarity=0.658  Sum_probs=17.0

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|+||+|||+|+..+..+
T Consensus        31 i~G~pGsGKT~l~~qia~~   49 (242)
T d1tf7a2          31 ATGATGTGKTLLVSRFVEN   49 (242)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHHH
Confidence            4799999999999998875

>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=93.06  E-value=0.022  Score=38.88  Aligned_cols=19  Identities=26%  Similarity=0.378  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|..||||||+++.|...
T Consensus         7 ITG~igSGKStv~~~l~~~   25 (205)
T d1jjva_           7 LTGGIGSGKTTIANLFTDL   25 (205)
T ss_dssp             EECSTTSCHHHHHHHHHTT
T ss_pred             EECCCCCCHHHHHHHHHHC
Confidence            4799999999999987653

>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=93.05  E-value=0.017  Score=42.41  Aligned_cols=18  Identities=22%  Similarity=0.619  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++|++|+|||.|+..|..
T Consensus        57 f~Gp~GvGKT~lak~la~   74 (315)
T d1r6bx3          57 FAGPTGVGKTEVTVQLSK   74 (315)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCcchhHHHHHHHHh
Confidence            579999999999999876

>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=92.93  E-value=0.028  Score=42.60  Aligned_cols=20  Identities=25%  Similarity=0.252  Sum_probs=17.6

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+||||++..++..-
T Consensus       163 vtGpTGSGKSTTl~~~l~~~  182 (401)
T d1p9ra_         163 VTGPTGSGKSTTLYAGLQEL  182 (401)
T ss_dssp             EECSTTSCHHHHHHHHHHHH
T ss_pred             EEcCCCCCccHHHHHHhhhh
Confidence            57999999999999998853

>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=0.017  Score=40.16  Aligned_cols=21  Identities=19%  Similarity=0.230  Sum_probs=17.8

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|++|+|||+|+..+...-.
T Consensus        39 i~G~~G~GKT~~~l~~a~~~~   59 (258)
T d2i1qa2          39 FAGVFGSGKTQIMHQSCVNLQ   59 (258)
T ss_dssp             EEESTTSSHHHHHHHHHHHTT
T ss_pred             EEeCCCCCHHHHHHHHHHHHH
Confidence            579999999999999986543

>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=92.79  E-value=0.023  Score=37.92  Aligned_cols=21  Identities=33%  Similarity=0.515  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      +.|++|+|||||.-.|....+
T Consensus        19 ~~G~sG~GKStlal~l~~~g~   39 (176)
T d1kkma_          19 ITGDSGVGKSETALELVQRGH   39 (176)
T ss_dssp             EECCTTSCHHHHHHHHHHTTC
T ss_pred             EEeCCCCCHHHHHHHHHHcCC
Confidence            579999999999999887655

>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=92.70  E-value=0.018  Score=42.25  Aligned_cols=18  Identities=22%  Similarity=0.440  Sum_probs=16.3

Q ss_pred             ccCCCCCHHHHHHHHhcC
Q 040835            2 IGDSAVGKSQLLARFARD   19 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~~   19 (206)
                      .|+||+|||.|.+.|...
T Consensus       129 ~G~pG~GKT~la~ala~~  146 (321)
T d1w44a_         129 TGKGNSGKTPLVHALGEA  146 (321)
T ss_dssp             ECSSSSCHHHHHHHHHHH
T ss_pred             ECCCCccHHHHHHHHHHH
Confidence            599999999999998874

>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=92.67  E-value=0.023  Score=37.89  Aligned_cols=21  Identities=29%  Similarity=0.442  Sum_probs=18.3

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      |.|++|+|||||.-.|....+
T Consensus        20 i~G~sG~GKS~lal~l~~~G~   40 (177)
T d1knxa2          20 LTGRSGIGKSECALDLINKNH   40 (177)
T ss_dssp             EEESSSSSHHHHHHHHHTTTC
T ss_pred             EEcCCCCCHHHHHHHHHHcCC
Confidence            479999999999999987655

>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=92.52  E-value=0.025  Score=39.40  Aligned_cols=17  Identities=35%  Similarity=0.561  Sum_probs=15.2

Q ss_pred             ccCCCCCHHHHHHHHhc
Q 040835            2 IGDSAVGKSQLLARFAR   18 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~   18 (206)
                      =|.-||||||+++.|..
T Consensus         8 EG~~GsGKST~~~~L~~   24 (241)
T d2ocpa1           8 EGNIAVGKSTFVKLLTK   24 (241)
T ss_dssp             EECTTSSHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHHH
Confidence            38999999999999876

>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=92.52  E-value=0.07  Score=38.02  Aligned_cols=19  Identities=21%  Similarity=0.347  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |.|++++|||+|+-.+...
T Consensus        62 i~G~~~sGKT~l~l~~~~~   80 (268)
T d1xp8a1          62 IYGPESGGKTTLALAIVAQ   80 (268)
T ss_dssp             EEESTTSSHHHHHHHHHHH
T ss_pred             EecCCccchHHHHHHHHHH
Confidence            4799999999999887764

>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=92.50  E-value=0.023  Score=39.62  Aligned_cols=20  Identities=25%  Similarity=0.353  Sum_probs=17.3

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||+|...|+...
T Consensus        42 i~G~~GsGKT~lalq~~~~~   61 (258)
T d1v5wa_          42 AFGEFRTGKTQLSHTLCVTA   61 (258)
T ss_dssp             EECCTTCTHHHHHHHHHHHT
T ss_pred             EECCCCCCHHHHHHHHHHHH
Confidence            57999999999999998643

>d1uaaa1 c.37.1.19 (A:2-307) DEXX box DNA helicase {Escherichia coli, RepD [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: Tandem AAA-ATPase domain
domain: DEXX box DNA helicase
species: Escherichia coli, RepD [TaxId: 562]

Probab=92.37  E-value=0.019  Score=41.33  Aligned_cols=13  Identities=15%  Similarity=0.595  Sum_probs=10.9

Q ss_pred             CccCCCCCHHHHH
Q 040835            1 LIGDSAVGKSQLL   13 (206)
Q Consensus         1 v~G~~~~GKTtLl   13 (206)
                      |.|.|||||||.+
T Consensus        19 I~g~aGTGKTt~l   31 (306)
T d1uaaa1          19 VLAGAGSGKTRVI   31 (306)
T ss_dssp             ECCCTTSCHHHHH
T ss_pred             EEeeCCccHHHHH
Confidence            5799999999754

>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=92.34  E-value=0.021  Score=39.20  Aligned_cols=29  Identities=7%  Similarity=-0.005  Sum_probs=19.5

Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHHHHHhhhh
Q 040835          134 CFMETSALESTNVELAFLTVLTEIYRIVSKK  164 (206)
Q Consensus       134 ~~~~~Sa~~~~~v~~~~~~l~~~i~~~~~~~  164 (206)
                      .++.+.+.  ..++++...+...+.......
T Consensus       171 ~~~~IDa~--~~~e~V~~~I~~~v~~~l~~~  199 (209)
T d1nn5a_         171 NWKMVDAS--KSIEAVHEDIRVLSEDAIATA  199 (209)
T ss_dssp             CEEEEETT--SCHHHHHHHHHHHHHHHHHHG
T ss_pred             CEEEEECC--CCHHHHHHHHHHHHHHHHHhc
Confidence            46666653  368888888877776665543

>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=92.33  E-value=0.017  Score=40.17  Aligned_cols=18  Identities=28%  Similarity=0.479  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |-|+.||||||+++.|..
T Consensus         7 ieG~dGsGKST~~~~L~~   24 (241)
T d1p5zb_           7 IEGNIAAGKSTFVNILKQ   24 (241)
T ss_dssp             EECSTTSSHHHHHTTTGG
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            359999999999998776

>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=92.31  E-value=0.022  Score=39.20  Aligned_cols=18  Identities=28%  Similarity=0.438  Sum_probs=15.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|+|||+|+..++.
T Consensus        31 I~G~~G~GKT~la~~~~~   48 (242)
T d1tf7a1          31 VSGTSGTGKTLFSIQFLY   48 (242)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            479999999999877654

>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=92.27  E-value=0.026  Score=38.63  Aligned_cols=19  Identities=16%  Similarity=0.288  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++|+||||++..+...
T Consensus        29 l~Gp~G~GKtt~a~~~a~~   47 (207)
T d1a5ta2          29 IQALPGMGDDALIYALSRY   47 (207)
T ss_dssp             EECCTTSCHHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHHh
Confidence            4699999999999987763

>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=92.09  E-value=0.025  Score=39.51  Aligned_cols=18  Identities=28%  Similarity=0.517  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.|++|+|||++++.+..
T Consensus        39 l~Gp~G~GKtt~a~~~~~   56 (239)
T d1njfa_          39 FSGTRGVGKTSIARLLAK   56 (239)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHH
Confidence            359999999999998765

>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=92.06  E-value=0.027  Score=42.12  Aligned_cols=18  Identities=33%  Similarity=0.610  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      ++||+|||||-|.++|..
T Consensus        73 fiGPTGvGKTElAk~LA~   90 (364)
T d1um8a_          73 LIGPTGSGKTLMAQTLAK   90 (364)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             eeCCCCccHHHHHHHHHh
Confidence            589999999999999865

>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=91.85  E-value=1.3  Score=30.71  Aligned_cols=88  Identities=11%  Similarity=0.060  Sum_probs=52.3

Q ss_pred             EEEEEEeCCCchhhhh-hhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCC-CCCc-EEEEEeCCCCCcCCCCCH
Q 040835           45 VKAQIWDTAGQERYRA-VTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHAD-KNII-IMLVGNKSDLETLRAVPT  121 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~-~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~-~~~p-~ivv~nK~D~~~~~~~~~  121 (206)
                      +.+.++|+|+.-.... ........+|.++++.+. +..++.........+..... .+.+ .-++.|+.+...    ..
T Consensus       116 ~D~viiD~p~~~~~~~~~~~~~~~~ad~vliv~~~-~~~sl~~~~~~~~~i~~~~~~~~~~~~~vv~N~~~~~~----~~  190 (269)
T d1cp2a_         116 LDYVFYDVLGDVVCGGFAMPIREGKAQEIYIVASG-EMMALYAANNISKGIQKYAKSGGVRLGGIICNSRKVAN----EY  190 (269)
T ss_dssp             CSEEEEEEECSSCSTTTTHHHHTTSCCEEEEEECS-SHHHHHHHHHHHHHHHHHBTTBBCEEEEEEEECCSSSC----CH
T ss_pred             CCEEEeccCCccchhHHHHHHHhhccCceeeccch-hhhHHHHHHHHHHHHHhhccccceeccceEEeeecCCC----cc
Confidence            4588999986432222 223334568888777766 45566655555555544332 2333 347889887643    34


Q ss_pred             HHHHHHHHHcCCeEEE
Q 040835          122 EDAKEFAEKEGLCFME  137 (206)
Q Consensus       122 ~~~~~~~~~~~~~~~~  137 (206)
                      +..+.+.+..+.+++.
T Consensus       191 ~~~~~~~~~~~~~~~~  206 (269)
T d1cp2a_         191 ELLDAFAKELGSQLIH  206 (269)
T ss_dssp             HHHHHHHHHHTCCEEE
T ss_pred             chhhhhHhhcCCeEEE
Confidence            5677778888877654

>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=91.76  E-value=0.011  Score=42.80  Aligned_cols=18  Identities=28%  Similarity=0.499  Sum_probs=12.8

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.+|||||||.++|..
T Consensus         9 IaG~SGSGKTTva~~l~~   26 (288)
T d1a7ja_           9 VTGSSGAGTSTVKHTFDQ   26 (288)
T ss_dssp             EESCC---CCTHHHHHHH
T ss_pred             EECCCCCcHHHHHHHHHH
Confidence            579999999999998765

>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=91.64  E-value=0.034  Score=36.79  Aligned_cols=21  Identities=29%  Similarity=0.515  Sum_probs=18.2

Q ss_pred             CccCCCCCHHHHHHHHhcCCC
Q 040835            1 LIGDSAVGKSQLLARFARDEF   21 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~~   21 (206)
                      +.|++|+|||||.-.|....+
T Consensus        20 i~G~sg~GKS~la~~l~~~g~   40 (169)
T d1ko7a2          20 ITGDSGIGKSETALELIKRGH   40 (169)
T ss_dssp             EEESTTSSHHHHHHHHHHTTC
T ss_pred             EEeCCCCCHHHHHHHHHHcCC
Confidence            479999999999999888755

>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=91.33  E-value=0.024  Score=38.57  Aligned_cols=19  Identities=26%  Similarity=0.298  Sum_probs=16.4

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      +.|++++|||.|+..|+.-
T Consensus        58 ~~GP~~TGKS~f~~sl~~~   76 (205)
T d1tuea_          58 FCGPANTGKSYFGMSFIHF   76 (205)
T ss_dssp             EESCGGGCHHHHHHHHHHH
T ss_pred             EECCCCccHHHHHHHHHHH
Confidence            4799999999999987763

>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=91.15  E-value=0.039  Score=39.25  Aligned_cols=18  Identities=28%  Similarity=0.377  Sum_probs=15.5

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|.||+|||+|+..+..
T Consensus        40 i~G~~G~GKT~~~~~la~   57 (277)
T d1cr2a_          40 VTSGSGMGKSTFVRQQAL   57 (277)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            469999999999888764

>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=90.93  E-value=0.038  Score=39.16  Aligned_cols=18  Identities=33%  Similarity=0.477  Sum_probs=15.4

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++|+|||+|+-.|..
T Consensus        34 i~G~~G~GKS~l~l~la~   51 (274)
T d1nlfa_          34 LVSPGGAGKSMLALQLAA   51 (274)
T ss_dssp             EEESTTSSHHHHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            579999999999987764

>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=90.66  E-value=0.032  Score=40.47  Aligned_cols=13  Identities=23%  Similarity=0.644  Sum_probs=10.8

Q ss_pred             CccCCCCCHHHHH
Q 040835            1 LIGDSAVGKSQLL   13 (206)
Q Consensus         1 v~G~~~~GKTtLl   13 (206)
                      |.|.+||||||.+
T Consensus        29 V~g~aGSGKTt~l   41 (318)
T d1pjra1          29 IMAGAGSGKTRVL   41 (318)
T ss_dssp             EEECTTSCHHHHH
T ss_pred             EEecCCccHHHHH
Confidence            5799999999754

>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=90.31  E-value=0.062  Score=39.56  Aligned_cols=17  Identities=29%  Similarity=0.249  Sum_probs=15.4

Q ss_pred             cCCCCCHHHHHHHHhcC
Q 040835            3 GDSAVGKSQLLARFARD   19 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~   19 (206)
                      |.-|+||||+++.|...
T Consensus        13 G~iGsGKSTl~~~L~~~   29 (333)
T d1p6xa_          13 GVYGIGKSTTGRVMASA   29 (333)
T ss_dssp             CSTTSSHHHHHHHHHSG
T ss_pred             CCccCCHHHHHHHHHHH
Confidence            89999999999988874

>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=90.30  E-value=0.054  Score=37.11  Aligned_cols=17  Identities=18%  Similarity=0.155  Sum_probs=14.7

Q ss_pred             ccCCCCCHHHHHHHHhc
Q 040835            2 IGDSAVGKSQLLARFAR   18 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~   18 (206)
                      =|.-||||||+++.|..
T Consensus         9 EG~DGsGKST~~~~L~~   25 (214)
T d1tmka_           9 EGLDRTGKTTQCNILYK   25 (214)
T ss_dssp             EESTTSSHHHHHHHHHH
T ss_pred             ECCCCCcHHHHHHHHHH
Confidence            48999999999988765

>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=90.11  E-value=0.054  Score=40.35  Aligned_cols=16  Identities=25%  Similarity=0.574  Sum_probs=13.1

Q ss_pred             CccCCCCCHHHHHHHH
Q 040835            1 LIGDSAVGKSQLLARF   16 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l   16 (206)
                      |.|+||+|||+++..+
T Consensus       168 I~G~pGTGKTt~i~~~  183 (359)
T d1w36d1         168 ISGGPGTGKTTTVAKL  183 (359)
T ss_dssp             EECCTTSTHHHHHHHH
T ss_pred             EEcCCCCCceehHHHH
Confidence            4699999999987553

>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=89.61  E-value=0.057  Score=40.97  Aligned_cols=19  Identities=37%  Similarity=0.496  Sum_probs=16.2

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|.+|+|||+++..++..
T Consensus        55 I~G~tGsGKT~~l~~li~~   73 (433)
T d1e9ra_          55 VNGATGTGKSVLLRELAYT   73 (433)
T ss_dssp             EEECTTSSHHHHHHHHHHH
T ss_pred             EEeCCCCcHHHHHHHHHHH
Confidence            5899999999998877753

>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=89.51  E-value=0.076  Score=38.99  Aligned_cols=17  Identities=18%  Similarity=0.233  Sum_probs=14.9

Q ss_pred             ccCCCCCHHHHHHHHhc
Q 040835            2 IGDSAVGKSQLLARFAR   18 (206)
Q Consensus         2 ~G~~~~GKTtLl~~l~~   18 (206)
                      =|.-|+||||+++.|..
T Consensus        10 EG~iGsGKTTl~~~La~   26 (329)
T d1e2ka_          10 DGPHGMGKTTTTQLLVA   26 (329)
T ss_dssp             CSCTTSSHHHHHHHHTC
T ss_pred             ECCcCCCHHHHHHHHHH
Confidence            38999999999998865

>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=89.48  E-value=0.069  Score=38.98  Aligned_cols=19  Identities=32%  Similarity=0.616  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      ++|++|+|||.|.+.|...
T Consensus        58 f~Gp~G~GKt~lak~la~~   76 (315)
T d1qvra3          58 FLGPTGVGKTELAKTLAAT   76 (315)
T ss_dssp             EBSCSSSSHHHHHHHHHHH
T ss_pred             EECCCcchHHHHHHHHHHH
Confidence            4799999999999987753

>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=89.25  E-value=0.066  Score=38.14  Aligned_cols=18  Identities=28%  Similarity=0.549  Sum_probs=16.1

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      +.|++++|||+|++.+..
T Consensus       109 l~G~~~tGKS~f~~~i~~  126 (267)
T d1u0ja_         109 LFGPATTGKTNIAEAIAH  126 (267)
T ss_dssp             EECSTTSSHHHHHHHHHH
T ss_pred             EEcCCCCCHHHHHHHHHH
Confidence            469999999999998876

>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=88.70  E-value=0.054  Score=39.89  Aligned_cols=18  Identities=22%  Similarity=0.375  Sum_probs=15.8

Q ss_pred             cCCCCCHHHHHHHHhcCC
Q 040835            3 GDSAVGKSQLLARFARDE   20 (206)
Q Consensus         3 G~~~~GKTtLl~~l~~~~   20 (206)
                      |.-||||||+++.|...-
T Consensus        12 G~iGsGKSTl~~~L~~~l   29 (331)
T d1osna_          12 GAYGIGKTTAAEEFLHHF   29 (331)
T ss_dssp             ESSSSCTTHHHHHHHHTT
T ss_pred             CCCCCCHHHHHHHHHHHH
Confidence            899999999999988743

>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=88.23  E-value=0.091  Score=37.28  Aligned_cols=20  Identities=20%  Similarity=0.351  Sum_probs=16.7

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      |.|++|+|||+|+-.+....
T Consensus        59 i~G~~gsGKTtl~l~~~~~~   78 (263)
T d1u94a1          59 IYGPESSGKTTLTLQVIAAA   78 (263)
T ss_dssp             EECSTTSSHHHHHHHHHHHH
T ss_pred             EecCCCcHHHHHHHHHHHHH
Confidence            57999999999998877643

>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=88.06  E-value=2  Score=28.80  Aligned_cols=83  Identities=10%  Similarity=-0.051  Sum_probs=47.7

Q ss_pred             EEEEEEeCCCchhhhhhhHhHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHH
Q 040835           45 VKAQIWDTAGQERYRAVTSAYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDA  124 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~  124 (206)
                      +.+.|+|+|+.-..  .....+..+|.++++...+ ..++....+.+..+....  ...+-+|+|+.+...    .....
T Consensus       110 ~D~viiD~~~~~~~--~~~~~l~~ad~v~~v~~~~-~~~~~~~~~~~~~~~~~~--~~~~~iv~N~~~~~~----~~~~~  180 (232)
T d1hyqa_         110 TDILLLDAPAGLER--SAVIAIAAAQELLLVVNPE-ISSITDGLKTKIVAERLG--TKVLGVVVNRITTLG----IEMAK  180 (232)
T ss_dssp             CSEEEEECCSSSSH--HHHHHHHHSSEEEEEECSS-HHHHHHHHHHHHHHHHHT--CEEEEEEEEEECTTT----HHHHH
T ss_pred             cceeeecccccccc--hhHHHhhhhheeeeecccc-ccchhhhhhhhhhhhhcc--ccccccccccccccc----ccchh
Confidence            44789999876432  3344566799999888764 444555544444444432  123457889986432    22233


Q ss_pred             HHHHHHcCCeEE
Q 040835          125 KEFAEKEGLCFM  136 (206)
Q Consensus       125 ~~~~~~~~~~~~  136 (206)
                      ..+.+..+.+++
T Consensus       181 ~~i~~~~~~~~~  192 (232)
T d1hyqa_         181 NEIEAILEAKVI  192 (232)
T ss_dssp             HHHHHHTTSCEE
T ss_pred             hhHHhhcCCeEE
Confidence            445555676654

>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=88.02  E-value=1.7  Score=30.44  Aligned_cols=88  Identities=13%  Similarity=0.078  Sum_probs=47.7

Q ss_pred             EEEEEEeCCCchhhhhhhH-hHhcCCcEEEEEeeCCChhhHHHHHHHHHHHHhcC-CCCCcE-EEEEeCCCCCcCCCCCH
Q 040835           45 VKAQIWDTAGQERYRAVTS-AYYRGAVGAMLVYDITKRQSFDNVARWLEELRGHA-DKNIII-MLVGNKSDLETLRAVPT  121 (206)
Q Consensus        45 ~~~~i~D~~G~~~~~~~~~-~~~~~~d~~i~v~d~~~~~s~~~~~~~~~~~~~~~-~~~~p~-ivv~nK~D~~~~~~~~~  121 (206)
                      +.+.++|+|+.-....... .....++.++++... +..++..+...+..+.... ..+.++ .+|.|+.+...    ..
T Consensus       119 ~D~iiiD~pp~~~~~~~~~~~~~~~a~~vlv~~~~-~~~s~~~~~~~~~~i~~~~~~~~~~~~gvv~n~~~~~~----~~  193 (289)
T d2afhe1         119 LDFVFYDVLGDVVCGGFAMPIRENKAQEIYIVCSG-EMMAMYAANNISKGIVKYANSGSVRLGGLICNSRNTDR----ED  193 (289)
T ss_dssp             CSEEEEEEECSSCCTTTTHHHHTTCCCEEEEEECS-SHHHHHHHHHHHHHHHHHHTTSCCEEEEEEEECCCCTT----HH
T ss_pred             CCeEeeccCCccCHHHHHHHHHhhccceeecccch-hHHHHHHHHHHHHHHHhhhhcccccccceeehhhcchh----hH
Confidence            5578999987532222222 223457766666544 4445555555444443322 233443 47889876432    33


Q ss_pred             HHHHHHHHHcCCeEEE
Q 040835          122 EDAKEFAEKEGLCFME  137 (206)
Q Consensus       122 ~~~~~~~~~~~~~~~~  137 (206)
                      +....+.+.++.+++.
T Consensus       194 ~~~~~~~~~~g~~vl~  209 (289)
T d2afhe1         194 ELIIALANKLGTQMIH  209 (289)
T ss_dssp             HHHHHHHHHHTSCEEE
T ss_pred             HHHHHHHHHcCCeEEE
Confidence            4466677777777654

>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=88.01  E-value=0.091  Score=36.37  Aligned_cols=18  Identities=22%  Similarity=0.165  Sum_probs=15.7

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|..||||||+.+.|..
T Consensus         6 iTG~igSGKsTva~~l~e   23 (241)
T d1deka_           6 LSGVKRSGKDTTADFIMS   23 (241)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EECCCCCCHHHHHHHHHH
Confidence            469999999999998865

>d1zpda1 c.31.1.3 (A:188-362) Pyruvate decarboxylase {Zymomonas mobilis [TaxId: 542]}

class: Alpha and beta proteins (a/b)
fold: DHS-like NAD/FAD-binding domain
superfamily: DHS-like NAD/FAD-binding domain
family: Pyruvate oxidase and decarboxylase, middle domain
domain: Pyruvate decarboxylase
species: Zymomonas mobilis [TaxId: 542]

Probab=86.15  E-value=2  Score=27.83  Aligned_cols=54  Identities=19%  Similarity=0.282  Sum_probs=37.8

Q ss_pred             CChhhHHHHHH-HHHHHHhcCCCCCcEEEEEeCCCCCcCCCCCHHHHHHHHHHcCCeEEEec
Q 040835           79 TKRQSFDNVAR-WLEELRGHADKNIIIMLVGNKSDLETLRAVPTEDAKEFAEKEGLCFMETS  139 (206)
Q Consensus        79 ~~~~s~~~~~~-~~~~~~~~~~~~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S  139 (206)
                      +|..+++..-. ....+.   ..+.|+|+++.......    ..+++.+++++.+++++.+-
T Consensus         3 sd~~~l~~~v~~~~~~l~---~AkrPvIi~G~g~~~~~----a~~~l~~lae~~~~Pv~tt~   57 (175)
T d1zpda1           3 SDEASLNAAVDETLKFIA---NRDKVAVLVGSKLRAAG----AEEAAVKFTDALGGAVATMA   57 (175)
T ss_dssp             CCHHHHHHHHHHHHHHHT---TCSCEEEEECTTTTTTT----CHHHHHHHHHHHCCCEEEEG
T ss_pred             CChHHHHHHHHHHHHHHH---cCCCEEEEECcCccccc----hHHHHHHHHHhhceeEEecc
Confidence            45555554433 333333   35799999998887533    68899999999999998764

>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=84.04  E-value=0.18  Score=36.12  Aligned_cols=19  Identities=26%  Similarity=0.520  Sum_probs=16.3

Q ss_pred             CccCCCCCHHHHHHHHhcC
Q 040835            1 LIGDSAVGKSQLLARFARD   19 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~   19 (206)
                      |+|++|+|||+|+..+..+
T Consensus        48 I~g~~g~GKT~l~~~i~~~   66 (289)
T d1xpua3          48 IVAPPKAGKTMLLQNIAQS   66 (289)
T ss_dssp             EEECSSSSHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHH
Confidence            5799999999999887763

>d2olra1 c.91.1.1 (A:228-540) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Escherichia coli [TaxId: 562]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Escherichia coli [TaxId: 562]

Probab=83.72  E-value=0.15  Score=36.90  Aligned_cols=13  Identities=38%  Similarity=0.552  Sum_probs=11.5

Q ss_pred             CccCCCCCHHHHH
Q 040835            1 LIGDSAVGKSQLL   13 (206)
Q Consensus         1 v~G~~~~GKTtLl   13 (206)
                      ++|..|+|||||-
T Consensus        19 fFGLSGTGKTTLs   31 (313)
T d2olra1          19 FFGLSGTGKTTLS   31 (313)
T ss_dssp             EECSTTSSHHHHH
T ss_pred             EEccCCCCcccce
Confidence            5799999999976

>d1j3ba1 c.91.1.1 (A:212-529) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Thermus thermophilus [TaxId: 274]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Thermus thermophilus [TaxId: 274]

Probab=82.54  E-value=0.16  Score=36.82  Aligned_cols=13  Identities=38%  Similarity=0.552  Sum_probs=11.3

Q ss_pred             CccCCCCCHHHHH
Q 040835            1 LIGDSAVGKSQLL   13 (206)
Q Consensus         1 v~G~~~~GKTtLl   13 (206)
                      |+|..|+|||||-
T Consensus        19 ffGLSGTGKTTLs   31 (318)
T d1j3ba1          19 FFGLSGTGKTTLS   31 (318)
T ss_dssp             EEECTTSCHHHHT
T ss_pred             EEccCCCCccccc
Confidence            5799999999965

>d1ii2a1 c.91.1.1 (A:201-523) Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase) {Trypanosoma cruzi [TaxId: 5693]}

class: Alpha and beta proteins (a/b)
fold: PEP carboxykinase-like
superfamily: PEP carboxykinase-like
family: PEP carboxykinase C-terminal domain
domain: Phosphoenolpyruvate (PEP) carboxykinase (ATP-oxaloacetate carboxy-lyase)
species: Trypanosoma cruzi [TaxId: 5693]

Probab=82.29  E-value=0.19  Score=36.53  Aligned_cols=13  Identities=38%  Similarity=0.552  Sum_probs=11.7

Q ss_pred             CccCCCCCHHHHH
Q 040835            1 LIGDSAVGKSQLL   13 (206)
Q Consensus         1 v~G~~~~GKTtLl   13 (206)
                      ++|..|+|||||-
T Consensus        19 fFGLSGTGKTTLs   31 (323)
T d1ii2a1          19 FFGLSGTGKTTLS   31 (323)
T ss_dssp             EECCTTSSHHHHH
T ss_pred             EEccCCCCcccce
Confidence            5799999999987

>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=81.66  E-value=0.15  Score=31.80  Aligned_cols=18  Identities=22%  Similarity=0.167  Sum_probs=14.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.+++|+|||+++-.++.
T Consensus        13 l~apTGsGKT~~~~~~~~   30 (136)
T d1a1va1          13 LHAPTGSGKSTKVPAAYA   30 (136)
T ss_dssp             EECCTTSCTTTHHHHHHH
T ss_pred             EEeCCCCCHHHHHHHHHH
Confidence            468999999998866554

>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=81.65  E-value=0.29  Score=30.96  Aligned_cols=17  Identities=29%  Similarity=0.544  Sum_probs=13.2

Q ss_pred             CccCCCCCHHH-HHHHHh
Q 040835            1 LIGDSAVGKSQ-LLARFA   17 (206)
Q Consensus         1 v~G~~~~GKTt-Ll~~l~   17 (206)
                      ++|+-.||||| |++++.
T Consensus         7 i~GpMfsGKTteLi~~~~   24 (139)
T d2b8ta1           7 ITGPMFAGKTAELIRRLH   24 (139)
T ss_dssp             EECSTTSCHHHHHHHHHH
T ss_pred             EEccccCHHHHHHHHHHH
Confidence            47999999999 555543

>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=81.19  E-value=0.3  Score=34.64  Aligned_cols=18  Identities=17%  Similarity=0.313  Sum_probs=15.2

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|++++|||+|+-.+..
T Consensus        65 ~~G~~~~GKT~l~l~~~~   82 (269)
T d1mo6a1          65 IYGPESSGKTTVALHAVA   82 (269)
T ss_dssp             EECSSSSSHHHHHHHHHH
T ss_pred             EecCCCcHHHHHHHHHHH
Confidence            479999999999877664

>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=80.85  E-value=0.31  Score=33.74  Aligned_cols=18  Identities=28%  Similarity=0.348  Sum_probs=15.3

Q ss_pred             CccCCCCCHHHHHHHHhc
Q 040835            1 LIGDSAVGKSQLLARFAR   18 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~   18 (206)
                      |.|+..+||||+++.+.-
T Consensus        46 iTGpN~~GKSt~lk~i~l   63 (234)
T d1wb9a2          46 ITGPNMGGKSTYMRQTAL   63 (234)
T ss_dssp             EECCTTSSHHHHHHHHHH
T ss_pred             EeccCchhhHHHHHHHHH
Confidence            469999999999998654

>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=80.01  E-value=0.43  Score=29.31  Aligned_cols=20  Identities=20%  Similarity=0.094  Sum_probs=16.5

Q ss_pred             CccCCCCCHHHHHHHHhcCC
Q 040835            1 LIGDSAVGKSQLLARFARDE   20 (206)
Q Consensus         1 v~G~~~~GKTtLl~~l~~~~   20 (206)
                      +-|..|+||+||.++|...-
T Consensus        11 ~tg~~~~gk~~ia~al~~~l   30 (122)
T d1g8fa3          11 LGNSLTVSREQLSIALLSTF   30 (122)
T ss_dssp             ECTTCCSCHHHHHHHHHHHH
T ss_pred             EeCCCCCCHHHHHHHHHHHH
Confidence            35889999999999987643