Psyllid ID: psy17493

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Local Sequence Feature Prediction

Residue Number Marker
--------10--------20--------30--------40--------50--------60--------70--------80--------90-------100-
Protein Sequence
MEIQINTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLSKCSIL
Secondary Structure (PSIPRED)
cEEEEccccccccccccccccccccHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHHHHHHccccccccccccccccccccccccccEEEc
Secondary Structure Prediction (SSPRO)
cEEEEEcccccEEccccHHHHccccHHHHHHHHHHHcccEEEccccccccHHHHHHHHHHHHHHHHcccccccccccccccEEEcccccccccccccEEcc
Coil and Loop (DISEMBL)
meiqintkskyievpnfvssmpqvsrERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEkkleasnppkggihvkssepnrkppswlskcsil
Flexible Loop (DISEMBL)
meiqintkskyievpnfvssmpqvsRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQtekkleasnppkggihvkssepnrkppswlskcsil
Low Complexity Region (SEG)
MEIQINTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLSKCSIL
Disordered region (IsUnstruct)
******************************QLAIEYGIKFMETSAKNSINVEDAFFTLARDI***************************************
Disordered Region (DISOPRED)
MEIQINTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD*********************************LSKCSIL
Disordered Region (DISEMBL)
MEIQINTKSKYIEVPNFVSSM********EQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGG**********************
Disordered Region (DISPRO)
MEIQINTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK*****************************C***
Transmembrane Helix (TMHMM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
Transmembrane Helix (HMMTOP)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Transmembrane Helix (MEMSAT)
ooooooooooooooooohhhhhhhhhhhhhhhhhhhhhhhhhiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiii
TM Helix, Signal Peptide (MEMSAT_SVM)
iiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiiihhhhhhhhhhhhhhhhoooooooooooooooooooooooooooooooooooooooooooooo
TM Helix, Signal Peptide (Phobius)
ooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooooo
Signal Peptide (SignalP HMM Mode)
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Signal Peptide (SignalP NN Mode)
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Coiled Coils (COILS)
MEIQINTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLSKCSIL
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	101	2.2.26 [Sep-21-2011]
P35280	207	Ras-related protein Rab-8	yes	N/A	0.811	0.396	0.6	5e-20
P55258	207	Ras-related protein Rab-8	yes	N/A	0.811	0.396	0.6	5e-20
Q5R4A3	207	Ras-related protein Rab-8	yes	N/A	0.821	0.400	0.559	3e-19
Q4R5P1	207	Ras-related protein Rab-8	N/A	N/A	0.821	0.400	0.559	4e-19
P61006	207	Ras-related protein Rab-8	yes	N/A	0.821	0.400	0.559	4e-19
P61007	207	Ras-related protein Rab-8	yes	N/A	0.821	0.400	0.559	4e-19
A4FV54	207	Ras-related protein Rab-8	yes	N/A	0.821	0.400	0.547	9e-19
P70550	207	Ras-related protein Rab-8	no	N/A	0.772	0.376	0.569	4e-18
P61028	207	Ras-related protein Rab-8	no	N/A	0.772	0.376	0.569	4e-18
Q92930	207	Ras-related protein Rab-8	no	N/A	0.772	0.376	0.569	7e-18

>sp|P35280|RAB8A_RAT Ras-related protein Rab-8A OS=Rattus norvegicus GN=Rab8a PE=2 SV=2

 Score = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 51/85 (60%), Positives = 66/85 (77%), Gaps = 3/85 (3%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE  N P+
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEG-NSPQ 183

Query: 78  GGIH-VKSSEPNRKPPSWLSKCSIL 101
           G  H VK +   +K  S+  +CS+L
Sbjct: 184 GSSHGVKITVEQQKRTSFF-RCSLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.
Rattus norvegicus (taxid: 10116)

>sp|P55258|RAB8A_MOUSE Ras-related protein Rab-8A OS=Mus musculus GN=Rab8a PE=1 SV=2

 Score = 96.3 bits (238), Expect = 5e-20,   Method: Compositional matrix adjust.
 Identities = 51/85 (60%), Positives = 66/85 (77%), Gaps = 3/85 (3%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE  N P+
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEG-NSPQ 183

Query: 78  GGIH-VKSSEPNRKPPSWLSKCSIL 101
           G  H VK +   +K  S+  +CS+L
Sbjct: 184 GSSHGVKITVEQQKRTSFF-RCSLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Mus musculus (taxid: 10090)

>sp|Q5R4A3|RAB8A_PONAB Ras-related protein Rab-8A OS=Pongo abelii GN=RAB8A PE=2 SV=1

 Score = 93.6 bits (231), Expect = 3e-19,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 1/84 (1%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query: 78  GGIHVKSSEPNRKPPSWLSKCSIL 101
               VK + P+++  S   +C +L
Sbjct: 185 SNQGVKIT-PDQQKRSSFFRCVLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Pongo abelii (taxid: 9601)

>sp|Q4R5P1|RAB8A_MACFA Ras-related protein Rab-8A OS=Macaca fascicularis GN=RAB8A PE=2 SV=1

 Score = 93.6 bits (231), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 1/84 (1%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query: 78  GGIHVKSSEPNRKPPSWLSKCSIL 101
               VK + P+++  S   +C +L
Sbjct: 185 SNQGVKIT-PDQQKRSSFFRCVLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Macaca fascicularis (taxid: 9541)

>sp|P61006|RAB8A_HUMAN Ras-related protein Rab-8A OS=Homo sapiens GN=RAB8A PE=1 SV=1

 Score = 93.6 bits (231), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 1/84 (1%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query: 78  GGIHVKSSEPNRKPPSWLSKCSIL 101
               VK + P+++  S   +C +L
Sbjct: 185 SNQGVKIT-PDQQKRSSFFRCVLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Homo sapiens (taxid: 9606)

>sp|P61007|RAB8A_CANFA Ras-related protein Rab-8A OS=Canis familiaris GN=RAB8A PE=2 SV=1

 Score = 93.6 bits (231), Expect = 4e-19,   Method: Compositional matrix adjust.
 Identities = 47/84 (55%), Positives = 64/84 (76%), Gaps = 1/84 (1%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query: 78  GGIHVKSSEPNRKPPSWLSKCSIL 101
               VK + P+++  S   +C +L
Sbjct: 185 SNQGVKIT-PDQQKRSSFFRCVLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Canis familiaris (taxid: 9615)

>sp|A4FV54|RAB8A_BOVIN Ras-related protein Rab-8A OS=Bos taurus GN=RAB8A PE=2 SV=1

 Score = 92.0 bits (227), Expect = 9e-19,   Method: Compositional matrix adjust.
 Identities = 46/84 (54%), Positives = 64/84 (76%), Gaps = 1/84 (1%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AF+TLARDIKA+ +KKLE ++P  
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFYTLARDIKAKMDKKLEGNSPQG 184

Query: 78  GGIHVKSSEPNRKPPSWLSKCSIL 101
               VK + P+++  S   +C +L
Sbjct: 185 SNQGVKIT-PDQQKRSSFFRCVLL 207

May be involved in vesicular trafficking and neurotransmitter release. Together with RAB11A, RAB3IP, the exocyst complex, PARD3, PRKCI, ANXA2, CDC42 and DNMBP promotes transcytosis of PODXL to the apical membrane initiation sites (AMIS), apical surface formation and lumenogenesis. Together with MYO5B and RAB11A participates in epithelial cell polarization.

Bos taurus (taxid: 9913)

>sp|P70550|RAB8B_RAT Ras-related protein Rab-8B OS=Rattus norvegicus GN=Rab8b PE=1 SV=1

 Score = 89.7 bits (221), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 45/79 (56%), Positives = 58/79 (73%), Gaps = 1/79 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS+ERGE+LAI+YGIKF+ETSAK+S NVE+AFFTLARDI  +  +K+  SN    G  V
Sbjct: 130 QVSKERGEKLAIDYGIKFLETSAKSSTNVEEAFFTLARDIMTKLNRKMNDSNSSGAGGPV 189

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           K +E   K  S+  +CS+L
Sbjct: 190 KITESRSKKTSFF-RCSLL 207

May be involved in vesicular trafficking and neurotransmitter release (By similarity). May participate in cell junction dynamics in Sertoli cells.

Rattus norvegicus (taxid: 10116)

>sp|P61028|RAB8B_MOUSE Ras-related protein Rab-8B OS=Mus musculus GN=Rab8b PE=1 SV=1

 Score = 89.7 bits (221), Expect = 4e-18,   Method: Compositional matrix adjust.
 Identities = 45/79 (56%), Positives = 58/79 (73%), Gaps = 1/79 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS+ERGE+LAI+YGIKF+ETSAK+S NVE+AFFTLARDI  +  +K+  SN    G  V
Sbjct: 130 QVSKERGEKLAIDYGIKFLETSAKSSTNVEEAFFTLARDIMTKLNRKMNDSNSSGAGGPV 189

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           K +E   K  S+  +CS+L
Sbjct: 190 KITESRSKKTSFF-RCSLL 207

May be involved in vesicular trafficking and neurotransmitter release (By similarity). May participate in cell junction dynamics in Sertoli cells.

Mus musculus (taxid: 10090)

>sp|Q92930|RAB8B_HUMAN Ras-related protein Rab-8B OS=Homo sapiens GN=RAB8B PE=1 SV=2

 Score = 89.0 bits (219), Expect = 7e-18,   Method: Compositional matrix adjust.
 Identities = 45/79 (56%), Positives = 58/79 (73%), Gaps = 1/79 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS+ERGE+LAI+YGIKF+ETSAK+S NVE+AFFTLARDI  +  +K+  SN    G  V
Sbjct: 130 QVSKERGEKLAIDYGIKFLETSAKSSANVEEAFFTLARDIMTKLNRKMNDSNSAGAGGPV 189

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           K +E   K  S+  +CS+L
Sbjct: 190 KITENRSKKTSFF-RCSLL 207

May be involved in vesicular trafficking and neurotransmitter release (By similarity). May participate in cell junction dynamics in Sertoli cells.

Homo sapiens (taxid: 9606)

Close Homologs in the Non-Redundant Database Detected by BLAST

Original result of BLAST against Nonredundant Database

GI	Length	Definition	Q cover	H cover	Identity	E-value
Query	101
383864073	209	PREDICTED: ras-related protein Rab-8A-li	0.782	0.377	0.825	9e-32
380023910	186	PREDICTED: ras-related protein Rab-8A-li	0.782	0.424	0.812	1e-31
340726838	209	PREDICTED: ras-related protein Rab-8A-li	0.782	0.377	0.812	2e-31
380023908	208	PREDICTED: ras-related protein Rab-8A-li	0.782	0.379	0.812	2e-31
307167688	209	Ras-related protein Rab-8A [Camponotus f	0.782	0.377	0.8	3e-31
307212138	209	Ras-related protein Rab-8A [Harpegnathos	0.782	0.377	0.8	3e-31
383864075	210	PREDICTED: ras-related protein Rab-8A-li	0.782	0.376	0.814	2e-30
340726840	210	PREDICTED: ras-related protein Rab-8A-li	0.782	0.376	0.802	4e-30
328793458	152	PREDICTED: ras-related protein Rab-8A-li	0.782	0.519	0.802	5e-30
270010835	208	hypothetical protein TcasGA2_TC014518 [T	0.782	0.379	0.772	2e-29

>gi|383864073|ref|XP_003707504.1| PREDICTED: ras-related protein Rab-8A-like isoform 1 [Megachile rotundata]

 Score =  140 bits (353), Expect = 9e-32,   Method: Compositional matrix adjust.
 Identities = 66/80 (82%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 130 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 189

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++CSIL
Sbjct: 190 LKASEPQRKPPSWLARCSIL 209

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380023910|ref|XP_003695752.1| PREDICTED: ras-related protein Rab-8A-like isoform 2 [Apis florea]

 Score =  139 bits (351), Expect = 1e-31,   Method: Compositional matrix adjust.
 Identities = 65/80 (81%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 107 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 166

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++C+IL
Sbjct: 167 LKASEPQRKPPSWLARCTIL 186

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340726838|ref|XP_003401759.1| PREDICTED: ras-related protein Rab-8A-like isoform 1 [Bombus terrestris] gi|350421632|ref|XP_003492906.1| PREDICTED: ras-related protein Rab-8A-like isoform 1 [Bombus impatiens]

 Score =  139 bits (351), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 65/80 (81%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 130 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 189

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++C+IL
Sbjct: 190 LKASEPQRKPPSWLARCTIL 209

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|380023908|ref|XP_003695751.1| PREDICTED: ras-related protein Rab-8A-like isoform 1 [Apis florea]

 Score =  139 bits (351), Expect = 2e-31,   Method: Compositional matrix adjust.
 Identities = 65/80 (81%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 129 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 188

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++C+IL
Sbjct: 189 LKASEPQRKPPSWLARCTIL 208

Source: Apis florea

Species: Apis florea

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307167688|gb|EFN61191.1| Ras-related protein Rab-8A [Camponotus floridanus] gi|332026766|gb|EGI66875.1| Ras-related protein Rab-8A [Acromyrmex echinatior]

 Score =  139 bits (349), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 64/80 (80%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QV++ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 130 QVTKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 189

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++C+IL
Sbjct: 190 LKASEPQRKPPSWLARCTIL 209

Source: Camponotus floridanus

Species: Camponotus floridanus

Genus: Camponotus

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|307212138|gb|EFN87994.1| Ras-related protein Rab-8A [Harpegnathos saltator]

 Score =  139 bits (349), Expect = 3e-31,   Method: Compositional matrix adjust.
 Identities = 64/80 (80%), Positives = 76/80 (95%), Gaps = 1/80 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH- 81
           QV++ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKLEASNPPKGG H 
Sbjct: 130 QVTKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLEASNPPKGGGHQ 189

Query: 82  VKSSEPNRKPPSWLSKCSIL 101
           +K+SEP RKPPSWL++C+IL
Sbjct: 190 LKASEPQRKPPSWLARCTIL 209

Source: Harpegnathos saltator

Species: Harpegnathos saltator

Genus: Harpegnathos

Family: Formicidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|383864075|ref|XP_003707505.1| PREDICTED: ras-related protein Rab-8A-like isoform 2 [Megachile rotundata]

 Score =  135 bits (341), Expect = 2e-30,   Method: Compositional matrix adjust.
 Identities = 66/81 (81%), Positives = 76/81 (93%), Gaps = 2/81 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL-EASNPPKGGIH 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKL EASNPPKGG H
Sbjct: 130 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLKEASNPPKGGGH 189

Query: 82  -VKSSEPNRKPPSWLSKCSIL 101
            +K+SEP RKPPSWL++CSIL
Sbjct: 190 QLKASEPQRKPPSWLARCSIL 210

Source: Megachile rotundata

Species: Megachile rotundata

Genus: Megachile

Family: Megachilidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|340726840|ref|XP_003401760.1| PREDICTED: ras-related protein Rab-8A-like isoform 2 [Bombus terrestris] gi|350421636|ref|XP_003492907.1| PREDICTED: ras-related protein Rab-8A-like isoform 2 [Bombus impatiens]

 Score =  135 bits (339), Expect = 4e-30,   Method: Compositional matrix adjust.
 Identities = 65/81 (80%), Positives = 76/81 (93%), Gaps = 2/81 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL-EASNPPKGGIH 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKL EASNPPKGG H
Sbjct: 130 QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLKEASNPPKGGGH 189

Query: 82  -VKSSEPNRKPPSWLSKCSIL 101
            +K+SEP RKPPSWL++C+IL
Sbjct: 190 QLKASEPQRKPPSWLARCTIL 210

Source: Bombus terrestris

Species: Bombus terrestris

Genus: Bombus

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|328793458|ref|XP_003251880.1| PREDICTED: ras-related protein Rab-8A-like [Apis mellifera]

 Score =  134 bits (338), Expect = 5e-30,   Method: Compositional matrix adjust.
 Identities = 65/81 (80%), Positives = 76/81 (93%), Gaps = 2/81 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL-EASNPPKGGIH 81
           QVS+ERGEQLA+EYGIKFMETSAK+SINVE+AF+TLARDIKA+ EKKL EASNPPKGG H
Sbjct: 72  QVSKERGEQLAVEYGIKFMETSAKSSINVEEAFYTLARDIKAKMEKKLKEASNPPKGGGH 131

Query: 82  -VKSSEPNRKPPSWLSKCSIL 101
            +K+SEP RKPPSWL++C+IL
Sbjct: 132 QLKASEPQRKPPSWLARCTIL 152

Source: Apis mellifera

Species: Apis mellifera

Genus: Apis

Family: Apidae

Order: Hymenoptera

Class: Insecta

Phylum: Arthropoda

Superkingdom: Eukaryota

>gi|270010835|gb|EFA07283.1| hypothetical protein TcasGA2_TC014518 [Tribolium castaneum]

 Score =  133 bits (334), Expect = 2e-29,   Method: Compositional matrix adjust.
 Identities = 61/79 (77%), Positives = 72/79 (91%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS+ERGEQLAIEYGIKF+ETSAK SI VE+AFFTLARDIKA+ EKKLEASNPPKGG  +
Sbjct: 130 QVSKERGEQLAIEYGIKFIETSAKASIRVEEAFFTLARDIKAKMEKKLEASNPPKGGHQL 189

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           K++EP RKP +WLS+C++L
Sbjct: 190 KATEPQRKPTNWLSRCTLL 208

Source: Tribolium castaneum

Species: Tribolium castaneum

Genus: Tribolium

Family: Tenebrionidae

Order: Coleoptera

Class: Insecta

Phylum: Arthropoda

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	101
FB|FBgn0262518	207	Rab8 "Rab8" [Drosophila melano	0.772	0.376	0.721	3.6e-25
MGI|MGI:96960	207	Rab8a "RAB8A, member RAS oncog	0.811	0.396	0.6	1.9e-19
RGD|621144	207	Rab8a "RAB8A, member RAS oncog	0.811	0.396	0.6	1.9e-19
UNIPROTKB|P61007	207	RAB8A "Ras-related protein Rab	0.821	0.400	0.559	2.8e-18
UNIPROTKB|P61006	207	RAB8A "Ras-related protein Rab	0.821	0.400	0.559	2.8e-18
UNIPROTKB|F2Z5I8	207	RAB8A "Uncharacterized protein	0.821	0.400	0.559	2.8e-18
UNIPROTKB|Q4R5P1	207	RAB8A "Ras-related protein Rab	0.821	0.400	0.559	2.8e-18
UNIPROTKB|Q5R4A3	207	RAB8A "Ras-related protein Rab	0.821	0.400	0.559	2.8e-18
UNIPROTKB|A4FV54	207	RAB8A "Ras-related protein Rab	0.821	0.400	0.547	5.8e-18
MGI|MGI:2442982	207	Rab8b "RAB8B, member RAS oncog	0.772	0.376	0.569	2.5e-17

FB|FBgn0262518 Rab8 "Rab8" [Drosophila melanogaster (taxid:7227)]

 Score = 286 (105.7 bits), Expect = 3.6e-25, P = 3.6e-25
 Identities = 57/79 (72%), Positives = 68/79 (86%)

Query:    23 QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
             QVS+ERGEQLAIEYGIKFMETSAK SINVE+AF TLA DIKA+TEK++EA+NPPKGG  +
Sbjct:   130 QVSKERGEQLAIEYGIKFMETSAKASINVEEAFLTLASDIKAKTEKRMEANNPPKGGHQL 189

Query:    83 KSSEPNRKPPSWLSKCSIL 101
             K  + +R   SWLS+CS+L
Sbjct:   190 KPMD-SRTKDSWLSRCSLL 207

GO:0003924 "GTPase activity" evidence=ISS;NAS

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

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

GO:0031982 "vesicle" evidence=ISS

MGI|MGI:96960 Rab8a "RAB8A, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 51/85 (60%), Positives = 66/85 (77%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE  N P+
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEG-NSPQ 183

Query:    78 GGIH-VKSSEPNRKPPSWLSKCSIL 101
             G  H VK +   +K  S+  +CS+L
Sbjct:   184 GSSHGVKITVEQQKRTSFF-RCSLL 207

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=ISO

GO:0005737 "cytoplasm" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0005932 "microtubule basal body" evidence=IDA

GO:0006810 "transport" evidence=IEA

GO:0006904 "vesicle docking involved in exocytosis" evidence=ISO

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

GO:0007409 "axonogenesis" evidence=ISO

GO:0014069 "postsynaptic density" evidence=ISO

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0016023 "cytoplasmic membrane-bounded vesicle" evidence=ISO

GO:0019003 "GDP binding" evidence=ISO

GO:0019901 "protein kinase binding" evidence=ISO

GO:0030425 "dendrite" evidence=ISO

GO:0031513 "nonmotile primary cilium" evidence=ISO;IDA

GO:0032880 "regulation of protein localization" evidence=ISO

GO:0042384 "cilium assembly" evidence=ISO

GO:0042995 "cell projection" evidence=IEA

GO:0043025 "neuronal cell body" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0048169 "regulation of long-term neuronal synaptic plasticity" evidence=ISO

GO:0048210 "Golgi vesicle fusion to target membrane" evidence=ISO

GO:0051223 "regulation of protein transport" evidence=ISO

GO:0055037 "recycling endosome" evidence=IDA

RGD|621144 Rab8a "RAB8A, member RAS oncogene family" [Rattus norvegicus (taxid:10116)]

 Score = 232 (86.7 bits), Expect = 1.9e-19, P = 1.9e-19
 Identities = 51/85 (60%), Positives = 66/85 (77%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE  N P+
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEG-NSPQ 183

Query:    78 GGIH-VKSSEPNRKPPSWLSKCSIL 101
             G  H VK +   +K  S+  +CS+L
Sbjct:   184 GSSHGVKITVEQQKRTSFF-RCSLL 207

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

GO:0005794 "Golgi apparatus" evidence=IDA

GO:0005886 "plasma membrane" evidence=IDA

GO:0005932 "microtubule basal body" evidence=IEA;ISO

GO:0006904 "vesicle docking involved in exocytosis" evidence=IEA;ISO

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

GO:0007409 "axonogenesis" evidence=IMP

GO:0014069 "postsynaptic density" evidence=IDA

GO:0015031 "protein transport" evidence=IEA

GO:0016023 "cytoplasmic membrane-bounded vesicle" evidence=IDA

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

GO:0019901 "protein kinase binding" evidence=IPI

GO:0030425 "dendrite" evidence=IDA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0031513 "nonmotile primary cilium" evidence=IEA;ISO

GO:0032880 "regulation of protein localization" evidence=IMP

GO:0042384 "cilium assembly" evidence=IEA;ISO

GO:0043025 "neuronal cell body" evidence=IDA

GO:0045335 "phagocytic vesicle" evidence=ISO;ISS

GO:0048169 "regulation of long-term neuronal synaptic plasticity" evidence=IDA;IMP

GO:0048210 "Golgi vesicle fusion to target membrane" evidence=IEA;ISO

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0051223 "regulation of protein transport" evidence=IDA;IMP

GO:0055037 "recycling endosome" evidence=IEA;ISO

UNIPROTKB|P61007 RAB8A "Ras-related protein Rab-8A" [Canis lupus familiaris (taxid:9615)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/84 (55%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

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

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0042995 "cell projection" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

UNIPROTKB|P61006 RAB8A "Ras-related protein Rab-8A" [Homo sapiens (taxid:9606)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/84 (55%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

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

GO:0015031 "protein transport" evidence=IEA

GO:0005932 "microtubule basal body" evidence=IEA

GO:0014069 "postsynaptic density" evidence=IEA

GO:0019901 "protein kinase binding" evidence=IEA

GO:0043025 "neuronal cell body" evidence=IEA

GO:0048169 "regulation of long-term neuronal synaptic plasticity" evidence=IEA

GO:0051223 "regulation of protein transport" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0005515 "protein binding" evidence=IPI

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=IDA

GO:0005525 "GTP binding" evidence=IDA

GO:0019003 "GDP binding" evidence=IDA

GO:0006904 "vesicle docking involved in exocytosis" evidence=IDA

GO:0031513 "nonmotile primary cilium" evidence=IDA

GO:0042384 "cilium assembly" evidence=IDA

GO:0048210 "Golgi vesicle fusion to target membrane" evidence=IDA

UNIPROTKB|F2Z5I8 RAB8A "Uncharacterized protein" [Sus scrofa (taxid:9823)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/84 (55%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

GO:0055037 "recycling endosome" evidence=IEA

GO:0048210 "Golgi vesicle fusion to target membrane" evidence=IEA

GO:0042384 "cilium assembly" evidence=IEA

GO:0031513 "nonmotile primary cilium" evidence=IEA

GO:0006904 "vesicle docking involved in exocytosis" evidence=IEA

GO:0005932 "microtubule basal body" evidence=IEA

GO:0005525 "GTP binding" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

UNIPROTKB|Q4R5P1 RAB8A "Ras-related protein Rab-8A" [Macaca fascicularis (taxid:9541)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/84 (55%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

GO:0005525 "GTP binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

UNIPROTKB|Q5R4A3 RAB8A "Ras-related protein Rab-8A" [Pongo abelii (taxid:9601)]

 Score = 221 (82.9 bits), Expect = 2.8e-18, P = 2.8e-18
 Identities = 47/84 (55%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

GO:0005525 "GTP binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0045335 "phagocytic vesicle" evidence=ISS

UNIPROTKB|A4FV54 RAB8A "Ras-related protein Rab-8A" [Bos taurus (taxid:9913)]

 Score = 218 (81.8 bits), Expect = 5.8e-18, P = 5.8e-18
 Identities = 46/84 (54%), Positives = 63/84 (75%)

Query:    18 VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AF+TLARDIKA+ +KKLE ++P  
Sbjct:   125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFYTLARDIKAKMDKKLEGNSPQG 184

Query:    78 GGIHVKSSEPNRKPPSWLSKCSIL 101
                 VK +   +K  S+  +C +L
Sbjct:   185 SNQGVKITPDQQKRSSFF-RCVLL 207

GO:0045335 "phagocytic vesicle" evidence=ISS

GO:0019003 "GDP binding" evidence=ISS

GO:0005525 "GTP binding" evidence=ISS

GO:0017137 "Rab GTPase binding" evidence=ISS

GO:0007409 "axonogenesis" evidence=ISS

GO:0048471 "perinuclear region of cytoplasm" evidence=IEA

GO:0030670 "phagocytic vesicle membrane" evidence=IEA

GO:0005886 "plasma membrane" evidence=IEA

GO:0005794 "Golgi apparatus" evidence=IEA

GO:0055037 "recycling endosome" evidence=IEA

GO:0048210 "Golgi vesicle fusion to target membrane" evidence=IEA

GO:0042384 "cilium assembly" evidence=IEA

GO:0031513 "nonmotile primary cilium" evidence=IEA

GO:0006904 "vesicle docking involved in exocytosis" evidence=IEA

GO:0005932 "microtubule basal body" evidence=IEA

GO:0015031 "protein transport" evidence=IEA

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

MGI|MGI:2442982 Rab8b "RAB8B, member RAS oncogene family" [Mus musculus (taxid:10090)]

 Score = 212 (79.7 bits), Expect = 2.5e-17, P = 2.5e-17
 Identities = 45/79 (56%), Positives = 58/79 (73%)

Query:    23 QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
             QVS+ERGE+LAI+YGIKF+ETSAK+S NVE+AFFTLARDI  +  +K+  SN    G  V
Sbjct:   130 QVSKERGEKLAIDYGIKFLETSAKSSTNVEEAFFTLARDIMTKLNRKMNDSNSSGAGGPV 189

Query:    83 KSSEPNRKPPSWLSKCSIL 101
             K +E   K  S+  +CS+L
Sbjct:   190 KITESRSKKTSFF-RCSLL 207

GO:0000166 "nucleotide binding" evidence=IEA

GO:0005102 "receptor binding" evidence=ISO

GO:0005515 "protein binding" evidence=IPI

GO:0005525 "GTP binding" evidence=IEA

GO:0005739 "mitochondrion" evidence=IDA

GO:0005778 "peroxisomal membrane" evidence=ISO

GO:0005886 "plasma membrane" evidence=ISO

GO:0006810 "transport" evidence=IEA

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

GO:0015031 "protein transport" evidence=IEA

GO:0016020 "membrane" evidence=IEA

GO:0019003 "GDP binding" evidence=ISO

GO:0030911 "TPR domain binding" evidence=ISO

GO:0031346 "positive regulation of cell projection organization" evidence=ISO

GO:0031410 "cytoplasmic vesicle" evidence=ISO

GO:0034332 "adherens junction organization" evidence=ISO

GO:0045046 "protein import into peroxisome membrane" evidence=ISO

GO:0045335 "phagocytic vesicle" evidence=ISO

GO:0048471 "perinuclear region of cytoplasm" evidence=ISO

GO:0051286 "cell tip" evidence=ISO

GO:0051461 "positive regulation of corticotropin secretion" evidence=ISO

---

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)
P61007	RAB8A_CANFA	No assigned EC number	0.5595	0.8217	0.4009	yes	N/A
P61006	RAB8A_HUMAN	No assigned EC number	0.5595	0.8217	0.4009	yes	N/A
Q5R4A3	RAB8A_PONAB	No assigned EC number	0.5595	0.8217	0.4009	yes	N/A
P20791	RAB8B_DICDI	No assigned EC number	0.5074	0.6039	0.3004	yes	N/A
A4FV54	RAB8A_BOVIN	No assigned EC number	0.5476	0.8217	0.4009	yes	N/A
Q5F470	RAB8A_CHICK	No assigned EC number	0.5569	0.7722	0.3768	yes	N/A
O24466	RAE1A_ARATH	No assigned EC number	0.5098	0.4752	0.2222	yes	N/A
P35280	RAB8A_RAT	No assigned EC number	0.6	0.8118	0.3961	yes	N/A
P17609	YPT2_SCHPO	No assigned EC number	0.5769	0.4851	0.245	yes	N/A
P55258	RAB8A_MOUSE	No assigned EC number	0.6	0.8118	0.3961	yes	N/A

EC Number Prediction by EFICAz Software

No EC number assignment, probably not an enzyme!

---

Conserved Domains and Related Protein Families

Conserved Domains Detected by RPS-BLAST

Original result of RPS-BLAST against CDD database

ID	Length	Definition	E-value
Query	101
cd01867	167	cd01867, Rab8_Rab10_Rab13_like, Rab GTPase familie	7e-21
smart00175	164	smart00175, RAB, Rab subfamily of small GTPases	1e-17
pfam00071	162	pfam00071, Ras, Ras family	1e-16
smart00010	166	smart00010, small_GTPase, Small GTPase of the Ras	1e-14
smart00173	164	smart00173, RAS, Ras subfamily of RAS small GTPase	1e-14
cd04138	162	cd04138, H_N_K_Ras_like, Ras GTPase family contain	6e-14
cd00876	160	cd00876, Ras, Rat sarcoma (Ras) family of small gu	2e-12
cd04112	191	cd04112, Rab26, Rab GTPase family 26 (Rab26)	3e-12
cd00154	159	cd00154, Rab, Ras-related in brain (Rab) family of	6e-12
cd01869	166	cd01869, Rab1_Ypt1, Rab GTPase family 1 includes t	1e-11
cd01866	168	cd01866, Rab2, Rab GTPase family 2 (Rab2)	4e-11
cd04144	190	cd04144, Ras2, Rat sarcoma (Ras) family 2 of small	6e-11
cd04175	164	cd04175, Rap1, Rap1 family GTPase consists of Rap1	4e-10
PTZ00369	189	PTZ00369, PTZ00369, Ras-like protein; Provisional	6e-10
cd01868	165	cd01868, Rab11_like, Rab GTPase family 11 (Rab11)-	6e-10
cd04139	163	cd04139, RalA_RalB, Ral (Ras-like) family containi	2e-09
cd04137	180	cd04137, RheB, Ras Homolog Enriched in Brain (RheB	5e-09
PLN03108	210	PLN03108, PLN03108, Rab family protein; Provisiona	9e-09
cd04145	164	cd04145, M_R_Ras_like, R-Ras2/TC21, M-Ras/R-Ras3	1e-08
cd01861	161	cd01861, Rab6, Rab GTPase family 6 (Rab6)	4e-08
cd01863	161	cd01863, Rab18, Rab GTPase family 18 (Rab18)	5e-08
cd01860	163	cd01860, Rab5_related, Rab-related GTPase family i	7e-08
cd04111	211	cd04111, Rab39, Rab GTPase family 39 (Rab39)	8e-08
cd01862	172	cd01862, Rab7, Rab GTPase family 7 (Rab7)	2e-07
cd04123	162	cd04123, Rab21, Rab GTPase family 21 (Rab21)	1e-06
cd01865	165	cd01865, Rab3, Rab GTPase family 3 contains Rab3A,	7e-06
cd01864	165	cd01864, Rab19, Rab GTPase family 19 (Rab19)	7e-06
cd04176	163	cd04176, Rap2, Rap2 family GTPase consists of Rap2	1e-05
cd04141	172	cd04141, Rit_Rin_Ric, Ras-like protein in all tiss	1e-05
PLN03110	216	PLN03110, PLN03110, Rab GTPase; Provisional	1e-05
cd04122	166	cd04122, Rab14, Rab GTPase family 14 (Rab14)	3e-05
cd04127	180	cd04127, Rab27A, Rab GTPase family 27a (Rab27a)	5e-05
cd04146	166	cd04146, RERG_RasL11_like, Ras-related and Estroge	6e-05
PLN03118	211	PLN03118, PLN03118, Rab family protein; Provisiona	9e-05
cd04136	164	cd04136, Rap_like, Rap-like family consists of Rap	1e-04
cd00157	171	cd00157, Rho, Ras homology family (Rho) of small g	1e-04
cd04117	164	cd04117, Rab15, Rab GTPase family 15 (Rab15)	3e-04
cd04140	165	cd04140, ARHI_like, A Ras homolog member I (ARHI)	3e-04
cd04114	169	cd04114, Rab30, Rab GTPase family 30 (Rab30)	6e-04
cd04113	161	cd04113, Rab4, Rab GTPase family 4 (Rab4)	7e-04
cd04177	168	cd04177, RSR1, RSR1/Bud1p family GTPase	0.001
cd04120	202	cd04120, Rab12, Rab GTPase family 12 (Rab12)	0.002
smart00174	174	smart00174, RHO, Rho (Ras homology) subfamily of R	0.003
cd04107	201	cd04107, Rab32_Rab38, Rab GTPase families 18 (Rab1	0.004

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

 Score = 80.8 bits (200), Expect = 7e-21
 Identities = 29/43 (67%), Positives = 35/43 (81%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            VS+E GE LA EYGIKF+ETSAK +INVE+AF TLA+DI  +
Sbjct: 125 VVSKEEGEALAREYGIKFLETSAKANINVEEAFLTLAKDILKK 167

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|197555 smart00175, RAB, Rab subfamily of small GTPases

 Score = 72.2 bits (178), Expect = 1e-17
 Identities = 24/43 (55%), Positives = 30/43 (69%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           QVSRE  E  A E+G+ F ETSAK + NVE+AF  LAR+I  +
Sbjct: 122 QVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILKR 164

Rab GTPases are implicated in vesicle trafficking. Length = 164

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

 Score = 69.8 bits (172), Expect = 1e-16
 Identities = 25/41 (60%), Positives = 29/41 (70%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            VS E GE LA E G+ FMETSAK + NVE+AF  LAR+I 
Sbjct: 121 VVSTEEGEALAKELGLPFMETSAKTNENVEEAFEELAREIL 161

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

 Score = 64.9 bits (159), Expect = 1e-14
 Identities = 21/43 (48%), Positives = 31/43 (72%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            VS E G++LA ++G  F+ETSAK  INV++AF+ L R+I+  
Sbjct: 124 VVSTEEGKELARQWGCPFLETSAKERINVDEAFYDLVREIRKS 166

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 = 64.5 bits (158), Expect = 1e-14
 Identities = 20/43 (46%), Positives = 32/43 (74%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            VS E G++LA ++G  F+ETSAK  +NV++AF+ L R+I+ +
Sbjct: 122 VVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIRKK 164

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

 Score = 62.8 bits (153), Expect = 6e-14
 Identities = 21/41 (51%), Positives = 29/41 (70%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            VS  +G+ LA  YGI ++ETSAK    VE+AF+TL R+I+
Sbjct: 122 TVSTRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREIR 162

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

 Score = 58.7 bits (143), Expect = 2e-12
 Identities = 23/40 (57%), Positives = 30/40 (75%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           QVS E GE LA E+G  F+ETSAK +IN+++ F TL R+I
Sbjct: 121 QVSTEEGEALAEEWGCPFLETSAKTNINIDELFNTLVREI 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|206695 cd04112, Rab26, Rab GTPase family 26 (Rab26)

 Score = 59.1 bits (143), Expect = 3e-12
 Identities = 29/63 (46%), Positives = 39/63 (61%), Gaps = 3/63 (4%)

Query: 19  SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKG 78
           S    V RE GE+LA EYG+ FMETSAK  +NVE AF  +A+++K    + +E  + PK 
Sbjct: 119 SGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELK---HRSVEQPDEPKF 175

Query: 79  GIH 81
            I 
Sbjct: 176 KIQ 178

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

 Score = 57.9 bits (141), Expect = 6e-12
 Identities = 21/38 (55%), Positives = 26/38 (68%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60
           QVS E  +Q A E G+ F ETSAK   NV++AF +LAR
Sbjct: 122 QVSTEEAQQFAKENGLLFFETSAKTGENVDEAFESLAR 159

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

 Score = 57.0 bits (138), Expect = 1e-11
 Identities = 22/40 (55%), Positives = 29/40 (72%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A E GI F+ETSAKN+ NVE+AF T+AR+IK
Sbjct: 125 VDYTEAKEFADELGIPFLETSAKNATNVEEAFMTMAREIK 164

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|206658 cd01866, Rab2, Rab GTPase family 2 (Rab2)

 Score = 55.5 bits (134), Expect = 4e-11
 Identities = 23/45 (51%), Positives = 31/45 (68%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           + S  +VS E GE  A E+G+ FMETSAK + NVE+AF   A++I
Sbjct: 121 LESRREVSYEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 165

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

 Score = 55.6 bits (134), Expect = 6e-11
 Identities = 27/79 (34%), Positives = 38/79 (48%), Gaps = 11/79 (13%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           +VS E G  LA   G +F+E SAK ++NVE AF+TL R ++ Q           + G   
Sbjct: 123 EVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQ-----------RQGGQG 171

Query: 83  KSSEPNRKPPSWLSKCSIL 101
               P +K      KC I+
Sbjct: 172 PKGGPTKKKEKKKRKCVIM 190

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

 Score = 52.9 bits (127), Expect = 4e-10
 Identities = 19/41 (46%), Positives = 27/41 (65%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64
           V +E+G+ LA ++G  F+ETSAK  INV + F+ L R I  
Sbjct: 124 VGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQINR 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|240385 PTZ00369, PTZ00369, Ras-like protein; Provisional

 Score = 52.9 bits (127), Expect = 6e-10
 Identities = 23/58 (39%), Positives = 37/58 (63%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGI 80
           QVS   G++LA  +GI F+ETSAK  +NV++AF+ L R+I+   ++ + +    K G 
Sbjct: 127 QVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKYLKEDMPSQKQKKKGG 184

Length = 189

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

 Score = 52.6 bits (127), Expect = 6e-10
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
            V  E  +  A + G+ F+ETSA +  NVE+AF  L  +I
Sbjct: 125 AVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI 164

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

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

 Score = 51.3 bits (123), Expect = 2e-09
 Identities = 19/42 (45%), Positives = 27/42 (64%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64
           QVS E    LA ++G+ ++ETSAK   NV+  FF L R+I+ 
Sbjct: 122 QVSVEEAANLAEQWGVNYVETSAKTRANVDKVFFDLVREIRQ 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|206709 cd04137, RheB, Ras Homolog Enriched in Brain (RheB) is a small GTPase

 Score = 50.3 bits (121), Expect = 5e-09
 Identities = 24/57 (42%), Positives = 34/57 (59%), Gaps = 5/57 (8%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGG 79
           QVS E G++LA  +G  F+E+SAK + NVE+AF  L  +I     +K+E   PP   
Sbjct: 123 QVSAEEGKKLAESWGAAFLESSAKENENVEEAFELLIEEI-----EKVENPLPPGQK 174

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|178655 PLN03108, PLN03108, Rab family protein; Provisional

 Score = 49.9 bits (119), Expect = 9e-09
 Identities = 25/56 (44%), Positives = 33/56 (58%), Gaps = 1/56 (1%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL-EASNPPKG 78
           VS E GEQ A E+G+ FME SAK + NVE+AF   A  I  + +  + + SN   G
Sbjct: 129 VSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQDGVFDVSNESYG 184

Length = 210

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

 Score = 48.9 bits (117), Expect = 1e-08
 Identities = 21/41 (51%), Positives = 30/41 (73%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           QVSRE G++LA +  I ++ETSAK+ +NV+ AF  L R I+
Sbjct: 124 QVSREEGQELARQLKIPYIETSAKDRVNVDKAFHDLVRVIR 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|206654 cd01861, Rab6, Rab GTPase family 6 (Rab6)

 Score = 47.6 bits (114), Expect = 4e-08
 Identities = 18/37 (48%), Positives = 22/37 (59%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59
           QVS E GE+ A E    F+ETSAK   NV+  F  +A
Sbjct: 122 QVSTEEGEKKAKENNAMFIETSAKAGHNVKQLFKKIA 158

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|206656 cd01863, Rab18, Rab GTPase family 18 (Rab18)

 Score = 47.7 bits (114), Expect = 5e-08
 Identities = 17/40 (42%), Positives = 26/40 (65%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           +V+RE G++ A ++ + F+ETSAK  I V+ AF  L   I
Sbjct: 122 EVTREEGQKFARKHNMLFIETSAKTRIGVQQAFEELVEKI 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|206653 cd01860, Rab5_related, Rab-related GTPase family includes Rab5 and Rab22; regulates early endosome fusion

 Score = 47.2 bits (113), Expect = 7e-08
 Identities = 19/40 (47%), Positives = 25/40 (62%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           QVS E  ++ A E G+ FMETSAK   NV + F  +AR +
Sbjct: 123 QVSTEEAQEYADENGLLFMETSAKTGENVNELFTEIARKL 162

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|133311 cd04111, Rab39, Rab GTPase family 39 (Rab39)

 Score = 47.4 bits (113), Expect = 8e-08
 Identities = 20/46 (43%), Positives = 33/46 (71%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           QV+RE  E+LA + G+K++ETSA+   NVE+AF  L ++I  + ++
Sbjct: 126 QVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKR 171

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|206655 cd01862, Rab7, Rab GTPase family 7 (Rab7)

 Score = 45.7 bits (109), Expect = 2e-07
 Identities = 20/44 (45%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ 65
           QVS ++ +Q     G I + ETSAK +INV+ AF T+AR    Q
Sbjct: 126 QVSTKKAQQWCKSKGNIPYFETSAKEAINVDQAFETIARLALEQ 169

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|133323 cd04123, Rab21, Rab GTPase family 21 (Rab21)

 Score = 43.8 bits (104), Expect = 1e-06
 Identities = 15/40 (37%), Positives = 22/40 (55%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
            VS+   E+ A   G K  ETSAK    +E+ F +LA+ +
Sbjct: 122 VVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM 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|206657 cd01865, Rab3, Rab GTPase family 3 contains Rab3A, Rab3B, Rab3C and Rab3D

 Score = 41.8 bits (98), Expect = 7e-06
 Identities = 18/32 (56%), Positives = 22/32 (68%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAF 55
           VS ERG QLA + G +F E SAK +INV+  F
Sbjct: 124 VSAERGRQLADQLGFEFFEASAKENINVKQVF 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|133267 cd01864, Rab19, Rab GTPase family 19 (Rab19)

 Score = 41.7 bits (98), Expect = 7e-06
 Identities = 19/41 (46%), Positives = 25/41 (60%), Gaps = 1/41 (2%)

Query: 23  QVSRERGEQLAIEYGIKF-METSAKNSINVEDAFFTLARDI 62
           +V  E    LA  YGI   +ETSAK S NVE+AF  +A ++
Sbjct: 125 EVLFEEACTLAEHYGILAVLETSAKESSNVEEAFLLMATEL 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|133376 cd04176, Rap2, Rap2 family GTPase consists of Rap2a, Rap2b, and Rap2c

 Score = 41.4 bits (97), Expect = 1e-05
 Identities = 18/45 (40%), Positives = 25/45 (55%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           + S  +VS   G  LA E+G  FMETSAK+   V + F  + R +
Sbjct: 118 LESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM 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|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 = 41.0 bits (96), Expect = 1e-05
 Identities = 18/46 (39%), Positives = 25/46 (54%)

Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           +    QV+ E G  LA E+   F ETSA     ++DAF  L R+I+
Sbjct: 119 LEQQRQVTTEEGRNLAREFNCPFFETSAALRFYIDDAFHGLVREIR 164

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|178657 PLN03110, PLN03110, Rab GTPase; Provisional

 Score = 41.5 bits (97), Expect = 1e-05
 Identities = 28/76 (36%), Positives = 38/76 (50%), Gaps = 9/76 (11%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEA-------SNPP 76
           V+ E G+ LA + G+ F+ETSA  + NVE AF T+  +I     KK  A       S  P
Sbjct: 135 VAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIISKKALAAQEAAANSGLP 194

Query: 77  KGG--IHVKSSEPNRK 90
             G  I+V  +  N K
Sbjct: 195 GQGTTINVADTSGNNK 210

Length = 216

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

 Score = 40.2 bits (94), Expect = 3e-05
 Identities = 19/40 (47%), Positives = 24/40 (60%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
            V+ E  +Q A E G+ F+E SAK   NVEDAF   A+ I
Sbjct: 124 DVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKI 163

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

 Score = 39.4 bits (92), Expect = 5e-05
 Identities = 17/36 (47%), Positives = 22/36 (61%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58
           +VS  +  +LA +YGI + ETSA    NVE A  TL
Sbjct: 137 EVSERQARELADKYGIPYFETSAATGQNVEKAVETL 172

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

 Score = 39.2 bits (92), Expect = 6e-05
 Identities = 18/41 (43%), Positives = 27/41 (65%), Gaps = 1/41 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSA-KNSINVEDAFFTLARDI 62
           QVS E G++LA+E G  F E SA +N + V++ F  L R++
Sbjct: 124 QVSTEEGQKLALELGCLFFEVSAAENYLEVQNVFHELCREV 164

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|215587 PLN03118, PLN03118, Rab family protein; Provisional

 Score = 39.3 bits (91), Expect = 9e-05
 Identities = 30/76 (39%), Positives = 34/76 (44%), Gaps = 2/76 (2%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVK 83
           VSRE G  LA E+G  F+E SAK   NVE  F  LA  I        E S   K  I   
Sbjct: 138 VSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVPSLLEEGSTAVKRNI--L 195

Query: 84  SSEPNRKPPSWLSKCS 99
             +P  +PP     CS
Sbjct: 196 KQKPEHQPPPNGGCCS 211

Length = 211

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

 Score = 38.7 bits (90), Expect = 1e-04
 Identities = 20/40 (50%), Positives = 29/40 (72%), Gaps = 1/40 (2%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62
           VS+E G+ LA ++G   F+ETSAK+ INV++ F+ L R I
Sbjct: 124 VSKEEGQNLARQWGNCPFLETSAKSKINVDEIFYDLVRQI 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|206641 cd00157, Rho, Ras homology family (Rho) of small guanosine triphosphatases (GTPases)

 Score = 38.3 bits (90), Expect = 1e-04
 Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLAR 60
           ++ E GE+LA E G +K+ME SA     +++ F    R
Sbjct: 133 ITPEEGEKLAKEIGAVKYMECSALTQEGLKEVFDEAIR 170

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|206698 cd04117, Rab15, Rab GTPase family 15 (Rab15)

 Score = 37.6 bits (87), Expect = 3e-04
 Identities = 17/37 (45%), Positives = 25/37 (67%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59
           QV  E+G +LA EYG+ F ETSA  + N++++F  L 
Sbjct: 122 QVGDEQGNKLAKEYGMDFFETSACTNKNIKESFTRLT 158

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

 Score = 37.1 bits (86), Expect = 3e-04
 Identities = 17/40 (42%), Positives = 22/40 (55%)

Query: 19  SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58
           S   +VS   G  LA  +   FMETSAK + NV++ F  L
Sbjct: 121 SPSREVSSSEGAALARTWNCAFMETSAKTNHNVQELFQEL 160

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|133314 cd04114, Rab30, Rab GTPase family 30 (Rab30)

 Score = 36.4 bits (84), Expect = 6e-04
 Identities = 16/37 (43%), Positives = 24/37 (64%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA 59
           +VS++R E+ +    + ++ETSAK S NVE  F  LA
Sbjct: 129 EVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLA 165

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|206696 cd04113, Rab4, Rab GTPase family 4 (Rab4)

 Score = 36.3 bits (84), Expect = 7e-04
 Identities = 17/40 (42%), Positives = 23/40 (57%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           +V+     + A E G+ F+ETSA    NVE+AF   AR I
Sbjct: 122 EVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARSI 161

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|133377 cd04177, RSR1, RSR1/Bud1p family GTPase

 Score = 35.9 bits (83), Expect = 0.001
 Identities = 19/41 (46%), Positives = 26/41 (63%), Gaps = 1/41 (2%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62
           QVSRE G  L+ ++G + F ETSA+   NV++ F  L R I
Sbjct: 123 QVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQI 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|206699 cd04120, Rab12, Rab GTPase family 12 (Rab12)

 Score = 35.4 bits (81), Expect = 0.002
 Identities = 16/41 (39%), Positives = 29/41 (70%), Gaps = 1/41 (2%)

Query: 23  QVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDI 62
           +++R++GE+ A +  G++F E SAK++ NV++ F  L  DI
Sbjct: 122 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDI 162

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

 Score = 34.5 bits (80), Expect = 0.003
 Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAF 55
           V+ E+G+ LA   G +K++E SA     V + F
Sbjct: 132 VTYEQGQALAKRIGAVKYLECSALTQEGVREVF 164

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

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

 Score = 34.2 bits (79), Expect = 0.004
 Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 1/72 (1%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIH 81
               E+ +Q   E G I + ETSAK +IN+E+A   L ++I    +            I 
Sbjct: 128 AKDPEQMDQFCKENGFIGWFETSAKENINIEEAMRFLVKNILKNDKGLQSPEPDEDNVID 187

Query: 82  VKSSEPNRKPPS 93
           +K      K  S
Sbjct: 188 LKQETTTSKSKS 199

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

Conserved Domains Detected by HHsearch

Original result of HHsearch against CDD database

ID	Length	Definition	Probability
Query	101
KOG0078|consensus	207		99.81
KOG0092|consensus	200		99.8
KOG0091|consensus	213		99.77
KOG0098|consensus	216		99.77
KOG0084|consensus	205		99.75
KOG0394|consensus	210		99.74
KOG0080|consensus	209		99.72
KOG0097|consensus	215		99.71
KOG0081|consensus	219		99.71
cd04126	220	Rab20 Rab20 subfamily. Rab20 is one of several Rab	99.71
KOG0088|consensus	218		99.69
KOG0093|consensus	193		99.69
KOG0079|consensus	198		99.69
KOG0094|consensus	221		99.65
KOG0083|consensus	192		99.64
cd04174	232	Rnd1_Rho6 Rnd1/Rho6 subfamily. Rnd1/Rho6 is a memb	99.63
cd04107	201	Rab32_Rab38 Rab38/Rab32 subfamily. Rab32 and Rab38	99.61
KOG0087|consensus	222		99.6
cd04120	202	Rab12 Rab12 subfamily. Rab12 was first identified	99.6
cd04121	189	Rab40 Rab40 subfamily. This subfamily contains Rab	99.59
cd04144	190	Ras2 Ras2 subfamily. The Ras2 subfamily, found exc	99.59
cd01873	195	RhoBTB RhoBTB subfamily. Members of the RhoBTB sub	99.59
cd04172	182	Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily. Rnd3/RhoE	99.54
cd04111	211	Rab39 Rab39 subfamily. Found in eukaryotes, Rab39	99.54
cd04110	199	Rab35 Rab35 subfamily. Rab35 is one of several Rab	99.52
PLN03110	216	Rab GTPase; Provisional	99.52
cd04141	172	Rit_Rin_Ric Rit/Rin/Ric subfamily. Rit (Ras-like p	99.52
KOG0086|consensus	214		99.52
cd04133	176	Rop_like Rop subfamily. The Rop (Rho-related prote	99.5
cd04131	178	Rnd Rnd subfamily. The Rnd subfamily contains Rnd1	99.5
PTZ00099	176	rab6; Provisional	99.48
KOG0395|consensus	196		99.48
cd04125	188	RabA_like RabA-like subfamily. RabA was first iden	99.47
cd04173	222	Rnd2_Rho7 Rnd2/Rho7 subfamily. Rnd2/Rho7 is a memb	99.47
PLN03118	211	Rab family protein; Provisional	99.46
cd04112	191	Rab26 Rab26 subfamily. First identified in rat pan	99.45
cd04122	166	Rab14 Rab14 subfamily. Rab14 GTPases are localized	99.44
cd04109	215	Rab28 Rab28 subfamily. First identified in maize,	99.44
cd04134	189	Rho3 Rho3 subfamily. Rho3 is a member of the Rho f	99.44
cd01875	191	RhoG RhoG subfamily. RhoG is a GTPase with high se	99.43
KOG0095|consensus	213		99.42
cd04103	158	Centaurin_gamma Centaurin gamma. The centaurins (a	99.42
cd04117	161	Rab15 Rab15 subfamily. Rab15 colocalizes with the	99.41
cd04127	180	Rab27A Rab27a subfamily. The Rab27a subfamily cons	99.41
PLN03108	210	Rab family protein; Provisional	99.41
cd04132	187	Rho4_like Rho4-like subfamily. Rho4 is a GTPase th	99.4
PF00071	162	Ras: Ras family; InterPro: IPR001806 Small GTPases	99.4
cd01874	175	Cdc42 Cdc42 subfamily. Cdc42 is an essential GTPas	99.38
PTZ00369	189	Ras-like protein; Provisional	99.36
cd04142	198	RRP22 RRP22 subfamily. RRP22 (Ras-related protein	99.35
cd04129	187	Rho2 Rho2 subfamily. Rho2 is a fungal GTPase that	99.34
cd01867	167	Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2. Rab8/Sec4/Yp	99.33
cd01871	174	Rac1_like Rac1-like subfamily. The Rac1-like subfa	99.32
cd04118	193	Rab24 Rab24 subfamily. Rab24 is distinct from othe	99.32
cd01865	165	Rab3 Rab3 subfamily. The Rab3 subfamily contains R	99.32
cd04146	165	RERG_RasL11_like RERG/RasL11-like subfamily. RERG	99.32
smart00174	174	RHO Rho (Ras homology) subfamily of Ras-like small	99.31
cd04140	165	ARHI_like ARHI subfamily. ARHI (A Ras homolog memb	99.29
cd04175	164	Rap1 Rap1 subgroup. The Rap1 subgroup is part of t	99.28
cd01869	166	Rab1_Ypt1 Rab1/Ypt1 subfamily. Rab1 is found in ev	99.28
cd04136	163	Rap_like Rap-like subfamily. The Rap subfamily con	99.28
cd04148	221	RGK RGK subfamily. The RGK (Rem, Rem2, Rad, Gem/Ki	99.28
cd04119	168	RJL RJL (RabJ-Like) subfamily. RJLs are found in m	99.27
smart00173	164	RAS Ras subfamily of RAS small GTPases. Similar in	99.27
cd04145	164	M_R_Ras_like M-Ras/R-Ras-like subfamily. This subf	99.26
cd04128	182	Spg1 Spg1p. Spg1p (septum-promoting GTPase) was fi	99.25
cd04135	174	Tc10 TC10 subfamily. TC10 is a Rho family protein	99.24
smart00176	200	RAN Ran (Ras-related nuclear proteins) /TC4 subfam	99.24
cd04115	170	Rab33B_Rab33A Rab33B/Rab33A subfamily. Rab33B is u	99.23
cd04176	163	Rap2 Rap2 subgroup. The Rap2 subgroup is part of t	99.23
cd01868	165	Rab11_like Rab11-like. Rab11a, Rab11b, and Rab25 a	99.21
cd04106	162	Rab23_lke Rab23-like subfamily. Rab23 is a member	99.21
cd04177	168	RSR1 RSR1 subgroup. RSR1/Bud1p is a member of the	99.2
cd04138	162	H_N_K_Ras_like H-Ras/N-Ras/K-Ras subfamily. H-Ras,	99.2
cd01866	168	Rab2 Rab2 subfamily. Rab2 is localized on cis-Golg	99.2
PLN03071	219	GTP-binding nuclear protein Ran; Provisional	99.2
cd04108	170	Rab36_Rab34 Rab34/Rab36 subfamily. Rab34, found pr	99.17
cd04116	170	Rab9 Rab9 subfamily. Rab9 is found in late endosom	99.17
cd04130	173	Wrch_1 Wrch-1 subfamily. Wrch-1 (Wnt-1 responsive	99.16
cd04113	161	Rab4 Rab4 subfamily. Rab4 has been implicated in n	99.16
cd04101	164	RabL4 RabL4 (Rab-like4) subfamily. RabL4s are nove	99.15
cd00877	166	Ran Ran (Ras-related nuclear proteins) /TC4 subfam	99.14
cd01864	165	Rab19 Rab19 subfamily. Rab19 proteins are associat	99.13
cd04139	164	RalA_RalB RalA/RalB subfamily. The Ral (Ras-like)	99.12
smart00175	164	RAB Rab subfamily of small GTPases. Rab GTPases ar	99.08
cd01870	175	RhoA_like RhoA-like subfamily. The RhoA subfamily	99.03
cd04143	247	Rhes_like Rhes_like subfamily. This subfamily incl	99.03
cd01892	169	Miro2 Miro2 subfamily. Miro (mitochondrial Rho) pr	99.02
cd01860	163	Rab5_related Rab5-related subfamily. This subfamil	99.01
cd00876	160	Ras Ras family. The Ras family of the Ras superfam	99.01
TIGR02528	142	EutP ethanolamine utilization protein, EutP. This	99.01
cd04114	169	Rab30 Rab30 subfamily. Rab30 appears to be associa	99.0
cd04137	180	RheB Rheb (Ras Homolog Enriched in Brain) subfamil	99.0
cd04124	161	RabL2 RabL2 subfamily. RabL2 (Rab-like2) subfamily	98.99
cd04123	162	Rab21 Rab21 subfamily. The localization and functi	98.98
cd01862	172	Rab7 Rab7 subfamily. Rab7 is a small Rab GTPase th	98.97
cd01861	161	Rab6 Rab6 subfamily. Rab6 is involved in microtubu	98.96
cd04158	169	ARD1 ARD1 subfamily. ARD1 (ADP-ribosylation factor	98.95
cd01863	161	Rab18 Rab18 subfamily. Mammalian Rab18 is implicat	98.92
cd01897	168	NOG NOG1 is a nucleolar GTP-binding protein presen	98.91
TIGR00157	245	ribosome small subunit-dependent GTPase A. The Aqu	98.9
KOG0393|consensus	198		98.89
cd01893	166	Miro1 Miro1 subfamily. Miro (mitochondrial Rho) pr	98.87
cd04147	198	Ras_dva Ras-dva subfamily. Ras-dva (Ras - dorsal-v	98.86
cd00157	171	Rho Rho (Ras homology) family. Members of the Rho	98.85
PRK15467	158	ethanolamine utilization protein EutP; Provisional	98.84
cd04162	164	Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily. Arl9	98.83
cd04149	168	Arf6 Arf6 subfamily. Arf6 (ADP ribosylation factor	98.83
cd00154	159	Rab Rab family. Rab GTPases form the largest famil	98.79
cd04154	173	Arl2 Arl2 subfamily. Arl2 (Arf-like 2) GTPases are	98.76
KOG4423|consensus	229		98.75
PRK04213	201	GTP-binding protein; Provisional	98.75
cd00879	190	Sar1 Sar1 subfamily. Sar1 is an essential componen	98.74
PRK12299	335	obgE GTPase CgtA; Reviewed	98.73
PLN00223	181	ADP-ribosylation factor; Provisional	98.71
cd01890	179	LepA LepA subfamily. LepA belongs to the GTPase fa	98.7
PTZ00132	215	GTP-binding nuclear protein Ran; Provisional	98.7
cd01898	170	Obg Obg subfamily. The Obg nucleotide binding prot	98.64
cd04150	159	Arf1_5_like Arf1-Arf5-like subfamily. This subfami	98.64
KOG4252|consensus	246		98.62
cd04156	160	ARLTS1 ARLTS1 subfamily. ARLTS1 (Arf-like tumor su	98.61
cd04152	183	Arl4_Arl7 Arl4/Arl7 subfamily. Arl4 (Arf-like 4) i	98.61
PTZ00133	182	ADP-ribosylation factor; Provisional	98.6
cd01879	158	FeoB Ferrous iron transport protein B (FeoB) subfa	98.58
smart00177	175	ARF ARF-like small GTPases; ARF, ADP-ribosylation	98.56
TIGR00101	199	ureG urease accessory protein UreG. This model rep	98.56
cd04157	162	Arl6 Arl6 subfamily. Arl6 (Arf-like 6) forms a sub	98.55
cd04151	158	Arl1 Arl1 subfamily. Arl1 (Arf-like 1) localizes t	98.55
cd04160	167	Arfrp1 Arfrp1 subfamily. Arfrp1 (Arf-related prote	98.53
cd04153	174	Arl5_Arl8 Arl5/Arl8 subfamily. Arl5 (Arf-like 5) a	98.5
TIGR00437	591	feoB ferrous iron transporter FeoB. FeoB (773 amin	98.49
TIGR02729	329	Obg_CgtA Obg family GTPase CgtA. This model descri	98.49
cd00878	158	Arf_Arl Arf (ADP-ribosylation factor)/Arl (Arf-lik	98.49
cd04171	164	SelB SelB subfamily. SelB is an elongation factor	98.43
cd01878	204	HflX HflX subfamily. A distinct conserved domain w	98.38
cd01894	157	EngA1 EngA1 subfamily. This CD represents the firs	98.35
cd01881	176	Obg_like The Obg-like subfamily consists of five w	98.34
PRK03003	472	GTP-binding protein Der; Reviewed	98.32
TIGR00073	207	hypB hydrogenase accessory protein HypB. HypB is i	98.32
cd01855	190	YqeH YqeH. YqeH is an essential GTP-binding protei	98.3
cd01896	233	DRG The developmentally regulated GTP-binding prot	98.3
PRK12297	424	obgE GTPase CgtA; Reviewed	98.27
cd01888	203	eIF2_gamma eIF2-gamma (gamma subunit of initiation	98.26
cd01895	174	EngA2 EngA2 subfamily. This CD represents the seco	98.25
PRK15494	339	era GTPase Era; Provisional	98.21
cd04155	173	Arl3 Arl3 subfamily. Arl3 (Arf-like 3) is an Arf f	98.18
TIGR03597	360	GTPase_YqeH ribosome biogenesis GTPase YqeH. This	98.18
TIGR00231	161	small_GTP small GTP-binding protein domain. This m	98.16
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	98.15
cd04164	157	trmE TrmE (MnmE, ThdF, MSS1) is a 3-domain protein	98.1
cd00882	157	Ras_like_GTPase Ras-like GTPase superfamily. The R	98.09
cd04159	159	Arl10_like Arl10-like subfamily. Arl9/Arl10 was id	98.09
PRK00454	196	engB GTP-binding protein YsxC; Reviewed	98.08
TIGR00436	270	era GTP-binding protein Era. Era is an essential G	98.08
cd01889	192	SelB_euk SelB subfamily. SelB is an elongation fac	98.07
PRK12296	500	obgE GTPase CgtA; Reviewed	98.07
cd00881	189	GTP_translation_factor GTP translation factor fami	98.04
TIGR00450	442	mnmE_trmE_thdF tRNA modification GTPase TrmE. TrmE	98.03
cd04163	168	Era Era subfamily. Era (E. coli Ras-like protein)	98.02
PRK00098	298	GTPase RsgA; Reviewed	98.0
TIGR01393	595	lepA GTP-binding protein LepA. LepA (GUF1 in Sacca	97.99
PRK12289	352	GTPase RsgA; Reviewed	97.99
cd01859	156	MJ1464 MJ1464. This family represents archaeal GTP	97.98
PRK12288	347	GTPase RsgA; Reviewed	97.98
cd04161	167	Arl2l1_Arl13_like Arl2l1/Arl13 subfamily. Arl2l1 (	97.96
PRK00089	292	era GTPase Era; Reviewed	97.94
cd01887	168	IF2_eIF5B IF2/eIF5B (initiation factors 2/ eukaryo	97.94
PRK12298	390	obgE GTPase CgtA; Reviewed	97.93
PRK05291	449	trmE tRNA modification GTPase TrmE; Reviewed	97.92
cd00880	163	Era_like Era (E. coli Ras-like protein)-like. This	97.91
PRK13796	365	GTPase YqeH; Provisional	97.9
PRK03003	472	GTP-binding protein Der; Reviewed	97.87
TIGR00475	581	selB selenocysteine-specific elongation factor Sel	97.87
smart00178	184	SAR Sar1p-like members of the Ras-family of small	97.86
cd01854	287	YjeQ_engC YjeQ/EngC. YjeQ (YloQ in Bacillus subtil	97.84
KOG3883|consensus	198		97.82
PRK04000	411	translation initiation factor IF-2 subunit gamma;	97.82
PRK00093	435	GTP-binding protein Der; Reviewed	97.76
TIGR03156	351	GTP_HflX GTP-binding protein HflX. This protein fa	97.76
COG0378	202	HypB Ni2+-binding GTPase involved in regulation of	97.76
COG1100	219	GTPase SAR1 and related small G proteins [General	97.75
TIGR00487	587	IF-2 translation initiation factor IF-2. This mode	97.72
KOG1673|consensus	205		97.68
TIGR03680	406	eif2g_arch translation initiation factor 2 subunit	97.64
PF02421	156	FeoB_N: Ferrous iron transport protein B; InterPro	97.63
cd01876	170	YihA_EngB The YihA (EngB) subfamily. This subfamil	97.62
PRK11058	426	GTPase HflX; Provisional	97.6
PRK09554	772	feoB ferrous iron transport protein B; Reviewed	97.6
PRK05433	600	GTP-binding protein LepA; Provisional	97.6
PF00025	175	Arf: ADP-ribosylation factor family The prints ent	97.55
TIGR03594	429	GTPase_EngA ribosome-associated GTPase EngA. EngA	97.49
PRK10512	614	selenocysteinyl-tRNA-specific translation factor;	97.48
cd01891	194	TypA_BipA TypA (tyrosine phosphorylated protein A)	97.48
PRK00093	435	GTP-binding protein Der; Reviewed	97.46
PF10662	143	PduV-EutP: Ethanolamine utilisation - propanediol	97.45
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.44
COG0481	603	LepA Membrane GTPase LepA [Cell envelope biogenesi	97.44
PRK10463	290	hydrogenase nickel incorporation protein HypB; Pro	97.43
TIGR00483	426	EF-1_alpha translation elongation factor EF-1 alph	97.38
PRK05306	787	infB translation initiation factor IF-2; Validated	97.37
cd01849	155	YlqF_related_GTPase YlqF-related GTPases. These pr	97.36
KOG0462|consensus	650		97.35
cd01856	171	YlqF YlqF. Proteins of the YlqF family contain all	97.32
PRK09518	712	bifunctional cytidylate kinase/GTPase Der; Reviewe	97.3
TIGR03598	179	GTPase_YsxC ribosome biogenesis GTP-binding protei	97.28
PF00009	188	GTP_EFTU: Elongation factor Tu GTP binding domain;	97.26
CHL00189	742	infB translation initiation factor 2; Provisional	97.25
KOG0073|consensus	185		97.13
COG1162	301	Predicted GTPases [General function prediction onl	97.13
cd01858	157	NGP_1 NGP-1. Autoantigen NGP-1 (Nucleolar G-protei	97.05
KOG0096|consensus	216		96.92
TIGR03596	276	GTPase_YlqF ribosome biogenesis GTP-binding protei	96.84
PRK12317	425	elongation factor 1-alpha; Reviewed	96.79
PRK01889	356	GTPase RsgA; Reviewed	96.76
COG4917	148	EutP Ethanolamine utilization protein [Amino acid	96.75
cd04102	202	RabL3 RabL3 (Rab-like3) subfamily. RabL3s are nove	96.74
cd04165	224	GTPBP1_like GTPBP1-like. Mammalian GTP binding pro	96.69
PRK09435	332	membrane ATPase/protein kinase; Provisional	96.69
COG1160	444	Predicted GTPases [General function prediction onl	96.64
KOG3905|consensus	473		96.57
cd01857	141	HSR1_MMR1 HSR1/MMR1. Human HSR1, is localized to t	96.56
PTZ00327	460	eukaryotic translation initiation factor 2 gamma s	96.55
TIGR00750	300	lao LAO/AO transport system ATPase. Mutations have	96.53
PRK09563	287	rbgA GTPase YlqF; Reviewed	96.51
cd04166	208	CysN_ATPS CysN_ATPS subfamily. CysN, together with	96.47
TIGR01394	594	TypA_BipA GTP-binding protein TypA/BipA. This bact	96.43
PRK09866	741	hypothetical protein; Provisional	96.41
COG0536	369	Obg Predicted GTPase [General function prediction	96.35
KOG1707|consensus	625		96.27
COG0370	653	FeoB Fe2+ transport system protein B [Inorganic io	96.18
PRK13768	253	GTPase; Provisional	96.16
COG0486	454	ThdF Predicted GTPase [General function prediction	96.11
PLN00023	334	GTP-binding protein; Provisional	95.99
COG0532	509	InfB Translation initiation factor 2 (IF-2; GTPase	95.92
KOG0072|consensus	182		95.83
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	95.71
COG1159	298	Era GTPase [General function prediction only]	95.71
cd01883	219	EF1_alpha Eukaryotic elongation factor 1 (EF1) alp	95.7
PLN00043	447	elongation factor 1-alpha; Provisional	95.64
KOG1489|consensus	366		95.63
smart00010	124	small_GTPase Small GTPase of the Ras superfamily;	95.63
PRK14845	1049	translation initiation factor IF-2; Provisional	95.6
COG5257	415	GCD11 Translation initiation factor 2, gamma subun	95.51
COG2262	411	HflX GTPases [General function prediction only]	95.34
PRK12736	394	elongation factor Tu; Reviewed	95.04
PRK04004	586	translation initiation factor IF-2; Validated	94.99
PRK05124	474	cysN sulfate adenylyltransferase subunit 1; Provis	94.51
COG1703	323	ArgK Putative periplasmic protein kinase ArgK and	94.33
TIGR00485	394	EF-Tu translation elongation factor TU. This align	94.16
COG1163	365	DRG Predicted GTPase [General function prediction	94.16
cd01884	195	EF_Tu EF-Tu subfamily. This subfamily includes ort	93.9
PF03308	266	ArgK: ArgK protein; InterPro: IPR005129 Bacterial	93.71
KOG0076|consensus	197		93.7
TIGR02034	406	CysN sulfate adenylyltransferase, large subunit. H	93.56
KOG1490|consensus	620		93.45
PRK12735	396	elongation factor Tu; Reviewed	93.09
cd01899	318	Ygr210 Ygr210 subfamily. Ygr210 is a member of Obg	92.31
COG3276	447	SelB Selenocysteine-specific translation elongatio	92.05
PF05783	472	DLIC: Dynein light intermediate chain (DLIC); Inte	91.97
KOG0705|consensus	749		91.92
PRK10218	607	GTP-binding protein; Provisional	91.89
COG1160	444	Predicted GTPases [General function prediction onl	91.71
PRK05506	632	bifunctional sulfate adenylyltransferase subunit 1	91.56
COG2895	431	CysN GTPases - Sulfate adenylate transferase subun	90.61
cd04104	197	p47_IIGP_like p47 (47-kDa) family. The p47 GTPase	90.52
PRK09602	396	translation-associated GTPase; Reviewed	88.71
KOG0070|consensus	181		88.48
KOG1145|consensus	683		88.14
KOG0075|consensus	186		87.42
PF03193	161	DUF258: Protein of unknown function, DUF258; Inter	87.29
KOG0461|consensus	522		85.83
COG2229	187	Predicted GTPase [General function prediction only	85.64
KOG0466|consensus	466		85.28
COG0218	200	Predicted GTPase [General function prediction only	85.24
CHL00071	409	tufA elongation factor Tu	84.61
PTZ00141	446	elongation factor 1- alpha; Provisional	84.01
TIGR00491	590	aIF-2 translation initiation factor aIF-2/yIF-2. T	83.38
PF03029	238	ATP_bind_1: Conserved hypothetical ATP binding pro	81.65
PF07764	71	Omega_Repress: Omega Transcriptional Repressor; In	81.25
KOG1423|consensus	379		81.24
COG1161	322	Predicted GTPases [General function prediction onl	80.12

>KOG0078|consensus

Probab=99.81  E-value=2.2e-19  Score=114.05  Aligned_cols=63  Identities=48%  Similarity=0.651  Sum_probs=57.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +....|||||+|++++|+|+.++++++|.++|+.|+|||||+|.||+++|..+|+.++.+...
T Consensus       117 ~v~~~LvGNK~D~~~~R~V~~e~ge~lA~e~G~~F~EtSAk~~~NI~eaF~~La~~i~~k~~~  179 (207)
T KOG0078|consen  117 DVVKILVGNKCDLEEKRQVSKERGEALAREYGIKFFETSAKTNFNIEEAFLSLARDILQKLED  179 (207)
T ss_pred             CCcEEEeeccccccccccccHHHHHHHHHHhCCeEEEccccCCCCHHHHHHHHHHHHHhhcch
Confidence            445678999999999999999999999999999999999999999999999999999975433

>KOG0092|consensus

Probab=99.80  E-value=1.1e-19  Score=113.94  Aligned_cols=60  Identities=23%  Similarity=0.274  Sum_probs=55.3

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.|+|||.||.+.|+|..+++..||+..|+.|||||||||.||+++|..|++.+......
T Consensus       113 ialvGNK~DL~~~R~V~~~ea~~yAe~~gll~~ETSAKTg~Nv~~if~~Ia~~lp~~~~~  172 (200)
T KOG0092|consen  113 IALVGNKADLLERREVEFEEAQAYAESQGLLFFETSAKTGENVNEIFQAIAEKLPCSDPQ  172 (200)
T ss_pred             EEEecchhhhhhcccccHHHHHHHHHhcCCEEEEEecccccCHHHHHHHHHHhccCcccc
Confidence            356899999999999999999999999999999999999999999999999999875443

>KOG0091|consensus

Probab=99.77  E-value=1.8e-18  Score=106.54  Aligned_cols=61  Identities=38%  Similarity=0.428  Sum_probs=56.4

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL   70 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~   70 (101)
                      -|||.|+||...|+|+.++|+.||+.+|+.|+|||||+|.||+++|..+++.++...++..
T Consensus       120 lLVGhKsDL~SqRqVt~EEaEklAa~hgM~FVETSak~g~NVeEAF~mlaqeIf~~i~qGe  180 (213)
T KOG0091|consen  120 LLVGHKSDLQSQRQVTAEEAEKLAASHGMAFVETSAKNGCNVEEAFDMLAQEIFQAIQQGE  180 (213)
T ss_pred             EEeccccchhhhccccHHHHHHHHHhcCceEEEecccCCCcHHHHHHHHHHHHHHHHhcCc
Confidence            3678899999999999999999999999999999999999999999999999998776643

>KOG0098|consensus

Probab=99.77  E-value=9.5e-19  Score=109.56  Aligned_cols=64  Identities=36%  Similarity=0.452  Sum_probs=58.5

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL   70 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~   70 (101)
                      ..+.|+|||+||+..|.|+.+++++||+++|+.|+||||||+.||+++|...+..|++..+...
T Consensus       112 mvImLiGNKsDL~~rR~Vs~EEGeaFA~ehgLifmETSakt~~~VEEaF~nta~~Iy~~~q~g~  175 (216)
T KOG0098|consen  112 MVIMLIGNKSDLEARREVSKEEGEAFAREHGLIFMETSAKTAENVEEAFINTAKEIYRKIQDGV  175 (216)
T ss_pred             cEEEEEcchhhhhccccccHHHHHHHHHHcCceeehhhhhhhhhHHHHHHHHHHHHHHHHHhcc
Confidence            3457889999999999999999999999999999999999999999999999999998765543

>KOG0084|consensus

Probab=99.75  E-value=6.9e-18  Score=106.29  Aligned_cols=64  Identities=38%  Similarity=0.494  Sum_probs=58.2

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHHHHhhhhh
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKAQTEKKLE   71 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~   71 (101)
                      ...|||||+|+.+.+.|+.++|+.||.+++++ |+|||||++.||+++|..++..+..++.....
T Consensus       116 ~~lLVGNK~Dl~~~~~v~~~~a~~fa~~~~~~~f~ETSAK~~~NVe~~F~~la~~lk~~~~~~~~  180 (205)
T KOG0084|consen  116 PKLLVGNKCDLTEKRVVSTEEAQEFADELGIPIFLETSAKDSTNVEDAFLTLAKELKQRKGLHVK  180 (205)
T ss_pred             CeEEEeeccccHhheecCHHHHHHHHHhcCCcceeecccCCccCHHHHHHHHHHHHHHhcccCCC
Confidence            45789999999999999999999999999999 99999999999999999999999887655443

>KOG0394|consensus

Probab=99.74  E-value=9.4e-18  Score=104.89  Aligned_cols=59  Identities=31%  Similarity=0.381  Sum_probs=53.2

Q ss_pred             cEEeecCCCCC--CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493         10 KYIEVPNFVSS--MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus        10 ~lv~nk~Dl~~--~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .|+|||+|+++  .|+|+...|++||...| ++|||||||.+.||+++|+.+++.++.....
T Consensus       122 VilGNKiD~~~~~~r~VS~~~Aq~WC~s~gnipyfEtSAK~~~NV~~AFe~ia~~aL~~E~~  183 (210)
T KOG0394|consen  122 VILGNKIDVDGGKSRQVSEKKAQTWCKSKGNIPYFETSAKEATNVDEAFEEIARRALANEDR  183 (210)
T ss_pred             EEEcccccCCCCccceeeHHHHHHHHHhcCCceeEEecccccccHHHHHHHHHHHHHhccch
Confidence            46799999975  39999999999999987 8999999999999999999999999987643

>KOG0080|consensus

Probab=99.72  E-value=1.6e-17  Score=102.12  Aligned_cols=59  Identities=27%  Similarity=0.194  Sum_probs=54.8

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .+||||+|.+.+|.|+.+++..||+.|++.|+|+|||+..||+..|++++..|++...-
T Consensus       121 mlVgNKiDkes~R~V~reEG~kfAr~h~~LFiE~SAkt~~~V~~~FeelveKIi~tp~l  179 (209)
T KOG0080|consen  121 MLVGNKIDKESERVVDREEGLKFARKHRCLFIECSAKTRENVQCCFEELVEKIIETPSL  179 (209)
T ss_pred             hhhcccccchhcccccHHHHHHHHHhhCcEEEEcchhhhccHHHHHHHHHHHHhcCcch
Confidence            57899999988999999999999999999999999999999999999999999876443

>KOG0097|consensus

Probab=99.71  E-value=3.7e-17  Score=98.98  Aligned_cols=65  Identities=32%  Similarity=0.344  Sum_probs=59.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLE   71 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~   71 (101)
                      +-+.|+|||.||+++|.|+++++.+||+++|+.|+|+|||+|.||+++|.+.++.|++..+....
T Consensus       117 t~i~lignkadle~qrdv~yeeak~faeengl~fle~saktg~nvedafle~akkiyqniqdgsl  181 (215)
T KOG0097|consen  117 TVIFLIGNKADLESQRDVTYEEAKEFAEENGLMFLEASAKTGQNVEDAFLETAKKIYQNIQDGSL  181 (215)
T ss_pred             eEEEEecchhhhhhcccCcHHHHHHHHhhcCeEEEEecccccCcHHHHHHHHHHHHHHhhhcCcc
Confidence            44678999999999999999999999999999999999999999999999999999987765443

>KOG0081|consensus

Probab=99.71  E-value=4.3e-17  Score=100.23  Aligned_cols=71  Identities=28%  Similarity=0.288  Sum_probs=63.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhcCCCC
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPP   76 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~~~~~   76 (101)
                      ..++.|+|||+||++.|+|+.+++.++|..+|++||||||-+|.||+++.+.+...++++.+.-......+
T Consensus       124 ~PDivlcGNK~DL~~~R~Vs~~qa~~La~kyglPYfETSA~tg~Nv~kave~LldlvM~Rie~~v~~s~~p  194 (219)
T KOG0081|consen  124 NPDIVLCGNKADLEDQRVVSEDQAAALADKYGLPYFETSACTGTNVEKAVELLLDLVMKRIEQCVEKSEIP  194 (219)
T ss_pred             CCCEEEEcCccchhhhhhhhHHHHHHHHHHhCCCeeeeccccCcCHHHHHHHHHHHHHHHHHHHHhhcccc
Confidence            45677889999999999999999999999999999999999999999999999999998887766655443

>cd04126 Rab20 Rab20 subfamily

Probab=99.71  E-value=8.6e-17  Score=104.46  Aligned_cols=87  Identities=20%  Similarity=0.093  Sum_probs=64.5

Q ss_pred             CCCcEEeecCCCCC-------------------CCCCCHHHHHHHHHHhC--------------CeEEEeccCCCCCHHH
Q psy17493          7 TKSKYIEVPNFVSS-------------------MPQVSRERGEQLAIEYG--------------IKFMETSAKNSINVED   53 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~-------------------~~~v~~~~~~~~a~~~~--------------~~~~etSAk~~~~V~~   53 (101)
                      ..+.||+||.||.+                   .+.|+.+++..||++++              ++||||||++|.||++
T Consensus       101 ~piIlVgNK~DL~~~~~~~~~~~~~~~~~~~~~~r~v~~~e~~~~a~~~~~~~~~~~~~~~~~~~~~~E~SA~tg~~V~e  180 (220)
T cd04126         101 CLFAVVGNKLDLTEEGALAGQEKDAGDRVSPEDQRQVTLEDAKAFYKRINKYKMLDEDLSPAAEKMCFETSAKTGYNVDE  180 (220)
T ss_pred             CcEEEEEECcccccccccccccccccccccccccccCCHHHHHHHHHHhCccccccccccccccceEEEeeCCCCCCHHH
Confidence            34568899999865                   68999999999999987              6799999999999999


Q ss_pred             HHHHHHHHHHHHHhhhhhcCCCCCCCcccccCCCCCCCCCCcc
Q psy17493         54 AFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPNRKPPSWLS   96 (101)
Q Consensus        54 ~F~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~cc   96 (101)
                      +|..+++.++..........+..  ...+.+..++. +++.||
T Consensus       181 lf~~i~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~-~~~~~~  220 (220)
T cd04126         181 LFEYLFNLVLPLILAQRAEANRT--QGTVNLPNPKR-SKSKCC  220 (220)
T ss_pred             HHHHHHHHHHHHHHhhhhhhhhh--hccccCCCccc-CCCCCC
Confidence            99999998886544333322221  23455555555 556665

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

>KOG0088|consensus

Probab=99.69  E-value=7.1e-17  Score=99.20  Aligned_cols=61  Identities=23%  Similarity=0.325  Sum_probs=55.9

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL   70 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~   70 (101)
                      .|||||+||+.+|.|+..+|++||+..|+.|+|||||.+.||.++|+.+...+++......
T Consensus       122 ~IVGNKiDLEeeR~Vt~qeAe~YAesvGA~y~eTSAk~N~Gi~elFe~Lt~~MiE~~s~~q  182 (218)
T KOG0088|consen  122 LIVGNKIDLEEERQVTRQEAEAYAESVGALYMETSAKDNVGISELFESLTAKMIEHSSQRQ  182 (218)
T ss_pred             EEecCcccHHHhhhhhHHHHHHHHHhhchhheecccccccCHHHHHHHHHHHHHHHhhhcc
Confidence            4679999999999999999999999999999999999999999999999999988764433

>KOG0093|consensus

Probab=99.69  E-value=3.4e-17  Score=99.45  Aligned_cols=62  Identities=34%  Similarity=0.393  Sum_probs=57.5

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      ..+.|++|||||+++|.|+.+.++.++++.|..|||||||.+.||+++|+.++..|.++...
T Consensus       127 aqvilvgnKCDmd~eRvis~e~g~~l~~~LGfefFEtSaK~NinVk~~Fe~lv~~Ic~kmse  188 (193)
T KOG0093|consen  127 AQVILVGNKCDMDSERVISHERGRQLADQLGFEFFETSAKENINVKQVFERLVDIICDKMSE  188 (193)
T ss_pred             ceEEEEecccCCccceeeeHHHHHHHHHHhChHHhhhcccccccHHHHHHHHHHHHHHHhhh
Confidence            46789999999999999999999999999999999999999999999999999988876543

>KOG0079|consensus

Probab=99.69  E-value=5.4e-17  Score=98.68  Aligned_cols=84  Identities=19%  Similarity=0.220  Sum_probs=66.4

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhcCCCCCCCcccccCCCC
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVKSSEPN   88 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~   88 (101)
                      -.|||||+|+.+.|.|..++|+.||.+.|+.+||||||++.||+..|..|++++++.+.....   .......+.+.++.
T Consensus       115 ~vLVGNK~d~~~RrvV~t~dAr~~A~~mgie~FETSaKe~~NvE~mF~cit~qvl~~k~r~~~---~~~r~~~~~l~~n~  191 (198)
T KOG0079|consen  115 KVLVGNKNDDPERRVVDTEDARAFALQMGIELFETSAKENENVEAMFHCITKQVLQAKLRESV---EQQRADAVSLKDNS  191 (198)
T ss_pred             ceecccCCCCccceeeehHHHHHHHHhcCchheehhhhhcccchHHHHHHHHHHHHHHHhhcH---HHHhhcceEeccCC
Confidence            468999999999999999999999999999999999999999999999999999886622211   11223556666655


Q ss_pred             CCCCCCcc
Q psy17493         89 RKPPSWLS   96 (101)
Q Consensus        89 ~~~~~~cc   96 (101)
                      + .++.||
T Consensus       192 ~-~~~k~c  198 (198)
T KOG0079|consen  192 K-STKKCC  198 (198)
T ss_pred             C-ccccCC
Confidence            5 445554

>KOG0094|consensus

Probab=99.65  E-value=2.6e-16  Score=99.31  Aligned_cols=59  Identities=32%  Similarity=0.303  Sum_probs=54.8

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      +.|||||.||.++|+++.+++...|+++++.|+|||||+|.||.++|.+++..+.....
T Consensus       131 I~LVGnKtDL~dkrqvs~eEg~~kAkel~a~f~etsak~g~NVk~lFrrIaa~l~~~~~  189 (221)
T KOG0094|consen  131 IFLVGNKTDLSDKRQVSIEEGERKAKELNAEFIETSAKAGENVKQLFRRIAAALPGMEV  189 (221)
T ss_pred             EEEEcccccccchhhhhHHHHHHHHHHhCcEEEEecccCCCCHHHHHHHHHHhccCccc
Confidence            57889999999999999999999999999999999999999999999999988876543

>KOG0083|consensus

Probab=99.64  E-value=2.2e-16  Score=94.76  Aligned_cols=58  Identities=38%  Similarity=0.519  Sum_probs=54.1

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +-|+|||+|+..+|.|..++++.+|+.++++|+|||||||.||+-+|..+++.+.+..
T Consensus       106 l~llgnk~d~a~er~v~~ddg~kla~~y~ipfmetsaktg~nvd~af~~ia~~l~k~~  163 (192)
T KOG0083|consen  106 LMLLGNKCDLAHERAVKRDDGEKLAEAYGIPFMETSAKTGFNVDLAFLAIAEELKKLK  163 (192)
T ss_pred             HhhhccccccchhhccccchHHHHHHHHCCCceeccccccccHhHHHHHHHHHHHHhc
Confidence            4678999999999999999999999999999999999999999999999999887643

>cd04174 Rnd1_Rho6 Rnd1/Rho6 subfamily

Probab=99.63  E-value=3.1e-15  Score=97.90  Aligned_cols=62  Identities=21%  Similarity=0.203  Sum_probs=53.6

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCC-CHHHHHHHHHHHHHHHHh
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSI-NVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~-~V~~~F~~~~~~i~~~~~   67 (101)
                      +.++.|||||+||.+            .+.|+.+++++||+++|+ .|||||||+|. ||+++|..+++.+++...
T Consensus       117 ~~piilVgNK~DL~~~~~~~~~l~~~~~~~Vs~~e~~~~a~~~~~~~~~EtSAktg~~~V~e~F~~~~~~~~~~~~  192 (232)
T cd04174         117 STRILLIGCKTDLRTDLSTLMELSNQKQAPISYEQGCALAKQLGAEVYLECSAFTSEKSIHSIFRSASLLCLNKLS  192 (232)
T ss_pred             CCCEEEEEECcccccccchhhhhccccCCcCCHHHHHHHHHHcCCCEEEEccCCcCCcCHHHHHHHHHHHHHHhcc
Confidence            345678999999964            378999999999999998 69999999998 899999999999887543

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.

>cd04107 Rab32_Rab38 Rab38/Rab32 subfamily

Probab=99.61  E-value=6.6e-15  Score=93.99  Aligned_cols=66  Identities=27%  Similarity=0.293  Sum_probs=56.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhhhc
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEA   72 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~~~   72 (101)
                      .++.||+||.|+.+.+.++.+++.++++.++ ..||++||++|.||+++|..+++.+++..+.....
T Consensus       111 ~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~~~~~~~~~  177 (201)
T cd04107         111 IPCLLLANKCDLKKRLAKDGEQMDQFCKENGFIGWFETSAKEGINIEEAMRFLVKNILANDKNLQQA  177 (201)
T ss_pred             CcEEEEEECCCcccccccCHHHHHHHHHHcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhchhhHhh
Confidence            4567889999998778899999999999999 68999999999999999999999998765444443

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.

>KOG0087|consensus

Probab=99.60  E-value=5.9e-15  Score=94.03  Aligned_cols=61  Identities=30%  Similarity=0.355  Sum_probs=56.3

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      +.|||||+||...|.|+.++++.||+..+..|+||||.++.||+.+|..+...|++.....
T Consensus       122 imLvGNK~DL~~lraV~te~~k~~Ae~~~l~f~EtSAl~~tNVe~aF~~~l~~I~~~vs~k  182 (222)
T KOG0087|consen  122 IMLVGNKSDLNHLRAVPTEDGKAFAEKEGLFFLETSALDATNVEKAFERVLTEIYKIVSKK  182 (222)
T ss_pred             EEEeecchhhhhccccchhhhHhHHHhcCceEEEecccccccHHHHHHHHHHHHHHHHHHH
Confidence            3678999999999999999999999999999999999999999999999999998866544

>cd04120 Rab12 Rab12 subfamily

Probab=99.60  E-value=1e-14  Score=93.63  Aligned_cols=60  Identities=28%  Similarity=0.479  Sum_probs=53.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.|||||+||.+.+.++.+++.++|+++ ++.|||||||+|.||+++|..+++.+...
T Consensus       105 ~~piilVgNK~DL~~~~~v~~~~~~~~a~~~~~~~~~etSAktg~gV~e~F~~l~~~~~~~  165 (202)
T cd04120         105 DAELLLVGNKLDCETDREISRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK  165 (202)
T ss_pred             CCcEEEEEECcccccccccCHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            3456788999999888999999999999886 78999999999999999999999988764

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

>cd04121 Rab40 Rab40 subfamily

Probab=99.59  E-value=5.8e-15  Score=93.91  Aligned_cols=60  Identities=22%  Similarity=0.284  Sum_probs=55.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.|||||.||...+.++.++++.+|+.+++.||||||++|.||+++|..+++.++.+
T Consensus       110 ~~piilVGNK~DL~~~~~v~~~~~~~~a~~~~~~~~e~SAk~g~~V~~~F~~l~~~i~~~  169 (189)
T cd04121         110 GVPKILVGNRLHLAFKRQVATEQAQAYAERNGMTFFEVSPLCNFNITESFTELARIVLMR  169 (189)
T ss_pred             CCCEEEEEECccchhccCCCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            456688899999988889999999999999999999999999999999999999988754

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

>cd04144 Ras2 Ras2 subfamily

Probab=99.59  E-value=1.2e-14  Score=92.14  Aligned_cols=60  Identities=35%  Similarity=0.443  Sum_probs=53.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.||+||+|+...+.++..++..+++.+++.||++||++|.||+++|..+++.+..+.
T Consensus       107 ~piilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~l~~~~  166 (190)
T cd04144         107 VPIMIVGNKCDKVYEREVSTEEGAALARRLGCEFIEASAKTNVNVERAFYTLVRALRQQR  166 (190)
T ss_pred             CCEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            456678999999877889999999999999999999999999999999999998876554

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.

>cd01873 RhoBTB RhoBTB subfamily

Probab=99.59  E-value=4.1e-15  Score=95.00  Aligned_cols=56  Identities=23%  Similarity=0.257  Sum_probs=49.8

Q ss_pred             cCCCcEEeecCCCCC-------------------CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS-------------------MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~-------------------~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.|||||+||.+                   .+.|+.++++++|+++|++|||||||+|.||+++|..+++.
T Consensus       120 ~~piilvgNK~DL~~~~~~~~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~~E~SAkt~~~V~e~F~~~~~~  194 (195)
T cd01873         120 RVPVILVGCKLDLRYADLDEVNRARRPLARPIKNADILPPETGRAVAKELGIPYYETSVVTQFGVKDVFDNAIRA  194 (195)
T ss_pred             CCCEEEEEEchhccccccchhhhcccccccccccCCccCHHHHHHHHHHhCCEEEEcCCCCCCCHHHHHHHHHHh
Confidence            345678899999864                   47899999999999999999999999999999999999864

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.

>cd04172 Rnd3_RhoE_Rho8 Rnd3/RhoE/Rho8 subfamily

Probab=99.54  E-value=2.1e-14  Score=90.83  Aligned_cols=58  Identities=28%  Similarity=0.331  Sum_probs=50.6

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~   63 (101)
                      ...+.|||||+||.+            .+.|+.++++++|+++++ .|||||||+|.| |+++|..+++.++
T Consensus       109 ~~piilVgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~n~v~~~F~~~~~~~~  180 (182)
T cd04172         109 NTKMLLVGCKSDLRTDLTTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACV  180 (182)
T ss_pred             CCCEEEEeEChhhhcChhhHHHHHhcCCCCCCHHHHHHHHHHcCCCEEEECCcCCCCCCHHHHHHHHHHHHh
Confidence            356778899999964            356999999999999995 899999999999 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

>cd04111 Rab39 Rab39 subfamily

Probab=99.54  E-value=9.3e-14  Score=89.58  Aligned_cols=60  Identities=35%  Similarity=0.464  Sum_probs=54.2

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.||+||.|+.+.+.++.+++..+++.+++.|+|+||++|.||+++|..+++.+++....
T Consensus       112 iilvgNK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~~~~~~~  171 (211)
T cd04111         112 FILVGHKCDLESQRQVTREEAEKLAKDLGMKYIETSARTGDNVEEAFELLTQEIYERIKR  171 (211)
T ss_pred             EEEEEEccccccccccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhhc
Confidence            457899999988888999999999999999999999999999999999999998876543

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.

>cd04110 Rab35 Rab35 subfamily

Probab=99.52  E-value=1.2e-13  Score=88.17  Aligned_cols=63  Identities=25%  Similarity=0.258  Sum_probs=55.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      ..+.+|+||.|+...+.+..+++..+++.++..||++||++|.||+++|..+++.++......
T Consensus       111 ~piivVgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~lf~~l~~~~~~~~~~~  173 (199)
T cd04110         111 VCKVLVGNKNDDPERKVVETEDAYKFAGQMGISLFETSAKENINVEEMFNCITELVLRAKKDN  173 (199)
T ss_pred             CCEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCcCHHHHHHHHHHHHHHhhhcc
Confidence            455788999999877788889999999999999999999999999999999999998764443

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

>PLN03110 Rab GTPase; Provisional

Probab=99.52  E-value=1.5e-13  Score=88.93  Aligned_cols=61  Identities=30%  Similarity=0.330  Sum_probs=54.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      ..+.+|+||+|+...+.++.+++..++..++++|+++||++|.||+++|..++..+.+...
T Consensus       118 ~piiiv~nK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~SA~~g~~v~~lf~~l~~~i~~~~~  178 (216)
T PLN03110        118 IVIMMAGNKSDLNHLRSVAEEDGQALAEKEGLSFLETSALEATNVEKAFQTILLEIYHIIS  178 (216)
T ss_pred             CeEEEEEEChhcccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            4567789999998888999999999999999999999999999999999999998877543

>cd04141 Rit_Rin_Ric Rit/Rin/Ric subfamily

Probab=99.52  E-value=5e-14  Score=88.07  Aligned_cols=60  Identities=32%  Similarity=0.405  Sum_probs=54.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.++.+++..+|+.++++||||||++|.||+++|..+++.+.+.
T Consensus       107 ~~piilvgNK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~  166 (172)
T cd04141         107 DIPLVLVGNKVDLESQRQVTTEEGRNLAREFNCPFFETSAALRHYIDDAFHGLVREIRRK  166 (172)
T ss_pred             CCCEEEEEEChhhhhcCccCHHHHHHHHHHhCCEEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            355678899999988889999999999999999999999999999999999999988764

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

>KOG0086|consensus

Probab=99.52  E-value=1.6e-14  Score=88.43  Aligned_cols=61  Identities=28%  Similarity=0.260  Sum_probs=56.3

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhhh
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL   70 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~~   70 (101)
                      .|+|||.||+..|+|+..+|..||.++.+.|.||||+||.||+++|...++.|+.+.....
T Consensus       118 iL~GnKkDL~~~R~VtflEAs~FaqEnel~flETSa~TGeNVEEaFl~c~~tIl~kIE~GE  178 (214)
T KOG0086|consen  118 ILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIESGE  178 (214)
T ss_pred             EEeCChhhcChhhhhhHHHHHhhhcccceeeeeecccccccHHHHHHHHHHHHHHHHhhcC
Confidence            5678999999999999999999999999999999999999999999999999998766543

>cd04133 Rop_like Rop subfamily

Probab=99.50  E-value=6.3e-14  Score=88.23  Aligned_cols=57  Identities=18%  Similarity=0.236  Sum_probs=49.8

Q ss_pred             CCCcEEeecCCCCCCC----------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMP----------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~----------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.|||||+||.+++          .|+.+++..+|+.++. .|||||||+|.||+++|..+++.++
T Consensus       106 ~piilvgnK~Dl~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~E~SAk~~~nV~~~F~~~~~~~~  173 (176)
T cd04133         106 VPIVLVGTKLDLRDDKQYLADHPGASPITTAQGEELRKQIGAAAYIECSSKTQQNVKAVFDAAIKVVL  173 (176)
T ss_pred             CCEEEEEeChhhccChhhhhhccCCCCCCHHHHHHHHHHcCCCEEEECCCCcccCHHHHHHHHHHHHh
Confidence            4567889999996543          5999999999999998 5999999999999999999998763

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,

>cd04131 Rnd Rnd subfamily

Probab=99.50  E-value=7.3e-14  Score=87.96  Aligned_cols=58  Identities=28%  Similarity=0.283  Sum_probs=49.8

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~   63 (101)
                      ...+.|||||+||.+            .+.|+.+++.++|+++++ .|||||||+|.| |+++|..+++..+
T Consensus       105 ~~~iilVgnK~DL~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SA~~~~~~v~~~F~~~~~~~~  176 (178)
T cd04131         105 NTKVLLVGCKTDLRTDLSTLMELSHQRQAPVSYEQGCAIAKQLGAEIYLECSAFTSEKSVRDIFHVATMACL  176 (178)
T ss_pred             CCCEEEEEEChhhhcChhHHHHHHhcCCCCCCHHHHHHHHHHhCCCEEEECccCcCCcCHHHHHHHHHHHHh
Confidence            345678899999954            356999999999999997 799999999995 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.

>PTZ00099 rab6; Provisional

Probab=99.48  E-value=1.5e-13  Score=86.58  Aligned_cols=57  Identities=28%  Similarity=0.310  Sum_probs=51.9

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.||+||+||.+.+.++.+++..++..++..|||+|||+|.||+++|..+++.+.+.
T Consensus        88 iilVgNK~DL~~~~~v~~~e~~~~~~~~~~~~~e~SAk~g~nV~~lf~~l~~~l~~~  144 (176)
T PTZ00099         88 IALVGNKTDLGDLRKVTYEEGMQKAQEYNTMFHETSAKAGHNIKVLFKKIAAKLPNL  144 (176)
T ss_pred             EEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            467899999987788999999999999999999999999999999999999988654

>KOG0395|consensus

Probab=99.48  E-value=1.3e-13  Score=88.29  Aligned_cols=58  Identities=34%  Similarity=0.480  Sum_probs=54.0

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.|||||+||...|.|+.++++++|..++++|+|||||.+.||+++|..+++.+...
T Consensus       110 PivlVGNK~Dl~~~R~V~~eeg~~la~~~~~~f~E~Sak~~~~v~~~F~~L~r~~~~~  167 (196)
T KOG0395|consen  110 PIILVGNKCDLERERQVSEEEGKALARSWGCAFIETSAKLNYNVDEVFYELVREIRLP  167 (196)
T ss_pred             CEEEEEEcccchhccccCHHHHHHHHHhcCCcEEEeeccCCcCHHHHHHHHHHHHHhh
Confidence            4577899999999999999999999999999999999999999999999999988763

>cd04125 RabA_like RabA-like subfamily

Probab=99.47  E-value=4e-13  Score=84.78  Aligned_cols=59  Identities=29%  Similarity=0.301  Sum_probs=53.2

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      .+.+++||.|+.+.+.++.+++..++...+++|+|+||++|.||+++|..+++.++...
T Consensus       107 ~~ivv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~evSa~~~~~i~~~f~~l~~~~~~~~  165 (188)
T cd04125         107 IKVIVANKSDLVNNKVVDSNIAKSFCDSLNIPFFETSAKQSINVEEAFILLVKLIIKRL  165 (188)
T ss_pred             eEEEEEECCCCcccccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            45678999999878889999999999999999999999999999999999999987653

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.

>cd04173 Rnd2_Rho7 Rnd2/Rho7 subfamily

Probab=99.47  E-value=4.3e-13  Score=87.29  Aligned_cols=61  Identities=23%  Similarity=0.268  Sum_probs=51.7

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~~~~   66 (101)
                      +.++.|||||+||.+.            ..|+.+++..+|+++|+ .||||||+++.| |+++|..+++..+...
T Consensus       105 ~~piiLVgnK~DL~~~~~~~~~~~~~~~~pIs~e~g~~~ak~~~~~~y~E~SAk~~~~~V~~~F~~~~~~~~~~~  179 (222)
T cd04173         105 NAKVVLVGCKLDMRTDLATLRELSKQRLIPVTHEQGTVLAKQVGAVSYVECSSRSSERSVRDVFHVATVASLGRG  179 (222)
T ss_pred             CCCEEEEEECcccccchhhhhhhhhccCCccCHHHHHHHHHHcCCCEEEEcCCCcCCcCHHHHHHHHHHHHHhcc
Confidence            4667889999999542            24889999999999995 899999999985 9999999999877644

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

>PLN03118 Rab family protein; Provisional

Probab=99.46  E-value=1.1e-12  Score=84.32  Aligned_cols=60  Identities=37%  Similarity=0.306  Sum_probs=53.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+|+||.|+...+.++.+++..++..+++.||++||+++.||+++|..+++.+....
T Consensus       121 ~~~ilv~NK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~SAk~~~~v~~l~~~l~~~~~~~~  180 (211)
T PLN03118        121 CVKMLVGNKVDRESERDVSREEGMALAKEHGCLFLECSAKTRENVEQCFEELALKIMEVP  180 (211)
T ss_pred             CCEEEEEECccccccCccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhhh
Confidence            345688999999877888899999999999999999999999999999999999987754

>cd04112 Rab26 Rab26 subfamily

Probab=99.45  E-value=8.2e-13  Score=83.73  Aligned_cols=59  Identities=42%  Similarity=0.549  Sum_probs=53.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.+++||.|+...+.+..+++..+++.++.+|+++||++|.||+++|..+++.+...
T Consensus       107 ~piiiv~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~e~Sa~~~~~v~~l~~~l~~~~~~~  165 (191)
T cd04112         107 VVIMLLGNKADMSGERVVKREDGERLAKEYGVPFMETSAKTGLNVELAFTAVAKELKHR  165 (191)
T ss_pred             CcEEEEEEcccchhccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            45667899999987788999999999999999999999999999999999999988765

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.

>cd04122 Rab14 Rab14 subfamily

Probab=99.44  E-value=5.1e-13  Score=82.62  Aligned_cols=58  Identities=36%  Similarity=0.385  Sum_probs=52.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+...+.++.+++..+++.++++|+|+||++|.||+++|..+++.+++
T Consensus       108 ~~iiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~e~f~~l~~~~~~  165 (166)
T cd04122         108 TVIFLIGNKADLEAQRDVTYEEAKQFADENGLLFLECSAKTGENVEDAFLETAKKIYQ  165 (166)
T ss_pred             CeEEEEEECcccccccCcCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            3467789999998888899999999999999999999999999999999999988764

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

>cd04109 Rab28 Rab28 subfamily

Probab=99.44  E-value=5.6e-13  Score=86.02  Aligned_cols=58  Identities=17%  Similarity=0.117  Sum_probs=52.9

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+|+||.|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+...
T Consensus       111 piilVgNK~DL~~~~~v~~~~~~~~~~~~~~~~~~iSAktg~gv~~lf~~l~~~l~~~  168 (215)
T cd04109         111 LVVLVGNKTDLEHNRTVKDDKHARFAQANGMESCLVSAKTGDRVNLLFQQLAAELLGV  168 (215)
T ss_pred             eEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            3567899999987889999999999999999999999999999999999999988753

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

>cd04134 Rho3 Rho3 subfamily

Probab=99.44  E-value=6.4e-13  Score=84.15  Aligned_cols=58  Identities=24%  Similarity=0.264  Sum_probs=49.9

Q ss_pred             cCCCcEEeecCCCCCCC------------CCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP------------QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~------------~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.||+||+||.+.+            .++.+++..+++.++ +.|||+|||+|.||+++|..+++.++
T Consensus       104 ~~piilvgNK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~e~f~~l~~~~~  174 (189)
T cd04134         104 GVKLVLVALKCDLREARNERDDLQRYGKHTISYEEGLAVAKRINALRYLECSAKLNRGVNEAFTEAARVAL  174 (189)
T ss_pred             CCCEEEEEEChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEccCCcCCCHHHHHHHHHHHHh
Confidence            45678889999996543            477889999999887 68999999999999999999998876

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.

>cd01875 RhoG RhoG subfamily

Probab=99.43  E-value=5.6e-13  Score=84.63  Aligned_cols=59  Identities=20%  Similarity=0.282  Sum_probs=50.5

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.|||||.||.+.            +.++.+++..+|+.++ ..|||||||+|.||+++|..+++.++.
T Consensus       107 ~~piilvgNK~DL~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~SAk~g~~v~e~f~~l~~~~~~  178 (191)
T cd01875         107 NVPILLVGTKKDLRNDADTLKKLKEQGQAPITPQQGGALAKQIHAVKYLECSALNQDGVKEVFAEAVRAVLN  178 (191)
T ss_pred             CCCEEEEEeChhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEeCCCCCCCHHHHHHHHHHHHhc
Confidence            3456788999999654            3588899999999999 589999999999999999999987753

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

>KOG0095|consensus

Probab=99.42  E-value=1e-13  Score=84.70  Aligned_cols=60  Identities=25%  Similarity=0.335  Sum_probs=54.9

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      .|||||.|+.+.|+|+...++.|++.+.+.|+|||||+..||+.+|..++..+....+..
T Consensus       116 ilvgnk~d~~drrevp~qigeefs~~qdmyfletsakea~nve~lf~~~a~rli~~ar~~  175 (213)
T KOG0095|consen  116 ILVGNKIDLADRREVPQQIGEEFSEAQDMYFLETSAKEADNVEKLFLDLACRLISEARQN  175 (213)
T ss_pred             EeeccccchhhhhhhhHHHHHHHHHhhhhhhhhhcccchhhHHHHHHHHHHHHHHHHHhc
Confidence            678999999999999999999999999999999999999999999999998887665443

>cd04103 Centaurin_gamma Centaurin gamma

Probab=99.42  E-value=3.7e-13  Score=83.23  Aligned_cols=55  Identities=22%  Similarity=0.288  Sum_probs=48.1

Q ss_pred             CCCcEEeecCCCC--CCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVS--SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~--~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++.|||||.||.  ..+.|+.+++++++++++ +.|||||||+|.||+++|..+++.
T Consensus       100 ~piilvgnK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~i~~~f~~~~~~  157 (158)
T cd04103         100 IPLILVGTQDAISESNPRVIDDARARQLCADMKRCSYYETCATYGLNVERVFQEAAQK  157 (158)
T ss_pred             CCEEEEeeHHHhhhcCCcccCHHHHHHHHHHhCCCcEEEEecCCCCCHHHHHHHHHhh
Confidence            4567889999985  468899999999998874 899999999999999999999864

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.

>cd04117 Rab15 Rab15 subfamily

Probab=99.41  E-value=7.1e-13  Score=81.87  Aligned_cols=55  Identities=33%  Similarity=0.428  Sum_probs=50.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+|+||.|+...+.++.+++..+++.++.+|||||||+|.||+++|..+++.
T Consensus       106 ~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~  160 (161)
T cd04117         106 VQKILIGNKADEEQKRQVGDEQGNKLAKEYGMDFFETSACTNSNIKESFTRLTEL  160 (161)
T ss_pred             CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHhh
Confidence            3457789999998888999999999999999999999999999999999999864

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

>cd04127 Rab27A Rab27a subfamily

Probab=99.41  E-value=1.1e-12  Score=81.88  Aligned_cols=60  Identities=32%  Similarity=0.319  Sum_probs=54.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.++++
T Consensus       120 ~~piiiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~l~~~l~~~~~~~  179 (180)
T cd04127         120 NPDIVLCGNKADLEDQRQVSEEQAKALADKYGIPYFETSAATGTNVEKAVERLLDLVMKR  179 (180)
T ss_pred             CCcEEEEEeCccchhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            456778899999988888999999999999999999999999999999999999888653

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

>PLN03108 Rab family protein; Provisional

Probab=99.41  E-value=4.6e-12  Score=81.56  Aligned_cols=61  Identities=38%  Similarity=0.415  Sum_probs=55.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      ..+.+++||.|+...+.++.+++.++++.++++||++||+++.||+++|..+++.+++...
T Consensus       112 ~piiiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~e~f~~l~~~~~~~~~  172 (210)
T PLN03108        112 MTIMLIGNKCDLAHRRAVSTEEGEQFAKEHGLIFMEASAKTAQNVEEAFIKTAAKIYKKIQ  172 (210)
T ss_pred             CcEEEEEECccCccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHhh
Confidence            3456789999998888999999999999999999999999999999999999999987644

>cd04132 Rho4_like Rho4-like subfamily

Probab=99.40  E-value=1.8e-12  Score=81.52  Aligned_cols=62  Identities=24%  Similarity=0.269  Sum_probs=53.0

Q ss_pred             CCCcEEeecCCCCCC----CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          7 TKSKYIEVPNFVSSM----PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~----~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .++.+++||.|+...    +.++.+++.+++..+++ +||++||++|.||+++|..+++.++.....
T Consensus       106 ~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~~~~~  172 (187)
T cd04132         106 TPIMLVGLKTDLRKDKNLDRKVTPAQAESVAKKQGAFAYLECSAKTMENVEEVFDTAIEEALKKEGK  172 (187)
T ss_pred             CCEEEEEeChhhhhCccccCCcCHHHHHHHHHHcCCcEEEEccCCCCCCHHHHHHHHHHHHHhhhhh
Confidence            456778999998643    46888999999999998 899999999999999999999998875433

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.

>PF00071 Ras: Ras family; InterPro: IPR001806 Small GTPases form an independent superfamily within the larger class of regulatory GTP hydrolases

Probab=99.40  E-value=1.1e-12  Score=80.49  Aligned_cols=57  Identities=32%  Similarity=0.376  Sum_probs=52.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.|+|+|.|+.+.+.++.++++.+|++++.+|+|+||+++.||.++|..+++.++
T Consensus       105 ~~iivvg~K~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~~i~~i~  161 (162)
T PF00071_consen  105 IPIIVVGNKSDLSDEREVSVEEAQEFAKELGVPYFEVSAKNGENVKEIFQELIRKIL  161 (162)
T ss_dssp             SEEEEEEETTTGGGGSSSCHHHHHHHHHHTTSEEEEEBTTTTTTHHHHHHHHHHHHH
T ss_pred             ccceeeeccccccccccchhhHHHHHHHHhCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456778999999888999999999999999999999999999999999999999875

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 ....

>cd01874 Cdc42 Cdc42 subfamily

Probab=99.38  E-value=1.4e-12  Score=81.80  Aligned_cols=56  Identities=20%  Similarity=0.207  Sum_probs=48.4

Q ss_pred             CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.||+||.|+.+.            +.|+.+++.+++++.+ ..|||+||++|.||+++|..+++..
T Consensus       106 ~piilvgnK~Dl~~~~~~~~~l~~~~~~~v~~~~~~~~a~~~~~~~~~e~SA~tg~~v~~~f~~~~~~~  174 (175)
T cd01874         106 TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETGEKLARDLKAVKYVECSALTQKGLKNVFDEAILAA  174 (175)
T ss_pred             CCEEEEEECHhhhhChhhHHHhhhccCCCcCHHHHHHHHHHhCCcEEEEecCCCCCCHHHHHHHHHHHh
Confidence            456778999998543            6899999999999988 6899999999999999999998754

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

>PTZ00369 Ras-like protein; Provisional

Probab=99.36  E-value=4.3e-12  Score=80.30  Aligned_cols=59  Identities=37%  Similarity=0.557  Sum_probs=52.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.+++||.|+...+.++.+++..+++.++.+||++||++|.||+++|..+++.+.+.
T Consensus       111 ~piiiv~nK~Dl~~~~~i~~~~~~~~~~~~~~~~~e~Sak~~~gi~~~~~~l~~~l~~~  169 (189)
T PTZ00369        111 VPMILVGNKCDLDSERQVSTGEGQELAKSFGIPFLETSAKQRVNVDEAFYELVREIRKY  169 (189)
T ss_pred             CCEEEEEECcccccccccCHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHHHHH
Confidence            35567899999987788999999999999999999999999999999999999988764

>cd04142 RRP22 RRP22 subfamily

Probab=99.35  E-value=2.1e-12  Score=82.60  Aligned_cols=60  Identities=13%  Similarity=0.025  Sum_probs=51.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||.|+...+.++.+++..++. .++++||+|||++|.||+++|..+++.++.+
T Consensus       116 ~~piiivgNK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~v~~lf~~i~~~~~~~  176 (198)
T cd04142         116 EPPIVVVGNKRDQQRHRFAPRHVLSVLVRKSWKCGYLECSAKYNWHILLLFKELLISATTR  176 (198)
T ss_pred             CCCEEEEEECccccccccccHHHHHHHHHHhcCCcEEEecCCCCCCHHHHHHHHHHHhhcc
Confidence            35667889999998778888888888865 5689999999999999999999999988754

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.

>cd04129 Rho2 Rho2 subfamily

Probab=99.34  E-value=7e-12  Score=79.21  Aligned_cols=58  Identities=24%  Similarity=0.284  Sum_probs=49.4

Q ss_pred             CCCcEEeecCCCCC----------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS----------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~----------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.+|+||.|+.+          .+.++.+++..+++.++. .||||||++|.||+++|+.+++.++.
T Consensus       106 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  174 (187)
T cd04129         106 VPVILVGLKKDLRQDAVAKEEYRTQRFVPIQQGKRVAKEIGAKKYMECSALTGEGVDDVFEAATRAALL  174 (187)
T ss_pred             CCEEEEeeChhhhhCcccccccccCCcCCHHHHHHHHHHhCCcEEEEccCCCCCCHHHHHHHHHHHHhc
Confidence            45677899999853          467888899999999995 79999999999999999999987753

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).

>cd01867 Rab8_Rab10_Rab13_like Rab8/Sec4/Ypt2

Probab=99.33  E-value=7.1e-12  Score=77.61  Aligned_cols=59  Identities=53%  Similarity=0.704  Sum_probs=53.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.+++||.|+.+.+.+..+++..+++.++.+|+++||++|.||+++|..+++.++.
T Consensus       108 ~~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~~  166 (167)
T cd01867         108 DVERMLVGNKCDMEEKRVVSKEEGEALADEYGIKFLETSAKANINVEEAFFTLAKDIKK  166 (167)
T ss_pred             CCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            34567889999998878889999999999999999999999999999999999998764

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

>cd01871 Rac1_like Rac1-like subfamily

Probab=99.32  E-value=3.8e-12  Score=79.75  Aligned_cols=55  Identities=20%  Similarity=0.231  Sum_probs=47.7

Q ss_pred             CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++.||+||+||.+.            +.|+.+++..+++.++ ..|||+||++|.||+++|+.+++.
T Consensus       106 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~f~~l~~~  173 (174)
T cd01871         106 TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQKGLKTVFDEAIRA  173 (174)
T ss_pred             CCEEEEeeChhhccChhhHHHHhhccCCCCCHHHHHHHHHHcCCcEEEEecccccCCHHHHHHHHHHh
Confidence            466788999999542            4689999999999999 589999999999999999999863

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

>cd04118 Rab24 Rab24 subfamily

Probab=99.32  E-value=2.2e-11  Score=77.01  Aligned_cols=61  Identities=23%  Similarity=0.235  Sum_probs=51.6

Q ss_pred             cCCCcEEeecCCCCC----CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS----MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~----~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||.|+..    .+.+..+++..++..++++||++||++|.||+++|..+++.+.+..
T Consensus       105 ~~piilv~nK~Dl~~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~~  169 (193)
T cd04118         105 HCKIYLCGTKSDLIEQDRSLRQVDFHDVQDFADEIKAQHFETSSKTGQNVDELFQKVAEDFVSRA  169 (193)
T ss_pred             CCCEEEEEEcccccccccccCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            356778899999853    2567778889999999999999999999999999999999887643

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

>cd01865 Rab3 Rab3 subfamily

Probab=99.32  E-value=9e-12  Score=77.02  Aligned_cols=57  Identities=35%  Similarity=0.390  Sum_probs=51.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+++||+|+.+.+.+..+++.++++.++.+||++||++|.||+++|..++..+.
T Consensus       107 ~piivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~  163 (165)
T cd01865         107 AQVILVGNKCDMEDERVVSSERGRQLADQLGFEFFEASAKENINVKQVFERLVDIIC  163 (165)
T ss_pred             CCEEEEEECcccCcccccCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456788999999888888899999999999999999999999999999999998664

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

>cd04146 RERG_RasL11_like RERG/RasL11-like subfamily

Probab=99.32  E-value=6.1e-12  Score=77.66  Aligned_cols=58  Identities=31%  Similarity=0.394  Sum_probs=51.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCC-CCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNS-INVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~-~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||.|+...+.++.+++..+++..+.+||++||++| .||+++|..+++.+.
T Consensus       106 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~~~~v~~~f~~l~~~~~  164 (165)
T cd04146         106 EIPVILVGNKADLLHYRQVSTEEGEKLASELGCLFFEVSAAEDYDGVHSVFHELCREVR  164 (165)
T ss_pred             CCCEEEEEECCchHHhCccCHHHHHHHHHHcCCEEEEeCCCCCchhHHHHHHHHHHHHh
Confidence            4556788999999877889999999999999999999999999 499999999998664

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

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

Probab=99.31  E-value=4.4e-12  Score=78.78  Aligned_cols=58  Identities=28%  Similarity=0.268  Sum_probs=50.1

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.||+||+|+...            +.++.+++..+++.++. .|||+||++|.||+++|..+++.++
T Consensus       102 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~l~~~~~  172 (174)
T smart00174      102 NTPIILVGTKLDLREDKSTLRELSKQKQEPVTYEQGEALAKRIGAVKYLECSALTQEGVREVFEEAIRAAL  172 (174)
T ss_pred             CCCEEEEecChhhhhChhhhhhhhcccCCCccHHHHHHHHHHcCCcEEEEecCCCCCCHHHHHHHHHHHhc
Confidence            4566788999998642            34889999999999996 8999999999999999999998765

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

>cd04140 ARHI_like ARHI subfamily

Probab=99.29  E-value=1.1e-11  Score=76.59  Aligned_cols=54  Identities=31%  Similarity=0.313  Sum_probs=48.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ..+.+|+||.|+...+.+..+++..++..++..|||+||++|.||+++|..++.
T Consensus       109 ~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SA~~g~~v~~~f~~l~~  162 (165)
T cd04140         109 IPIMLVGNKCDESHKREVSSNEGAACATEWNCAFMETSAKTNHNVQELFQELLN  162 (165)
T ss_pred             CCEEEEEECccccccCeecHHHHHHHHHHhCCcEEEeecCCCCCHHHHHHHHHh
Confidence            456788999999877889999999999999999999999999999999999874

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

>cd04175 Rap1 Rap1 subgroup

Probab=99.28  E-value=1.2e-11  Score=76.13  Aligned_cols=56  Identities=34%  Similarity=0.513  Sum_probs=50.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.+++||+|+...+.++.+++..+++.++.+|+++||++|.||+++|..+++.+
T Consensus       107 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~l~~~l  162 (164)
T cd04175         107 VPMILVGNKCDLEDERVVGKEQGQNLARQWGCAFLETSAKAKINVNEIFYDLVRQI  162 (164)
T ss_pred             CCEEEEEECCcchhccEEcHHHHHHHHHHhCCEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            45678899999988788888889999999999999999999999999999998765

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

>cd01869 Rab1_Ypt1 Rab1/Ypt1 subfamily

Probab=99.28  E-value=1.9e-11  Score=75.47  Aligned_cols=57  Identities=39%  Similarity=0.503  Sum_probs=51.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||.|+...+.++.+++..+++.++++|+++||++|.||+++|..+++.+.
T Consensus       108 ~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~~~~~i~~~~~  164 (166)
T cd01869         108 VNKLLVGNKCDLTDKRVVDYSEAQEFADELGIPFLETSAKNATNVEQAFMTMAREIK  164 (166)
T ss_pred             CcEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCcCHHHHHHHHHHHHH
Confidence            456778999999877889999999999999999999999999999999999998775

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

>cd04136 Rap_like Rap-like subfamily

Probab=99.28  E-value=1e-11  Score=76.09  Aligned_cols=56  Identities=38%  Similarity=0.486  Sum_probs=49.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.+++||+|+.+.+.++.+++..+++.++.+||++||++|.||+++|..+++.+
T Consensus       107 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~  162 (163)
T cd04136         107 VPMVLVGNKCDLEDERVVSREEGQALARQWGCPFYETSAKSKINVDEVFADLVRQI  162 (163)
T ss_pred             CCEEEEEECccccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHhc
Confidence            45567899999987788888899999999999999999999999999999998754

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.

>cd04148 RGK RGK subfamily

Probab=99.28  E-value=1.7e-11  Score=79.64  Aligned_cols=60  Identities=23%  Similarity=0.309  Sum_probs=53.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||.|+...+.++.+++.+++..++++||++||++|.||+++|+.+++.+...
T Consensus       106 ~~piilV~NK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~SA~~~~gv~~l~~~l~~~~~~~  165 (221)
T cd04148         106 DRPIILVGNKSDLARSREVSVQEGRACAVVFDCKFIETSAGLQHNVDELLEGIVRQIRLR  165 (221)
T ss_pred             CCCEEEEEEChhccccceecHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            456788899999988888999999999999999999999999999999999999988643

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

>cd04119 RJL RJL (RabJ-Like) subfamily

Probab=99.27  E-value=1.6e-11  Score=75.41  Aligned_cols=57  Identities=26%  Similarity=0.217  Sum_probs=51.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+|+||+|+.+++.++.+++..++..++++||++||++|.||+++|..+++.++
T Consensus       111 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~  167 (168)
T cd04119         111 IVVVVCANKIDLTKHRAVSEDEGRLWAESKGFKYFETSACTGEGVNEMFQTLFSSIV  167 (168)
T ss_pred             ceEEEEEEchhcccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456788999999766788999999999999999999999999999999999998775

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.

>smart00173 RAS Ras subfamily of RAS small GTPases

Probab=99.27  E-value=2.1e-11  Score=74.93  Aligned_cols=57  Identities=37%  Similarity=0.558  Sum_probs=50.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||.|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.
T Consensus       106 ~pii~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  162 (164)
T smart00173      106 VPIVLVGNKCDLESERVVSTEEGKELARQWGCPFLETSAKERVNVDEAFYDLVREIR  162 (164)
T ss_pred             CCEEEEEECccccccceEcHHHHHHHHHHcCCEEEEeecCCCCCHHHHHHHHHHHHh
Confidence            345678999999877888889999999999999999999999999999999987654

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

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

Probab=99.26  E-value=2.2e-11  Score=74.74  Aligned_cols=56  Identities=36%  Similarity=0.462  Sum_probs=49.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.+++||+|+...+.++.+++..+++.++.+||++||++|.||+++|..+++.+
T Consensus       108 ~piiiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~  163 (164)
T cd04145         108 FPMILVGNKADLEHQRKVSREEGQELARKLKIPYIETSAKDRLNVDKAFHDLVRVI  163 (164)
T ss_pred             CCEEEEeeCccccccceecHHHHHHHHHHcCCcEEEeeCCCCCCHHHHHHHHHHhh
Confidence            45677899999987788888899999999999999999999999999999998753

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

>cd04128 Spg1 Spg1p

Probab=99.25  E-value=2.1e-11  Score=76.99  Aligned_cols=55  Identities=13%  Similarity=0.065  Sum_probs=45.7

Q ss_pred             cEEeecCCCCC-----CCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSS-----MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        10 ~lv~nk~Dl~~-----~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .||+||+||..     .+.+..++++.+|+.++++||++|||+|.||+++|..+++.+++
T Consensus       108 ilVgnK~Dl~~~~~~~~~~~~~~~~~~~a~~~~~~~~e~SAk~g~~v~~lf~~l~~~l~~  167 (182)
T cd04128         108 ILVGTKYDLFADLPPEEQEEITKQARKYAKAMKAPLIFCSTSHSINVQKIFKIVLAKAFD  167 (182)
T ss_pred             EEEEEchhccccccchhhhhhHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            47899999841     22223578889999999999999999999999999999998875

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

>cd04135 Tc10 TC10 subfamily

Probab=99.24  E-value=2.4e-11  Score=75.46  Aligned_cols=57  Identities=23%  Similarity=0.216  Sum_probs=48.7

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +..+.+++||.|+.+.            +.++.+++..+++..+. .|||+||++|.||+++|..+++.+
T Consensus       104 ~~piivv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gi~~~f~~~~~~~  173 (174)
T cd04135         104 NVPYLLVGTQIDLRDDPKTLARLNDMKEKPVTVEQGQKLAKEIGAHCYVECSALTQKGLKTVFDEAILAI  173 (174)
T ss_pred             CCCEEEEeEchhhhcChhhHHHHhhccCCCCCHHHHHHHHHHcCCCEEEEecCCcCCCHHHHHHHHHHHh
Confidence            4556778999998542            47888999999999985 799999999999999999999875

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

>smart00176 RAN Ran (Ras-related nuclear proteins) /TC4 subfamily of small GTPases

Probab=99.24  E-value=3.9e-11  Score=76.99  Aligned_cols=58  Identities=21%  Similarity=0.229  Sum_probs=48.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.||+||.|+.. +.+..+. ..+++..++.||||||++|.||+++|..+++.++..
T Consensus        99 ~~piilvgNK~Dl~~-~~v~~~~-~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~  156 (200)
T smart00176       99 NIPIVLCGNKVDVKD-RKVKAKS-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  156 (200)
T ss_pred             CCCEEEEEECccccc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhc
Confidence            456678899999964 5666554 478888899999999999999999999999988764

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

>cd04115 Rab33B_Rab33A Rab33B/Rab33A subfamily

Probab=99.23  E-value=3.5e-11  Score=74.74  Aligned_cols=56  Identities=25%  Similarity=0.269  Sum_probs=50.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCC---CCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKN---SINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~---~~~V~~~F~~~~~~i   62 (101)
                      .++.+|+||.|+...+.++.+++..+++.++.+||||||++   +.||+++|..+++.+
T Consensus       110 ~p~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~~~~i~~~f~~l~~~~  168 (170)
T cd04115         110 VPRILVGNKCDLREQIQVPTDLAQRFADAHSMPLFETSAKDPSENDHVEAIFMTLAHKL  168 (170)
T ss_pred             CCEEEEEECccchhhcCCCHHHHHHHHHHcCCcEEEEeccCCcCCCCHHHHHHHHHHHh
Confidence            45677899999988889999999999999999999999999   999999999998765

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

>cd04176 Rap2 Rap2 subgroup

Probab=99.23  E-value=4e-11  Score=73.73  Aligned_cols=56  Identities=32%  Similarity=0.388  Sum_probs=49.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+++||+|+...+.+...++..+++.++.+||++||++|.||+++|..+++.+
T Consensus       107 ~piviv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd04176         107 VPIILVGNKVDLESEREVSSAEGRALAEEWGCPFMETSAKSKTMVNELFAEIVRQM  162 (163)
T ss_pred             CCEEEEEECccchhcCccCHHHHHHHHHHhCCEEEEecCCCCCCHHHHHHHHHHhc
Confidence            44567899999977778888889999998999999999999999999999998753

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

>cd01868 Rab11_like Rab11-like

Probab=99.21  E-value=4.8e-11  Score=73.48  Aligned_cols=56  Identities=29%  Similarity=0.374  Sum_probs=50.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+|+||.|+...+.+..++...++..+++.|+++||++|.||+++|+.++..+
T Consensus       109 ~pi~vv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i  164 (165)
T cd01868         109 IVIMLVGNKSDLRHLRAVPTEEAKAFAEKNGLSFIETSALDGTNVEEAFKQLLTEI  164 (165)
T ss_pred             CeEEEEEECccccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            44567899999988788999999999999999999999999999999999998765

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

>cd04106 Rab23_lke Rab23-like subfamily

Probab=99.21  E-value=5.8e-11  Score=72.78  Aligned_cols=56  Identities=21%  Similarity=0.265  Sum_probs=50.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||.|+..++.++.+++..+++.++++||++||++|.|++++|..++..
T Consensus       106 ~~p~iiv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  161 (162)
T cd04106         106 DIPMVLVQTKIDLLDQAVITNEEAEALAKRLQLPLFRTSVKDDFNVTELFEYLAEK  161 (162)
T ss_pred             CCCEEEEEEChhcccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHh
Confidence            34567889999998878899999999999999999999999999999999998753

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

>cd04177 RSR1 RSR1 subgroup

Probab=99.20  E-value=7.7e-11  Score=73.02  Aligned_cols=57  Identities=33%  Similarity=0.477  Sum_probs=50.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||.|+...+.++.+++..+++.++ ++||++||++|.||+++|..++..++
T Consensus       107 ~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~~i~~~f~~i~~~~~  164 (168)
T cd04177         107 VPMVLVGNKADLEDDRQVSREDGVSLSQQWGNVPFYETSARKRTNVDEVFIDLVRQII  164 (168)
T ss_pred             CCEEEEEEChhccccCccCHHHHHHHHHHcCCceEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            4456789999998778888899999999988 88999999999999999999998765

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

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

Probab=99.20  E-value=7.6e-11  Score=71.94  Aligned_cols=56  Identities=38%  Similarity=0.573  Sum_probs=48.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||.|+.. +.+...++..+++..+.+|+++||++|.||+++|..+++.+
T Consensus       106 ~~piivv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  161 (162)
T cd04138         106 DVPMVLVGNKCDLAA-RTVSSRQGQDLAKSYGIPYIETSAKTRQGVEEAFYTLVREI  161 (162)
T ss_pred             CCCEEEEEECccccc-ceecHHHHHHHHHHhCCeEEEecCCCCCCHHHHHHHHHHHh
Confidence            345677899999865 67788889999999999999999999999999999998654

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.

>cd01866 Rab2 Rab2 subfamily

Probab=99.20  E-value=1e-10  Score=72.51  Aligned_cols=59  Identities=42%  Similarity=0.476  Sum_probs=52.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.+|+||.|+...+.++.+++..++..+++.|||+||+++.||+++|..+++.+++
T Consensus       109 ~~pvivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~~~~~~~~~~~~  167 (168)
T cd01866         109 NMTIMLIGNKCDLESRREVSYEEGEAFAKEHGLIFMETSAKTASNVEEAFINTAKEIYE  167 (168)
T ss_pred             CCcEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            34567889999998778899999999999999999999999999999999999988764

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

>PLN03071 GTP-binding nuclear protein Ran; Provisional

Probab=99.20  E-value=5.5e-11  Score=77.10  Aligned_cols=58  Identities=24%  Similarity=0.268  Sum_probs=48.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.|||||.|+.+ +.+..+++ .+++.+++.|||||||+|.||+++|..+++.+++.
T Consensus       117 ~~piilvgNK~Dl~~-~~v~~~~~-~~~~~~~~~~~e~SAk~~~~i~~~f~~l~~~~~~~  174 (219)
T PLN03071        117 NIPIVLCGNKVDVKN-RQVKAKQV-TFHRKKNLQYYEISAKSNYNFEKPFLYLARKLAGD  174 (219)
T ss_pred             CCcEEEEEEchhhhh-ccCCHHHH-HHHHhcCCEEEEcCCCCCCCHHHHHHHHHHHHHcC
Confidence            456778999999964 55666666 78888899999999999999999999999988764

>cd04108 Rab36_Rab34 Rab34/Rab36 subfamily

Probab=99.17  E-value=1.2e-10  Score=72.58  Aligned_cols=56  Identities=21%  Similarity=0.176  Sum_probs=47.4

Q ss_pred             CcEEeecCCCCCCC--CCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+|+||.|+.+.+  .+..+++..++++++.+|+++||++|.||+++|..+++.+.+
T Consensus       109 iilVgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~v~~lf~~l~~~~~~  166 (170)
T cd04108         109 LFLVGTKKDLSSPAQYALMEQDAIKLAAEMQAEYWSVSALSGENVREFFFRVAALTFE  166 (170)
T ss_pred             EEEEEEChhcCccccccccHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            46789999996543  345778889999999999999999999999999999987753

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

>cd04116 Rab9 Rab9 subfamily

Probab=99.17  E-value=9.6e-11  Score=72.54  Aligned_cols=54  Identities=31%  Similarity=0.302  Sum_probs=47.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+++||.|+. .+.++.+++.++++.++ ..||++||++|.||.++|..+++.
T Consensus       115 ~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~~~~~  169 (170)
T cd04116         115 FPFVVLGNKNDIP-ERQVSTEEAQAWCRENGDYPYFETSAKDATNVAAAFEEAVRR  169 (170)
T ss_pred             CcEEEEEECcccc-ccccCHHHHHHHHHHCCCCeEEEEECCCCCCHHHHHHHHHhh
Confidence            3456789999996 57888999999999998 479999999999999999999875

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

>cd04130 Wrch_1 Wrch-1 subfamily

Probab=99.16  E-value=1e-10  Score=72.85  Aligned_cols=55  Identities=22%  Similarity=0.253  Sum_probs=47.3

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+++||.|+..            .+.|+.+++..+++.++. .|+|+||++|.||+++|..++.
T Consensus       104 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~a~~~~~~~~~e~Sa~~~~~v~~lf~~~~~  171 (173)
T cd04130         104 KAPIILVGTQADLRTDVNVLIQLARYGEKPVSQSRAKALAEKIGACEYIECSALTQKNLKEVFDTAIL  171 (173)
T ss_pred             CCCEEEEeeChhhccChhHHHHHhhcCCCCcCHHHHHHHHHHhCCCeEEEEeCCCCCCHHHHHHHHHh
Confidence            345677899999853            578899999999999998 8999999999999999988764

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,

>cd04113 Rab4 Rab4 subfamily

Probab=99.16  E-value=1.1e-10  Score=71.65  Aligned_cols=55  Identities=29%  Similarity=0.334  Sum_probs=50.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+++||.|+...+.+..+++..++..++..|+++||+++.||+++|..+++.
T Consensus       106 ~~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~~~~~  160 (161)
T cd04113         106 IVVILVGNKSDLADQREVTFLEASRFAQENGLLFLETSALTGENVEEAFLKCARS  160 (161)
T ss_pred             CeEEEEEEchhcchhccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHh
Confidence            4567789999998778899999999999999999999999999999999999875

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

>cd04101 RabL4 RabL4 (Rab-like4) subfamily

Probab=99.15  E-value=1.6e-10  Score=70.98  Aligned_cols=56  Identities=21%  Similarity=0.296  Sum_probs=49.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+|+||+|+...+.+...++..++..++++|+++||++|.||+++|..+++.+
T Consensus       108 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  163 (164)
T cd04101         108 MPGVLVGNKMDLADKAEVTDAQAQAFAQANQLKFFKTSALRGVGYEEPFESLARAF  163 (164)
T ss_pred             CCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEeCCCCCChHHHHHHHHHHh
Confidence            45677899999987788888888889888899999999999999999999998764

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.

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

Probab=99.14  E-value=1.9e-10  Score=71.39  Aligned_cols=56  Identities=20%  Similarity=0.196  Sum_probs=45.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+. .+.+.. ++.++++..+..|||+||++|.||+++|..+++.+++
T Consensus       105 ~piiiv~nK~Dl~-~~~~~~-~~~~~~~~~~~~~~e~Sa~~~~~v~~~f~~l~~~~~~  160 (166)
T cd00877         105 IPIVLCGNKVDIK-DRKVKA-KQITFHRKKNLQYYEISAKSNYNFEKPFLWLARKLLG  160 (166)
T ss_pred             CcEEEEEEchhcc-cccCCH-HHHHHHHHcCCEEEEEeCCCCCChHHHHHHHHHHHHh
Confidence            4566779999997 344543 4567888888999999999999999999999998875

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

>cd01864 Rab19 Rab19 subfamily

Probab=99.13  E-value=2.2e-10  Score=70.69  Aligned_cols=55  Identities=33%  Similarity=0.312  Sum_probs=48.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+|+||.|+...+.+..+++..+++.++. .++|+||++|.||+++|..+++.
T Consensus       109 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~~~~~l~~~  164 (165)
T cd01864         109 VVLLLIGNKCDLEEQREVLFEEACTLAEKNGMLAVLETSAKESQNVEEAFLLMATE  164 (165)
T ss_pred             CcEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEEECCCCCCHHHHHHHHHHh
Confidence            34667899999988788899999999999886 68999999999999999999864

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.

>cd04139 RalA_RalB RalA/RalB subfamily

Probab=99.12  E-value=3.9e-10  Score=68.98  Aligned_cols=57  Identities=35%  Similarity=0.491  Sum_probs=49.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||.|+...+.+...+...+++.++.+|+++||++|.||+++|..+++.+.
T Consensus       106 ~piiiv~NK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  162 (164)
T cd04139         106 VPLLLVGNKCDLEDKRQVSSEEAANLARQWGVPYVETSAKTRQNVEKAFYDLVREIR  162 (164)
T ss_pred             CCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            445678999999766677888888999999999999999999999999999987664

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

>smart00175 RAB Rab subfamily of small GTPases

Probab=99.08  E-value=5.5e-10  Score=68.41  Aligned_cols=58  Identities=41%  Similarity=0.472  Sum_probs=51.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+++||.|+...+.+..+.+..+++.++++|+|+||++|.|++++|..+++.+.+
T Consensus       106 ~pivvv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~i~~l~~~i~~~~~~  163 (164)
T smart00175      106 VVIMLVGNKSDLEDQRQVSREEAEAFAEEHGLPFFETSAKTNTNVEEAFEELAREILK  163 (164)
T ss_pred             CeEEEEEEchhcccccCCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            4567789999998777888899999999999999999999999999999999988754

Rab GTPases are implicated in vesicle trafficking.

>cd01870 RhoA_like RhoA-like subfamily

Probab=99.03  E-value=1.1e-09  Score=67.95  Aligned_cols=57  Identities=25%  Similarity=0.286  Sum_probs=46.8

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+..            .+.+...+++++++..+. .|+++||++|.||+++|..+++.+
T Consensus       105 ~~piilv~nK~Dl~~~~~~~~~i~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~  174 (175)
T cd01870         105 NVPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANKIGAFGYMECSAKTKEGVREVFEMATRAA  174 (175)
T ss_pred             CCCEEEEeeChhcccChhhhhhhhhccCCCccHHHHHHHHHHcCCcEEEEeccccCcCHHHHHHHHHHHh
Confidence            345667899999853            245778899999998885 799999999999999999998654

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

>cd04143 Rhes_like Rhes_like subfamily

Probab=99.03  E-value=1.2e-09  Score=72.25  Aligned_cols=57  Identities=21%  Similarity=0.114  Sum_probs=48.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ...+.||+||+|+...+.+..+++.+++.. .+..||++||++|.||+++|..+++.+
T Consensus       113 ~~piIivgNK~Dl~~~~~v~~~ei~~~~~~~~~~~~~evSAktg~gI~elf~~L~~~~  170 (247)
T cd04143         113 KIPMVICGNKADRDFPREVQRDEVEQLVGGDENCAYFEVSAKKNSNLDEMFRALFSLA  170 (247)
T ss_pred             CCcEEEEEECccchhccccCHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            456678899999987788999998888764 467899999999999999999999855

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

>cd01892 Miro2 Miro2 subfamily

Probab=99.02  E-value=5.5e-10  Score=69.55  Aligned_cols=58  Identities=12%  Similarity=0.144  Sum_probs=48.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||+|+.+.+.+...++..+++.+++. ++++||++|.||+++|..+++.++
T Consensus       108 ~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~lf~~l~~~~~  166 (169)
T cd01892         108 EIPCLFVAAKADLDEQQQRYEVQPDEFCRKLGLPPPLHFSSKLGDSSNELFTKLATAAQ  166 (169)
T ss_pred             CCeEEEEEEcccccccccccccCHHHHHHHcCCCCCEEEEeccCccHHHHHHHHHHHhh
Confidence            3456788999999766666666778889998874 799999999999999999998765

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.

>cd01860 Rab5_related Rab5-related subfamily

Probab=99.01  E-value=1.7e-09  Score=66.30  Aligned_cols=55  Identities=33%  Similarity=0.381  Sum_probs=49.2

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+.+++||.|+...+.++.+++..++..+++.++++||++|.||+++|..+++.+
T Consensus       108 ~iivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~l  162 (163)
T cd01860         108 IIALVGNKADLESKRQVSTEEAQEYADENGLLFFETSAKTGENVNELFTEIAKKL  162 (163)
T ss_pred             eEEEEEECccccccCcCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHh
Confidence            3566789999987788889999999999999999999999999999999998865

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

>cd00876 Ras Ras family

Probab=99.01  E-value=1.2e-09  Score=66.45  Aligned_cols=56  Identities=36%  Similarity=0.519  Sum_probs=50.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||+|+...+.++.+++..++..++.+|+++||+++.||+++|..+++.
T Consensus       104 ~~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~S~~~~~~i~~l~~~l~~~  159 (160)
T cd00876         104 DIPIVLVGNKCDLENERQVSKEEGKALAKEWGCPFIETSAKDNINIDEVFKLLVRE  159 (160)
T ss_pred             CCcEEEEEECCcccccceecHHHHHHHHHHcCCcEEEeccCCCCCHHHHHHHHHhh
Confidence            45667889999998778888999999999999999999999999999999999865

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

>TIGR02528 EutP ethanolamine utilization protein, EutP

Probab=99.01  E-value=1.3e-09  Score=65.62  Aligned_cols=52  Identities=17%  Similarity=0.100  Sum_probs=43.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~   59 (101)
                      .++.+++||+|+.+ +.+..+++.++++.++. +||++||++|.||+++|..++
T Consensus        89 ~p~ilv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~  141 (142)
T TIGR02528        89 KPVIGLVTKIDLAE-ADVDIERAKELLETAGAEPIFEISSVDEQGLEALVDYLN  141 (142)
T ss_pred             CCeEEEEEeeccCC-cccCHHHHHHHHHHcCCCcEEEEecCCCCCHHHHHHHHh
Confidence            45677899999864 45667788888888886 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.

>cd04114 Rab30 Rab30 subfamily

Probab=99.00  E-value=1.6e-09  Score=66.89  Aligned_cols=56  Identities=29%  Similarity=0.335  Sum_probs=48.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+++||.|+.+.+.+..+.+..+.+.....++++||++|.|++++|..+++.+
T Consensus       113 ~~~i~v~NK~D~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~  168 (169)
T cd04114         113 VITILVGNKIDLAERREVSQQRAEEFSDAQDMYYLETSAKESDNVEKLFLDLACRL  168 (169)
T ss_pred             CeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHh
Confidence            34577899999987788888888888888888899999999999999999998764

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.

>cd04137 RheB Rheb (Ras Homolog Enriched in Brain) subfamily

Probab=99.00  E-value=2.3e-09  Score=66.97  Aligned_cols=60  Identities=32%  Similarity=0.432  Sum_probs=52.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.+++||+|+...+.+..++...+++.++.+++++||+++.||+++|..+++.+...
T Consensus       106 ~~p~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  165 (180)
T cd04137         106 SVPIVLVGNKSDLHTQRQVSTEEGKELAESWGAAFLESSARENENVEEAFELLIEEIEKV  165 (180)
T ss_pred             CCCEEEEEEchhhhhcCccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHh
Confidence            345678899999987777888888889998899999999999999999999999887654

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

>cd04124 RabL2 RabL2 subfamily

Probab=98.99  E-value=1.9e-09  Score=66.49  Aligned_cols=55  Identities=13%  Similarity=0.050  Sum_probs=45.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.+++||.|+..  .+ .+++..+++.+++++|++||++|.||+++|+.+++.+++
T Consensus       105 ~p~ivv~nK~Dl~~--~~-~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  159 (161)
T cd04124         105 IPCIVVANKIDLDP--SV-TQKKFNFAEKHNLPLYYVSAADGTNVVKLFQDAIKLAVS  159 (161)
T ss_pred             CcEEEEEECccCch--hH-HHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            45678899999853  22 355677888888999999999999999999999988775

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

>cd04123 Rab21 Rab21 subfamily

Probab=98.98  E-value=2.3e-09  Score=65.33  Aligned_cols=56  Identities=27%  Similarity=0.319  Sum_probs=49.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+++||+|+...+.+..++...+++..+..+|++||+++.|++++|..+++.+
T Consensus       106 ~piiiv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~gi~~~~~~l~~~~  161 (162)
T cd04123         106 ISLVIVGNKIDLERQRVVSKSEAEEYAKSVGAKHFETSAKTGKGIEELFLSLAKRM  161 (162)
T ss_pred             CeEEEEEECcccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34567799999987788888889999999999999999999999999999998764

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

>cd01862 Rab7 Rab7 subfamily

Probab=98.97  E-value=3.4e-09  Score=65.41  Aligned_cols=59  Identities=36%  Similarity=0.360  Sum_probs=51.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.+++||+|+...+.++.++...+++..+ .++|++||++|.||+++|..+++.+++.
T Consensus       110 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~i~~~~~~~  169 (172)
T cd01862         110 FPFVVLGNKIDLEEKRQVSTKKAQQWCQSNGNIPYFETSAKEAINVEQAFETIARKALEQ  169 (172)
T ss_pred             ceEEEEEECcccccccccCHHHHHHHHHHcCCceEEEEECCCCCCHHHHHHHHHHHHHhc
Confidence            4556789999997667788888888988888 7899999999999999999999888765

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-

>cd01861 Rab6 Rab6 subfamily

Probab=98.96  E-value=2.5e-09  Score=65.41  Aligned_cols=55  Identities=35%  Similarity=0.339  Sum_probs=49.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+++||.|+...+.+..++...+++..+..++++||+++.||+++|..+++.
T Consensus       106 ~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~  160 (161)
T cd01861         106 VIIVLVGNKTDLSDKRQVSTEEGEKKAKELNAMFIETSAKAGHNVKELFRKIASA  160 (161)
T ss_pred             CEEEEEEEChhccccCccCHHHHHHHHHHhCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            5577889999997778888999999999999999999999999999999998764

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

>cd04158 ARD1 ARD1 subfamily

Probab=98.95  E-value=2e-09  Score=66.87  Aligned_cols=57  Identities=14%  Similarity=0.029  Sum_probs=45.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC------CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG------IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~------~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.|++||.|+.  +.++.+++..++...+      ..|+++|||+|.||+++|..+++.+...
T Consensus       101 ~piilv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~~f~~l~~~~~~~  163 (169)
T cd04158         101 ALLLIFANKQDVA--GALSVEEMTELLSLHKLCCGRSWYIQGCDARSGMGLYEGLDWLSRQLVAA  163 (169)
T ss_pred             CCEEEEEeCcCcc--cCCCHHHHHHHhCCccccCCCcEEEEeCcCCCCCCHHHHHHHHHHHHhhc
Confidence            4567789999996  3577888888775432      2688999999999999999999877654

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

>cd01863 Rab18 Rab18 subfamily

Probab=98.92  E-value=4.8e-09  Score=64.22  Aligned_cols=54  Identities=28%  Similarity=0.268  Sum_probs=46.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+++||.|+. .+.+..+++..++..++++|+++||++|.||+++|..+.+.
T Consensus       107 ~~~~iv~nK~D~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~~~~~  160 (161)
T cd01863         107 IVKMLVGNKIDKE-NREVTREEGLKFARKHNMLFIETSAKTRDGVQQAFEELVEK  160 (161)
T ss_pred             CcEEEEEECCccc-ccccCHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHh
Confidence            4457789999996 45677788999999999999999999999999999998764

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

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

Probab=98.91  E-value=1.9e-09  Score=66.49  Aligned_cols=55  Identities=11%  Similarity=-0.025  Sum_probs=43.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+...+.+..  ...++...+.++|++||++|.||+++|..+++.+
T Consensus       113 ~~pvilv~NK~Dl~~~~~~~~--~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  167 (168)
T cd01897         113 NKPVIVVLNKIDLLTFEDLSE--IEEEEELEGEEVLKISTLTEEGVDEVKNKACELL  167 (168)
T ss_pred             cCCeEEEEEccccCchhhHHH--HHHhhhhccCceEEEEecccCCHHHHHHHHHHHh
Confidence            456778899999975444432  5566666678899999999999999999998765

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.

>TIGR00157 ribosome small subunit-dependent GTPase A

Probab=98.90  E-value=1.9e-09  Score=71.20  Aligned_cols=54  Identities=15%  Similarity=0.123  Sum_probs=43.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.||+||+||.+.+.+..+.+..|+ .+|+.+|++||++|.||+++|..++.
T Consensus        67 ~i~~vIV~NK~DL~~~~~~~~~~~~~~~-~~g~~v~~~SAktg~gi~eLf~~l~~  120 (245)
T TIGR00157        67 NIEPIIVLNKIDLLDDEDMEKEQLDIYR-NIGYQVLMTSSKNQDGLKELIEALQN  120 (245)
T ss_pred             CCCEEEEEECcccCCCHHHHHHHHHHHH-HCCCeEEEEecCCchhHHHHHhhhcC
Confidence            4567789999999766666656666665 47899999999999999999998864

The Aquifex aeolicus ortholog is split into consecutive open reading frames. Consequently, this model was build in fragment mode (-f option).

>KOG0393|consensus

Probab=98.89  E-value=2.2e-09  Score=68.56  Aligned_cols=59  Identities=24%  Similarity=0.292  Sum_probs=49.1

Q ss_pred             CCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.|||.|.||.+            ...|+.+++..+|++.| ..|+|+||++..||.++|+.+++..+..
T Consensus       110 vpiiLVGtk~DLr~d~~~~~~l~~~~~~~Vt~~~g~~lA~~iga~~y~EcSa~tq~~v~~vF~~a~~~~l~~  181 (198)
T KOG0393|consen  110 VPIILVGTKADLRDDPSTLEKLQRQGLEPVTYEQGLELAKEIGAVKYLECSALTQKGVKEVFDEAIRAALRP  181 (198)
T ss_pred             CCEEEEeehHHhhhCHHHHHHHHhccCCcccHHHHHHHHHHhCcceeeeehhhhhCCcHHHHHHHHHHHhcc
Confidence            45556666777642            24799999999999999 5799999999999999999999988864

>cd01893 Miro1 Miro1 subfamily

Probab=98.87  E-value=5.5e-09  Score=64.61  Aligned_cols=59  Identities=17%  Similarity=0.148  Sum_probs=43.3

Q ss_pred             cCCCcEEeecCCCCCCCCC--CHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV--SRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.+..  ..++...+++.++  ..|+++||++|.||+++|..+++.+++
T Consensus       103 ~~pviiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~~~~v~~lf~~~~~~~~~  165 (166)
T cd01893         103 KVPIILVGNKSDLRDGSSQAGLEEEMLPIMNEFREIETCVECSAKTLINVSEVFYYAQKAVLH  165 (166)
T ss_pred             CCCEEEEEEchhcccccchhHHHHHHHHHHHHHhcccEEEEeccccccCHHHHHHHHHHHhcC
Confidence            4566778999999765443  2344444555543  379999999999999999999887653

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.

>cd04147 Ras_dva Ras-dva subfamily

Probab=98.86  E-value=1.2e-08  Score=64.98  Aligned_cols=58  Identities=22%  Similarity=0.166  Sum_probs=46.5

Q ss_pred             cCCCcEEeecCCCCC-CCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS-MPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~-~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||.|+.. .+.+..+++.+.+. .++..|+++||++|.||+++|..+++.+.
T Consensus       104 ~~piilv~NK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  163 (198)
T cd04147         104 FVPIVVVGNKADSLEEERQVPAKDALSTVELDWNCGFVETSAKDNENVLEVFKELLRQAN  163 (198)
T ss_pred             CCcEEEEEEccccccccccccHHHHHHHHHhhcCCcEEEecCCCCCCHHHHHHHHHHHhh
Confidence            456788899999865 46677766665554 45688999999999999999999998765

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.

>cd00157 Rho Rho (Ras homology) family

Probab=98.85  E-value=7.2e-09  Score=63.88  Aligned_cols=54  Identities=26%  Similarity=0.286  Sum_probs=45.6

Q ss_pred             CCCcEEeecCCCCCCC-----------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMP-----------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~-----------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ..+.+|+||+|+...+           .+..+++..++..++. .|+++||++|.||+++|..+++
T Consensus       105 ~p~ivv~nK~Dl~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~  170 (171)
T cd00157         105 VPIILVGTKIDLRDDENTLKKLEKGKEPITPEEGEKLAKEIGAIGYMECSALTQEGVKEVFEEAIR  170 (171)
T ss_pred             CCEEEEEccHHhhhchhhhhhcccCCCccCHHHHHHHHHHhCCeEEEEeecCCCCCHHHHHHHHhh
Confidence            5567889999986433           4578889999999997 8999999999999999998875

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

>PRK15467 ethanolamine utilization protein EutP; Provisional

Probab=98.84  E-value=1e-08  Score=63.37  Aligned_cols=57  Identities=14%  Similarity=0.142  Sum_probs=45.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--eEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--KFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+++||.|+.+   ...+...++++..+.  ++|++||++|.||+++|..+++.+.+.
T Consensus        91 ~~~ii~v~nK~Dl~~---~~~~~~~~~~~~~~~~~p~~~~Sa~~g~gi~~l~~~l~~~~~~~  149 (158)
T PRK15467         91 SKRQIAVISKTDMPD---ADVAATRKLLLETGFEEPIFELNSHDPQSVQQLVDYLASLTKQE  149 (158)
T ss_pred             CCCeEEEEEccccCc---ccHHHHHHHHHHcCCCCCEEEEECCCccCHHHHHHHHHHhchhh
Confidence            445677899999854   346677788888874  899999999999999999998766543

>cd04162 Arl9_Arfrp2_like Arl9/Arfrp2-like subfamily

Probab=98.83  E-value=1.3e-09  Score=67.52  Aligned_cols=54  Identities=15%  Similarity=0.014  Sum_probs=42.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCH----HHHHHHHHHhCCeEEEeccCC------CCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR----ERGEQLAIEYGIKFMETSAKN------SINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~~~~~etSAk~------~~~V~~~F~~~~   59 (101)
                      +..+.+|+||.|+...+.++.    .++..++++.++.||+|||++      ++||.++|..+.
T Consensus        99 ~~piilv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~s~~~~~~v~~~~~~~~  162 (164)
T cd04162          99 DLPLVVLANKQDLPAARSVQEIHKELELEPIARGRRWILQGTSLDDDGSPSRMEAVKDLLSQLI  162 (164)
T ss_pred             CCcEEEEEeCcCCcCCCCHHHHHHHhCChhhcCCCceEEEEeeecCCCChhHHHHHHHHHHHHh
Confidence            345678899999976665543    345677777888999999999      999999999875

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.

>cd04149 Arf6 Arf6 subfamily

Probab=98.83  E-value=7.4e-09  Score=64.44  Aligned_cols=53  Identities=4%  Similarity=-0.117  Sum_probs=40.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-----hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-----YGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-----~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.||+||+|+..  .++.+++..+...     ....+|++|||+|.||+++|..|++
T Consensus       110 ~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~SAk~g~gv~~~~~~l~~  167 (168)
T cd04149         110 DALLLVFANKQDLPD--AMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLSS  167 (168)
T ss_pred             CCcEEEEEECcCCcc--CCCHHHHHHHcCCCccCCCcEEEEEeeCCCCCChHHHHHHHhc
Confidence            356778899999864  4667777766432     2246899999999999999998864

Arf6 (ADP ribosylation factor 6) proteins localize to the plasma membrane, where they perform a wide variety of functions. In its active, GTP-bound form, Arf6 is involved in cell spreading, Rac-induced formation of plasma membrane ruffles, cell migration, wound healing, and Fc-mediated phagocytosis. Arf6 appears to change the actin structure at the plasma membrane by activating Rac, a Rho family protein involved in membrane ruffling. Arf6 is required for and enhances Rac formation of ruffles. Arf6 can regulate dendritic branching in hippocampal neurons, and in yeast it localizes to the growing bud, where it plays a role in polarized growth and bud site selection. In leukocytes, Arf6 is required for chemokine-stimulated migration across endothelial cells. Arf6 also plays a role in down-regulation of beta2-adrenergic receptors and luteinizing hormone receptors by facilitating the release of sequestered arrestin to allow endocytosis. Arf6 is believed t

>cd00154 Rab Rab family

Probab=98.79  E-value=1.8e-08  Score=60.73  Aligned_cols=53  Identities=38%  Similarity=0.390  Sum_probs=46.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      .++.+++||.|+.....+..++...++..++.+|+++||+++.||+++|..++
T Consensus       106 ~p~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~i~~~~~~i~  158 (159)
T cd00154         106 IPIILVGNKIDLEDQRQVSTEEAQQFAKENGLLFFETSAKTGENVEELFQSLA  158 (159)
T ss_pred             CcEEEEEEcccccccccccHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHh
Confidence            56677899999975677888999999999999999999999999999998875

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

>cd04154 Arl2 Arl2 subfamily

Probab=98.76  E-value=1.8e-08  Score=62.75  Aligned_cols=53  Identities=9%  Similarity=-0.058  Sum_probs=39.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+|+||+|+...  ...++...+.+     ..+++||++||++|.||+++|..++.
T Consensus       115 ~~p~iiv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~  172 (173)
T cd04154         115 GATLLILANKQDLPGA--LSEEEIREALELDKISSHHWRIQPCSAVTGEGLLQGIDWLVD  172 (173)
T ss_pred             CCCEEEEEECcccccC--CCHHHHHHHhCccccCCCceEEEeccCCCCcCHHHHHHHHhc
Confidence            4567788999998643  35555555543     23568999999999999999988763

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.

>KOG4423|consensus

Probab=98.75  E-value=2.6e-08  Score=63.07  Aligned_cols=64  Identities=20%  Similarity=0.167  Sum_probs=49.6

Q ss_pred             ccCCCcEE--eecCCCCCCCCCC-HHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          5 INTKSKYI--EVPNFVSSMPQVS-RERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         5 ~~~~~~lv--~nk~Dl~~~~~v~-~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .|+++++|  .||||.+..-... .....+|.+++|. .|+|||||.+.||+|+-+.+++.++.+...
T Consensus       132 ng~Pv~~vllankCd~e~~a~~~~~~~~d~f~kengf~gwtets~Kenkni~Ea~r~lVe~~lvnd~q  199 (229)
T KOG4423|consen  132 NGTPVPCVLLANKCDQEKSAKNEATRQFDNFKKENGFEGWTETSAKENKNIPEAQRELVEKILVNDEQ  199 (229)
T ss_pred             CCCcchheeccchhccChHhhhhhHHHHHHHHhccCccceeeeccccccChhHHHHHHHHHHHhhccC
Confidence            36666555  6899987533332 4677788999995 599999999999999999999998876533

>PRK04213 GTP-binding protein; Provisional

Probab=98.75  E-value=3.4e-08  Score=62.81  Aligned_cols=54  Identities=13%  Similarity=0.048  Sum_probs=42.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC---------eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI---------KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~---------~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||.|+.+.+   .+.+..+++.+++         ++|++||++| ||+++|..+++.+.
T Consensus       130 ~~p~iiv~NK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g-gi~~l~~~l~~~~~  192 (201)
T PRK04213        130 GIPPIVAVNKMDKIKNR---DEVLDEIAERLGLYPPWRQWQDIIAPISAKKG-GIEELKEAIRKRLH  192 (201)
T ss_pred             CCCeEEEEECccccCcH---HHHHHHHHHHhcCCccccccCCcEEEEecccC-CHHHHHHHHHHhhc
Confidence            55678889999986433   4466777777775         4799999999 99999999987654

>cd00879 Sar1 Sar1 subfamily

Probab=98.74  E-value=1.9e-08  Score=63.39  Aligned_cols=54  Identities=20%  Similarity=0.043  Sum_probs=42.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh----------------CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY----------------GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----------------~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||.|+.  +.++.++.+.+...+                ...+|+|||++|.||+++|..+++.
T Consensus       120 ~~pvivv~NK~Dl~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~e~~~~l~~~  189 (190)
T cd00879         120 NVPFLILGNKIDLP--GAVSEEELRQALGLYGTTTGKGVSLKVSGIRPIEVFMCSVVKRQGYGEAFRWLSQY  189 (190)
T ss_pred             CCCEEEEEeCCCCC--CCcCHHHHHHHhCcccccccccccccccCceeEEEEEeEecCCCChHHHHHHHHhh
Confidence            45677789999986  367777777776531                2468999999999999999999764

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.

>PRK12299 obgE GTPase CgtA; Reviewed

Probab=98.73  E-value=4e-08  Score=67.59  Aligned_cols=59  Identities=8%  Similarity=-0.027  Sum_probs=47.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..++.+|+||+|+.+...+..++...+++..+.++|++||+++.||+++|..+++.+.+
T Consensus       271 ~kp~IIV~NKiDL~~~~~~~~~~~~~~~~~~~~~i~~iSAktg~GI~eL~~~L~~~l~~  329 (335)
T PRK12299        271 DKPRILVLNKIDLLDEEEEREKRAALELAALGGPVFLISAVTGEGLDELLRALWELLEE  329 (335)
T ss_pred             cCCeEEEEECcccCCchhHHHHHHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHHHh
Confidence            34567889999997655555555666666677899999999999999999999887654

>PLN00223 ADP-ribosylation factor; Provisional

Probab=98.71  E-value=5.6e-08  Score=61.26  Aligned_cols=54  Identities=9%  Similarity=0.092  Sum_probs=39.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--------eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--------KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--------~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.|++||.|+.+.  ++.++   +++..++        .++++||++|+||+++|+.++..+.+
T Consensus       118 ~~piilv~NK~Dl~~~--~~~~~---~~~~l~l~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~~~  179 (181)
T PLN00223        118 DAVLLVFANKQDLPNA--MNAAE---ITDKLGLHSLRQRHWYIQSTCATSGEGLYEGLDWLSNNIAN  179 (181)
T ss_pred             CCCEEEEEECCCCCCC--CCHHH---HHHHhCccccCCCceEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            3557788999998643  33333   4444432        35689999999999999999987764

>cd01890 LepA LepA subfamily

Probab=98.70  E-value=5.2e-08  Score=60.62  Aligned_cols=55  Identities=20%  Similarity=0.154  Sum_probs=41.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+.+.+  ..+...++++.+++.   +|++||++|.||+++|..+++.+
T Consensus       119 ~~~iiiv~NK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~  176 (179)
T cd01890         119 NLEIIPVINKIDLPSAD--PERVKQQIEDVLGLDPSEAILVSAKTGLGVEDLLEAIVERI  176 (179)
T ss_pred             CCCEEEEEECCCCCcCC--HHHHHHHHHHHhCCCcccEEEeeccCCCCHHHHHHHHHhhC
Confidence            45567889999986422  233445677777763   89999999999999999998754

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.

>PTZ00132 GTP-binding nuclear protein Ran; Provisional

Probab=98.70  E-value=7.6e-08  Score=61.98  Aligned_cols=56  Identities=21%  Similarity=0.259  Sum_probs=45.0

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+++||.|+.+ +.+..+. ..+++..++.|+++||++|.||+++|..+++.+...
T Consensus       115 ~i~lv~nK~Dl~~-~~~~~~~-~~~~~~~~~~~~e~Sa~~~~~v~~~f~~ia~~l~~~  170 (215)
T PTZ00132        115 PIVLVGNKVDVKD-RQVKARQ-ITFHRKKNLQYYDISAKSNYNFEKPFLWLARRLTND  170 (215)
T ss_pred             CEEEEEECccCcc-ccCCHHH-HHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhhc
Confidence            3456899999864 4444443 467888889999999999999999999999988764

>cd01898 Obg Obg subfamily

Probab=98.64  E-value=6.8e-08  Score=59.50  Aligned_cols=55  Identities=15%  Similarity=0.044  Sum_probs=41.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+|+||+|+.+...+ .+....+... .+.+++++||+++.||+++|..+++.
T Consensus       114 ~~p~ivv~NK~Dl~~~~~~-~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~i~~~  169 (170)
T cd01898         114 EKPRIVVLNKIDLLDEEEL-FELLKELLKELWGKPVFPISALTGEGLDELLRKLAEL  169 (170)
T ss_pred             ccccEEEEEchhcCCchhh-HHHHHHHHhhCCCCCEEEEecCCCCCHHHHHHHHHhh
Confidence            4566788999999654444 3444455555 36789999999999999999998764

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.

>cd04150 Arf1_5_like Arf1-Arf5-like subfamily

Probab=98.64  E-value=1.1e-08  Score=63.02  Aligned_cols=52  Identities=10%  Similarity=0.033  Sum_probs=35.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHH-HHHHHH----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRER-GEQLAI----EYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~----~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      .++.|++||.|+.+.  ++.++ ...++.    ..++.++++|||+|.||+++|..+++
T Consensus       102 ~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sak~g~gv~~~~~~l~~  158 (159)
T cd04150         102 AVLLVFANKQDLPNA--MSAAEVTDKLGLHSLRNRNWYIQATCATSGDGLYEGLDWLSN  158 (159)
T ss_pred             CCEEEEEECCCCCCC--CCHHHHHHHhCccccCCCCEEEEEeeCCCCCCHHHHHHHHhc
Confidence            566788999999642  33333 333321    12345789999999999999998763

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

>KOG4252|consensus

Probab=98.62  E-value=4.9e-08  Score=61.66  Aligned_cols=60  Identities=22%  Similarity=0.256  Sum_probs=54.3

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      ..+|.||+||.++..+...+++.+|+.....++.||+|...||..+|..++..+.+....
T Consensus       127 tV~vqNKIDlveds~~~~~evE~lak~l~~RlyRtSvked~NV~~vF~YLaeK~~q~~kq  186 (246)
T KOG4252|consen  127 TVFVQNKIDLVEDSQMDKGEVEGLAKKLHKRLYRTSVKEDFNVMHVFAYLAEKLTQQKKQ  186 (246)
T ss_pred             eEEeeccchhhHhhhcchHHHHHHHHHhhhhhhhhhhhhhhhhHHHHHHHHHHHHHHHHH
Confidence            356778999998899999999999999999999999999999999999999988876544

>cd04156 ARLTS1 ARLTS1 subfamily

Probab=98.61  E-value=3.7e-08  Score=60.21  Aligned_cols=53  Identities=13%  Similarity=0.073  Sum_probs=37.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH------HHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE------QLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~------~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||+|+...  ...++..      .++...+.+++++||++|.||+++|+.+++
T Consensus       101 ~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~i~~  159 (160)
T cd04156         101 GVPVVLLANKQDLPGA--LTAEEITRRFKLKKYCSDRDWYVQPCSAVTGEGLAEAFRKLAS  159 (160)
T ss_pred             CCCEEEEEECcccccC--cCHHHHHHHcCCcccCCCCcEEEEecccccCCChHHHHHHHhc
Confidence            5667888999998532  2233332      122223457999999999999999998864

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

>cd04152 Arl4_Arl7 Arl4/Arl7 subfamily

Probab=98.61  E-value=2.1e-07  Score=58.60  Aligned_cols=59  Identities=10%  Similarity=-0.025  Sum_probs=43.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh------CCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY------GIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~------~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +..+.+++||.|+..  .+..++...+....      +.+++++||++|.||+++|..+++.+.+..
T Consensus       109 ~~p~iiv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gi~~l~~~l~~~l~~~~  173 (183)
T cd04152         109 GVPVLVLANKQDLPN--ALSVSEVEKLLALHELSASTPWHVQPACAIIGEGLQEGLEKLYEMILKRR  173 (183)
T ss_pred             CCcEEEEEECcCccc--cCCHHHHHHHhCccccCCCCceEEEEeecccCCCHHHHHHHHHHHHHHHH
Confidence            455678899999863  35555555554321      245889999999999999999999887543

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.

>PTZ00133 ADP-ribosylation factor; Provisional

Probab=98.60  E-value=1.8e-07  Score=58.94  Aligned_cols=57  Identities=9%  Similarity=-0.025  Sum_probs=38.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.|++||.|+.+  .+..++.....     ......++++||++|.||+++|..+++.+.++
T Consensus       119 ~piilv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~Sa~tg~gv~e~~~~l~~~i~~~  180 (182)
T PTZ00133        119 AVLLVFANKQDLPN--AMSTTEVTEKLGLHSVRQRNWYIQGCCATTAQGLYEGLDWLSANIKKS  180 (182)
T ss_pred             CCEEEEEeCCCCCC--CCCHHHHHHHhCCCcccCCcEEEEeeeCCCCCCHHHHHHHHHHHHHHh
Confidence            45678899999853  33333322211     11123467999999999999999999877654

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

Probab=98.58  E-value=1.9e-07  Score=56.68  Aligned_cols=55  Identities=11%  Similarity=-0.004  Sum_probs=44.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||.|+.+...+..+ ...++..++.++|++||+++.|++++|..+.+.
T Consensus       101 ~~~~iiv~NK~Dl~~~~~~~~~-~~~~~~~~~~~~~~iSa~~~~~~~~l~~~l~~~  155 (158)
T cd01879         101 GLPVVVALNMIDEAEKRGIKID-LDKLSELLGVPVVPTSARKGEGIDELKDAIAEL  155 (158)
T ss_pred             CCCEEEEEehhhhcccccchhh-HHHHHHhhCCCeEEEEccCCCCHHHHHHHHHHH
Confidence            4567788999999765555443 457888889999999999999999999888764

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.

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

Probab=98.56  E-value=3.6e-08  Score=61.69  Aligned_cols=54  Identities=6%  Similarity=-0.059  Sum_probs=36.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.||+||.||.+.  .+.++......     ...+.|+++||++|.||+++|..+++.+
T Consensus       115 ~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~~  173 (175)
T smart00177      115 AVILVFANKQDLPDA--MKAAEITEKLGLHSIRDRNWYIQPTCATSGDGLYEGLTWLSNNL  173 (175)
T ss_pred             CcEEEEEeCcCcccC--CCHHHHHHHhCccccCCCcEEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            456788999999642  23333222211     1123477999999999999999887654

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).

>TIGR00101 ureG urease accessory protein UreG

Probab=98.56  E-value=2.2e-07  Score=59.67  Aligned_cols=53  Identities=11%  Similarity=-0.080  Sum_probs=38.1

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHH--hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIE--YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~--~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+++||+|+.+......+...+.++.  .++++|+||||+|.||+++|+.+.+.+
T Consensus       141 ~~~~~k~d~~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~el~~~i~~~~  195 (199)
T TIGR00101       141 LLVINKIDLAPMVGADLGVMERDAKKMRGEKPFIFTNLKTKEGLDTVIDWIEHYA  195 (199)
T ss_pred             EEEEEhhhccccccccHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHhhc
Confidence            46789999874222233444445554  347899999999999999999998654

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.

>cd04157 Arl6 Arl6 subfamily

Probab=98.55  E-value=4e-08  Score=60.04  Aligned_cols=53  Identities=6%  Similarity=-0.022  Sum_probs=35.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH---HHHH--HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE---QLAI--EYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~---~~a~--~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+++||.|+....  ..++..   .++.  .....+|++||++|.||+++|..+++
T Consensus       104 ~~p~iiv~NK~Dl~~~~--~~~~~~~~l~~~~~~~~~~~~~~~Sa~~g~gv~~~~~~l~~  161 (162)
T cd04157         104 RVPILFFANKMDLPDAL--TAVKITQLLGLENIKDKPWHIFASNALTGEGLDEGVQWLQA  161 (162)
T ss_pred             CCCEEEEEeCccccCCC--CHHHHHHHhCCccccCceEEEEEeeCCCCCchHHHHHHHhc
Confidence            45667789999986432  222222   1221  11245899999999999999998864

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

>cd04151 Arl1 Arl1 subfamily

Probab=98.55  E-value=3.4e-08  Score=60.50  Aligned_cols=53  Identities=13%  Similarity=0.036  Sum_probs=36.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHH-HHHH----HHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERG-EQLA----IEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~~~a----~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||.|+.+..  ...+. ..+.    ...+.++|++||++|.||+++|+.+++
T Consensus       100 ~~piiiv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  157 (158)
T cd04151         100 GAVLLVFANKQDMPGAL--SEAEISEKLGLSELKDRTWSIFKTSAIKGEGLDEGMDWLVN  157 (158)
T ss_pred             CCcEEEEEeCCCCCCCC--CHHHHHHHhCccccCCCcEEEEEeeccCCCCHHHHHHHHhc
Confidence            45677889999986432  22222 1221    112346999999999999999999875

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.

>cd04160 Arfrp1 Arfrp1 subfamily

Probab=98.53  E-value=1.8e-07  Score=57.56  Aligned_cols=53  Identities=11%  Similarity=0.031  Sum_probs=40.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-------hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-------YGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-------~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||+|+..  .++.++...+.+.       .+++++++||++|.||+++|..+++
T Consensus       107 ~~p~ilv~NK~D~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~  166 (167)
T cd04160         107 GVPLLILANKQDLPD--ALSVEEIKEVFQDKAEEIGRRDCLVLPVSALEGTGVREGIEWLVE  166 (167)
T ss_pred             CCCEEEEEEcccccc--CCCHHHHHHHhccccccccCCceEEEEeeCCCCcCHHHHHHHHhc
Confidence            567788899999864  4555555555433       2357999999999999999998875

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.

>cd04153 Arl5_Arl8 Arl5/Arl8 subfamily

Probab=98.50  E-value=2.4e-07  Score=57.82  Aligned_cols=52  Identities=8%  Similarity=0.004  Sum_probs=37.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHH-HHHHH----HHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRER-GEQLA----IEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~-~~~~a----~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      .++.+++||.|+.+  .++.++ ...+.    +..+.+++++||++|.||+++|..+++
T Consensus       117 ~p~viv~NK~Dl~~--~~~~~~i~~~l~~~~~~~~~~~~~~~SA~~g~gi~e~~~~l~~  173 (174)
T cd04153         117 AVLLVLANKQDLKG--AMTPAEISESLGLTSIRDHTWHIQGCCALTGEGLPEGLDWIAS  173 (174)
T ss_pred             CCEEEEEECCCCCC--CCCHHHHHHHhCcccccCCceEEEecccCCCCCHHHHHHHHhc
Confidence            45677899999864  234333 23332    234467999999999999999999875

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.

>TIGR00437 feoB ferrous iron transporter FeoB

Probab=98.49  E-value=2.1e-07  Score=68.29  Aligned_cols=56  Identities=14%  Similarity=0.042  Sum_probs=46.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+.+.+.+. .+.+.+++..|+++++|||++|.|++++|+.+++..
T Consensus        99 ~~PiIIVlNK~Dl~~~~~i~-~d~~~L~~~lg~pvv~tSA~tg~Gi~eL~~~i~~~~  154 (591)
T TIGR00437        99 GIPMILALNLVDEAEKKGIR-IDEEKLEERLGVPVVPTSATEGRGIERLKDAIRKAI  154 (591)
T ss_pred             CCCEEEEEehhHHHHhCCCh-hhHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHh
Confidence            55677889999997655565 356788999999999999999999999999998753

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.

>TIGR02729 Obg_CgtA Obg family GTPase CgtA

Probab=98.49  E-value=3.4e-07  Score=62.88  Aligned_cols=56  Identities=13%  Similarity=0.063  Sum_probs=43.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+..||+||+|+..... ..+..+.+++.++..+|++||+++.||+++|..+++.+
T Consensus       273 ~kp~IIV~NK~DL~~~~~-~~~~~~~l~~~~~~~vi~iSAktg~GI~eL~~~I~~~l  328 (329)
T TIGR02729       273 EKPRIVVLNKIDLLDEEE-LAELLKELKKALGKPVFPISALTGEGLDELLYALAELL  328 (329)
T ss_pred             cCCEEEEEeCccCCChHH-HHHHHHHHHHHcCCcEEEEEccCCcCHHHHHHHHHHHh
Confidence            345678899999965432 34455667777788899999999999999999998643

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.

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

Probab=98.49  E-value=8.4e-08  Score=58.56  Aligned_cols=53  Identities=8%  Similarity=-0.141  Sum_probs=37.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+++||+|+....  +.++..+...     ....+|+++||++|.||+++|..+..
T Consensus       100 ~~piiiv~nK~D~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~~~~~l~~  157 (158)
T cd00878         100 GVPLLIFANKQDLPGAL--SVSELIEKLGLEKILGRRWHIQPCSAVTGDGLDEGLDWLLQ  157 (158)
T ss_pred             CCcEEEEeeccCCcccc--CHHHHHHhhChhhccCCcEEEEEeeCCCCCCHHHHHHHHhh
Confidence            45677889999987533  3333333322     23467999999999999999998864

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

>cd04171 SelB SelB subfamily

Probab=98.43  E-value=3.3e-07  Score=55.93  Aligned_cols=53  Identities=11%  Similarity=-0.010  Sum_probs=37.4

Q ss_pred             CCcEEeecCCCCCCCC--CCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQ--VSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ++.+++||.|+.....  ...++..++.+.   .+.+++++||+++.||+++|..+..
T Consensus       106 ~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~  163 (164)
T cd04171         106 RGLVVLTKADLVDEDWLELVEEEIRELLAGTFLADAPIFPVSAVTGEGIEELKEYLDE  163 (164)
T ss_pred             cEEEEEECccccCHHHHHHHHHHHHHHHHhcCcCCCcEEEEeCCCCcCHHHHHHHHhh
Confidence            5678899999864321  122333333333   4578999999999999999988754

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

>cd01878 HflX HflX subfamily

Probab=98.38  E-value=4.2e-07  Score=57.96  Aligned_cols=50  Identities=6%  Similarity=-0.134  Sum_probs=37.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++.+|+||.|+.....+.     .++...+.++|++||+++.||+++|..++..
T Consensus       154 ~~viiV~NK~Dl~~~~~~~-----~~~~~~~~~~~~~Sa~~~~gi~~l~~~L~~~  203 (204)
T cd01878         154 IPMILVLNKIDLLDDEELE-----ERLEAGRPDAVFISAKTGEGLDELLEAIEEL  203 (204)
T ss_pred             CCEEEEEEccccCChHHHH-----HHhhcCCCceEEEEcCCCCCHHHHHHHHHhh
Confidence            4567889999986433221     3444556789999999999999999988764

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.

>cd01894 EngA1 EngA1 subfamily

Probab=98.35  E-value=8.5e-07  Score=53.65  Aligned_cols=51  Identities=8%  Similarity=-0.067  Sum_probs=37.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||.|+.+....     .......+. .++++||+++.||+++|+.+++.
T Consensus       105 ~~piiiv~nK~D~~~~~~~-----~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~  156 (157)
T cd01894         105 KKPVILVVNKVDNIKEEDE-----AAEFYSLGFGEPIPISAEHGRGIGDLLDAILEL  156 (157)
T ss_pred             CCCEEEEEECcccCChHHH-----HHHHHhcCCCCeEEEecccCCCHHHHHHHHHhh
Confidence            4566788999998653222     222334565 78999999999999999999865

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.

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

Probab=98.34  E-value=4.3e-07  Score=56.06  Aligned_cols=56  Identities=16%  Similarity=0.153  Sum_probs=41.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||.|+...+.+............+..++++||+++.|++++|..+.+.
T Consensus       120 ~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gl~~l~~~l~~~  175 (176)
T cd01881         120 AKPVIYVLNKIDLDDAEELEEELVRELALEEGAEVVPISAKTEEGLDELIRAIYEL  175 (176)
T ss_pred             hCCeEEEEEchhcCchhHHHHHHHHHHhcCCCCCEEEEehhhhcCHHHHHHHHHhh
Confidence            45677889999997554444433334444556789999999999999999988753

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

>PRK03003 GTP-binding protein Der; Reviewed

Probab=98.32  E-value=6.3e-07  Score=64.18  Aligned_cols=58  Identities=16%  Similarity=-0.002  Sum_probs=39.1

Q ss_pred             cCCCcEEeecCCCCCCCC---CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ---VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||+||.+...   +..+....++....++++++||++|.||+++|..+++.+.
T Consensus       322 ~~piIiV~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~~SAk~g~gv~~lf~~i~~~~~  382 (472)
T PRK03003        322 GRALVLAFNKWDLVDEDRRYYLEREIDRELAQVPWAPRVNISAKTGRAVDKLVPALETALE  382 (472)
T ss_pred             CCCEEEEEECcccCChhHHHHHHHHHHHhcccCCCCCEEEEECCCCCCHHHHHHHHHHHHH
Confidence            456788899999964211   1111111222223468999999999999999999987653

>TIGR00073 hypB hydrogenase accessory protein HypB

Probab=98.32  E-value=1.9e-06  Score=55.42  Aligned_cols=53  Identities=9%  Similarity=-0.020  Sum_probs=39.3

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+++||.|+.........+.....++.+  .+++++||+++.||+++|..+.+.
T Consensus       151 ~iiv~NK~Dl~~~~~~~~~~~~~~l~~~~~~~~i~~~Sa~~g~gv~~l~~~i~~~  205 (207)
T TIGR00073       151 DLIVINKADLAEAVGFDVEKMKADAKKINPEAEIILMSLKTGEGLDEWLEFLEGQ  205 (207)
T ss_pred             CEEEEEHHHccccchhhHHHHHHHHHHhCCCCCEEEEECCCCCCHHHHHHHHHHh
Confidence            35778999996533333445555555544  789999999999999999998764

HypB is implicated in insertion of nickel into the large subunit of NiFe hydrogenases.

>cd01855 YqeH YqeH

Probab=98.30  E-value=3.5e-06  Score=53.33  Aligned_cols=56  Identities=14%  Similarity=0.067  Sum_probs=40.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCC---eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGI---KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~---~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.. ..........+.     +..+.   .+|.+||+++.||+++|..+...+
T Consensus        61 ~~~~ilV~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSA~~~~gi~eL~~~l~~~l  124 (190)
T cd01855          61 NNPVILVGNKIDLLP-KDKNLVRIKNWLRAKAAAGLGLKPKDVILISAKKGWGVEELINAIKKLA  124 (190)
T ss_pred             CCcEEEEEEchhcCC-CCCCHHHHHHHHHHHHHhhcCCCcccEEEEECCCCCCHHHHHHHHHHHh
Confidence            456678999999864 333444444454     33343   589999999999999999998765

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.

>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=98.30  E-value=1.8e-06  Score=56.67  Aligned_cols=48  Identities=17%  Similarity=0.076  Sum_probs=38.0

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ++.+|+||+|+.     +.+++..++..  ..++++||++|.|++++|+.+.+.+
T Consensus       178 p~iiV~NK~Dl~-----~~~~~~~~~~~--~~~~~~SA~~g~gi~~l~~~i~~~L  225 (233)
T cd01896         178 PCLYVYNKIDLI-----SIEELDLLARQ--PNSVVISAEKGLNLDELKERIWDKL  225 (233)
T ss_pred             eEEEEEECccCC-----CHHHHHHHhcC--CCEEEEcCCCCCCHHHHHHHHHHHh
Confidence            456889999973     45666666654  3589999999999999999998743

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.

>PRK12297 obgE GTPase CgtA; Reviewed

Probab=98.27  E-value=4.6e-06  Score=59.15  Aligned_cols=55  Identities=13%  Similarity=0.169  Sum_probs=44.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+..+|+||+||..    ..+....+++..+.++|.+||+++.||+++|..+++.+.+
T Consensus       274 ~kP~IVV~NK~DL~~----~~e~l~~l~~~l~~~i~~iSA~tgeGI~eL~~~L~~~l~~  328 (424)
T PRK12297        274 ERPQIVVANKMDLPE----AEENLEEFKEKLGPKVFPISALTGQGLDELLYAVAELLEE  328 (424)
T ss_pred             CCcEEEEEeCCCCcC----CHHHHHHHHHHhCCcEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            456678899999843    2345667777777889999999999999999999887654

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

Probab=98.26  E-value=9.9e-07  Score=56.57  Aligned_cols=55  Identities=11%  Similarity=0.047  Sum_probs=37.8

Q ss_pred             CCcEEeecCCCCCCCCC--CHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQV--SRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+.+++||.|+......  ..++...+.+.+   +.++|.+||++|.||+++|..++..+
T Consensus       139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~~~~~~~~~~~i~~vSA~~g~gi~~L~~~l~~~l  198 (203)
T cd01888         139 HIIIVQNKIDLVKEEQALENYEQIKKFVKGTIAENAPIIPISAQLKYNIDVLLEYIVKKI  198 (203)
T ss_pred             cEEEEEEchhccCHHHHHHHHHHHHHHHhccccCCCcEEEEeCCCCCCHHHHHHHHHHhC
Confidence            35678999998642211  123334444432   56799999999999999999987644

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

>cd01895 EngA2 EngA2 subfamily

Probab=98.25  E-value=3.8e-06  Score=51.35  Aligned_cols=56  Identities=7%  Similarity=-0.079  Sum_probs=39.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-HHHHh----CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-LAIEY----GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||.|+.+.+....++..+ +.+..    +.++|++||+++.|++++|..+.+.
T Consensus       113 ~~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~~~~~l~~~  173 (174)
T cd01895         113 GKALVIVVNKWDLVEKDSKTMKEFKKEIRRKLPFLDYAPIVFISALTGQGVDKLFDAIDEV  173 (174)
T ss_pred             CCCEEEEEeccccCCccHHHHHHHHHHHHhhcccccCCceEEEeccCCCCHHHHHHHHHHh
Confidence            56677889999987543233333222 33333    3679999999999999999988753

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.

>PRK15494 era GTPase Era; Provisional

Probab=98.21  E-value=4.1e-06  Score=57.78  Aligned_cols=54  Identities=11%  Similarity=0.004  Sum_probs=40.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ....+|+||+|+.+.   ...++.++....+  ..+|.+||++|.||+++|..++..+.
T Consensus       161 ~p~IlViNKiDl~~~---~~~~~~~~l~~~~~~~~i~~iSAktg~gv~eL~~~L~~~l~  216 (339)
T PRK15494        161 IVPIFLLNKIDIESK---YLNDIKAFLTENHPDSLLFPISALSGKNIDGLLEYITSKAK  216 (339)
T ss_pred             CCEEEEEEhhcCccc---cHHHHHHHHHhcCCCcEEEEEeccCccCHHHHHHHHHHhCC
Confidence            345678999998642   2455666666554  57999999999999999999987553

>cd04155 Arl3 Arl3 subfamily

Probab=98.18  E-value=6.3e-06  Score=50.92  Aligned_cols=49  Identities=10%  Similarity=0.129  Sum_probs=34.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC--------eEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI--------KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~--------~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ..+.+++||.|+....  .   ...+.+..++        .++++||++|.||+++|+.+++
T Consensus       116 ~p~ivv~nK~D~~~~~--~---~~~i~~~l~~~~~~~~~~~~~~~Sa~~~~gi~~~~~~l~~  172 (173)
T cd04155         116 VPVLVFANKQDLATAA--P---AEEIAEALNLHDLRDRTWHIQACSAKTGEGLQEGMNWVCK  172 (173)
T ss_pred             CCEEEEEECCCCccCC--C---HHHHHHHcCCcccCCCeEEEEEeECCCCCCHHHHHHHHhc
Confidence            4455678999985422  2   2233444442        3689999999999999999875

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.

>TIGR03597 GTPase_YqeH ribosome biogenesis GTPase YqeH

Probab=98.18  E-value=5.8e-06  Score=57.51  Aligned_cols=54  Identities=13%  Similarity=0.143  Sum_probs=41.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+|+||+||.. +.+..++...|    ++.+|+   .++.+||++|.||+++|..+.+
T Consensus        90 ~~piilV~NK~DLl~-k~~~~~~~~~~l~~~~k~~g~~~~~i~~vSAk~g~gv~eL~~~l~~  150 (360)
T TIGR03597        90 GNPVLLVGNKIDLLP-KSVNLSKIKEWMKKRAKELGLKPVDIILVSAKKGNGIDELLDKIKK  150 (360)
T ss_pred             CCCEEEEEEchhhCC-CCCCHHHHHHHHHHHHHHcCCCcCcEEEecCCCCCCHHHHHHHHHH
Confidence            456778999999864 44555555543    566776   4899999999999999998865

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.

>TIGR00231 small_GTP small GTP-binding protein domain

Probab=98.16  E-value=6e-06  Score=49.32  Aligned_cols=52  Identities=15%  Similarity=0.082  Sum_probs=38.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      +..+.+++||.|+...+ +.......+......+++++||++|.|++++|..+
T Consensus       108 ~~p~ivv~nK~D~~~~~-~~~~~~~~~~~~~~~~~~~~sa~~~~gv~~~~~~l  159 (161)
T TIGR00231       108 NVPIILVGNKIDLRDAK-LKTHVAFLFAKLNGEPIIPLSAETGKNIDSAFKIV  159 (161)
T ss_pred             CCcEEEEEEcccCCcch-hhHHHHHHHhhccCCceEEeecCCCCCHHHHHHHh
Confidence            34567789999986533 44444455555556789999999999999999765

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.

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=98.15  E-value=5.6e-06  Score=58.36  Aligned_cols=57  Identities=11%  Similarity=-0.051  Sum_probs=38.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH-HHHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE-QLAIE----YGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      |..+.+|+||+|+.+ .....++.. .+...    .+++++++||++|.||+++|..+.+.+.
T Consensus       283 ~~~iiiv~NK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~~vi~~SA~~g~~v~~l~~~i~~~~~  344 (429)
T TIGR03594       283 GKALVIVVNKWDLVK-DEKTREEFKKELRRKLPFLDFAPIVFISALTGQGVDKLLDAIDEVYE  344 (429)
T ss_pred             CCcEEEEEECcccCC-CHHHHHHHHHHHHHhcccCCCCceEEEeCCCCCCHHHHHHHHHHHHH
Confidence            566788899999862 111122221 22222    2478999999999999999999887554

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.

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

Probab=98.10  E-value=5.7e-06  Score=49.89  Aligned_cols=49  Identities=12%  Similarity=0.045  Sum_probs=37.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||.|+.+....       .....+.+++++||+++.|+++++..+...
T Consensus       107 ~~~vi~v~nK~D~~~~~~~-------~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~  155 (157)
T cd04164         107 DKPIIVVLNKSDLLPDSEL-------LSLLAGKPIIAISAKTGEGLDELKEALLEL  155 (157)
T ss_pred             CCCEEEEEEchhcCCcccc-------ccccCCCceEEEECCCCCCHHHHHHHHHHh
Confidence            4567888999998653332       334456789999999999999999998764

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.

>cd00882 Ras_like_GTPase Ras-like GTPase superfamily

Probab=98.09  E-value=1.1e-05  Score=47.59  Aligned_cols=54  Identities=39%  Similarity=0.391  Sum_probs=39.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHH-HHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRER-GEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      +..+.+++||+|+.......... ...+....+.+++++||+.+.|++++|..++
T Consensus       102 ~~~~ivv~nk~D~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~i~~~~~~l~  156 (157)
T cd00882         102 NIPIILVGNKIDLPEERVVSEEELAEQLAKELGVPYFETSAKTGENVEELFEELA  156 (157)
T ss_pred             CCcEEEEEeccccccccchHHHHHHHHHHhhcCCcEEEEecCCCCChHHHHHHHh
Confidence            45567788999986543333322 4455556678999999999999999998875

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

>cd04159 Arl10_like Arl10-like subfamily

Probab=98.09  E-value=2.7e-06  Score=51.21  Aligned_cols=53  Identities=11%  Similarity=0.029  Sum_probs=35.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH-----HHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL-----AIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~-----a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||.|+.+...+  .+....     ......+++++||++|.||+++|..+++
T Consensus       101 ~~p~iiv~nK~D~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~  158 (159)
T cd04159         101 GIPLLVLGNKNDLPGALSV--DELIEQMNLKSITDREVSCYSISCKEKTNIDIVLDWLIK  158 (159)
T ss_pred             CCCEEEEEeCccccCCcCH--HHHHHHhCcccccCCceEEEEEEeccCCChHHHHHHHhh
Confidence            3456678999998653322  222111     1122367899999999999999998864

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.

>PRK00454 engB GTP-binding protein YsxC; Reviewed

Probab=98.08  E-value=7.3e-06  Score=51.66  Aligned_cols=57  Identities=4%  Similarity=-0.141  Sum_probs=39.6

Q ss_pred             cCCCcEEeecCCCCCCCC--CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+.....  ...++...+.......++++||+++.|++++|..+...+
T Consensus       135 ~~~~iiv~nK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~Sa~~~~gi~~l~~~i~~~~  193 (196)
T PRK00454        135 GIPVLIVLTKADKLKKGERKKQLKKVRKALKFGDDEVILFSSLKKQGIDELRAAIAKWL  193 (196)
T ss_pred             CCcEEEEEECcccCCHHHHHHHHHHHHHHHHhcCCceEEEEcCCCCCHHHHHHHHHHHh
Confidence            455678899999854322  112233344444467899999999999999999887654

>TIGR00436 era GTP-binding protein Era

Probab=98.08  E-value=7.3e-06  Score=54.75  Aligned_cols=56  Identities=9%  Similarity=-0.167  Sum_probs=40.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+... ....+....++...+. ++|.+||++|.||++++..+.+.+
T Consensus       107 ~~p~ilV~NK~Dl~~~-~~~~~~~~~~~~~~~~~~v~~iSA~~g~gi~~L~~~l~~~l  163 (270)
T TIGR00436       107 KRPVVLTRNKLDNKFK-DKLLPLIDKYAILEDFKDIVPISALTGDNTSFLAAFIEVHL  163 (270)
T ss_pred             CCCEEEEEECeeCCCH-HHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHhC
Confidence            3456788999998632 2223344455555554 799999999999999999887654

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

>cd01889 SelB_euk SelB subfamily

Probab=98.07  E-value=5.7e-06  Score=52.40  Aligned_cols=58  Identities=12%  Similarity=-0.144  Sum_probs=39.2

Q ss_pred             cCCCcEEeecCCCCCCCC--CCHHHHHHH-HH------HhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ--VSRERGEQL-AI------EYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~--v~~~~~~~~-a~------~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+++||.|+.....  ...++..+. ..      ..+++++.+||++|.||++++..+..++.
T Consensus       120 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~iSa~~g~gi~~L~~~l~~~~~  186 (192)
T cd01889         120 CKKLIVVLNKIDLIPEEERERKIEKMKKKLQKTLEKTRFKNSPIIPVSAKPGGGEAELGKDLNNLIV  186 (192)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHHHHHHHHHHhcCcCCCCEEEEeccCCCCHHHHHHHHHhccc
Confidence            456678899999853221  122233221 11      13578999999999999999999987764

SelB is an elongation factor needed for the co-translational incorporation of selenocysteine. Selenocysteine is coded by a UGA stop codon in combination with a specific downstream mRNA hairpin. In bacteria, the C-terminal part of SelB recognizes this hairpin, while the N-terminal part binds GTP and tRNA in analogy with elongation factor Tu (EF-Tu). It specifically recognizes the selenocysteine charged tRNAsec, which has a UCA anticodon, in an EF-Tu like manner. This allows insertion of selenocysteine at in-frame UGA stop codons. In E. coli SelB binds GTP, selenocysteyl-tRNAsec and a stem-loop structure immediately downstream of the UGA codon (the SECIS sequence). The absence of active SelB prevents the participation of selenocysteyl-tRNAsec in translation. Archaeal and animal mechanisms of selenocysteine incorporation are more complex. Although the SECIS elements have different secondary structures and conserved elements between archaea and euk

>PRK12296 obgE GTPase CgtA; Reviewed

Probab=98.07  E-value=8.2e-06  Score=58.89  Aligned_cols=60  Identities=13%  Similarity=0.039  Sum_probs=42.6

Q ss_pred             ccCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          5 INTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         5 ~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+..+|+||+|+.+.+.+.. .........+.++|.+||+++.||+++|..+++.+...
T Consensus       283 ~~kP~IVVlNKiDL~da~el~e-~l~~~l~~~g~~Vf~ISA~tgeGLdEL~~~L~ell~~~  342 (500)
T PRK12296        283 AERPRLVVLNKIDVPDARELAE-FVRPELEARGWPVFEVSAASREGLRELSFALAELVEEA  342 (500)
T ss_pred             cCCCEEEEEECccchhhHHHHH-HHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHhh
Confidence            3456778899999864333222 22222334578899999999999999999998876543

>cd00881 GTP_translation_factor GTP translation factor family

Probab=98.04  E-value=9.9e-06  Score=50.41  Aligned_cols=57  Identities=11%  Similarity=-0.051  Sum_probs=39.4

Q ss_pred             cCCCcEEeecCCCCCCCCCC--HHHHHHHHHH--------------hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS--RERGEQLAIE--------------YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~--------------~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||+|+.....+.  .++..+..+.              ...++|++||++|.||+++|..+.+.+
T Consensus       114 ~~~i~iv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~Sa~~g~gi~~l~~~l~~~l  186 (189)
T cd00881         114 GLPIIVAINKIDRVGEEDLEEVLREIKELLGLIGFISTKEEGTRNGLLVPIVPGSALTGIGVEELLEAIVEHL  186 (189)
T ss_pred             CCCeEEEEECCCCcchhcHHHHHHHHHHHHccccccchhhhhcccCCcceEEEEecccCcCHHHHHHHHHhhC
Confidence            45667889999986422221  2233333332              246799999999999999999988764

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=98.03  E-value=1.3e-05  Score=57.24  Aligned_cols=54  Identities=13%  Similarity=-0.044  Sum_probs=42.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+...      +...+++.++.+|+++|||+ .||+++|..+.+.+.+..
T Consensus       310 ~~piIlV~NK~Dl~~~------~~~~~~~~~~~~~~~vSak~-~gI~~~~~~L~~~i~~~~  363 (442)
T TIGR00450       310 KKPFILVLNKIDLKIN------SLEFFVSSKVLNSSNLSAKQ-LKIKALVDLLTQKINAFY  363 (442)
T ss_pred             CCCEEEEEECccCCCc------chhhhhhhcCCceEEEEEec-CCHHHHHHHHHHHHHHHh
Confidence            4566788999998642      23456777888999999998 699999999999876543

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.

>cd04163 Era Era subfamily

Probab=98.02  E-value=1e-05  Score=48.94  Aligned_cols=55  Identities=13%  Similarity=-0.080  Sum_probs=39.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ....+++||.|+........+....++...+ .+++++||+++.|++++|..+.+.
T Consensus       112 ~~~iiv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~~l~~~l~~~  167 (168)
T cd04163         112 TPVILVLNKIDLVKDKEDLLPLLEKLKELGPFAEIFPISALKGENVDELLEEIVKY  167 (168)
T ss_pred             CCEEEEEEchhccccHHHHHHHHHHHHhccCCCceEEEEeccCCChHHHHHHHHhh
Confidence            4566789999987433333344445555553 679999999999999999988654

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.

>PRK00098 GTPase RsgA; Reviewed

Probab=98.00  E-value=7.9e-06  Score=55.46  Aligned_cols=53  Identities=17%  Similarity=0.012  Sum_probs=38.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      +.++.+|+||+||.+... ...+...+.+..+.++|.+||+++.|++++|..+.
T Consensus       111 ~ip~iIVlNK~DL~~~~~-~~~~~~~~~~~~g~~v~~vSA~~g~gi~~L~~~l~  163 (298)
T PRK00098        111 GIKPIIVLNKIDLLDDLE-EARELLALYRAIGYDVLELSAKEGEGLDELKPLLA  163 (298)
T ss_pred             CCCEEEEEEhHHcCCCHH-HHHHHHHHHHHCCCeEEEEeCCCCccHHHHHhhcc
Confidence            456778899999953222 12233444556788999999999999999998775

>TIGR01393 lepA GTP-binding protein LepA

Probab=97.99  E-value=2e-05  Score=58.07  Aligned_cols=56  Identities=13%  Similarity=0.126  Sum_probs=42.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+++||.|+.+.  ...+...++++.++..   ++++||++|.||+++|..+++.+.
T Consensus       122 ~ipiIiViNKiDl~~~--~~~~~~~el~~~lg~~~~~vi~vSAktG~GI~~Lle~I~~~lp  180 (595)
T TIGR01393       122 DLEIIPVINKIDLPSA--DPERVKKEIEEVIGLDASEAILASAKTGIGIEEILEAIVKRVP  180 (595)
T ss_pred             CCCEEEEEECcCCCcc--CHHHHHHHHHHHhCCCcceEEEeeccCCCCHHHHHHHHHHhCC
Confidence            4566788999998642  2233445677777753   899999999999999999987653

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.

>PRK12289 GTPase RsgA; Reviewed

Probab=97.99  E-value=1.8e-05  Score=54.99  Aligned_cols=51  Identities=14%  Similarity=0.074  Sum_probs=38.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.||+||+||.+     .++...|.   ..+|+.+|.+||+++.||+++|..+...
T Consensus       120 ~ip~ILVlNK~DLv~-----~~~~~~~~~~~~~~g~~v~~iSA~tg~GI~eL~~~L~~k  173 (352)
T PRK12289        120 GLEIVLCLNKADLVS-----PTEQQQWQDRLQQWGYQPLFISVETGIGLEALLEQLRNK  173 (352)
T ss_pred             CCCEEEEEEchhcCC-----hHHHHHHHHHHHhcCCeEEEEEcCCCCCHHHHhhhhccc
Confidence            567788999999853     22233333   4568889999999999999999888643

>cd01859 MJ1464 MJ1464

Probab=97.98  E-value=9.7e-06  Score=49.71  Aligned_cols=56  Identities=16%  Similarity=0.039  Sum_probs=39.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.++.||.|+.+....  .....+.+..+.+++.+||+++.|+++++..+.+.+.
T Consensus        41 ~~p~iiv~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSa~~~~gi~~L~~~l~~~~~   96 (156)
T cd01859          41 GKKLLIVLNKADLVPKEVL--EKWKSIKESEGIPVVYVSAKERLGTKILRRTIKELAK   96 (156)
T ss_pred             CCcEEEEEEhHHhCCHHHH--HHHHHHHHhCCCcEEEEEccccccHHHHHHHHHHHHh
Confidence            4567788999998532111  1111233445678999999999999999999877654

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.

>PRK12288 GTPase RsgA; Reviewed

Probab=97.98  E-value=1.8e-05  Score=54.85  Aligned_cols=55  Identities=7%  Similarity=-0.037  Sum_probs=38.8

Q ss_pred             cCCCcEEeecCCCCCCCC-CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.+..||+||+||.+... ....+.....+..|.++|++||+++.|++++|..+..
T Consensus       150 ~i~~VIVlNK~DL~~~~~~~~~~~~~~~y~~~g~~v~~vSA~tg~GideL~~~L~~  205 (347)
T PRK12288        150 GIEPLIVLNKIDLLDDEGRAFVNEQLDIYRNIGYRVLMVSSHTGEGLEELEAALTG  205 (347)
T ss_pred             CCCEEEEEECccCCCcHHHHHHHHHHHHHHhCCCeEEEEeCCCCcCHHHHHHHHhh
Confidence            456678999999964321 1112222333456789999999999999999988864

>cd04161 Arl2l1_Arl13_like Arl2l1/Arl13 subfamily

Probab=97.96  E-value=3.4e-06  Score=52.32  Aligned_cols=54  Identities=11%  Similarity=-0.101  Sum_probs=36.5

Q ss_pred             cCCCcEEeecCCCCCCCCC----CHHHHHHHHHHhC--CeEEEeccCCC------CCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV----SRERGEQLAIEYG--IKFMETSAKNS------INVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v----~~~~~~~~a~~~~--~~~~etSAk~~------~~V~~~F~~~~   59 (101)
                      +.++.||+||.|+.+.+..    .......++++.+  ..++++||++|      .||++.|+=++
T Consensus       100 ~~piliv~NK~Dl~~~~~~~~i~~~~~l~~~~~~~~~~~~~~~~Sa~~g~~~~~~~g~~~~~~wl~  165 (167)
T cd04161         100 GKPILVLANKQDKKNALLGADVIEYLSLEKLVNENKSLCHIEPCSAIEGLGKKIDPSIVEGLRWLL  165 (167)
T ss_pred             CCcEEEEEeCCCCcCCCCHHHHHHhcCcccccCCCCceEEEEEeEceeCCCCccccCHHHHHHHHh
Confidence            4567888999999764421    1112234444444  45778999998      89999998765

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.

>PRK00089 era GTPase Era; Reviewed

Probab=97.94  E-value=2.2e-05  Score=52.88  Aligned_cols=57  Identities=14%  Similarity=-0.012  Sum_probs=42.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||.|+...+.........+.+.++ ..+|.+||+++.|++++|..+...+.
T Consensus       114 ~pvilVlNKiDl~~~~~~l~~~~~~l~~~~~~~~i~~iSA~~~~gv~~L~~~L~~~l~  171 (292)
T PRK00089        114 TPVILVLNKIDLVKDKEELLPLLEELSELMDFAEIVPISALKGDNVDELLDVIAKYLP  171 (292)
T ss_pred             CCEEEEEECCcCCCCHHHHHHHHHHHHhhCCCCeEEEecCCCCCCHHHHHHHHHHhCC
Confidence            4677889999986433333445566666555 56999999999999999999887653

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

Probab=97.94  E-value=2.1e-05  Score=48.18  Aligned_cols=57  Identities=14%  Similarity=0.057  Sum_probs=36.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCH-HHHHHHHH----Hh--CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR-ERGEQLAI----EY--GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~-~~~~~~a~----~~--~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.....-.. .....+..    .+  +.+++++||++|.||+++|..+++..
T Consensus       102 ~~p~ivv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (168)
T cd01887         102 NVPFIVALNKIDKPNANPERVKNELSELGLQGEDEWGGDVQIVPTSAKTGEGIDDLLEAILLLA  165 (168)
T ss_pred             CCCEEEEEEceecccccHHHHHHHHHHhhccccccccCcCcEEEeecccCCCHHHHHHHHHHhh
Confidence            456677899999863221110 11111111    11  25799999999999999999987643

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.

>PRK12298 obgE GTPase CgtA; Reviewed

Probab=97.93  E-value=3.4e-05  Score=54.26  Aligned_cols=58  Identities=14%  Similarity=0.089  Sum_probs=42.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+..||+||+|+.....+ .+....+.+..+  ..+|.+||+++.||++++..+++.+.+
T Consensus       275 ~kP~IlVlNKiDl~~~~el-~~~l~~l~~~~~~~~~Vi~ISA~tg~GIdeLl~~I~~~L~~  334 (390)
T PRK12298        275 EKPRWLVFNKIDLLDEEEA-EERAKAIVEALGWEGPVYLISAASGLGVKELCWDLMTFIEE  334 (390)
T ss_pred             CCCEEEEEeCCccCChHHH-HHHHHHHHHHhCCCCCEEEEECCCCcCHHHHHHHHHHHhhh
Confidence            4566788999998643333 344455656554  468999999999999999999887754

>PRK05291 trmE tRNA modification GTPase TrmE; Reviewed

Probab=97.92  E-value=1.7e-05  Score=56.67  Aligned_cols=51  Identities=10%  Similarity=0.005  Sum_probs=39.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.....+.        ...+..++++||++|.||+++|..+.+.+..
T Consensus       321 ~~piiiV~NK~DL~~~~~~~--------~~~~~~~i~iSAktg~GI~~L~~~L~~~l~~  371 (449)
T PRK05291        321 DKPVIVVLNKADLTGEIDLE--------EENGKPVIRISAKTGEGIDELREAIKELAFG  371 (449)
T ss_pred             CCCcEEEEEhhhccccchhh--------hccCCceEEEEeeCCCCHHHHHHHHHHHHhh
Confidence            45677899999996433322        3345679999999999999999999887643

>cd00880 Era_like Era (E

Probab=97.91  E-value=1.4e-05  Score=47.69  Aligned_cols=55  Identities=11%  Similarity=-0.017  Sum_probs=37.5

Q ss_pred             CCCcEEeecCCCCCCCCCCHH---HHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRE---RGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~---~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ....+++||.|+.....+...   .........+.++|++||+++.||++++..+.+.
T Consensus       105 ~~~ivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~~~sa~~~~~v~~l~~~l~~~  162 (163)
T cd00880         105 KPVLLVLNKIDLLPEEEEEELLELRLLILLLLLGLPVIAVSALTGEGIDELREALIEA  162 (163)
T ss_pred             CeEEEEEEccccCChhhHHHHHHHHHhhcccccCCceEEEeeeccCCHHHHHHHHHhh
Confidence            445678899998643322221   1122333345789999999999999999988764

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

>PRK13796 GTPase YqeH; Provisional

Probab=97.90  E-value=3.9e-05  Score=53.53  Aligned_cols=55  Identities=13%  Similarity=0.178  Sum_probs=41.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||.||.. +.+..++...|    ++.+|+   .++.+||+++.||+++|..+.+.
T Consensus        96 ~kpviLViNK~DLl~-~~~~~~~i~~~l~~~~k~~g~~~~~v~~vSAk~g~gI~eL~~~I~~~  157 (365)
T PRK13796         96 NNPVLLVGNKADLLP-KSVKKNKVKNWLRQEAKELGLRPVDVVLISAQKGHGIDELLEAIEKY  157 (365)
T ss_pred             CCCEEEEEEchhhCC-CccCHHHHHHHHHHHHHhcCCCcCcEEEEECCCCCCHHHHHHHHHHh
Confidence            456778999999964 44444454444    555675   57999999999999999998653

>PRK03003 GTP-binding protein Der; Reviewed

Probab=97.87  E-value=2.4e-05  Score=56.17  Aligned_cols=55  Identities=9%  Similarity=-0.037  Sum_probs=38.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+...   ..+....++...+ ..|++||++|.||+++|+.++..+.+
T Consensus       146 ~~piilV~NK~Dl~~~---~~~~~~~~~~g~~-~~~~iSA~~g~gi~eL~~~i~~~l~~  200 (472)
T PRK03003        146 GKPVILAANKVDDERG---EADAAALWSLGLG-EPHPVSALHGRGVGDLLDAVLAALPE  200 (472)
T ss_pred             CCCEEEEEECccCCcc---chhhHHHHhcCCC-CeEEEEcCCCCCcHHHHHHHHhhccc
Confidence            4567888999998532   2222233322222 35799999999999999999988754

>TIGR00475 selB selenocysteine-specific elongation factor SelB

Probab=97.87  E-value=2.3e-05  Score=57.66  Aligned_cols=58  Identities=14%  Similarity=0.082  Sum_probs=42.0

Q ss_pred             cCC-CcEEeecCCCCCCCCC--CHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTK-SKYIEVPNFVSSMPQV--SRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~-~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      |.+ +.+++||+|+.+...+  ..++...+.+..    ++++|++||++|.||+++|..+...+-
T Consensus       102 gi~~iIVVlNK~Dlv~~~~~~~~~~ei~~~l~~~~~~~~~~ii~vSA~tG~GI~eL~~~L~~l~~  166 (581)
T TIGR00475       102 GIPHTIVVITKADRVNEEEIKRTEMFMKQILNSYIFLKNAKIFKTSAKTGQGIGELKKELKNLLE  166 (581)
T ss_pred             CCCeEEEEEECCCCCCHHHHHHHHHHHHHHHHHhCCCCCCcEEEEeCCCCCCchhHHHHHHHHHH
Confidence            444 7788999998653322  234555666554    468999999999999999988876543

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.

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

Probab=97.86  E-value=3.4e-05  Score=48.61  Aligned_cols=54  Identities=7%  Similarity=-0.105  Sum_probs=38.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH------------hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE------------YGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~------------~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||.|+.  ..++.++......-            ....+|++||++|.|++++|+-+...
T Consensus       118 ~~piliv~NK~Dl~--~~~~~~~i~~~l~l~~~~~~~~~~~~~~~~i~~~Sa~~~~g~~~~~~wl~~~  183 (184)
T smart00178      118 TVPFLILGNKIDAP--YAASEDELRYALGLTNTTGSKGKVGVRPLEVFMCSVVRRMGYGEGFKWLSQY  183 (184)
T ss_pred             CCCEEEEEeCcccc--CCCCHHHHHHHcCCCcccccccccCCceeEEEEeecccCCChHHHHHHHHhh
Confidence            55677889999985  35666665433211            12348999999999999999988653

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

>cd01854 YjeQ_engC YjeQ/EngC

Probab=97.84  E-value=2.8e-05  Score=52.55  Aligned_cols=53  Identities=13%  Similarity=0.028  Sum_probs=38.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+|+||+||.+..  .......+....+.+++.+||+++.|+++++..+..
T Consensus       109 ~ip~iIVlNK~DL~~~~--~~~~~~~~~~~~g~~v~~vSA~~g~gi~~L~~~L~~  161 (287)
T cd01854         109 GIEPVIVLTKADLLDDE--EEELELVEALALGYPVLAVSAKTGEGLDELREYLKG  161 (287)
T ss_pred             CCCEEEEEEHHHCCChH--HHHHHHHHHHhCCCeEEEEECCCCccHHHHHhhhcc
Confidence            45677889999996431  112223344557889999999999999999988764

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.

>KOG3883|consensus

Probab=97.82  E-value=2.7e-05  Score=48.26  Aligned_cols=56  Identities=14%  Similarity=0.108  Sum_probs=50.7

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+||.|+.+++.+..+.|..||+.-.+..||++|++...+-+.|..++..+...
T Consensus       122 VVLaN~rdr~~p~~vd~d~A~~Wa~rEkvkl~eVta~dR~sL~epf~~l~~rl~~p  177 (198)
T KOG3883|consen  122 VVLANKRDRAEPREVDMDVAQIWAKREKVKLWEVTAMDRPSLYEPFTYLASRLHQP  177 (198)
T ss_pred             EEEechhhcccchhcCHHHHHHHHhhhheeEEEEEeccchhhhhHHHHHHHhccCC
Confidence            34589999999999999999999999999999999999999999999998777643

>PRK04000 translation initiation factor IF-2 subunit gamma; Validated

Probab=97.82  E-value=2.6e-05  Score=55.12  Aligned_cols=55  Identities=11%  Similarity=0.114  Sum_probs=39.0

Q ss_pred             CCcEEeecCCCCCCCCC--CHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQV--SRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+.+++||.|+.+....  ..++...+.+..   +.++|.+||++|.||+++|..+...+
T Consensus       141 ~iiVVlNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~l  200 (411)
T PRK04000        141 NIVIVQNKIDLVSKERALENYEQIKEFVKGTVAENAPIIPVSALHKVNIDALIEAIEEEI  200 (411)
T ss_pred             cEEEEEEeeccccchhHHHHHHHHHHHhccccCCCCeEEEEECCCCcCHHHHHHHHHHhC
Confidence            35678899998643222  123444454432   47899999999999999999987655

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.76  E-value=3.7e-05  Score=54.41  Aligned_cols=57  Identities=9%  Similarity=-0.080  Sum_probs=37.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE----YGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      |..+.+++||+|+.+... ..+....+...    ..++++++||++|.||+++|..+.+...
T Consensus       284 ~~~~ivv~NK~Dl~~~~~-~~~~~~~~~~~l~~~~~~~i~~~SA~~~~gv~~l~~~i~~~~~  344 (435)
T PRK00093        284 GRALVIVVNKWDLVDEKT-MEEFKKELRRRLPFLDYAPIVFISALTGQGVDKLLEAIDEAYE  344 (435)
T ss_pred             CCcEEEEEECccCCCHHH-HHHHHHHHHHhcccccCCCEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            566778899999863211 11111122222    2478999999999999999998876443

>TIGR03156 GTP_HflX GTP-binding protein HflX

Probab=97.76  E-value=3.3e-05  Score=53.66  Aligned_cols=49  Identities=16%  Similarity=0.043  Sum_probs=34.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++.+|+||+|+.+...+     ..+. ....+++.+||++|.||+++|..+...
T Consensus       302 ~piIlV~NK~Dl~~~~~v-----~~~~-~~~~~~i~iSAktg~GI~eL~~~I~~~  350 (351)
T TIGR03156       302 IPQLLVYNKIDLLDEPRI-----ERLE-EGYPEAVFVSAKTGEGLDLLLEAIAER  350 (351)
T ss_pred             CCEEEEEEeecCCChHhH-----HHHH-hCCCCEEEEEccCCCCHHHHHHHHHhh
Confidence            456788999998643222     1111 123468999999999999999988653

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).

>COG0378 HypB Ni2+-binding GTPase involved in regulation of expression and maturation of urease and hydrogenase [Posttranslational modification, protein turnover, chaperones / Transcription]

Probab=97.76  E-value=7.3e-05  Score=47.90  Aligned_cols=50  Identities=10%  Similarity=-0.028  Sum_probs=40.1

Q ss_pred             EEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493         11 YIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        11 lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +|.||.||...-....+...+-+++.+  .+|++||+|||.|++++...+..
T Consensus       147 lVInK~DLa~~v~~dlevm~~da~~~np~~~ii~~n~ktg~G~~~~~~~i~~  198 (202)
T COG0378         147 LVINKTDLAPYVGADLEVMARDAKEVNPEAPIIFTNLKTGEGLDEWLRFIEP  198 (202)
T ss_pred             EEEehHHhHHHhCccHHHHHHHHHHhCCCCCEEEEeCCCCcCHHHHHHHHHh
Confidence            468999998655566677777777765  78999999999999999766654

>COG1100 GTPase SAR1 and related small G proteins [General function prediction only]

Probab=97.75  E-value=0.00016  Score=46.35  Aligned_cols=62  Identities=23%  Similarity=0.102  Sum_probs=45.4

Q ss_pred             CCCcEEeecCCCCCC------------CCCCHHHHHHHHHHh---CCeEEEeccC--CCCCHHHHHHHHHHHHHHHHhh
Q psy17493          7 TKSKYIEVPNFVSSM------------PQVSRERGEQLAIEY---GIKFMETSAK--NSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~---~~~~~etSAk--~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      ..+.+++||+|+...            +.+........+...   ...++++||+  ++.+|+++|..+++.+......
T Consensus       112 ~~iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~~~~~~~~~~~~~~~  190 (219)
T COG1100         112 VPILLVGNKIDLFDEQSSSEEILNQLNREVVLLVLAPKAVLPEVANPALLETSAKSLTGPNVNELFKELLRKLLEEIEK  190 (219)
T ss_pred             ceEEEEecccccccchhHHHHHHhhhhcCcchhhhHhHHhhhhhcccceeEeecccCCCcCHHHHHHHHHHHHHHhhhh
Confidence            345678999999765            345555555554444   3449999999  9999999999999988765433

>TIGR00487 IF-2 translation initiation factor IF-2

Probab=97.72  E-value=0.00011  Score=54.26  Aligned_cols=52  Identities=17%  Similarity=0.084  Sum_probs=36.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-------C--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-------G--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-------~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||+|+..   ...++.......+       +  .+|+++||++|.||+++|..+..
T Consensus       187 ~vPiIVviNKiDl~~---~~~e~v~~~L~~~g~~~~~~~~~~~~v~iSAktGeGI~eLl~~I~~  247 (587)
T TIGR00487       187 NVPIIVAINKIDKPE---ANPDRVKQELSEYGLVPEDWGGDTIFVPVSALTGDGIDELLDMILL  247 (587)
T ss_pred             CCCEEEEEECccccc---CCHHHHHHHHHHhhhhHHhcCCCceEEEEECCCCCChHHHHHhhhh
Confidence            455677899999853   2334444333332       2  46999999999999999998864

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.

>KOG1673|consensus

Probab=97.68  E-value=3.7e-05  Score=47.79  Aligned_cols=40  Identities=18%  Similarity=0.179  Sum_probs=35.6

Q ss_pred             HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         26 RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        26 ~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+++.||+-.++..|.+|+-.+.||..+|..+...+++-
T Consensus       149 ~~qar~YAk~mnAsL~F~Sts~sINv~KIFK~vlAklFnL  188 (205)
T KOG1673|consen  149 SRQARKYAKVMNASLFFCSTSHSINVQKIFKIVLAKLFNL  188 (205)
T ss_pred             HHHHHHHHHHhCCcEEEeeccccccHHHHHHHHHHHHhCC
Confidence            3578999999999999999999999999999988877653

>TIGR03680 eif2g_arch translation initiation factor 2 subunit gamma

Probab=97.64  E-value=6e-05  Score=53.21  Aligned_cols=54  Identities=11%  Similarity=0.049  Sum_probs=38.3

Q ss_pred             CcEEeecCCCCCCCC--CCHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQ--VSRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.+++||.|+.+...  ...++...+....   +.++|.+||++|.||+++|+.+...+
T Consensus       137 iIVvvNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~e~L~~~l  195 (406)
T TIGR03680       137 IVIVQNKIDLVSKEKALENYEEIKEFVKGTVAENAPIIPVSALHNANIDALLEAIEKFI  195 (406)
T ss_pred             EEEEEEccccCCHHHHHHHHHHHHhhhhhcccCCCeEEEEECCCCCChHHHHHHHHHhC
Confidence            567799999864322  1234444444443   56899999999999999999987654

eIF-2 functions in the early steps of protein synthesis by forming a ternary complex with GTP and initiator tRNA.

>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=97.63  E-value=1.9e-05  Score=49.01  Aligned_cols=52  Identities=10%  Similarity=0.075  Sum_probs=41.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      |.++.++.||.|+..++.+.. ....+++..|++.+.+||+++.|+++++..+
T Consensus       105 g~P~vvvlN~~D~a~~~g~~i-d~~~Ls~~Lg~pvi~~sa~~~~g~~~L~~~I  156 (156)
T PF02421_consen  105 GIPVVVVLNKMDEAERKGIEI-DAEKLSERLGVPVIPVSARTGEGIDELKDAI  156 (156)
T ss_dssp             TSSEEEEEETHHHHHHTTEEE--HHHHHHHHTS-EEEEBTTTTBTHHHHHHHH
T ss_pred             CCCEEEEEeCHHHHHHcCCEE-CHHHHHHHhCCCEEEEEeCCCcCHHHHHhhC
Confidence            667788899999865555443 3667888999999999999999999998764

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 ....

>cd01876 YihA_EngB The YihA (EngB) subfamily

Probab=97.62  E-value=6.6e-05  Score=45.50  Aligned_cols=56  Identities=4%  Similarity=-0.119  Sum_probs=36.4

Q ss_pred             cCCCcEEeecCCCCCCCCC--CHHHHHHHHH--HhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV--SRERGEQLAI--EYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v--~~~~~~~~a~--~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||+|+......  .........+  ....+++.+||+++.++.++++.+.+.
T Consensus       110 ~~~vi~v~nK~D~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~Sa~~~~~~~~l~~~l~~~  169 (170)
T cd01876         110 GIPFLVVLTKADKLKKSELAKALKEIKKELKLFEIDPPIILFSSLKGQGIDELRALIEKW  169 (170)
T ss_pred             CCCEEEEEEchhcCChHHHHHHHHHHHHHHHhccCCCceEEEecCCCCCHHHHHHHHHHh
Confidence            3456778999998432211  1122222222  233679999999999999999988764

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.

>PRK11058 GTPase HflX; Provisional

Probab=97.60  E-value=0.00014  Score=51.74  Aligned_cols=53  Identities=11%  Similarity=-0.062  Sum_probs=36.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.+|+||+|+..... ..  . . ....+.+ ++.+||++|.||+++|..+...+..
T Consensus       310 ~pvIiV~NKiDL~~~~~-~~--~-~-~~~~~~~~~v~ISAktG~GIdeL~e~I~~~l~~  363 (426)
T PRK11058        310 IPTLLVMNKIDMLDDFE-PR--I-D-RDEENKPIRVWLSAQTGAGIPLLFQALTERLSG  363 (426)
T ss_pred             CCEEEEEEcccCCCchh-HH--H-H-HHhcCCCceEEEeCCCCCCHHHHHHHHHHHhhh
Confidence            45678899999863211 11  1 1 1124555 5899999999999999999987754

>PRK09554 feoB ferrous iron transport protein B; Reviewed

Probab=97.60  E-value=0.00017  Score=54.73  Aligned_cols=55  Identities=7%  Similarity=0.022  Sum_probs=46.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      |.++.++.||.|+.+.+.+. .+.+++++..|.+++.+||+++.||+++...+.+.
T Consensus       112 giPvIvVlNK~Dl~~~~~i~-id~~~L~~~LG~pVvpiSA~~g~GIdeL~~~I~~~  166 (772)
T PRK09554        112 GIPCIVALNMLDIAEKQNIR-IDIDALSARLGCPVIPLVSTRGRGIEALKLAIDRH  166 (772)
T ss_pred             CCCEEEEEEchhhhhccCcH-HHHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence            56778889999987656664 46678889999999999999999999999887654

>PRK05433 GTP-binding protein LepA; Provisional

Probab=97.60  E-value=0.00023  Score=52.65  Aligned_cols=57  Identities=14%  Similarity=0.123  Sum_probs=41.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+++||.|+....  ......++.+..++.   ++.+||++|.||+++|..+++.+..
T Consensus       126 ~lpiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~iSAktG~GI~~Ll~~I~~~lp~  185 (600)
T PRK05433        126 DLEIIPVLNKIDLPAAD--PERVKQEIEDVIGIDASDAVLVSAKTGIGIEEVLEAIVERIPP  185 (600)
T ss_pred             CCCEEEEEECCCCCccc--HHHHHHHHHHHhCCCcceEEEEecCCCCCHHHHHHHHHHhCcc
Confidence            45567889999986422  122334555656654   8999999999999999999876643

>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=97.55  E-value=0.00036  Score=43.72  Aligned_cols=55  Identities=15%  Similarity=0.047  Sum_probs=39.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh------CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY------GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~------~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++-+++||.|+.+  .++.++....-.-.      ....+.+||++|.||.+.|.-+.+.|
T Consensus       115 ~~piLIl~NK~D~~~--~~~~~~i~~~l~l~~l~~~~~~~v~~~sa~~g~Gv~e~l~WL~~~~  175 (175)
T PF00025_consen  115 DIPILILANKQDLPD--AMSEEEIKEYLGLEKLKNKRPWSVFSCSAKTGEGVDEGLEWLIEQI  175 (175)
T ss_dssp             TSEEEEEEESTTSTT--SSTHHHHHHHTTGGGTTSSSCEEEEEEBTTTTBTHHHHHHHHHHHH
T ss_pred             cceEEEEeccccccC--cchhhHHHhhhhhhhcccCCceEEEeeeccCCcCHHHHHHHHHhcC
Confidence            445556789999863  45666655443222      24588999999999999999888754

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 ....

>TIGR03594 GTPase_EngA ribosome-associated GTPase EngA

Probab=97.49  E-value=0.00027  Score=49.88  Aligned_cols=53  Identities=9%  Similarity=0.018  Sum_probs=39.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+......    ... ....|. .+|++||++|.||+++|..+.+.+.
T Consensus       107 ~~piilVvNK~D~~~~~~~----~~~-~~~lg~~~~~~vSa~~g~gv~~ll~~i~~~l~  160 (429)
T TIGR03594       107 GKPVILVANKIDGKKEDAV----AAE-FYSLGFGEPIPISAEHGRGIGDLLDAILELLP  160 (429)
T ss_pred             CCCEEEEEECccCCccccc----HHH-HHhcCCCCeEEEeCCcCCChHHHHHHHHHhcC
Confidence            4567888999998643321    122 245666 6999999999999999999987664

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.

>PRK10512 selenocysteinyl-tRNA-specific translation factor; Provisional

Probab=97.48  E-value=0.00019  Score=53.30  Aligned_cols=52  Identities=15%  Similarity=0.122  Sum_probs=37.2

Q ss_pred             cEEeecCCCCCCCCCC--HHHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVS--RERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~--~~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .+|+||+|+.++..+.  .++...+....+   .++|.+||++|.||++++..+...
T Consensus       108 IVVlNKiDlv~~~~~~~v~~ei~~~l~~~~~~~~~ii~VSA~tG~gI~~L~~~L~~~  164 (614)
T PRK10512        108 TVALTKADRVDEARIAEVRRQVKAVLREYGFAEAKLFVTAATEGRGIDALREHLLQL  164 (614)
T ss_pred             EEEEECCccCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEeCCCCCCCHHHHHHHHHh
Confidence            5789999986432221  234445555444   679999999999999999988753

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

Probab=97.48  E-value=7.5e-05  Score=47.33  Aligned_cols=49  Identities=14%  Similarity=-0.034  Sum_probs=32.3

Q ss_pred             cCCCcEEeecCCCCCCCC-CCHHHHHHHHH-------HhCCeEEEeccCCCCCHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAI-------EYGIKFMETSAKNSINVEDA   54 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~-------~~~~~~~etSAk~~~~V~~~   54 (101)
                      +.++.+++||+|+...+. ...++...+..       ..+++++++||++|.|+.+.
T Consensus       117 ~~p~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~~Sa~~g~~~~~~  173 (194)
T cd01891         117 GLKPIVVINKIDRPDARPEEVVDEVFDLFIELGATEEQLDFPVLYASAKNGWASLNL  173 (194)
T ss_pred             CCCEEEEEECCCCCCCCHHHHHHHHHHHHHHhCCccccCccCEEEeehhcccccccc
Confidence            456778899999964332 12344444442       23678999999999887443

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

>PRK00093 GTP-binding protein Der; Reviewed

Probab=97.46  E-value=0.00028  Score=50.02  Aligned_cols=50  Identities=10%  Similarity=0.033  Sum_probs=36.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||+|+.+ .   ......+ ...|.. ++++||++|.||+++|+.++.
T Consensus       109 ~~piilv~NK~D~~~-~---~~~~~~~-~~lg~~~~~~iSa~~g~gv~~l~~~I~~  159 (435)
T PRK00093        109 NKPVILVVNKVDGPD-E---EADAYEF-YSLGLGEPYPISAEHGRGIGDLLDAILE  159 (435)
T ss_pred             CCcEEEEEECccCcc-c---hhhHHHH-HhcCCCCCEEEEeeCCCCHHHHHHHHHh
Confidence            456788899999643 1   1222222 345654 899999999999999999987

>PF10662 PduV-EutP: Ethanolamine utilisation - propanediol utilisation; InterPro: IPR012381 Members of this family function in ethanolamine [] and propanediol [] degradation pathways

Probab=97.45  E-value=0.00058  Score=41.82  Aligned_cols=46  Identities=22%  Similarity=0.183  Sum_probs=36.7

Q ss_pred             EeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHH
Q psy17493         12 IEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTL   58 (101)
Q Consensus        12 v~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~   58 (101)
                      |.+|.|+.. .....+.++++.+..|+. .|++||.+|+||+++...+
T Consensus        95 VITK~Dl~~-~~~~i~~a~~~L~~aG~~~if~vS~~~~eGi~eL~~~L  141 (143)
T PF10662_consen   95 VITKIDLPS-DDANIERAKKWLKNAGVKEIFEVSAVTGEGIEELKDYL  141 (143)
T ss_pred             EEECccCcc-chhhHHHHHHHHHHcCCCCeEEEECCCCcCHHHHHHHH
Confidence            456999973 234567888888888864 7999999999999998765

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

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.44  E-value=0.00026  Score=53.26  Aligned_cols=57  Identities=12%  Similarity=0.016  Sum_probs=38.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH-HHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE-QLAIEY----GIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      |..+.+|+||+|+.+...  .+... .+....    ..+.+.+||++|.||+++|..+++.+.+
T Consensus       561 ~~piIiV~NK~DL~~~~~--~~~~~~~~~~~l~~~~~~~ii~iSAktg~gv~~L~~~i~~~~~~  622 (712)
T PRK09518        561 GRALVLVFNKWDLMDEFR--RQRLERLWKTEFDRVTWARRVNLSAKTGWHTNRLAPAMQEALES  622 (712)
T ss_pred             CCCEEEEEEchhcCChhH--HHHHHHHHHHhccCCCCCCEEEEECCCCCCHHHHHHHHHHHHHH
Confidence            566788899999854211  11111 122221    2456899999999999999999886654

>COG0481 LepA Membrane GTPase LepA [Cell envelope biogenesis, outer membrane]

Probab=97.44  E-value=0.00034  Score=50.44  Aligned_cols=55  Identities=16%  Similarity=0.114  Sum_probs=40.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.-|.||.||..  .-...-..+...-.|++   -+.+|||+|.||+++++.+++.+.
T Consensus       129 LeIiPViNKIDLP~--Adpervk~eIe~~iGid~~dav~~SAKtG~gI~~iLe~Iv~~iP  186 (603)
T COG0481         129 LEIIPVLNKIDLPA--ADPERVKQEIEDIIGIDASDAVLVSAKTGIGIEDVLEAIVEKIP  186 (603)
T ss_pred             cEEEEeeecccCCC--CCHHHHHHHHHHHhCCCcchheeEecccCCCHHHHHHHHHhhCC
Confidence            33455789999963  22233444555667753   789999999999999999988764

>PRK10463 hydrogenase nickel incorporation protein HypB; Provisional

Probab=97.43  E-value=0.00043  Score=47.00  Aligned_cols=51  Identities=14%  Similarity=-0.020  Sum_probs=35.3

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      .++.||+||........+...+..+..  +++.|.+||++|.|++++...+..
T Consensus       234 IVVLNKiDLl~~~~~dle~~~~~lr~lnp~a~I~~vSA~tGeGld~L~~~L~~  286 (290)
T PRK10463        234 LMLLNKVDLLPYLNFDVEKCIACAREVNPEIEIILISATSGEGMDQWLNWLET  286 (290)
T ss_pred             EEEEEhHHcCcccHHHHHHHHHHHHhhCCCCcEEEEECCCCCCHHHHHHHHHH
Confidence            467899998642222233444444443  478999999999999999887754

>TIGR00483 EF-1_alpha translation elongation factor EF-1 alpha

Probab=97.38  E-value=0.00013  Score=51.82  Aligned_cols=49  Identities=16%  Similarity=0.011  Sum_probs=35.1

Q ss_pred             CCcEEeecCCCCCCCC----CCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQ----VSRERGEQLAIEYG-----IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~----v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~   56 (101)
                      .+.+++||.|+.+...    ...++...+++..+     ++|+++||++|.||+++|.
T Consensus       143 ~iIVviNK~Dl~~~~~~~~~~~~~ei~~~~~~~g~~~~~~~~i~iSA~~g~ni~~~~~  200 (426)
T TIGR00483       143 QLIVAINKMDSVNYDEEEFEAIKKEVSNLIKKVGYNPDTVPFIPISAWNGDNVIKKSE  200 (426)
T ss_pred             eEEEEEEChhccCccHHHHHHHHHHHHHHHHHcCCCcccceEEEeecccccccccccc
Confidence            3556899999863211    12356666777765     5799999999999998765

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.

>PRK05306 infB translation initiation factor IF-2; Validated

Probab=97.37  E-value=0.00029  Score=53.57  Aligned_cols=55  Identities=15%  Similarity=0.085  Sum_probs=37.1

Q ss_pred             cCCCcEEeecCCCCCCC--CCCHH--HHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--QVSRE--RGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--~v~~~--~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+++||+|+....  .+..+  +...+++.++  ++||++||++|.||+++|+.+..
T Consensus       389 ~vPiIVviNKiDl~~a~~e~V~~eL~~~~~~~e~~g~~vp~vpvSAktG~GI~eLle~I~~  449 (787)
T PRK05306        389 GVPIIVAINKIDKPGANPDRVKQELSEYGLVPEEWGGDTIFVPVSAKTGEGIDELLEAILL  449 (787)
T ss_pred             CCcEEEEEECccccccCHHHHHHHHHHhcccHHHhCCCceEEEEeCCCCCCchHHHHhhhh
Confidence            45667889999985421  11111  1112344454  68999999999999999998875

>cd01849 YlqF_related_GTPase YlqF-related GTPases

Probab=97.36  E-value=0.00054  Score=42.04  Aligned_cols=57  Identities=14%  Similarity=0.048  Sum_probs=37.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|.||+|+.....+ .+....+....+...+.+||+++.|+++++..+.....
T Consensus        29 ~~p~IiVlNK~Dl~~~~~~-~~~~~~~~~~~~~~ii~vSa~~~~gi~~L~~~i~~~~~   85 (155)
T cd01849          29 GKKLILVLNKADLVPKEVL-RKWLAYLRHSYPTIPFKISATNGQGIEKKESAFTKQTN   85 (155)
T ss_pred             CCCEEEEEechhcCCHHHH-HHHHHHHHhhCCceEEEEeccCCcChhhHHHHHHHHhH
Confidence            4567788999998432111 01111233333456789999999999999998876543

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.

>KOG0462|consensus

Probab=97.35  E-value=0.00023  Score=51.94  Aligned_cols=58  Identities=16%  Similarity=0.003  Sum_probs=40.1

Q ss_pred             cCCCcEEeecCCCCCCCC-CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ-VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~-v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      |..+..|.||+|+...+. --..+...+-...+.+.+-+|||+|.||++++..+++.+.
T Consensus       177 ~L~iIpVlNKIDlp~adpe~V~~q~~~lF~~~~~~~i~vSAK~G~~v~~lL~AII~rVP  235 (650)
T KOG0462|consen  177 GLAIIPVLNKIDLPSADPERVENQLFELFDIPPAEVIYVSAKTGLNVEELLEAIIRRVP  235 (650)
T ss_pred             CCeEEEeeeccCCCCCCHHHHHHHHHHHhcCCccceEEEEeccCccHHHHHHHHHhhCC
Confidence            566778999999963221 1122333333333457899999999999999999988763

>cd01856 YlqF YlqF

Probab=97.32  E-value=0.00051  Score=42.85  Aligned_cols=55  Identities=11%  Similarity=0.014  Sum_probs=36.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.+..+|.||+|+.+...+  ....++-+..+..++.+||+++.|++++...+...+
T Consensus        46 ~k~~ilVlNK~Dl~~~~~~--~~~~~~~~~~~~~vi~iSa~~~~gi~~L~~~l~~~l  100 (171)
T cd01856          46 NKPRIIVLNKADLADPKKT--KKWLKYFESKGEKVLFVNAKSGKGVKKLLKAAKKLL  100 (171)
T ss_pred             CCCEEEEEehhhcCChHHH--HHHHHHHHhcCCeEEEEECCCcccHHHHHHHHHHHH
Confidence            4566788999998532111  111122223345688999999999999998887665

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.

>PRK09518 bifunctional cytidylate kinase/GTPase Der; Reviewed

Probab=97.30  E-value=0.0006  Score=51.39  Aligned_cols=54  Identities=13%  Similarity=-0.014  Sum_probs=37.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+....   ...+..+.  .+. ..|++||++|.||+++|..++..+..
T Consensus       383 ~~pvIlV~NK~D~~~~~---~~~~~~~~--lg~~~~~~iSA~~g~GI~eLl~~i~~~l~~  437 (712)
T PRK09518        383 GKPVVLAVNKIDDQASE---YDAAEFWK--LGLGEPYPISAMHGRGVGDLLDEALDSLKV  437 (712)
T ss_pred             CCCEEEEEECcccccch---hhHHHHHH--cCCCCeEEEECCCCCCchHHHHHHHHhccc
Confidence            56678889999985321   11222222  233 35789999999999999999987754

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

Probab=97.28  E-value=0.00018  Score=45.04  Aligned_cols=47  Identities=2%  Similarity=-0.150  Sum_probs=31.1

Q ss_pred             cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHhC--CeEEEeccCCCCCHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEYG--IKFMETSAKNSINVE   52 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~   52 (101)
                      +-++.+++||.|+....  ....++.+.+....+  ..+|++||++|.||+
T Consensus       129 ~~pviiv~nK~D~~~~~~~~~~~~~i~~~l~~~~~~~~v~~~Sa~~g~gi~  179 (179)
T TIGR03598       129 GIPVLIVLTKADKLKKSELNKQLKKIKKALKKDADDPSVQLFSSLKKTGID  179 (179)
T ss_pred             CCCEEEEEECcccCCHHHHHHHHHHHHHHHhhccCCCceEEEECCCCCCCC
Confidence            34567788999985321  122344445555544  479999999999974

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.

>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=97.26  E-value=0.00046  Score=43.59  Aligned_cols=57  Identities=16%  Similarity=0.142  Sum_probs=36.4

Q ss_pred             cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHhC------CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEYG------IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~~------~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.+..++.||.|+...+  .+-.+....+.+..+      .+++.+||++|.||+++++.+++.+
T Consensus       122 ~~p~ivvlNK~D~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~vi~~Sa~~g~gi~~Ll~~l~~~~  186 (188)
T PF00009_consen  122 GIPIIVVLNKMDLIEKELEEIIEEIKEKLLKEYGENGEEIVPVIPISALTGDGIDELLEALVELL  186 (188)
T ss_dssp             T-SEEEEEETCTSSHHHHHHHHHHHHHHHHHHTTSTTTSTEEEEEEBTTTTBTHHHHHHHHHHHS
T ss_pred             ccceEEeeeeccchhhhHHHHHHHHHHHhccccccCccccceEEEEecCCCCCHHHHHHHHHHhC
Confidence            45567789999986110  011111113333332      4699999999999999999888754

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 ....

>CHL00189 infB translation initiation factor 2; Provisional

Probab=97.25  E-value=0.00096  Score=50.52  Aligned_cols=53  Identities=19%  Similarity=0.115  Sum_probs=36.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-H------HHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-L------AIEYG--IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~------a~~~~--~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+++||+|+...   ..++... +      +..++  ++|+++||++|.||+++|..+...
T Consensus       347 ~iPiIVViNKiDl~~~---~~e~v~~eL~~~~ll~e~~g~~vpvv~VSAktG~GIdeLle~I~~l  408 (742)
T CHL00189        347 NVPIIVAINKIDKANA---NTERIKQQLAKYNLIPEKWGGDTPMIPISASQGTNIDKLLETILLL  408 (742)
T ss_pred             CceEEEEEECCCcccc---CHHHHHHHHHHhccchHhhCCCceEEEEECCCCCCHHHHHHhhhhh
Confidence            3456678999998642   1222221 1      23344  689999999999999999988764

>KOG0073|consensus

Probab=97.13  E-value=0.0026  Score=39.91  Aligned_cols=61  Identities=16%  Similarity=0.074  Sum_probs=47.6

Q ss_pred             cccccCCCcEEeecCCCCCCCCCCHHHH------HHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          2 EIQINTKSKYIEVPNFVSSMPQVSRERG------EQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         2 eil~~~~~~lv~nk~Dl~~~~~v~~~~~------~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      |-+.|+++-++.||.|+.  ..++.++.      ..+++.+..+.+-+||-+|+++.+.|.-+...+.+
T Consensus       113 erlaG~~~Lvlank~dl~--~~l~~~~i~~~~~L~~l~ks~~~~l~~cs~~tge~l~~gidWL~~~l~~  179 (185)
T KOG0073|consen  113 ERLAGAPLLVLANKQDLP--GALSLEEISKALDLEELAKSHHWRLVKCSAVTGEDLLEGIDWLCDDLMS  179 (185)
T ss_pred             hhhcCCceEEEEecCcCc--cccCHHHHHHhhCHHHhccccCceEEEEeccccccHHHHHHHHHHHHHH
Confidence            346688999999999986  23333332      45567777899999999999999999999888776

>COG1162 Predicted GTPases [General function prediction only]

Probab=97.13  E-value=0.0013  Score=44.85  Aligned_cols=56  Identities=14%  Similarity=-0.026  Sum_probs=42.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      |....|+.||.||.+......++.......+|.+.+.+||+++.+++++...+...
T Consensus       110 gi~pvIvlnK~DL~~~~~~~~~~~~~~y~~~gy~v~~~s~~~~~~~~~l~~~l~~~  165 (301)
T COG1162         110 GIEPVIVLNKIDLLDDEEAAVKELLREYEDIGYPVLFVSAKNGDGLEELAELLAGK  165 (301)
T ss_pred             CCcEEEEEEccccCcchHHHHHHHHHHHHhCCeeEEEecCcCcccHHHHHHHhcCC
Confidence            45567789999997544333345556677789999999999999999998887643

>cd01858 NGP_1 NGP-1

Probab=97.05  E-value=0.00094  Score=40.99  Aligned_cols=49  Identities=6%  Similarity=-0.098  Sum_probs=33.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      .++.+|.||+|+.+     .++...+...+    ....|.+||+.+.|++++...+..
T Consensus        40 ~p~ilVlNKiDl~~-----~~~~~~~~~~~~~~~~~~~~~iSa~~~~~~~~L~~~l~~   92 (157)
T cd01858          40 KHLIFVLNKCDLVP-----TWVTARWVKILSKEYPTIAFHASINNPFGKGSLIQLLRQ   92 (157)
T ss_pred             CCEEEEEEchhcCC-----HHHHHHHHHHHhcCCcEEEEEeeccccccHHHHHHHHHH
Confidence            56788999999853     22233333333    222467999999999998887754

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.

>KOG0096|consensus

Probab=96.92  E-value=0.00025  Score=45.34  Aligned_cols=56  Identities=20%  Similarity=0.243  Sum_probs=41.5

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.++|||.|..+ +.+. .....|-+..++.|++.|||++.|.+.-|..+++.+...
T Consensus       116 Piv~cGNKvDi~~-r~~k-~k~v~~~rkknl~y~~iSaksn~NfekPFl~LarKl~G~  171 (216)
T KOG0096|consen  116 PIVLCGNKVDIKA-RKVK-AKPVSFHRKKNLQYYEISAKSNYNFERPFLWLARKLTGD  171 (216)
T ss_pred             Ceeeeccceeccc-cccc-cccceeeecccceeEEeecccccccccchHHHhhhhcCC
Confidence            3456799999865 3322 222335556678999999999999999999999987653

>TIGR03596 GTPase_YlqF ribosome biogenesis GTP-binding protein YlqF

Probab=96.84  E-value=0.0032  Score=42.31  Aligned_cols=54  Identities=19%  Similarity=0.108  Sum_probs=37.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|.||+|+.+.     +....|.   +..+...+.+||+++.|++++...+.+.+.+
T Consensus        48 ~kp~IiVlNK~DL~~~-----~~~~~~~~~~~~~~~~vi~iSa~~~~gi~~L~~~i~~~~~~  104 (276)
T TIGR03596        48 NKPRLIVLNKADLADP-----AVTKQWLKYFEEKGIKALAINAKKGKGVKKIIKAAKKLLKE  104 (276)
T ss_pred             CCCEEEEEEccccCCH-----HHHHHHHHHHHHcCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            4556788999998532     2222222   2345678999999999999998888766543

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.

>PRK12317 elongation factor 1-alpha; Reviewed

Probab=96.79  E-value=0.00082  Score=47.69  Aligned_cols=48  Identities=19%  Similarity=-0.006  Sum_probs=33.6

Q ss_pred             CcEEeecCCCCCCCC----CCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQ----VSRERGEQLAIEYG-----IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~----v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~   56 (101)
                      +.+++||.|+.+...    ...++...+.+..+     .++|.+||++|.||++++.
T Consensus       142 iivviNK~Dl~~~~~~~~~~~~~~i~~~l~~~g~~~~~~~ii~iSA~~g~gi~~~~~  198 (425)
T PRK12317        142 LIVAINKMDAVNYDEKRYEEVKEEVSKLLKMVGYKPDDIPFIPVSAFEGDNVVKKSE  198 (425)
T ss_pred             EEEEEEccccccccHHHHHHHHHHHHHHHHhhCCCcCcceEEEeecccCCCcccccc
Confidence            567899999864211    12245555666555     4699999999999998764

>PRK01889 GTPase RsgA; Reviewed

Probab=96.76  E-value=0.0021  Score=44.86  Aligned_cols=51  Identities=10%  Similarity=0.063  Sum_probs=35.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      |.+..||.||+||.+.   ..+....+.. ..+.+.|.+||+++.|++++-..+.
T Consensus       142 ~i~piIVLNK~DL~~~---~~~~~~~~~~~~~g~~Vi~vSa~~g~gl~~L~~~L~  193 (356)
T PRK01889        142 GAEPVIVLTKADLCED---AEEKIAEVEALAPGVPVLAVSALDGEGLDVLAAWLS  193 (356)
T ss_pred             CCCEEEEEEChhcCCC---HHHHHHHHHHhCCCCcEEEEECCCCccHHHHHHHhh
Confidence            5566788999999643   1112222222 3467889999999999999877764

>COG4917 EutP Ethanolamine utilization protein [Amino acid transport and metabolism]

Probab=96.75  E-value=0.0066  Score=36.64  Aligned_cols=46  Identities=22%  Similarity=0.135  Sum_probs=35.7

Q ss_pred             eecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHH
Q psy17493         13 EVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        13 ~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ..|.||.+...|  +..+.|-.+-|. +.|++||-++.||+++|..++.
T Consensus        97 VTK~DLaed~dI--~~~~~~L~eaGa~~IF~~s~~d~~gv~~l~~~L~~  143 (148)
T COG4917          97 VTKADLAEDADI--SLVKRWLREAGAEPIFETSAVDNQGVEELVDYLAS  143 (148)
T ss_pred             EecccccchHhH--HHHHHHHHHcCCcceEEEeccCcccHHHHHHHHHh
Confidence            349999754444  455667777886 4999999999999999988864

>cd04102 RabL3 RabL3 (Rab-like3) subfamily

Probab=96.74  E-value=0.0023  Score=41.21  Aligned_cols=43  Identities=9%  Similarity=-0.146  Sum_probs=33.5

Q ss_pred             CCCcEEeecCCCCCCCCCCHHH----HHHHHHHhCCeEEEeccCCCC
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRER----GEQLAIEYGIKFMETSAKNSI   49 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~----~~~~a~~~~~~~~etSAk~~~   49 (101)
                      .++.|||||.||.++|.++.++    +..+|++.|++.++.+++...
T Consensus       130 ~PiilVGnK~Dl~~~r~~~~~~~~~~~~~ia~~~~~~~i~~~c~~~~  176 (202)
T cd04102         130 IPLLVIGTKLDQIPEKESSGNLVLTARGFVAEQGNAEEINLNCTNGR  176 (202)
T ss_pred             ceEEEEEECccchhhcccchHHHhhHhhhHHHhcCCceEEEecCCcc
Confidence            3567789999998777777664    456789999999998888553

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.

>cd04165 GTPBP1_like GTPBP1-like

Probab=96.69  E-value=0.0047  Score=40.41  Aligned_cols=22  Identities=9%  Similarity=0.063  Sum_probs=19.1

Q ss_pred             CeEEEeccCCCCCHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      .++|.+||.+|.|++++...+.
T Consensus       198 ~pi~~vSavtg~Gi~~L~~~L~  219 (224)
T cd04165         198 VPIFQVSNVTGEGLDLLHAFLN  219 (224)
T ss_pred             CcEEEeeCCCccCHHHHHHHHH
Confidence            4799999999999999987663

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

>PRK09435 membrane ATPase/protein kinase; Provisional

Probab=96.69  E-value=0.0057  Score=42.40  Aligned_cols=52  Identities=6%  Similarity=0.031  Sum_probs=34.0

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHH----------hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIE----------YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~----------~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+|.||.|+...... ......+...          +..+++.+||+++.||++++..+.+.+
T Consensus       198 IiVVNKaDl~~~~~a-~~~~~el~~~L~l~~~~~~~w~~pVi~vSA~~g~GIdeL~~~I~~~~  259 (332)
T PRK09435        198 LIVINKADGDNKTAA-RRAAAEYRSALRLLRPKDPGWQPPVLTCSALEGEGIDEIWQAIEDHR  259 (332)
T ss_pred             eEEeehhcccchhHH-HHHHHHHHHHHhcccccccCCCCCEEEEECCCCCCHHHHHHHHHHHH
Confidence            467899998643211 1111112211          225789999999999999999988754

>COG1160 Predicted GTPases [General function prediction only]

Probab=96.64  E-value=0.0088  Score=42.82  Aligned_cols=56  Identities=7%  Similarity=-0.109  Sum_probs=39.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-h----CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-Y----GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~----~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      |.-+.++.||.|+.+....+.++.+.--+. .    .++.+.+||++|.+|+++|..+...
T Consensus       289 g~~~vIvvNKWDl~~~~~~~~~~~k~~i~~~l~~l~~a~i~~iSA~~~~~i~~l~~~i~~~  349 (444)
T COG1160         289 GRGIVIVVNKWDLVEEDEATMEEFKKKLRRKLPFLDFAPIVFISALTGQGLDKLFEAIKEI  349 (444)
T ss_pred             CCCeEEEEEccccCCchhhHHHHHHHHHHHHhccccCCeEEEEEecCCCChHHHHHHHHHH
Confidence            455678899999876554555555332222 2    2678999999999999999887653

>KOG3905|consensus

Probab=96.57  E-value=0.0077  Score=41.94  Aligned_cols=61  Identities=10%  Similarity=0.091  Sum_probs=45.0

Q ss_pred             cCCCcEEeecCCC----CCCCCCC-------HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFV----SSMPQVS-------RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl----~~~~~v~-------~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      |-.+-+|..|+|.    +.+....       ....+.||-++|+..|.||+|...||+-++..|+.+++.-.
T Consensus       222 Gi~vlVV~TK~D~~s~leke~eyrDehfdfiq~~lRkFCLr~GaaLiyTSvKE~KNidllyKYivhr~yG~~  293 (473)
T KOG3905|consen  222 GIPVLVVCTKCDAVSVLEKEHEYRDEHFDFIQSHLRKFCLRYGAALIYTSVKETKNIDLLYKYIVHRSYGFP  293 (473)
T ss_pred             CCcEEEEEeccchhhHhhhcchhhHHHHHHHHHHHHHHHHHcCceeEEeecccccchHHHHHHHHHHhcCcc
Confidence            4445566779997    2211111       23457889999999999999999999999999998876543

>cd01857 HSR1_MMR1 HSR1/MMR1

Probab=96.56  E-value=0.0031  Score=38.08  Aligned_cols=43  Identities=16%  Similarity=-0.011  Sum_probs=29.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCC
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSIN   50 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~   50 (101)
                      +.++.++.||+|+.++..  ..+..++.+..+..++.+||+++.+
T Consensus        42 ~k~~iivlNK~DL~~~~~--~~~~~~~~~~~~~~ii~iSa~~~~~   84 (141)
T cd01857          42 RKKNILLLNKADLLTEEQ--RKAWAEYFKKEGIVVVFFSALKENA   84 (141)
T ss_pred             CCcEEEEEechhcCCHHH--HHHHHHHHHhcCCeEEEEEecCCCc
Confidence            456778899999853222  2233445556678899999998875

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.

>PTZ00327 eukaryotic translation initiation factor 2 gamma subunit; Provisional

Probab=96.55  E-value=0.003  Score=45.57  Aligned_cols=54  Identities=11%  Similarity=0.015  Sum_probs=35.5

Q ss_pred             CcEEeecCCCCCCCCCC--HHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVS--RERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~--~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.||.|+.+...+.  .++...+...   .+.++|.+||++|.||+.+.+.+...+
T Consensus       174 iIVvlNKiDlv~~~~~~~~~~ei~~~l~~~~~~~~~iipVSA~~G~nI~~Ll~~L~~~l  232 (460)
T PTZ00327        174 IIILQNKIDLVKEAQAQDQYEEIRNFVKGTIADNAPIIPISAQLKYNIDVVLEYICTQI  232 (460)
T ss_pred             EEEEEecccccCHHHHHHHHHHHHHHHHhhccCCCeEEEeeCCCCCCHHHHHHHHHhhC
Confidence            56789999986422111  1222333222   246899999999999999998887533

>TIGR00750 lao LAO/AO transport system ATPase

Probab=96.53  E-value=0.0026  Score=43.28  Aligned_cols=53  Identities=13%  Similarity=0.173  Sum_probs=33.4

Q ss_pred             CcEEeecCCCCCCCCCCHHH-----H-HHHHH---HhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRER-----G-EQLAI---EYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~-----~-~~~a~---~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..++.||.|+..........     . ..+.+   .+..+++.+||+++.||++++..+...
T Consensus       175 ~ivv~NK~Dl~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~  236 (300)
T TIGR00750       175 DIYVVNKADGEGATNVTIARLMLALALEEIRRREDGWRPPVLTTSAVEGRGIDELWDAIEEH  236 (300)
T ss_pred             cEEEEEcccccchhHHHHHHHHHHHHHhhccccccCCCCCEEEEEccCCCCHHHHHHHHHHH
Confidence            35678999986422111000     0 11111   123468999999999999999999875

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.

>PRK09563 rbgA GTPase YlqF; Reviewed

Probab=96.51  E-value=0.0097  Score=40.25  Aligned_cols=57  Identities=18%  Similarity=0.102  Sum_probs=37.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+..+|.||+||.+...  .+....+-++.+..++.+||+++.|++++...+...+.+
T Consensus        51 ~kp~iiVlNK~DL~~~~~--~~~~~~~~~~~~~~vi~vSa~~~~gi~~L~~~l~~~l~~  107 (287)
T PRK09563         51 NKPRLLILNKSDLADPEV--TKKWIEYFEEQGIKALAINAKKGQGVKKILKAAKKLLKE  107 (287)
T ss_pred             CCCEEEEEEchhcCCHHH--HHHHHHHHHHcCCeEEEEECCCcccHHHHHHHHHHHHHH
Confidence            455678899999853211  111112223446678999999999999998887766544

>cd04166 CysN_ATPS CysN_ATPS subfamily

Probab=96.47  E-value=0.0028  Score=40.71  Aligned_cols=46  Identities=17%  Similarity=0.036  Sum_probs=30.2

Q ss_pred             CcEEeecCCCCCCCCC----CHHHHHHHHHHhCC---eEEEeccCCCCCHHHH
Q psy17493          9 SKYIEVPNFVSSMPQV----SRERGEQLAIEYGI---KFMETSAKNSINVEDA   54 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v----~~~~~~~~a~~~~~---~~~etSAk~~~~V~~~   54 (101)
                      +.++.||.|+.....-    ...+...+.+.++.   +++.+||++|.||++.
T Consensus       133 iIvviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~ii~iSA~~g~ni~~~  185 (208)
T cd04166         133 VVVAVNKMDLVDYSEEVFEEIVADYLAFAAKLGIEDITFIPISALDGDNVVSR  185 (208)
T ss_pred             EEEEEEchhcccCCHHHHHHHHHHHHHHHHHcCCCCceEEEEeCCCCCCCccC
Confidence            4557999998642111    12344555566663   4899999999999853

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.

>TIGR01394 TypA_BipA GTP-binding protein TypA/BipA

Probab=96.43  E-value=0.005  Score=45.74  Aligned_cols=58  Identities=12%  Similarity=0.025  Sum_probs=38.9

Q ss_pred             cCCCcEEeecCCCCCCCCC-CHHHHHHHHH-------HhCCeEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV-SRERGEQLAI-------EYGIKFMETSAKNSI----------NVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v-~~~~~~~~a~-------~~~~~~~etSAk~~~----------~V~~~F~~~~~~i~   63 (101)
                      +.+..+++||.|+.+.+.. ..++...+..       +..++++.+||++|.          |++.+|..++..+.
T Consensus       116 ~ip~IVviNKiD~~~a~~~~v~~ei~~l~~~~g~~~e~l~~pvl~~SA~~g~~~~~~~~~~~gi~~Lld~Iv~~lP  191 (594)
T TIGR01394       116 GLKPIVVINKIDRPSARPDEVVDEVFDLFAELGADDEQLDFPIVYASGRAGWASLDLDDPSDNMAPLFDAIVRHVP  191 (594)
T ss_pred             CCCEEEEEECCCCCCcCHHHHHHHHHHHHHhhccccccccCcEEechhhcCcccccCcccccCHHHHHHHHHHhCC
Confidence            4566788999998643321 1233333332       234679999999996          79999998887654

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.

>PRK09866 hypothetical protein; Provisional

Probab=96.41  E-value=0.018  Score=43.40  Aligned_cols=53  Identities=9%  Similarity=-0.127  Sum_probs=37.5

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHh----C---CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEY----G---IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----~---~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ++.+|.||+|+.+...-..+....+.+..    +   ...|.+||+.|.|++.+...+..
T Consensus       291 PVILVVNKIDl~dreeddkE~Lle~V~~~L~q~~i~f~eIfPVSAlkG~nid~LLdeI~~  350 (741)
T PRK09866        291 PLYVLVNKFDQQDRNSDDADQVRALISGTLMKGCITPQQIFPVSSMWGYLANRARHELAN  350 (741)
T ss_pred             CEEEEEEcccCCCcccchHHHHHHHHHHHHHhcCCCCceEEEEeCCCCCCHHHHHHHHHh
Confidence            67788999998543332245555554322    2   35899999999999999998876

>COG0536 Obg Predicted GTPase [General function prediction only]

Probab=96.35  E-value=0.0095  Score=41.44  Aligned_cols=61  Identities=13%  Similarity=0.069  Sum_probs=38.1

Q ss_pred             ccCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe--EEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          5 INTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK--FMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         5 ~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~--~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ...+..||.||+|+....+--......+++..+..  ++ .||.++.|++++...+.+.+....
T Consensus       274 ~~K~~ivv~NKiD~~~~~e~~~~~~~~l~~~~~~~~~~~-ISa~t~~g~~~L~~~~~~~l~~~~  336 (369)
T COG0536         274 AEKPRIVVLNKIDLPLDEEELEELKKALAEALGWEVFYL-ISALTREGLDELLRALAELLEETK  336 (369)
T ss_pred             ccCceEEEEeccCCCcCHHHHHHHHHHHHHhcCCCccee-eehhcccCHHHHHHHHHHHHHHhh
Confidence            34455678999996432222222233333333432  33 999999999999988887766543

>KOG1707|consensus

Probab=96.27  E-value=0.0019  Score=47.50  Aligned_cols=59  Identities=19%  Similarity=0.180  Sum_probs=40.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHH-HHHHHHHhC-Ce-EEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRER-GEQLAIEYG-IK-FMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~-~~~~a~~~~-~~-~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .+.+.|||||+|+.+...-+.+. ...+-.++. +. -+|+||++-.|+.++|...-+.++.
T Consensus       115 ~~PVILvGNK~d~~~~~~~s~e~~~~pim~~f~EiEtciecSA~~~~n~~e~fYyaqKaVih  176 (625)
T KOG1707|consen  115 ETPVILVGNKSDNGDNENNSDEVNTLPIMIAFAEIETCIECSALTLANVSELFYYAQKAVIH  176 (625)
T ss_pred             cCCEEEEeeccCCccccccchhHHHHHHHHHhHHHHHHHhhhhhhhhhhHhhhhhhhheeec
Confidence            35678899999986544433333 333333333 33 7999999999999999887766654

>COG0370 FeoB Fe2+ transport system protein B [Inorganic ion transport and metabolism]

Probab=96.18  E-value=0.0046  Score=46.11  Aligned_cols=55  Identities=13%  Similarity=-0.043  Sum_probs=45.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      |-++.++.|..|...++.+.- +.+++.+..|++.+.|||++|.|++++-..+.+.
T Consensus       108 g~p~ilaLNm~D~A~~~Gi~I-D~~~L~~~LGvPVv~tvA~~g~G~~~l~~~i~~~  162 (653)
T COG0370         108 GIPMILALNMIDEAKKRGIRI-DIEKLSKLLGVPVVPTVAKRGEGLEELKRAIIEL  162 (653)
T ss_pred             CCCeEEEeccHhhHHhcCCcc-cHHHHHHHhCCCEEEEEeecCCCHHHHHHHHHHh
Confidence            667788899999877666643 4566889999999999999999999998888753

>PRK13768 GTPase; Provisional

Probab=96.16  E-value=0.012  Score=39.20  Aligned_cols=25  Identities=12%  Similarity=0.309  Sum_probs=21.8

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++|.+||+++.|++++...+.+.+
T Consensus       222 ~~vi~iSa~~~~gl~~L~~~I~~~l  246 (253)
T PRK13768        222 VRVIPVSAKTGEGFDELYAAIQEVF  246 (253)
T ss_pred             CcEEEEECCCCcCHHHHHHHHHHHc
Confidence            5789999999999999998887654

>COG0486 ThdF Predicted GTPase [General function prediction only]

Probab=96.11  E-value=0.013  Score=42.03  Aligned_cols=55  Identities=11%  Similarity=0.014  Sum_probs=38.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|.||.||.........     .-..+.+++.+|||+|.|++.+-..+...+...
T Consensus       324 ~~~~i~v~NK~DL~~~~~~~~~-----~~~~~~~~i~iSa~t~~Gl~~L~~~i~~~~~~~  378 (454)
T COG0486         324 KKPIIVVLNKADLVSKIELESE-----KLANGDAIISISAKTGEGLDALREAIKQLFGKG  378 (454)
T ss_pred             CCCEEEEEechhcccccccchh-----hccCCCceEEEEecCccCHHHHHHHHHHHHhhc
Confidence            4567788999999754332211     112345689999999999999988887655443

>PLN00023 GTP-binding protein; Provisional

Probab=95.99  E-value=0.0093  Score=41.34  Aligned_cols=32  Identities=9%  Similarity=-0.033  Sum_probs=25.2

Q ss_pred             CCCcEEeecCCCCCCC---C---CCHHHHHHHHHHhCC
Q psy17493          7 TKSKYIEVPNFVSSMP---Q---VSRERGEQLAIEYGI   38 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~---~---v~~~~~~~~a~~~~~   38 (101)
                      ..+.|||||+||..++   .   +..+++++||+++|+
T Consensus       152 ipIILVGNK~DL~~~~~~r~~s~~~~e~a~~~A~~~g~  189 (334)
T PLN00023        152 VPYIVIGNKADIAPKEGTRGSSGNLVDAARQWVEKQGL  189 (334)
T ss_pred             CcEEEEEECccccccccccccccccHHHHHHHHHHcCC
Confidence            4567889999997542   3   468999999999984

>COG0532 InfB Translation initiation factor 2 (IF-2; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.92  E-value=0.033  Score=40.65  Aligned_cols=52  Identities=12%  Similarity=0.118  Sum_probs=34.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHH-HH------HHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERG-EQ------LAIEYG--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~~------~a~~~~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ++.+.+..||.|..+.   ..... .+      .++.||  ..|..+|||+|+||+++...+.-
T Consensus       107 ~vP~iVAiNKiDk~~~---np~~v~~el~~~gl~~E~~gg~v~~VpvSA~tg~Gi~eLL~~ill  167 (509)
T COG0532         107 GVPIVVAINKIDKPEA---NPDKVKQELQEYGLVPEEWGGDVIFVPVSAKTGEGIDELLELILL  167 (509)
T ss_pred             CCCEEEEEecccCCCC---CHHHHHHHHHHcCCCHhhcCCceEEEEeeccCCCCHHHHHHHHHH
Confidence            3444555899997632   12111 11      234454  56999999999999999988754

>KOG0072|consensus

Probab=95.83  E-value=0.004  Score=38.43  Aligned_cols=59  Identities=19%  Similarity=0.060  Sum_probs=40.1

Q ss_pred             ccccCCCcEEeecCCCCCCCCCCHHHHH-HH--H--HHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          3 IQINTKSKYIEVPNFVSSMPQVSRERGE-QL--A--IEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         3 il~~~~~~lv~nk~Dl~~~~~v~~~~~~-~~--a--~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      -|.+++.-+++||-|...  ..+..++. .+  .  +..-...|++||-+|+|++.+++=+.+.+.
T Consensus       116 eLq~a~llv~anKqD~~~--~~t~~E~~~~L~l~~Lk~r~~~Iv~tSA~kg~Gld~~~DWL~~~l~  179 (182)
T KOG0072|consen  116 ELQHAKLLVFANKQDYSG--ALTRSEVLKMLGLQKLKDRIWQIVKTSAVKGEGLDPAMDWLQRPLK  179 (182)
T ss_pred             hhcCceEEEEeccccchh--hhhHHHHHHHhChHHHhhheeEEEeeccccccCCcHHHHHHHHHHh
Confidence            356788888999999753  22333322 11  1  111256899999999999999988877654

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=95.71  E-value=0.0044  Score=45.97  Aligned_cols=43  Identities=21%  Similarity=0.057  Sum_probs=32.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      +.++.+++||+|+..          .|+...+.+|+|+||+.+.+|.+-|...
T Consensus       121 ~vpiIVv~NK~Dl~~----------~~~~~~~~~f~e~sak~~~~v~~~~~~~  163 (590)
T TIGR00491       121 KTPFVVAANKIDRIP----------GWRSHEGRPFMESFSKQEIQVQQNLDTK  163 (590)
T ss_pred             CCCEEEEEECCCccc----------hhhhccCchHHHHHHhhhHHHHHHHHHH
Confidence            455678899999853          4677788999999999998775544433

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.

>COG1159 Era GTPase [General function prediction only]

Probab=95.71  E-value=0.029  Score=38.30  Aligned_cols=57  Identities=12%  Similarity=-0.107  Sum_probs=37.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +++.++.||.|......+-......+..... ...+..||++|.|++.+-..+...+.
T Consensus       115 ~pvil~iNKID~~~~~~~l~~~~~~~~~~~~f~~ivpiSA~~g~n~~~L~~~i~~~Lp  172 (298)
T COG1159         115 TPVILVVNKIDKVKPKTVLLKLIAFLKKLLPFKEIVPISALKGDNVDTLLEIIKEYLP  172 (298)
T ss_pred             CCeEEEEEccccCCcHHHHHHHHHHHHhhCCcceEEEeeccccCCHHHHHHHHHHhCC
Confidence            4678889999976433321222222223333 35899999999999999888876553

>cd01883 EF1_alpha Eukaryotic elongation factor 1 (EF1) alpha subfamily

Probab=95.70  E-value=0.0045  Score=40.13  Aligned_cols=45  Identities=9%  Similarity=-0.031  Sum_probs=27.4

Q ss_pred             CCcEEeecCCCCCC--CCCCH----HHHHHHHHHhC-----CeEEEeccCCCCCHH
Q psy17493          8 KSKYIEVPNFVSSM--PQVSR----ERGEQLAIEYG-----IKFMETSAKNSINVE   52 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~--~~v~~----~~~~~~a~~~~-----~~~~etSAk~~~~V~   52 (101)
                      .+.++.||.|+...  ..-..    ++...+.+..+     .+++.+||++|.||+
T Consensus       139 ~iiivvNK~Dl~~~~~~~~~~~~i~~~l~~~l~~~~~~~~~~~ii~iSA~tg~gi~  194 (219)
T cd01883         139 QLIVAVNKMDDVTVNWSEERYDEIKKELSPFLKKVGYNPKDVPFIPISGLTGDNLI  194 (219)
T ss_pred             eEEEEEEccccccccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecCcCCCCC
Confidence            35568999998621  11111    12222334433     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

>PLN00043 elongation factor 1-alpha; Provisional

Probab=95.64  E-value=0.016  Score=41.70  Aligned_cols=44  Identities=14%  Similarity=-0.005  Sum_probs=31.0

Q ss_pred             CcEEeecCCCCCCCCCC-------HHHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493          9 SKYIEVPNFVSSMPQVS-------RERGEQLAIEYG-----IKFMETSAKNSINVED   53 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~-------~~~~~~~a~~~~-----~~~~etSAk~~~~V~~   53 (101)
                      +.++.||.|+.+. ..+       .++...+.+..|     ++|+.+||++|.||.+
T Consensus       148 iIV~vNKmD~~~~-~~~~~~~~~i~~ei~~~l~~~g~~~~~~~~ipiSa~~G~ni~~  203 (447)
T PLN00043        148 MICCCNKMDATTP-KYSKARYDEIVKEVSSYLKKVGYNPDKIPFVPISGFEGDNMIE  203 (447)
T ss_pred             EEEEEEcccCCch-hhhHHHHHHHHHHHHHHHHHcCCCcccceEEEEeccccccccc
Confidence            3557899997521 111       345667777766     6799999999999864

>KOG1489|consensus

Probab=95.63  E-value=0.03  Score=38.81  Aligned_cols=51  Identities=14%  Similarity=0.062  Sum_probs=35.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~   59 (101)
                      ....-+|.||.|+.+   -..+...++++...-+ .|..||++++|++++...+-
T Consensus       312 ~rp~liVaNKiD~~e---ae~~~l~~L~~~lq~~~V~pvsA~~~egl~~ll~~lr  363 (366)
T KOG1489|consen  312 DRPALIVANKIDLPE---AEKNLLSSLAKRLQNPHVVPVSAKSGEGLEELLNGLR  363 (366)
T ss_pred             cCceEEEEeccCchh---HHHHHHHHHHHHcCCCcEEEeeeccccchHHHHHHHh
Confidence            344677899999841   1111235677776644 99999999999999876653

>smart00010 small_GTPase Small GTPase of the Ras superfamily; ill-defined subfamily

Probab=95.63  E-value=0.0054  Score=35.44  Aligned_cols=42  Identities=31%  Similarity=0.337  Sum_probs=26.1

Q ss_pred             ccccCCCcE----EeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHH
Q psy17493          3 IQINTKSKY----IEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVE   52 (101)
Q Consensus         3 il~~~~~~l----v~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~   52 (101)
                      ++++++.|+    ++||.|+.+.+.+.        .+.+..|+++||+++.||.
T Consensus        70 i~~~~k~dl~~~~~~nk~dl~~~~~~~--------~~~~~~~~~~s~~~~~~~~  115 (124)
T smart00010       70 VLVGNKSDLPILVGGNRDVLEEERQVA--------TEEGLEFAETSAKTPEEGE  115 (124)
T ss_pred             HHhcCCCCCcEEEEeechhhHhhCcCC--------HHHHHHHHHHhCCCcchhh
Confidence            344555543    34788875433343        3333457789999999984

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.

>PRK14845 translation initiation factor IF-2; Provisional

Probab=95.60  E-value=0.043  Score=43.40  Aligned_cols=23  Identities=17%  Similarity=0.313  Sum_probs=19.8

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ++++.+||+||.||+++...+..
T Consensus       648 v~iVpVSA~tGeGId~Ll~~l~~  670 (1049)
T PRK14845        648 VAIVPVSAKTGEGIPELLMMVAG  670 (1049)
T ss_pred             ceEEEEEcCCCCCHHHHHHHHHH
Confidence            57899999999999999876653

>COG5257 GCD11 Translation initiation factor 2, gamma subunit (eIF-2gamma; GTPase) [Translation, ribosomal structure and biogenesis]

Probab=95.51  E-value=0.029  Score=39.07  Aligned_cols=58  Identities=10%  Similarity=0.048  Sum_probs=41.0

Q ss_pred             CCCcEEeecCCCCCCC--CCCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMP--QVSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.++.||.||-.+.  .-.+++..+|.+-   -+++.+-+||..+.||+-+++.+.+.|..
T Consensus       141 k~iiIvQNKIDlV~~E~AlE~y~qIk~FvkGt~Ae~aPIIPiSA~~~~NIDal~e~i~~~Ipt  203 (415)
T COG5257         141 KNIIIVQNKIDLVSRERALENYEQIKEFVKGTVAENAPIIPISAQHKANIDALIEAIEKYIPT  203 (415)
T ss_pred             ceEEEEecccceecHHHHHHHHHHHHHHhcccccCCCceeeehhhhccCHHHHHHHHHHhCCC
Confidence            4566778999984311  1233444555443   25789999999999999999999887754

>COG2262 HflX GTPases [General function prediction only]

Probab=95.34  E-value=0.043  Score=39.01  Aligned_cols=53  Identities=8%  Similarity=-0.184  Sum_probs=35.0

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+|.||.|+..... ....   ...... ..+.+||++|.|++.+...+...+...
T Consensus       306 p~i~v~NKiD~~~~~~-~~~~---~~~~~~-~~v~iSA~~~~gl~~L~~~i~~~l~~~  358 (411)
T COG2262         306 PIILVLNKIDLLEDEE-ILAE---LERGSP-NPVFISAKTGEGLDLLRERIIELLSGL  358 (411)
T ss_pred             CEEEEEecccccCchh-hhhh---hhhcCC-CeEEEEeccCcCHHHHHHHHHHHhhhc
Confidence            4566789999643222 1111   111112 588999999999999999998877643

>PRK12736 elongation factor Tu; Reviewed

Probab=95.04  E-value=0.051  Score=38.40  Aligned_cols=40  Identities=15%  Similarity=0.066  Sum_probs=25.4

Q ss_pred             cEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCC
Q psy17493         10 KYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSI   49 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~   49 (101)
                      .++.||.|+.+.....   .++...+....+     ++++.+||++|.
T Consensus       132 IvviNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T PRK12736        132 VVFLNKVDLVDDEELLELVEMEVRELLSEYDFPGDDIPVIRGSALKAL  179 (394)
T ss_pred             EEEEEecCCcchHHHHHHHHHHHHHHHHHhCCCcCCccEEEeeccccc
Confidence            4679999986322221   124445555554     579999999984

>PRK04004 translation initiation factor IF-2; Validated

Probab=94.99  E-value=0.018  Score=42.78  Aligned_cols=50  Identities=14%  Similarity=-0.011  Sum_probs=40.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+++||+|+..          .|+..++..|+++|++++.++.+.|......+...
T Consensus       123 ~vpiIvviNK~D~~~----------~~~~~~~~~~~e~~~~~~~~v~~~f~~~l~ev~~~  172 (586)
T PRK04004        123 KTPFVVAANKIDRIP----------GWKSTEDAPFLESIEKQSQRVQQELEEKLYELIGQ  172 (586)
T ss_pred             CCCEEEEEECcCCch----------hhhhhcCchHHHHHhhhhHHHHHHHHHHHHHHHHH
Confidence            445677899999741          46667789999999999999999999988776554

>PRK05124 cysN sulfate adenylyltransferase subunit 1; Provisional

Probab=94.51  E-value=0.032  Score=40.46  Aligned_cols=47  Identities=17%  Similarity=-0.012  Sum_probs=29.6

Q ss_pred             CCcEEeecCCCCCCCCCCHH----HHHHHHHHhC----CeEEEeccCCCCCHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRE----RGEQLAIEYG----IKFMETSAKNSINVEDA   54 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~----~~~~~a~~~~----~~~~etSAk~~~~V~~~   54 (101)
                      .+.++.||.|+.....-..+    +...+.+..+    .+++.+||++|.||+++
T Consensus       162 ~iIvvvNKiD~~~~~~~~~~~i~~~l~~~~~~~~~~~~~~iipvSA~~g~ni~~~  216 (474)
T PRK05124        162 HLVVAVNKMDLVDYSEEVFERIREDYLTFAEQLPGNLDIRFVPLSALEGDNVVSQ  216 (474)
T ss_pred             ceEEEEEeeccccchhHHHHHHHHHHHHHHHhcCCCCCceEEEEEeecCCCcccc
Confidence            35668999998642221112    2223333333    67999999999999875

>COG1703 ArgK Putative periplasmic protein kinase ArgK and related GTPases of G3E family [Amino acid transport and metabolism]

Probab=94.33  E-value=0.077  Score=36.51  Aligned_cols=26  Identities=12%  Similarity=0.116  Sum_probs=22.0

Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         37 GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        37 ~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+.|||.+|.||++++..+.+..
T Consensus       228 ~ppv~~t~A~~g~Gi~~L~~ai~~h~  253 (323)
T COG1703         228 RPPVVTTSALEGEGIDELWDAIEDHR  253 (323)
T ss_pred             CCceeEeeeccCCCHHHHHHHHHHHH
Confidence            35789999999999999998886543

>TIGR00485 EF-Tu translation elongation factor TU

Probab=94.16  E-value=0.074  Score=37.57  Aligned_cols=39  Identities=13%  Similarity=0.053  Sum_probs=26.4

Q ss_pred             EEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCC
Q psy17493         11 YIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSI   49 (101)
Q Consensus        11 lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~   49 (101)
                      ++.||.|+.+.....   .++...+.+.++     ++++.+||++|.
T Consensus       133 vvvNK~Dl~~~~~~~~~~~~~i~~~l~~~~~~~~~~~ii~vSa~~g~  179 (394)
T TIGR00485       133 VFLNKCDMVDDEELLELVEMEVRELLSEYDFPGDDTPIIRGSALKAL  179 (394)
T ss_pred             EEEEecccCCHHHHHHHHHHHHHHHHHhcCCCccCccEEECcccccc
Confidence            468999986432211   235566666665     689999999986

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.

>COG1163 DRG Predicted GTPase [General function prediction only]

Probab=94.16  E-value=0.18  Score=35.14  Aligned_cols=47  Identities=21%  Similarity=0.128  Sum_probs=35.7

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+|.||.|+..     .++...+.+..  .++-.||+.+.|++++-+.+-+.+
T Consensus       242 ~l~v~NKiD~~~-----~e~~~~l~~~~--~~v~isa~~~~nld~L~e~i~~~L  288 (365)
T COG1163         242 ALYVVNKIDLPG-----LEELERLARKP--NSVPISAKKGINLDELKERIWDVL  288 (365)
T ss_pred             eEEEEecccccC-----HHHHHHHHhcc--ceEEEecccCCCHHHHHHHHHHhh
Confidence            356789999743     55555555555  789999999999999988887654

>cd01884 EF_Tu EF-Tu subfamily

Probab=93.90  E-value=0.18  Score=32.29  Aligned_cols=44  Identities=11%  Similarity=0.067  Sum_probs=27.3

Q ss_pred             CcEEeecCCCCCCCCC---CHHHHHHHHHHhC-----CeEEEeccCCCCCHH
Q psy17493          9 SKYIEVPNFVSSMPQV---SRERGEQLAIEYG-----IKFMETSAKNSINVE   52 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v---~~~~~~~~a~~~~-----~~~~etSAk~~~~V~   52 (101)
                      +.++.||.|+..+...   ..++...+....+     ++++-+||++|.|+.
T Consensus       121 iIvviNK~D~~~~~~~~~~~~~~i~~~l~~~g~~~~~v~iipiSa~~g~n~~  172 (195)
T cd01884         121 IVVFLNKADMVDDEELLELVEMEVRELLSKYGFDGDNTPIVRGSALKALEGD  172 (195)
T ss_pred             EEEEEeCCCCCCcHHHHHHHHHHHHHHHHHhcccccCCeEEEeeCccccCCC
Confidence            3467899998532211   1123444444443     679999999999863

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.

>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=93.71  E-value=0.037  Score=37.22  Aligned_cols=24  Identities=13%  Similarity=0.221  Sum_probs=20.7

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .+.+.|||.++.||+++++.+.+.
T Consensus       205 ppV~~tsA~~~~Gi~eL~~~i~~~  228 (266)
T PF03308_consen  205 PPVLKTSALEGEGIDELWEAIDEH  228 (266)
T ss_dssp             -EEEEEBTTTTBSHHHHHHHHHHH
T ss_pred             CCEEEEEeCCCCCHHHHHHHHHHH
Confidence            579999999999999999888653

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.

>KOG0076|consensus

Probab=93.70  E-value=0.051  Score=34.56  Aligned_cols=64  Identities=13%  Similarity=0.008  Sum_probs=44.1

Q ss_pred             cccccCCCcEEeecCCCCCCCCCCH-HHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          2 EIQINTKSKYIEVPNFVSSMPQVSR-ERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         2 eil~~~~~~lv~nk~Dl~~~~~v~~-~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      |.+.|..+-+.+||-|+.+...+.. ......++..+   .+|.-+||.+|.||++.-.-+++.+.++
T Consensus       122 E~leg~p~L~lankqd~q~~~~~~El~~~~~~~e~~~~rd~~~~pvSal~gegv~egi~w~v~~~~kn  189 (197)
T KOG0076|consen  122 EKLEGAPVLVLANKQDLQNAMEAAELDGVFGLAELIPRRDNPFQPVSALTGEGVKEGIEWLVKKLEKN  189 (197)
T ss_pred             HHhcCCchhhhcchhhhhhhhhHHHHHHHhhhhhhcCCccCccccchhhhcccHHHHHHHHHHHHhhc
Confidence            5566777778899999875333222 11222244444   5688999999999999998888876554

>TIGR02034 CysN sulfate adenylyltransferase, large subunit

Probab=93.56  E-value=0.076  Score=37.73  Aligned_cols=46  Identities=15%  Similarity=0.052  Sum_probs=29.2

Q ss_pred             CcEEeecCCCCCCCCCC----HHHHHHHHHHhC---CeEEEeccCCCCCHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVS----RERGEQLAIEYG---IKFMETSAKNSINVEDA   54 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~----~~~~~~~a~~~~---~~~~etSAk~~~~V~~~   54 (101)
                      +.++.||.|+.+...-.    .++...+.+..+   ++|+.+||++|.|+++.
T Consensus       136 iivviNK~D~~~~~~~~~~~i~~~~~~~~~~~~~~~~~iipiSA~~g~ni~~~  188 (406)
T TIGR02034       136 VVLAVNKMDLVDYDEEVFENIKKDYLAFAEQLGFRDVTFIPLSALKGDNVVSR  188 (406)
T ss_pred             EEEEEEecccccchHHHHHHHHHHHHHHHHHcCCCCccEEEeecccCCCCccc
Confidence            45689999986422111    122233444444   46999999999999864

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).

>KOG1490|consensus

Probab=93.45  E-value=0.26  Score=36.33  Aligned_cols=58  Identities=14%  Similarity=0.043  Sum_probs=42.7

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHH---HHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGE---QLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~---~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ...+|.||+|+-....++.+...   .+....++++++||..+.+||-++=..+...++..
T Consensus       283 ~~IlvlNK~D~m~~edL~~~~~~ll~~~~~~~~v~v~~tS~~~eegVm~Vrt~ACe~LLa~  343 (620)
T KOG1490|consen  283 VTILVLNKIDAMRPEDLDQKNQELLQTIIDDGNVKVVQTSCVQEEGVMDVRTTACEALLAA  343 (620)
T ss_pred             ceEEEeecccccCccccCHHHHHHHHHHHhccCceEEEecccchhceeeHHHHHHHHHHHH
Confidence            36778999998765566665543   33444458899999999999988887777766653

>PRK12735 elongation factor Tu; Reviewed

Probab=93.09  E-value=0.19  Score=35.62  Aligned_cols=40  Identities=10%  Similarity=0.048  Sum_probs=25.5

Q ss_pred             EEeecCCCCCCCCC---CHHHHHHHHHHhC-----CeEEEeccCCCCC
Q psy17493         11 YIEVPNFVSSMPQV---SRERGEQLAIEYG-----IKFMETSAKNSIN   50 (101)
Q Consensus        11 lv~nk~Dl~~~~~v---~~~~~~~~a~~~~-----~~~~etSAk~~~~   50 (101)
                      ++.||.|+.+....   ..++...+.+.++     ++|+.+||++|.|
T Consensus       133 vvvNK~Dl~~~~~~~~~~~~ei~~~l~~~~~~~~~~~ii~~Sa~~g~n  180 (396)
T PRK12735        133 VFLNKCDMVDDEELLELVEMEVRELLSKYDFPGDDTPIIRGSALKALE  180 (396)
T ss_pred             EEEEecCCcchHHHHHHHHHHHHHHHHHcCCCcCceeEEecchhcccc
Confidence            35899998532211   1234555666553     6799999999954

>cd01899 Ygr210 Ygr210 subfamily

Probab=92.31  E-value=0.13  Score=35.47  Aligned_cols=53  Identities=13%  Similarity=0.056  Sum_probs=35.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHH-HHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFF-TLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~-~~~~~i   62 (101)
                      ..++.+++||.|+.....    ....+.... ....+.+||+.+.+++++.+ .++..+
T Consensus       214 ~KPvI~VlNK~Dl~~~~~----~~~~l~~~~~~~~iI~iSA~~e~~L~~L~~~~i~~~l  268 (318)
T cd01899         214 SKPMVIAANKADIPDAEN----NISKLRLKYPDEIVVPTSAEAELALRRAAKQGLIKYD  268 (318)
T ss_pred             CCcEEEEEEHHHccChHH----HHHHHHhhCCCCeEEEEeCcccccHHHHHHhhHHHhC
Confidence            446677899999742211    111222333 45699999999999999887 466654

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.

>COG3276 SelB Selenocysteine-specific translation elongation factor [Translation, ribosomal structure and biogenesis]

Probab=92.05  E-value=0.24  Score=35.70  Aligned_cols=52  Identities=15%  Similarity=0.075  Sum_probs=34.6

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHH---HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAI---EYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~---~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+|.+|.|..+...+.. ...+.-.   --.+++|-+||++|.||+++-..+....
T Consensus       107 iivltk~D~~d~~r~e~-~i~~Il~~l~l~~~~i~~~s~~~g~GI~~Lk~~l~~L~  161 (447)
T COG3276         107 IIVLTKADRVDEARIEQ-KIKQILADLSLANAKIFKTSAKTGRGIEELKNELIDLL  161 (447)
T ss_pred             EEEEeccccccHHHHHH-HHHHHHhhcccccccccccccccCCCHHHHHHHHHHhh
Confidence            67788999765332211 1111111   1236689999999999999999998866

>PF05783 DLIC: Dynein light intermediate chain (DLIC); InterPro: IPR022780 This entry consists of several eukaryotic dynein light intermediate chain proteins

Probab=91.97  E-value=0.66  Score=33.88  Aligned_cols=61  Identities=10%  Similarity=0.079  Sum_probs=43.4

Q ss_pred             cCCCcEEeecCCCC----CCCCC-----C--HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVS----SMPQV-----S--RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~----~~~~v-----~--~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      |-.+.+|..|+|.-    .+..-     .  ..-.+.||-.||+.+|.||++...|++.++..|...++...
T Consensus       196 Gipi~VV~tksD~~~~Lek~~~~~~e~~DfIqq~LR~~cL~yGAsL~yts~~~~~n~~~L~~yi~h~l~~~~  267 (472)
T PF05783_consen  196 GIPIVVVCTKSDKIETLEKETDWKEEHFDFIQQYLRTFCLKYGASLIYTSVKEEKNLDLLYKYILHRLYGFP  267 (472)
T ss_pred             CcceEEEEecccHHHHHhhhcccchhhHHHHHHHHHHHHHhcCCeEEEeeccccccHHHHHHHHHHHhccCC
Confidence            45556667799852    11111     1  12346788899999999999999999999999887776543

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 [].

>KOG0705|consensus

Probab=91.92  E-value=0.74  Score=34.50  Aligned_cols=49  Identities=24%  Similarity=0.341  Sum_probs=39.1

Q ss_pred             CCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493         20 SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus        20 ~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      ..+.+...++..++..+. ..||+++|-+|.||+.+|..++..+....+.
T Consensus       145 ~~rv~~da~~r~l~~~~krcsy~et~atyGlnv~rvf~~~~~k~i~~~~~  194 (749)
T KOG0705|consen  145 RPRVITDDRARQLSAQMKRCSYYETCATYGLNVERVFQEVAQKIVQLRKY  194 (749)
T ss_pred             cccccchHHHHHHHHhcCccceeecchhhhhhHHHHHHHHHHHHHHHHhh
Confidence            346777778877777665 7799999999999999999999877655433

>PRK10218 GTP-binding protein; Provisional

Probab=91.89  E-value=0.45  Score=35.75  Aligned_cols=58  Identities=10%  Similarity=0.048  Sum_probs=35.8

Q ss_pred             cCCCcEEeecCCCCCCCCC-CHHHHHHHHH-------HhCCeEEEeccCCCC----------CHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV-SRERGEQLAI-------EYGIKFMETSAKNSI----------NVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v-~~~~~~~~a~-------~~~~~~~etSAk~~~----------~V~~~F~~~~~~i~   63 (101)
                      +.+..++.||.|+...+.- ..++...+..       ...++++.+||++|.          ++..+|+.+...+.
T Consensus       120 gip~IVviNKiD~~~a~~~~vl~ei~~l~~~l~~~~~~~~~PVi~~SA~~G~~~~~~~~~~~~i~~Lld~Ii~~iP  195 (607)
T PRK10218        120 GLKPIVVINKVDRPGARPDWVVDQVFDLFVNLDATDEQLDFPIVYASALNGIAGLDHEDMAEDMTPLYQAIVDHVP  195 (607)
T ss_pred             CCCEEEEEECcCCCCCchhHHHHHHHHHHhccCccccccCCCEEEeEhhcCcccCCccccccchHHHHHHHHHhCC
Confidence            5566778999998642211 1122222221       123678999999998          57788877665543

>COG1160 Predicted GTPases [General function prediction only]

Probab=91.71  E-value=0.42  Score=34.52  Aligned_cols=51  Identities=10%  Similarity=-0.065  Sum_probs=36.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      -++.||.||+|-.     ..+....-.-..|+ ..+-+||-.|.|+.++.+.+...+
T Consensus       113 kpviLvvNK~D~~-----~~e~~~~efyslG~g~~~~ISA~Hg~Gi~dLld~v~~~l  164 (444)
T COG1160         113 KPVILVVNKIDNL-----KAEELAYEFYSLGFGEPVPISAEHGRGIGDLLDAVLELL  164 (444)
T ss_pred             CCEEEEEEcccCc-----hhhhhHHHHHhcCCCCceEeehhhccCHHHHHHHHHhhc
Confidence            4677889999943     12222222234554 489999999999999999998876

>PRK05506 bifunctional sulfate adenylyltransferase subunit 1/adenylylsulfate kinase protein; Provisional

Probab=91.56  E-value=0.18  Score=37.86  Aligned_cols=46  Identities=17%  Similarity=0.052  Sum_probs=28.7

Q ss_pred             CCcEEeecCCCCCCCCCCH----HHHHHHHHHhC---CeEEEeccCCCCCHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSR----ERGEQLAIEYG---IKFMETSAKNSINVED   53 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~---~~~~etSAk~~~~V~~   53 (101)
                      .+.++.||.|+.+...-..    .+...+.+..+   .+++.+||++|.|+++
T Consensus       159 ~iivvvNK~D~~~~~~~~~~~i~~~i~~~~~~~~~~~~~iipiSA~~g~ni~~  211 (632)
T PRK05506        159 HVVLAVNKMDLVDYDQEVFDEIVADYRAFAAKLGLHDVTFIPISALKGDNVVT  211 (632)
T ss_pred             eEEEEEEecccccchhHHHHHHHHHHHHHHHHcCCCCccEEEEecccCCCccc
Confidence            3456799999853111111    22233444555   4589999999999985

>COG2895 CysN GTPases - Sulfate adenylate transferase subunit 1 [Inorganic ion transport and metabolism]

Probab=90.61  E-value=0.27  Score=34.83  Aligned_cols=46  Identities=17%  Similarity=0.036  Sum_probs=33.6

Q ss_pred             CcEEeecCCCCCCCCCCHH----HHHHHHHHhCC---eEEEeccCCCCCHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRE----RGEQLAIEYGI---KFMETSAKNSINVEDA   54 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~----~~~~~a~~~~~---~~~etSAk~~~~V~~~   54 (101)
                      +.+..||.||.+..+-.++    +...||++.|+   .|+-.||..|.||-.-
T Consensus       142 vvvAVNKmDLvdy~e~~F~~I~~dy~~fa~~L~~~~~~~IPiSAl~GDNV~~~  194 (431)
T COG2895         142 VVVAVNKMDLVDYSEEVFEAIVADYLAFAAQLGLKDVRFIPISALLGDNVVSK  194 (431)
T ss_pred             EEEEEeeecccccCHHHHHHHHHHHHHHHHHcCCCcceEEechhccCCccccc
Confidence            4555789999865544443    34578898884   5999999999998543

>cd04104 p47_IIGP_like p47 (47-kDa) family

Probab=90.52  E-value=0.98  Score=28.68  Aligned_cols=29  Identities=17%  Similarity=0.124  Sum_probs=24.0

Q ss_pred             eEEEeccC--CCCCHHHHHHHHHHHHHHHHh
Q psy17493         39 KFMETSAK--NSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus        39 ~~~etSAk--~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      ++|-+|+.  .+.++..+.+.+...+.+...
T Consensus       158 ~v~~vS~~~~~~~~~~~l~~~~~~~l~~~~~  188 (197)
T cd04104         158 PVFLVSNFDPSDYDFPKLRETLLKDLPAHKR  188 (197)
T ss_pred             CEEEEeCCChhhcChHHHHHHHHHHhhHHHH
Confidence            59999998  678999999999888876543

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

>PRK09602 translation-associated GTPase; Reviewed

Probab=88.71  E-value=0.57  Score=33.38  Aligned_cols=45  Identities=18%  Similarity=0.046  Sum_probs=29.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDA   54 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~   54 (101)
                      ..++.+|.||.|+....    +....+.+..+..++.+||+.+.+++++
T Consensus       217 ~KPvI~VlNK~D~~~~~----~~l~~i~~~~~~~vvpISA~~e~~l~~~  261 (396)
T PRK09602        217 SKPMVIAANKADLPPAE----ENIERLKEEKYYIVVPTSAEAELALRRA  261 (396)
T ss_pred             CCCEEEEEEchhcccch----HHHHHHHhcCCCcEEEEcchhhhhHHHH
Confidence            45677889999964211    1122232223456899999999999883

>KOG0070|consensus

Probab=88.48  E-value=0.77  Score=29.31  Aligned_cols=56  Identities=11%  Similarity=-0.035  Sum_probs=36.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-----CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-----GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-----~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+-+.+||-|+..  ..+..+..+.-.-+     .-.+..|+|.+|.|+.+.++-+...+.
T Consensus       118 ~~~llv~aNKqD~~~--als~~ei~~~L~l~~l~~~~w~iq~~~a~~G~GL~egl~wl~~~~~  178 (181)
T KOG0070|consen  118 NAPLLVFANKQDLPG--ALSAAEITNKLGLHSLRSRNWHIQSTCAISGEGLYEGLDWLSNNLK  178 (181)
T ss_pred             CceEEEEechhhccc--cCCHHHHHhHhhhhccCCCCcEEeeccccccccHHHHHHHHHHHHh
Confidence            445556789999874  34433333222222     233568999999999999998887664

>KOG1145|consensus

Probab=88.14  E-value=3.2  Score=31.29  Aligned_cols=50  Identities=12%  Similarity=-0.035  Sum_probs=32.7

Q ss_pred             CcEEeecCCCCCCCCCCHHHHH-HH------HHHhC--CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGE-QL------AIEYG--IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~-~~------a~~~~--~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.+..||+|..   .-..+... ++      .+.+|  .+.+..||++|.|++.+-+.+.-.
T Consensus       256 iVvAinKiDkp---~a~pekv~~eL~~~gi~~E~~GGdVQvipiSAl~g~nl~~L~eaill~  314 (683)
T KOG1145|consen  256 IVVAINKIDKP---GANPEKVKRELLSQGIVVEDLGGDVQVIPISALTGENLDLLEEAILLL  314 (683)
T ss_pred             EEEEEeccCCC---CCCHHHHHHHHHHcCccHHHcCCceeEEEeecccCCChHHHHHHHHHH
Confidence            34457899964   23333332 22      33444  578999999999999988777543

>KOG0075|consensus

Probab=87.42  E-value=0.37  Score=30.08  Aligned_cols=50  Identities=14%  Similarity=0.096  Sum_probs=32.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--------CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--------IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--------~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      |-.+-+.|||.|+.+  ..+..   .+..+.|        +-.|..|+|...||+.+..=+.+
T Consensus       122 gip~LVLGnK~d~~~--AL~~~---~li~rmgL~sitdREvcC~siScke~~Nid~~~~Wli~  179 (186)
T KOG0075|consen  122 GIPLLVLGNKIDLPG--ALSKI---ALIERMGLSSITDREVCCFSISCKEKVNIDITLDWLIE  179 (186)
T ss_pred             CCcEEEecccccCcc--cccHH---HHHHHhCccccccceEEEEEEEEcCCccHHHHHHHHHH
Confidence            444556689999863  33322   2334444        35789999999999987665544

>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=87.29  E-value=2.2  Score=26.73  Aligned_cols=31  Identities=19%  Similarity=0.018  Sum_probs=24.4

Q ss_pred             HHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493         29 GEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus        29 ~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      ..+.-+..|.+.+.+|++++.+++++...+.
T Consensus         4 ~~~~y~~~gy~v~~~S~~~~~g~~~l~~~l~   34 (161)
T PF03193_consen    4 LLEQYEKLGYPVFFISAKTGEGIEELKELLK   34 (161)
T ss_dssp             HHHHHHHTTSEEEE-BTTTTTTHHHHHHHHT
T ss_pred             HHHHHHHcCCcEEEEeCCCCcCHHHHHHHhc
Confidence            3445567899999999999999999887664

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.

>KOG0461|consensus

Probab=85.83  E-value=1.5  Score=31.33  Aligned_cols=58  Identities=14%  Similarity=0.006  Sum_probs=34.5

Q ss_pred             CCCcEEeecCCCCC--CCCCCHH-HHHHHHHHh-------CCeEEEeccCCC----CCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS--MPQVSRE-RGEQLAIEY-------GIKFMETSAKNS----INVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~--~~~v~~~-~~~~~a~~~-------~~~~~etSAk~~----~~V~~~F~~~~~~i~~   64 (101)
                      .|..+|.||.|+..  +|.-..+ -+..+++..       +.+..++||+.|    ++|.++-+.+-..+.+
T Consensus       123 ~klvvvinkid~lpE~qr~ski~k~~kk~~KtLe~t~f~g~~PI~~vsa~~G~~~~~~i~eL~e~l~s~if~  194 (522)
T KOG0461|consen  123 KKLVVVINKIDVLPENQRASKIEKSAKKVRKTLESTGFDGNSPIVEVSAADGYFKEEMIQELKEALESRIFE  194 (522)
T ss_pred             cceEEEEeccccccchhhhhHHHHHHHHHHHHHHhcCcCCCCceeEEecCCCccchhHHHHHHHHHHHhhcC
Confidence            45677888887642  3333222 223333332       268999999999    6666666555555554

>COG2229 Predicted GTPase [General function prediction only]

Probab=85.64  E-value=3.6  Score=26.42  Aligned_cols=48  Identities=10%  Similarity=-0.019  Sum_probs=34.1

Q ss_pred             EEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493         11 YIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        11 lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..||-||.+  .-+.++..++-+..  ..+.++++|..+.++.+....+..
T Consensus       126 Va~NK~DL~~--a~ppe~i~e~l~~~~~~~~vi~~~a~e~~~~~~~L~~ll~  175 (187)
T COG2229         126 VAINKQDLFD--ALPPEKIREALKLELLSVPVIEIDATEGEGARDQLDVLLL  175 (187)
T ss_pred             EEeeccccCC--CCCHHHHHHHHHhccCCCceeeeecccchhHHHHHHHHHh
Confidence            3468999975  34455555544443  788999999999998887666543

>KOG0466|consensus

Probab=85.28  E-value=0.92  Score=31.76  Aligned_cols=58  Identities=12%  Similarity=0.060  Sum_probs=40.2

Q ss_pred             CCCcEEeecCCCCCCCC--CCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQ--VSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.++.||.||-.+.+  -..++.+.|...   -|++.+-+||--..||+-+.+.+++.|.-
T Consensus       180 khiiilQNKiDli~e~~A~eq~e~I~kFi~~t~ae~aPiiPisAQlkyNId~v~eyivkkIPv  242 (466)
T KOG0466|consen  180 KHIIILQNKIDLIKESQALEQHEQIQKFIQGTVAEGAPIIPISAQLKYNIDVVCEYIVKKIPV  242 (466)
T ss_pred             ceEEEEechhhhhhHHHHHHHHHHHHHHHhccccCCCceeeehhhhccChHHHHHHHHhcCCC
Confidence            44566789999854222  112334444443   24789999999999999999999987743

>COG0218 Predicted GTPase [General function prediction only]

Probab=85.24  E-value=2.2  Score=27.73  Aligned_cols=57  Identities=7%  Similarity=-0.062  Sum_probs=34.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC----Ce--EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG----IK--FMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~----~~--~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      |-.+.++.+|.|.-...... ......++..+    ..  .+-+|+.++.|++++-..+...+.
T Consensus       135 ~i~~~vv~tK~DKi~~~~~~-k~l~~v~~~l~~~~~~~~~~~~~ss~~k~Gi~~l~~~i~~~~~  197 (200)
T COG0218         135 GIPVIVVLTKADKLKKSERN-KQLNKVAEELKKPPPDDQWVVLFSSLKKKGIDELKAKILEWLK  197 (200)
T ss_pred             CCCeEEEEEccccCChhHHH-HHHHHHHHHhcCCCCccceEEEEecccccCHHHHHHHHHHHhh
Confidence            45566788999964322221 11122333332    22  678899999999999888876553

>CHL00071 tufA elongation factor Tu

Probab=84.61  E-value=0.85  Score=32.49  Aligned_cols=43  Identities=12%  Similarity=-0.001  Sum_probs=26.7

Q ss_pred             CcEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCCCCH
Q psy17493          9 SKYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNSINV   51 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~~~V   51 (101)
                      +.++.||.|+.+.....   .++...+.+..+     ++|+..||++|.|+
T Consensus       131 iIvvvNK~D~~~~~~~~~~~~~~l~~~l~~~~~~~~~~~ii~~Sa~~g~n~  181 (409)
T CHL00071        131 IVVFLNKEDQVDDEELLELVELEVRELLSKYDFPGDDIPIVSGSALLALEA  181 (409)
T ss_pred             EEEEEEccCCCCHHHHHHHHHHHHHHHHHHhCCCCCcceEEEcchhhcccc
Confidence            34679999986422211   124444444443     67999999999865

>PTZ00141 elongation factor 1- alpha; Provisional

Probab=84.01  E-value=1.6  Score=31.57  Aligned_cols=45  Identities=11%  Similarity=-0.006  Sum_probs=26.8

Q ss_pred             CcEEeecCCCCC--CCCCC----HHHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493          9 SKYIEVPNFVSS--MPQVS----RERGEQLAIEYG-----IKFMETSAKNSINVED   53 (101)
Q Consensus         9 ~~lv~nk~Dl~~--~~~v~----~~~~~~~a~~~~-----~~~~etSAk~~~~V~~   53 (101)
                      +.++.||.|...  ...-.    .++...+....+     ++|+-+||.+|.||.+
T Consensus       148 iiv~vNKmD~~~~~~~~~~~~~i~~~i~~~l~~~g~~~~~~~~ipiSa~~g~ni~~  203 (446)
T PTZ00141        148 MIVCINKMDDKTVNYSQERYDEIKKEVSAYLKKVGYNPEKVPFIPISGWQGDNMIE  203 (446)
T ss_pred             EEEEEEccccccchhhHHHHHHHHHHHHHHHHhcCCCcccceEEEeecccCCCccc
Confidence            356899999531  11111    123333333333     5799999999999864

>TIGR00491 aIF-2 translation initiation factor aIF-2/yIF-2

Probab=83.38  E-value=1.7  Score=32.64  Aligned_cols=23  Identities=17%  Similarity=0.218  Sum_probs=20.3

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      ++++.+||++|+|++++...+..
T Consensus       191 v~iVpVSA~tGeGideLl~~l~~  213 (590)
T TIGR00491       191 VAIIPISAITGEGIPELLTMLAG  213 (590)
T ss_pred             ceEEEeecCCCCChhHHHHHHHH
Confidence            67999999999999999987754

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.

>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=81.65  E-value=0.43  Score=31.59  Aligned_cols=22  Identities=18%  Similarity=0.446  Sum_probs=16.8

Q ss_pred             eEEEeccCCCCCHHHHHHHHHH
Q psy17493         39 KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus        39 ~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      .|+-.|++++.++++++..+-+
T Consensus       213 ~f~pls~~~~~~~~~L~~~id~  234 (238)
T PF03029_consen  213 RFIPLSSKDGEGMEELLAAIDK  234 (238)
T ss_dssp             --EE-BTTTTTTHHHHHHHHHH
T ss_pred             eEEEEECCChHHHHHHHHHHHH
Confidence            6999999999999999977654

; GO: 0000166 nucleotide binding; PDB: 1YR7_A 1YRA_B 1YR8_A 1YR6_A 1YR9_A 1YRB_A 2OXR_A.

>PF07764 Omega_Repress: Omega Transcriptional Repressor; InterPro: IPR011686 The omega transcriptional repressor regulates expression of genes involved in copy number control and stable maintenance of plasmids

Probab=81.25  E-value=1.8  Score=22.72  Aligned_cols=23  Identities=26%  Similarity=0.237  Sum_probs=18.7

Q ss_pred             eccCCCCCHHHHHHHHHHHHHHH
Q psy17493         43 TSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        43 tSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      -|||+|-||.++.+...+..++.
T Consensus        43 etAknGgNvKEvme~~lr~~l~~   65 (71)
T PF07764_consen   43 ETAKNGGNVKEVMEQALREKLKS   65 (71)
T ss_dssp             HHHHSSS-HHHHHHHHHHHHHHH
T ss_pred             eecccCCCHHHHHHHHHHHHHHH
Confidence            37999999999999988877764

The omega protein belongs to the structural superfamily of MetJ/Arc repressors featuring a ribbon-helix-helix DNA-binding motif with the beta-ribbon located in and recognising the major groove of operator DNA [].; PDB: 2BNW_D 1IRQ_A 2CAX_B 2BNZ_A.

>KOG1423|consensus

Probab=81.24  E-value=2.2  Score=29.86  Aligned_cols=23  Identities=17%  Similarity=0.033  Sum_probs=19.6

Q ss_pred             EEEeccCCCCCHHHHHHHHHHHH
Q psy17493         40 FMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        40 ~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +|-+||++|.||+++=+.+..+.
T Consensus       248 vF~vSaL~G~GikdlkqyLmsqa  270 (379)
T KOG1423|consen  248 VFMVSALYGEGIKDLKQYLMSQA  270 (379)
T ss_pred             EEEEecccccCHHHHHHHHHhcC
Confidence            79999999999999988776543

>COG1161 Predicted GTPases [General function prediction only]

Probab=80.12  E-value=3.3  Score=28.66  Aligned_cols=47  Identities=17%  Similarity=0.077  Sum_probs=28.9

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAF   55 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F   55 (101)
                      +..+|+||.||.+ +.+.....+.|.++.+...+..|++.+.++..+-
T Consensus        63 ~~i~vlNK~DL~~-~~~~~~W~~~~~~~~~~~~~~v~~~~~~~~~~i~  109 (322)
T COG1161          63 PKLLVLNKADLAP-KEVTKKWKKYFKKEEGIKPIFVSAKSRQGGKKIR  109 (322)
T ss_pred             CcEEEEehhhcCC-HHHHHHHHHHHHhcCCCccEEEEeecccCccchH
Confidence            3457899999965 3334444444555556666777777776655444

---

Homologous Structure Templates

Structure Templates Detected by BLAST

Original result of BLAST against Protein Data Bank

ID	Length	Definition	E-value
Query	101
2fu5_C	183	Structure Of Rab8 In Complex With Mss4 Length = 183		1e-16
3qbt_A	174	Crystal Structure Of Ocrl1 540-678 In Complex With		1e-16
2g6b_A	180	Crystal Structure Of Human Rab26 In Complex With A		2e-07
2rhd_A	175	Crystal Structure Of Cryptosporidium Parvum Small G		6e-07
4q21_A	189	Molecular Switch For Signal Transduction: Structura		6e-07
2a5j_A	191	Crystal Structure Of Human Rab2b Length = 191		1e-06
3con_A	190	Crystal Structure Of The Human Nras Gtpase Bound Wi		2e-06
4epx_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-06
4ept_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-06
4epr_A	170	Discovery Of Small Molecules That Bind To K-Ras And		3e-06
3gft_A	187	Human K-Ras In Complex With A Gtp Analogue Length =		3e-06
6q21_A	171	Molecular Switch For Signal Transduction: Structura		7e-06
2q21_A	171	Crystal Structures At 2.2 Angstroms Resolution Of T		7e-06
4dso_A	189	Small-Molecule Ligands Bind To A Distinct Pocket In		1e-05
1z0a_A	174	Gdp-Bound Rab2a Gtpase Length = 174		1e-05
3cph_A	213	Crystal Structure Of Sec4 In Complex With Rab-Gdi L		1e-05
2eqb_A	174	Crystal Structure Of The Rab Gtpase Sec4p, The Sec2		1e-05
1g17_A	170	Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)		2e-05
1g16_A	170	Crystal Structure Of Sec4-Gdp Length = 170		2e-05
2ocy_C	170	Complex Of The Guanine Exchange Factor Sec2p And Th		2e-05
4efm_A	171	Crystal Structure Of H-Ras G12v In Complex With Gpp		3e-05
4efl_A	171	Crystal Structure Of H-Ras Wt In Complex With Gppnh		3e-05
3kkm_A	172	Crystal Structure Of H-Ras T35s In Complex With Gpp		3e-05
4efn_A	171	Crystal Structure Of H-Ras Q61l In Complex With Gpp		3e-05
1lfd_B	167	Crystal Structure Of The Active Ras Protein Complex		3e-05
521p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-05
1clu_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		3e-05
1iaq_A	166	C-H-Ras P21 Protein Mutant With Thr 35 Replaced By		3e-05
3ddc_A	166	Crystal Structure Of Nore1a In Complex With Ras Len		3e-05
2cl0_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-05
1xcm_A	167	Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mu		3e-05
221p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-05
1wq1_R	166	Ras-Rasgap Complex Length = 166		3e-05
1jah_A	166	H-Ras P21 Protein Mutant G12p, Complexed With Guano		3e-05
1rvd_A	166	H-Ras Complexed With Diaminobenzophenone-Beta,Gamma		3e-05
1nvv_Q	166	Structural Evidence For Feedback Activation By Rasg		3e-05
2cld_X	166	Crystal Structure Analysis Of A Fluorescent Form Of		3e-05
2c5l_A	173	Structure Of Plc Epsilon Ras Association Domain Wit		3e-05
721p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-05
621p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		3e-05
2rgb_A	166	Crystal Structure Of H-Rasq61k-Gppnhp Length = 166		3e-05
2quz_A	166	Crystal Structure Of The Activating H-Rask117r Muta		3e-05
1xj0_A	166	Crystal Structure Of The Gdp-Bound Form Of The Rasg		3e-05
1lf0_A	166	Crystal Structure Of Rasa59g In The Gtp-Bound Form		3e-05
1zvq_A	166	Structure Of The Q61g Mutant Of Ras In The Gdp-Boun		3e-05
3i3s_R	166	Crystal Structure Of H-Ras With Thr50 Replaced By I		3e-05
2rgc_A	166	Crystal Structure Of H-Rasq61v-Gppnhp Length = 166		3e-05
2rga_A	166	Crystal Structure Of H-Rasq61i-Gppnhp Length = 166		3e-05
3lo5_A	166	Crystal Structure Of The Dominant Negative S17n Mut		4e-05
421p_A	166	Three-Dimensional Structures Of H-Ras P21 Mutants:		4e-05
3v4f_A	166	H-Ras Peg 400CACL2, ORDERED OFF Length = 166		4e-05
1agp_A	166	Three-Dimensional Structures And Properties Of A Tr		4e-05
3k9n_A	166	Allosteric Modulation Of H-Ras Gtpase Length = 166		4e-05
1zw6_A	166	Crystal Structure Of The Gtp-Bound Form Of Rasq61g		4e-05
1zbd_A	203	Structural Basis Of Rab Effector Specificity: Cryst		4e-05
2p5s_A	199	Rab Domain Of Human Rasef In Complex With Gdp Lengt		1e-04
2x1v_A	166	Crystal Structure Of The Activating H-Ras I163f Mut		1e-04
1ek0_A	170	Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 17		2e-04
3jza_A	175	Crystal Structure Of Human Rab1b In Complex With Th		3e-04
4i1o_A	181	Crystal Structure Of The Legionella Pneumophila Gap		3e-04
2ery_A	172	The Crystal Structure Of The Ras Related Protein Rr		5e-04
2bcg_Y	206	Structure Of Doubly Prenylated Ypt1:gdi Complex Len		6e-04
1ukv_Y	206	Structure Of Rabgdp-Dissociation Inhibitor In Compl		6e-04
3tkl_A	196	Crystal Structure Of The Gtp-Bound Rab1a In Complex		6e-04
3kkp_A	183	Crystal Structure Of M-Ras P40d In Complex With Gpp		7e-04
3pir_A	183	Crystal Structure Of M-Rasd41e In Complex With Gppn		7e-04
1x1r_A	178	Crystal Structure Of M-Ras In Complex With Gdp Leng		7e-04
3kko_A	183	Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX		7e-04
3sfv_A	181	Crystal Structure Of The Gdp-Bound Rab1a S25n Mutan		7e-04
2wwx_A	175	Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Ra		8e-04
2fol_A	191	Crystal Structure Of Human Rab1a In Complex With Gd		8e-04
4fmd_F	164	Espg-Rab1 Complex Structure At 3.05 A Length = 164		8e-04
4fmc_B	171	Espg-Rab1 Complex Length = 171		8e-04
1yzn_A	185	Gppnhp-Bound Ypt1p Gtpase Length = 185		8e-04
4fmb_B	171	Vira-Rab1 Complex Structure Length = 171		8e-04

>pdb|2FU5|C Chain C, Structure Of Rab8 In Complex With Mss4 Length = 183

Iteration: 1
 Score = 81.6 bits (200), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/56 (67%), Positives = 49/56 (87%)
Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEAS 73
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +K  +A+
Sbjct: 125 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKAT 180

>pdb|3QBT|A Chain A, Crystal Structure Of Ocrl1 540-678 In Complex With Rab8a:gppnhp Length = 174

Iteration: 1
 Score = 81.3 bits (199), Expect = 1e-16,   Method: Compositional matrix adjust.
 Identities = 38/52 (73%), Positives = 47/52 (90%)
Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           V+   QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +KK
Sbjct: 123 VNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKK 174

>pdb|2G6B|A Chain A, Crystal Structure Of Human Rab26 In Complex With A Gtp Analogue Length = 180

Iteration: 1
 Score = 50.4 bits (119), Expect = 2e-07,   Method: Compositional matrix adjust.
 Identities = 24/45 (53%), Positives = 34/45 (75%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           V RE GE+LA EYG+ FMETSAK  +NV+ AF  +A+++K ++ K
Sbjct: 134 VKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMK 178

>pdb|2RHD|A Chain A, Crystal Structure Of Cryptosporidium Parvum Small Gtpase Rab1a Length = 175

Iteration: 1
 Score = 49.3 bits (116), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 23/44 (52%), Positives = 33/44 (75%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ + G +LA  +GIKF+ETSAKN+ NVE AF T+A +IK + +
Sbjct: 132 VTSDEGRELADSHGIKFIETSAKNAYNVEQAFHTMAGEIKKRVQ 175

>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 = 48.9 bits (115), Expect = 6e-07,   Method: Compositional matrix adjust.
 Identities = 25/53 (47%), Positives = 33/53 (62%), Gaps = 3/53 (5%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPP 76
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+    +KL   NPP
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKL---NPP 174

>pdb|2A5J|A Chain A, Crystal Structure Of Human Rab2b Length = 191

Iteration: 1
 Score = 48.1 bits (113), Expect = 1e-06,   Method: Compositional matrix adjust.
 Identities = 24/53 (45%), Positives = 34/53 (64%)
Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
           + S   V RE GE  A E+G+ FMETSAK + NVE+AF   A++I  + ++ L
Sbjct: 138 LESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190

>pdb|3CON|A Chain A, Crystal Structure Of The Human Nras Gtpase Bound With Gdp Length = 190

Iteration: 1
 Score = 47.8 bits (112), Expect = 2e-06,   Method: Compositional matrix adjust.
 Identities = 24/47 (51%), Positives = 31/47 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
           V  ++  +LA  YGI F+ETSAK    VEDAF+TL R+I+    KKL
Sbjct: 143 VDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>pdb|4EPX|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 2/52 (3%)
Query: 19  SSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           S +P   V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   EK
Sbjct: 119 SDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|4EPT|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 2/52 (3%)
Query: 19  SSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           S +P   V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   EK
Sbjct: 119 SDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|4EPR|A Chain A, Discovery Of Small Molecules That Bind To K-Ras And Inhibit Sos- Mediated Activation Length = 170

Iteration: 1
 Score = 47.0 bits (110), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 24/52 (46%), Positives = 33/52 (63%), Gaps = 2/52 (3%)
Query: 19  SSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           S +P   V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   EK
Sbjct: 119 SDLPSRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEK 170

>pdb|3GFT|A Chain A, Human K-Ras In Complex With A Gtp Analogue Length = 187

Iteration: 1
 Score = 46.6 bits (109), Expect = 3e-06,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 30/45 (66%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
           V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   EK
Sbjct: 143 VDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEK 187

>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 = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 30/47 (63%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+    +KL
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKL 171

>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 = 45.8 bits (107), Expect = 7e-06,   Method: Compositional matrix adjust.
 Identities = 22/47 (46%), Positives = 30/47 (63%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+    +KL
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQHKLRKL 171

>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 = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 21/44 (47%), Positives = 29/44 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   E
Sbjct: 126 VDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKE 169

>pdb|1Z0A|A Chain A, Gdp-Bound Rab2a Gtpase Length = 174

Iteration: 1
 Score = 45.1 bits (105), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/45 (48%), Positives = 31/45 (68%)
Query: 18  VSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           + S  +V +E GE  A E+G+ FMETSAK + NVE+AF   A++I
Sbjct: 127 LESRREVKKEEGEAFAREHGLIFMETSAKTASNVEEAFINTAKEI 171

>pdb|3CPH|A Chain A, Crystal Structure Of Sec4 In Complex With Rab-Gdi Length = 213

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 32/44 (72%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +
Sbjct: 142 VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 185

>pdb|2EQB|A Chain A, Crystal Structure Of The Rab Gtpase Sec4p, The Sec2p Gef Domain, And Phosphate Complex Length = 174

Iteration: 1
 Score = 44.7 bits (104), Expect = 1e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 32/44 (72%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +
Sbjct: 129 VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 172

>pdb|1G17|A Chain A, Crystal Structure Of Sec4-Guanosine-5'-(Beta,Gamma)- Imidotriphosphate Length = 170

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 32/44 (72%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +
Sbjct: 125 VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 168

>pdb|1G16|A Chain A, Crystal Structure Of Sec4-Gdp Length = 170

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 32/44 (72%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +
Sbjct: 125 VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 168

>pdb|2OCY|C Chain C, Complex Of The Guanine Exchange Factor Sec2p And The Rab Gtpase Sec4p Length = 170

Iteration: 1
 Score = 44.3 bits (103), Expect = 2e-05,   Method: Compositional matrix adjust.
 Identities = 22/44 (50%), Positives = 32/44 (72%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +
Sbjct: 125 VTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID 168

>pdb|4EFM|A Chain A, Crystal Structure Of H-Ras G12v In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 130 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>pdb|4EFL|A Chain A, Crystal Structure Of H-Ras Wt In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 130 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>pdb|3KKM|A Chain A, Crystal Structure Of H-Ras T35s In Complex With Gppnhp Length = 172

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 131 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 170

>pdb|4EFN|A Chain A, Crystal Structure Of H-Ras Q61l In Complex With Gppnhp (State 1) Length = 171

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 130 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 169

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1CLU|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3DDC|A Chain A, Crystal Structure Of Nore1a In Complex With Ras Length = 166

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1XCM|A Chain A, Crystal Structure Of The Gppnhp-Bound H-Ras G60a Mutant Length = 167

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1WQ1|R Chain R, Ras-Rasgap Complex Length = 166

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1RVD|A Chain A, H-Ras Complexed With Diaminobenzophenone-Beta,Gamma-Imido- Gtp Length = 166

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2C5L|A Chain A, Structure Of Plc Epsilon Ras Association Domain With Hras Length = 173

Iteration: 1
 Score = 43.5 bits (101), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 132 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 171

>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 = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2RGB|A Chain A, Crystal Structure Of H-Rasq61k-Gppnhp Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1XJ0|A Chain A, Crystal Structure Of The Gdp-Bound Form Of The Rasg60a Mutant Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1LF0|A Chain A, Crystal Structure Of Rasa59g In The Gtp-Bound Form Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1ZVQ|A Chain A, Structure Of The Q61g Mutant Of Ras In The Gdp-Bound Form Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3I3S|R Chain R, Crystal Structure Of H-Ras With Thr50 Replaced By Isoleucine Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2RGC|A Chain A, Crystal Structure Of H-Rasq61v-Gppnhp Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|2RGA|A Chain A, Crystal Structure Of H-Rasq61i-Gppnhp Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 3e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3LO5|A Chain A, Crystal Structure Of The Dominant Negative S17n Mutant Of Ras Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3V4F|A Chain A, H-Ras Peg 400CACL2, ORDERED OFF Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|3K9N|A Chain A, Allosteric Modulation Of H-Ras Gtpase Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>pdb|1ZW6|A Chain A, Crystal Structure Of The Gtp-Bound Form Of Rasq61g Length = 166

Iteration: 1
 Score = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 27/40 (67%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 43.1 bits (100), Expect = 4e-05,   Method: Compositional matrix adjust.
 Identities = 23/56 (41%), Positives = 32/56 (57%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGG 79
           VS ERG QLA   G +F E SAK++INV+  F  L   I  +  + L+ ++P   G
Sbjct: 131 VSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKXSESLDTADPAVTG 186

>pdb|2P5S|A Chain A, Rab Domain Of Human Rasef In Complex With Gdp Length = 199

Iteration: 1
 Score = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/38 (50%), Positives = 27/38 (71%)
Query: 29  GEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66
           GE+LA+ YG  F ETSAK+  N+ +A   LAR++K +T
Sbjct: 162 GEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKRT 199

>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 = 41.6 bits (96), Expect = 1e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V   + + LA  YGI ++ETSAK    VEDAF+TL R+ +
Sbjct: 125 VESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREFR 164

>pdb|1EK0|A Chain A, Gppnhp-Bound Ypt51 At 1.48 A Resolution Length = 170

Iteration: 1
 Score = 40.8 bits (94), Expect = 2e-04,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 25/40 (62%)
Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           +V+RE GE+LA E G+ F ETSAK   NV D F  +   I
Sbjct: 128 KVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI 167

>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 = 40.4 bits (93), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE AF T+A +IK
Sbjct: 132 VDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIK 171

>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 = 40.0 bits (92), Expect = 3e-04,   Method: Compositional matrix adjust.
 Identities = 20/40 (50%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE AF T+A +IK
Sbjct: 132 VDNTTAKEFADSLGIPFLETSAKNATNVEQAFMTMAAEIK 171

>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 = 39.7 bits (91), Expect = 5e-04,   Method: Compositional matrix adjust.
 Identities = 19/41 (46%), Positives = 28/41 (68%)
Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           QV++E G+QLA +  + +ME SAK  +NV+ AF  L R I+
Sbjct: 127 QVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIR 167

>pdb|2BCG|Y Chain Y, Structure Of Doubly Prenylated Ypt1:gdi Complex Length = 206

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 32/49 (65%), Gaps = 4/49 (8%)
Query: 40  FMETSAKNSINVEDAFFTLARDIK-AQTEKKLEASNP---PKGGIHVKS 84
           F+ETSA +S NVEDAF T+AR IK + +++ L  +      KG +++K 
Sbjct: 147 FLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKG 195

>pdb|1UKV|Y Chain Y, Structure Of Rabgdp-Dissociation Inhibitor In Complex With Prenylated Ypt1 Gtpase Length = 206

Iteration: 1
 Score = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 21/49 (42%), Positives = 32/49 (65%), Gaps = 4/49 (8%)
Query: 40  FMETSAKNSINVEDAFFTLARDIK-AQTEKKLEASNP---PKGGIHVKS 84
           F+ETSA +S NVEDAF T+AR IK + +++ L  +      KG +++K 
Sbjct: 147 FLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKGNVNLKG 195

>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 = 39.3 bits (90), Expect = 6e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 139 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 178

>pdb|3KKP|A Chain A, Crystal Structure Of M-Ras P40d In Complex With Gppnhp Length = 183

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 3/57 (5%)
Query: 12  IEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKN-SINVEDAFFTLARDIKAQ 65
           I V N V  M   +V+R++G+++A +Y I ++ETSAK+  +NV+  F  L R I+ Q
Sbjct: 127 ILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|3PIR|A Chain A, Crystal Structure Of M-Rasd41e In Complex With Gppnhp (Type 1) Length = 183

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 3/57 (5%)
Query: 12  IEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKN-SINVEDAFFTLARDIKAQ 65
           I V N V  M   +V+R++G+++A +Y I ++ETSAK+  +NV+  F  L R I+ Q
Sbjct: 127 ILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>pdb|1X1R|A Chain A, Crystal Structure Of M-Ras In Complex With Gdp Length = 178

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 3/57 (5%)
Query: 12  IEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKN-SINVEDAFFTLARDIKAQ 65
           I V N V  M   +V+R++G+++A +Y I ++ETSAK+  +NV+  F  L R I+ Q
Sbjct: 122 ILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 178

>pdb|3KKO|A Chain A, Crystal Structure Of M-Ras P40dD41EL51R IN COMPLEX WITH GP Length = 183

Iteration: 1
 Score = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 23/57 (40%), Positives = 37/57 (64%), Gaps = 3/57 (5%)
Query: 12  IEVPNFVSSMP--QVSRERGEQLAIEYGIKFMETSAKN-SINVEDAFFTLARDIKAQ 65
           I V N V  M   +V+R++G+++A +Y I ++ETSAK+  +NV+  F  L R I+ Q
Sbjct: 127 ILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>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 = 38.9 bits (89), Expect = 7e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 139 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 178

>pdb|2WWX|A Chain A, Crystal Structure Of The SidmDRRA(GEFGDF DOMAIN)-Rab1 (Gtpase Domain) Complex Length = 175

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 131 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 170

>pdb|2FOL|A Chain A, Crystal Structure Of Human Rab1a In Complex With Gdp Length = 191

Iteration: 1
 Score = 38.9 bits (89), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 148 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 187

>pdb|4FMD|F Chain F, Espg-Rab1 Complex Structure At 3.05 A Length = 164

Iteration: 1
 Score = 38.5 bits (88), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 122 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 161

>pdb|4FMC|B Chain B, Espg-Rab1 Complex Length = 171

Iteration: 1
 Score = 38.5 bits (88), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 129 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 168

>pdb|1YZN|A Chain A, Gppnhp-Bound Ypt1p Gtpase Length = 185

Iteration: 1
 Score = 38.5 bits (88), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 17/24 (70%), Positives = 20/24 (83%)
Query: 40  FMETSAKNSINVEDAFFTLARDIK 63
           F+ETSA +S NVEDAF T+AR IK
Sbjct: 160 FLETSALDSTNVEDAFLTMARQIK 183

>pdb|4FMB|B Chain B, Vira-Rab1 Complex Structure Length = 171

Iteration: 1
 Score = 38.5 bits (88), Expect = 8e-04,   Method: Compositional matrix adjust.
 Identities = 19/40 (47%), Positives = 26/40 (65%)
Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK
Sbjct: 129 VDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK 168

Structure Templates Detected by RPS-BLAST

Original result of RPS-BLAST against PDB70 database

ID	Length	Definition	E-value
Query	101
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	4e-23
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	1e-22
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	2e-22
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	5e-22
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	4e-21
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	4e-21
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	5e-21
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	5e-21
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	1e-20
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	2e-20
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	4e-20
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	4e-20
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	5e-20
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	6e-20
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	6e-20
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	1e-19
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	1e-19
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	2e-19
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	2e-19
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	3e-19
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	5e-19
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	5e-19
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	6e-19
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	6e-19
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	6e-19
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	6e-19
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	7e-19
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	7e-19
3bbp_A	211	RAB-6, RAS-related protein RAB-6A; golgi complex,	8e-19
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	8e-19
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	9e-19
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	1e-18
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	1e-18
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	2e-18
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	2e-18
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	2e-18
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	3e-18
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	3e-18
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	3e-18
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	5e-18
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	6e-18
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	1e-17
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	1e-17
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	1e-17
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	1e-17
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	2e-17
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	4e-17
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	6e-17
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	6e-17
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	7e-17
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	7e-17
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	7e-17
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	7e-17
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	9e-17
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	1e-16
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	1e-16
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	1e-16
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	1e-16
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	1e-16
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	2e-16
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	2e-16
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	3e-16
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	7e-16
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	1e-15
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	1e-15
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	5e-15
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	2e-13
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	2e-11
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	6e-11
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	8e-09
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	2e-08
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	2e-06
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	5e-06
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	7e-06
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	1e-05
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	4e-05
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	6e-05
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	6e-05
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	7e-05
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	7e-05

>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 = 86.9 bits (216), Expect = 4e-23
 Identities = 24/71 (33%), Positives = 36/71 (50%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
            VS ERG QLA   G +F E SAK++INV+  F  L   I  +  + L+ ++P   G   
Sbjct: 130 VVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSESLDTADPAVTGAKQ 189

Query: 83  KSSEPNRKPPS 93
                +++ P 
Sbjct: 190 GPQLTDQQAPP 200

>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 = 85.8 bits (213), Expect = 1e-22
 Identities = 21/76 (27%), Positives = 33/76 (43%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
            V  +  ++ A    + F+ETSA +S NVEDAF T+AR IK    ++       K     
Sbjct: 130 VVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQKKEDKG 189

Query: 83  KSSEPNRKPPSWLSKC 98
             +   +   +    C
Sbjct: 190 NVNLKGQSLTNTGGCC 205

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens} Length = 196

 Score = 85.0 bits (211), Expect = 2e-22
 Identities = 21/58 (36%), Positives = 30/58 (51%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGI 80
            V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK +      A    K  +
Sbjct: 138 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRMGPGATAGGAEKSNV 195

>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 = 84.6 bits (210), Expect = 5e-22
 Identities = 26/79 (32%), Positives = 39/79 (49%), Gaps = 8/79 (10%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS E  +  A ++ + ++ETSAK   NV+  FF L R+I+    +K+E S    G    
Sbjct: 136 QVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIR---ARKMEDSKEKNGKKKR 192

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           KS     +      +C IL
Sbjct: 193 KSLAKRIR-----ERCCIL 206

>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 = 82.4 bits (204), Expect = 4e-21
 Identities = 20/54 (37%), Positives = 30/54 (55%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPP 76
           +V+  +  +LA +YGI + ETSA    NVE A  TL   I  + E+ +E +  P
Sbjct: 158 EVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVEKTQIP 211

>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 = 81.5 bits (202), Expect = 4e-21
 Identities = 18/51 (35%), Positives = 26/51 (50%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEAS 73
            V  E   +LA +YGI + ETSA N  N+  A   L   I  + E+ ++ S
Sbjct: 144 AVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRMERSVDKS 194

>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 = 81.5 bits (202), Expect = 5e-21
 Identities = 37/53 (69%), Positives = 47/53 (88%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNP 75
           QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +K  +A+  
Sbjct: 130 QVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDKNWKATAA 182

>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 = 82.0 bits (203), Expect = 5e-21
 Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 2/73 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK--LEASNPPKGGI 80
            V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + +    +   N  +G I
Sbjct: 141 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDSNKLVGVGNGKEGNI 200

Query: 81  HVKSSEPNRKPPS 93
            + S   N    +
Sbjct: 201 SINSGSGNSSKSN 213

>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 = 80.7 bits (200), Expect = 1e-20
 Identities = 18/79 (22%), Positives = 31/79 (39%), Gaps = 9/79 (11%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           +V     + +A E+   FMETSAK + NV++ F  L      +                 
Sbjct: 130 EVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETRRNMSLNIDG--------- 180

Query: 83  KSSEPNRKPPSWLSKCSIL 101
           K S   ++      KC+++
Sbjct: 181 KRSGKQKRTDRVKGKCTLM 199

>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 = 80.4 bits (199), Expect = 2e-20
 Identities = 18/71 (25%), Positives = 29/71 (40%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
            V  +     A +  + F+ETSA +S NVE+AF  +  +I     +K  A          
Sbjct: 127 AVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQKQIADRAAHDESPG 186

Query: 83  KSSEPNRKPPS 93
            +      PP+
Sbjct: 187 NNVVDISVPPT 197

>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 = 78.8 bits (195), Expect = 4e-20
 Identities = 24/47 (51%), Positives = 34/47 (72%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
            V RE GE+LA EYG+ FMETSAK  +NV+ AF  +A+++K ++ K 
Sbjct: 133 VVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRRSMKA 179

>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 = 79.2 bits (196), Expect = 4e-20
 Identities = 27/79 (34%), Positives = 39/79 (49%), Gaps = 14/79 (17%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
            V  ++ + LA  YGI F+ETSAK    V+DAF+TL R+I+   EK              
Sbjct: 125 TVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEK-------------- 170

Query: 83  KSSEPNRKPPSWLSKCSIL 101
            S +  +K     +KC I+
Sbjct: 171 MSKDGKKKKKKSKTKCVIM 189

>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 = 79.2 bits (196), Expect = 5e-20
 Identities = 17/53 (32%), Positives = 30/53 (56%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNP 75
           +VS++R E+ +    + ++ETSAK S NVE  F  LA  + ++  +    +N 
Sbjct: 148 EVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEARQNTLVNNV 200

>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 = 78.9 bits (195), Expect = 6e-20
 Identities = 20/44 (45%), Positives = 28/44 (63%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66
            V    GE+LA+ YG  F ETSAK+  N+ +A   LAR++K +T
Sbjct: 156 CVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVKKRT 199

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens} Length = 181

 Score = 78.4 bits (194), Expect = 6e-20
 Identities = 15/51 (29%), Positives = 24/51 (47%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEAS 73
            V  E   + A + GI+  ETSAK ++NVE+ F  +   +    +  L   
Sbjct: 130 VVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKDNLAKQ 180

>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 = 78.0 bits (193), Expect = 1e-19
 Identities = 15/47 (31%), Positives = 21/47 (44%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +VS E G  LA     K +ETSA    N  + F    R I+ +  + 
Sbjct: 147 EVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLRRGRN 193

>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 = 78.0 bits (193), Expect = 1e-19
 Identities = 19/47 (40%), Positives = 28/47 (59%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +V  E     A   G+ F+ETSA +S NVE AF T+ ++I A+  K+
Sbjct: 147 EVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKVSKQ 193

>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 = 77.3 bits (191), Expect = 2e-19
 Identities = 23/48 (47%), Positives = 32/48 (66%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
            V RE GE  A E+G+ FMETSAK + NVE+AF   A++I  + ++ L
Sbjct: 143 DVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 190

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} Length = 169

 Score = 76.8 bits (190), Expect = 2e-19
 Identities = 15/43 (34%), Positives = 20/43 (46%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           +VS E G  LA     K +ETSA    N  + F    R I+ +
Sbjct: 126 EVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRLR 168

>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 = 76.9 bits (190), Expect = 3e-19
 Identities = 17/46 (36%), Positives = 24/46 (52%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
            V  E G +LA + G +F E SAK +INV+  F  L   I  +  +
Sbjct: 144 VVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEKMNE 189

>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 = 77.0 bits (190), Expect = 5e-19
 Identities = 20/75 (26%), Positives = 27/75 (36%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
            V  E  +  A E  + F ETSA NS NV+ AF  L   I  +  K            + 
Sbjct: 135 AVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKVSKHQMDLGDSSANGNA 194

Query: 83  KSSEPNRKPPSWLSK 97
             +     P   L+ 
Sbjct: 195 NGASAPNGPTISLTP 209

>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 = 75.7 bits (187), Expect = 5e-19
 Identities = 22/46 (47%), Positives = 32/46 (69%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
            V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ + + 
Sbjct: 124 VVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKIDS 169

>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 = 76.6 bits (189), Expect = 6e-19
 Identities = 15/47 (31%), Positives = 26/47 (55%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +VS   G   A+ +  KF+ETSA    NV++ F  + R ++ + + K
Sbjct: 162 EVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRDSK 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 = 75.6 bits (187), Expect = 6e-19
 Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 4/54 (7%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPP 76
           QV R         + + + E SAK  +NV++AF  L R ++    K  E   PP
Sbjct: 131 QVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVR----KYQEQELPP 180

>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 = 76.1 bits (188), Expect = 6e-19
 Identities = 19/56 (33%), Positives = 27/56 (48%), Gaps = 1/56 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKG 78
           +V R  G + A ++ + F+E SAK    V+ AF  L   I  QT    E+ N   G
Sbjct: 137 EVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKII-QTPGLWESENQNSG 191

>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 = 76.1 bits (188), Expect = 6e-19
 Identities = 24/48 (50%), Positives = 31/48 (64%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
            V  ++  +LA  YGI F+ETSAK    VEDAF+TL R+I+    KKL
Sbjct: 142 TVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQYRMKKL 189

>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 = 75.2 bits (186), Expect = 7e-19
 Identities = 15/43 (34%), Positives = 24/43 (55%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           +VS + G   A+ +  KF+ETSA    NV+  F  + R I+ +
Sbjct: 123 EVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR 165

>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 = 76.1 bits (188), Expect = 7e-19
 Identities = 19/43 (44%), Positives = 27/43 (62%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            V     ++ A   GI F+ETSAKN+ NVE +F T+A +IK +
Sbjct: 155 VVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKR 197

>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 = 76.2 bits (188), Expect = 8e-19
 Identities = 23/71 (32%), Positives = 34/71 (47%), Gaps = 3/71 (4%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           QVS E GE+ A E  + F+ETSAK   NV+  F  +A  +      +       +  I +
Sbjct: 138 QVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGMESTQ---DRSREDMIDI 194

Query: 83  KSSEPNRKPPS 93
           K  +P  +P S
Sbjct: 195 KLEKPQEQPVS 205

>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 = 75.7 bits (187), Expect = 8e-19
 Identities = 19/57 (33%), Positives = 28/57 (49%), Gaps = 2/57 (3%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGG 79
           +V+     + A E  + F+ETSA    NVE+AF   AR I  + E      +P + G
Sbjct: 132 EVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIESG--ELDPERMG 186

>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 = 75.7 bits (187), Expect = 9e-19
 Identities = 16/47 (34%), Positives = 24/47 (51%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +V+     + A E  + F+ETSA    NVE+AF   AR I  + +  
Sbjct: 147 EVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKIDSG 193

>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 = 74.8 bits (185), Expect = 1e-18
 Identities = 13/43 (30%), Positives = 19/43 (44%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            +  E  E LA    ++F  TS K  +NV + F  LA     +
Sbjct: 126 CIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQK 168

>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 = 74.9 bits (185), Expect = 1e-18
 Identities = 15/47 (31%), Positives = 24/47 (51%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +VS E G   A+ +  KF+ETSA    NV + F  + R ++ +    
Sbjct: 128 EVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLRRRDS 174

>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 = 74.4 bits (184), Expect = 2e-18
 Identities = 18/43 (41%), Positives = 28/43 (65%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           QVS E  +  A ++ + ++ETSAK   NV+  FF L R+I+A+
Sbjct: 126 QVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 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 = 74.6 bits (184), Expect = 2e-18
 Identities = 17/43 (39%), Positives = 23/43 (53%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            V  E+G+ LA + G  F E SAK +I+V  AF  L   I  +
Sbjct: 145 VVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDK 187

>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 = 74.0 bits (183), Expect = 2e-18
 Identities = 17/41 (41%), Positives = 24/41 (58%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           +VS   G  LA E+G  FMETSAK+   V++ F  + R + 
Sbjct: 125 EVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 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 = 74.1 bits (183), Expect = 3e-18
 Identities = 17/44 (38%), Positives = 23/44 (52%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66
           +V     E LA  +   FMETSAK + NV++ F  L    K +T
Sbjct: 126 EVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRT 169

>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 = 74.1 bits (183), Expect = 3e-18
 Identities = 18/47 (38%), Positives = 29/47 (61%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           QVS E  +  A ++ + ++ETSAK   NV+  FF L R+I+A+  + 
Sbjct: 140 QVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARKMED 186

>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 = 73.7 bits (182), Expect = 3e-18
 Identities = 20/43 (46%), Positives = 27/43 (62%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+  
Sbjct: 124 TVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQH 166

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens} Length = 201

 Score = 73.8 bits (182), Expect = 5e-18
 Identities = 12/47 (25%), Positives = 23/47 (48%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +V    G++LA  +G  FME+SA+ +   +  F  + ++I       
Sbjct: 146 EVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARVENSY 192

>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 = 73.0 bits (180), Expect = 6e-18
 Identities = 11/47 (23%), Positives = 17/47 (36%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
            +  E+  +   E G      SAK   +V   F  +A +I      K
Sbjct: 132 TIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILGIKLNK 178

>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 = 73.0 bits (180), Expect = 1e-17
 Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 3/46 (6%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK---NSINVEDAFFTLARDIKAQ 65
           QV  +  ++ A  + +   ETSAK   ++ +VE  F TLA  +K+ 
Sbjct: 144 QVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLKSH 189

>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 = 72.6 bits (179), Expect = 1e-17
 Identities = 12/52 (23%), Positives = 23/52 (44%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASN 74
            +S E G+ LA  +   F+E+SAK +    D F  +  + +       +  +
Sbjct: 128 VISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKMDGACSQGKS 179

>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 = 72.2 bits (178), Expect = 1e-17
 Identities = 19/41 (46%), Positives = 24/41 (58%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            V+ E  +Q A E G+ F+E SAK   NVEDAF   A+ I 
Sbjct: 137 DVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY 177

>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 = 72.2 bits (178), Expect = 1e-17
 Identities = 16/40 (40%), Positives = 23/40 (57%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
            V  +     A + G+ F+ETSA +S NVE AF T+  +I
Sbjct: 151 AVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI 190

>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 = 72.3 bits (178), Expect = 2e-17
 Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 4/76 (5%)

Query: 24  VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHVK 83
            ++        +  I + ETSAK +INVE AF T+AR+   Q E ++E  N     I + 
Sbjct: 135 ATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQ-ETEVELYNEFPEPIKLD 193

Query: 84  SSEPNRKPPSWLSKCS 99
            +E  +        CS
Sbjct: 194 KNERAKASA---ESCS 206

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C Length = 208

 Score = 71.9 bits (177), Expect = 4e-17
 Identities = 11/53 (20%), Positives = 20/53 (37%), Gaps = 1/53 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQTEKKLEASN 74
           QV  +  +  A    + F + SA     + +  F ++A       E K+ A  
Sbjct: 150 QVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYEDKVAAFQ 202

>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 = 71.1 bits (175), Expect = 6e-17
 Identities = 19/51 (37%), Positives = 29/51 (56%), Gaps = 1/51 (1%)

Query: 23  QVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKAQTEKKLEA 72
           +VS    + LA  Y I   +ETSAK+S NVE+AF  +A ++  +    L +
Sbjct: 151 EVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRHGGPLFS 201

>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 = 70.2 bits (173), Expect = 6e-17
 Identities = 13/41 (31%), Positives = 19/41 (46%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            VS +  E  A   G K   TSAK +  +E+ F  L + + 
Sbjct: 128 HVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI 168

>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 = 70.7 bits (174), Expect = 7e-17
 Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 1/48 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQTEKK 69
           QVS E GE+LA E    F E SA     N+ + F+ L R+++ +   +
Sbjct: 149 QVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRRRMVQ 196

>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 = 70.3 bits (173), Expect = 7e-17
 Identities = 17/47 (36%), Positives = 28/47 (59%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +V+ E  +  A E G+ FMETSAK + NV++ F+ +AR +      +
Sbjct: 134 KVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPRVQPTE 180

>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 = 70.3 bits (173), Expect = 7e-17
 Identities = 18/44 (40%), Positives = 31/44 (70%), Gaps = 1/44 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQ 65
           +V+R++G+++A +Y I ++ETSAK   +NV+  F  L R I+ Q
Sbjct: 140 KVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 183

>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 = 70.7 bits (174), Expect = 7e-17
 Identities = 15/47 (31%), Positives = 26/47 (55%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +V  +  ++ A   G   +ETSAKN+IN+E+ F  ++R I      +
Sbjct: 145 EVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPPLDPHE 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 = 70.3 bits (173), Expect = 9e-17
 Identities = 12/47 (25%), Positives = 22/47 (46%), Gaps = 1/47 (2%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
            +   R  +L+ +     + ET A   +NVE  F  +A+ + A  +K
Sbjct: 138 VIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVALRKK 184

>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 = 70.3 bits (173), Expect = 1e-16
 Identities = 16/44 (36%), Positives = 30/44 (68%), Gaps = 1/44 (2%)

Query: 23  QVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           +++R++GE+ A +  G++F E SAK++ NV++ F  L  DI  +
Sbjct: 148 EITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILKK 191

>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 = 70.8 bits (174), Expect = 1e-16
 Identities = 13/71 (18%), Positives = 29/71 (40%), Gaps = 3/71 (4%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEAS---NPPKGG 79
           ++S++   ++      ++ E SAK + N    F  LAR    + +    ++    P +  
Sbjct: 134 KISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRPDLIFVSNVNLEPTEVN 193

Query: 80  IHVKSSEPNRK 90
               S E ++ 
Sbjct: 194 YDYHSPEESKY 204

>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 = 69.8 bits (172), Expect = 1e-16
 Identities = 14/41 (34%), Positives = 22/41 (53%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           +V     +  A      F+ETSAKN+IN+ + F  ++R I 
Sbjct: 128 EVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIP 168

>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 = 69.9 bits (172), Expect = 1e-16
 Identities = 19/46 (41%), Positives = 26/46 (56%), Gaps = 1/46 (2%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTE 67
            VS +  ++LA   G I    TSAKN+INV+ AF  +AR    Q +
Sbjct: 136 IVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQNQ 181

>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 = 69.5 bits (171), Expect = 1e-16
 Identities = 14/41 (34%), Positives = 23/41 (56%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            V  +  +  A +  + FMETSAK S+NV + F  +A+ + 
Sbjct: 128 AVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>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 = 69.5 bits (171), Expect = 2e-16
 Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 1/46 (2%)

Query: 23  QVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           QVS E  +    + G   + ETSAK++ NV  AF    R + A  +
Sbjct: 132 QVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLATED 177

>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 = 69.5 bits (171), Expect = 2e-16
 Identities = 18/40 (45%), Positives = 24/40 (60%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           QVS E GE+ A E  + F+ETSAK   NV+  F  +A  +
Sbjct: 136 QVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 175

>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 = 68.3 bits (168), Expect = 3e-16
 Identities = 17/42 (40%), Positives = 27/42 (64%), Gaps = 1/42 (2%)

Query: 23  QVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIK 63
            V +E+G+ LA ++    F+E+SAK+ INV + F+ L R I 
Sbjct: 125 VVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum} Length = 208

 Score = 68.3 bits (167), Expect = 7e-16
 Identities = 13/41 (31%), Positives = 24/41 (58%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           QV     ++ A +  + F++TSAK   N+++ F+ LA +I 
Sbjct: 163 QVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIY 203

>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 = 67.6 bits (166), Expect = 1e-15
 Identities = 13/44 (29%), Positives = 22/44 (50%), Gaps = 1/44 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQ 65
           QV++  G  LA  +G  F E SA  +  +V+  F    R+ + +
Sbjct: 144 QVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREARRE 187

>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 = 67.3 bits (165), Expect = 1e-15
 Identities = 18/63 (28%), Positives = 30/63 (47%), Gaps = 1/63 (1%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           +VS   G   A+ +  KF+ETSA    NV++ F  + R ++ + + K E +         
Sbjct: 131 EVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRRDSK-EKNERRLAYQKR 189

Query: 83  KSS 85
           K S
Sbjct: 190 KES 192

>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 = 66.9 bits (163), Expect = 5e-15
 Identities = 12/41 (29%), Positives = 24/41 (58%), Gaps = 1/41 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
            +       L+ +  ++ +ETSA++++NV+ AF TL + I 
Sbjct: 215 YIRDAHTFALS-KKNLQVVETSARSNVNVDLAFSTLVQLID 254

>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 = 62.3 bits (152), Expect = 2e-13
 Identities = 12/58 (20%), Positives = 25/58 (43%), Gaps = 3/58 (5%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEAS---NPPK 77
           +  + +      +  +++ + SAK++ N E  F  LAR +      +  A     PP+
Sbjct: 134 RKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGDPNLEFVAMPALAPPE 191

>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 = 56.5 bits (137), Expect = 2e-11
 Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 1/48 (2%)

Query: 23  QVSRERGEQL-AIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
            V   R   L A      + ET A   +NV+  F  +A+ +    +++
Sbjct: 127 VVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQQ 174

>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 = 54.8 bits (132), Expect = 6e-11
 Identities = 20/43 (46%), Positives = 26/43 (60%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           +V+RE GE+LA E G+ F ETSAK   NV D F  +   I  +
Sbjct: 128 KVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIPLK 170

>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 = 49.7 bits (119), Expect = 8e-09
 Identities = 19/78 (24%), Positives = 32/78 (41%), Gaps = 16/78 (20%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPKGGIHV 82
           ++  +GE+L  + G   ++E S+K   NV+  F T  +              PP+     
Sbjct: 139 ITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIK----------VVLQPPR----- 183

Query: 83  KSSEPNRKPPSWLSKCSI 100
           +   P R+     S CSI
Sbjct: 184 RKEVPRRRKNHRRSGCSI 201

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum} Length = 535

 Score = 48.8 bits (116), Expect = 2e-08
 Identities = 7/43 (16%), Positives = 15/43 (34%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
            + +++  +       +F   S KN   VE    +L   +   
Sbjct: 167 NIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLHP 209

>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 = 43.1 bits (102), Expect = 2e-06
 Identities = 9/48 (18%), Positives = 21/48 (43%), Gaps = 2/48 (4%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD-IKAQTEKK 69
           V+++ G+ L  + G + ++E S+   I + + F          +   K
Sbjct: 147 VTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSNKPVPK 194

>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 = 41.6 bits (98), Expect = 5e-06
 Identities = 11/38 (28%), Positives = 20/38 (52%), Gaps = 1/38 (2%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLAR 60
           ++  +GE+L    G   ++E S+K+  NV+  F    R
Sbjct: 140 ITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIR 177

>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 = 41.3 bits (97), Expect = 7e-06
 Identities = 12/42 (28%), Positives = 21/42 (50%), Gaps = 1/42 (2%)

Query: 20  SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLAR 60
            +  V+  RG+++A   G + ++E SA+   NV   F   A 
Sbjct: 164 GLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAE 205

>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 = 40.8 bits (96), Expect = 1e-05
 Identities = 4/52 (7%), Positives = 14/52 (26%), Gaps = 5/52 (9%)

Query: 22  PQVSRERGEQLAIEYGI-----KFMETSAKNSINVEDAFFTLARDIKAQTEK 68
                +  ++L  + G           + + S  +     T+  +      +
Sbjct: 131 KACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLNFKIR 182

>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 = 39.3 bits (92), Expect = 4e-05
 Identities = 10/33 (30%), Positives = 14/33 (42%), Gaps = 1/33 (3%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAF 55
           V  E G  +A       ++E SAK    V + F
Sbjct: 159 VRSEEGRDMANRISAFGYLECSAKTKEGVREVF 191

>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 = 39.0 bits (91), Expect = 6e-05
 Identities = 11/38 (28%), Positives = 17/38 (44%), Gaps = 1/38 (2%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLAR 60
           V  + G  +A+      ++E SAK    V + F T  R
Sbjct: 159 VRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATR 196

>1mh1_A RAC1; GTP-binding, GTPase, small G-protein, RHO family, RAS super family; HET: GNP; 1.38A {Homo sapiens} SCOP: c.37.1.8 PDB: 1hh4_A* 2p2l_A* 2h7v_A* 1g4u_R* 1i4d_D* 1i4l_D* 2vrw_A 1e96_A* 1i4t_D* 2rmk_A* 2yin_C 1ryf_A* 1ryh_A* 3su8_A* 3sua_A* 2fju_A* 1he1_C* 2nz8_A 1foe_B 3bji_C ... Length = 186

 Score = 39.0 bits (91), Expect = 6e-05
 Identities = 12/52 (23%), Positives = 23/52 (44%), Gaps = 2/52 (3%)

Query: 20  SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARD-IKAQTEKK 69
            +  ++  +G  +A E G +K++E SA     ++  F    R  +     KK
Sbjct: 135 KLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLCPPPVKK 186

>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 = 38.6 bits (90), Expect = 7e-05
 Identities = 10/42 (23%), Positives = 20/42 (47%), Gaps = 1/42 (2%)

Query: 20  SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLAR 60
            +  ++  +G  +A E G +K++E SA     ++  F    R
Sbjct: 160 KLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIR 201

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens} Length = 201

 Score = 38.6 bits (90), Expect = 7e-05
 Identities = 10/47 (21%), Positives = 19/47 (40%), Gaps = 1/47 (2%)

Query: 24  VSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           V  E  + LA E     ++E SA    N+++ F          ++ +
Sbjct: 154 VPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYSDTQ 200

Structure Templates Detected by HHsearch

Original result of HHsearch against PDB70 database

ID	Length	Definition	Probability
Query	101
4dkx_A	216	RAS-related protein RAB-6A; GTP binding fold, memb	99.85
2bcg_Y	206	Protein YP2, GTP-binding protein YPT1; RABGTPase,	99.6
2bov_A	206	RAla, RAS-related protein RAL-A; C3BOT, exoenzyme,	99.57
2g3y_A	211	GTP-binding protein GEM; small GTPase, GDP, inacti	99.51
1vg8_A	207	RAS-related protein RAB-7; GTP-binding protein, pr	99.49
2cjw_A	192	GTP-binding protein GEM; nucleotide-binding, small	99.46
2nzj_A	175	GTP-binding protein REM 1; GDP/GTP binding, GTP hy	99.45
2fu5_C	183	RAS-related protein RAB-8A; MSS4:RAB8 protein comp	99.44
3cbq_A	195	GTP-binding protein REM 2; FLJ38964A, structural g	99.43
3q72_A	166	GTP-binding protein RAD; G-domain, CAV2 beta, sign	99.42
3q85_A	169	GTP-binding protein REM 2; G-domain, CAV2 beta, si	99.41
4dsu_A	189	GTPase KRAS, isoform 2B; small G-protein, signalin	99.41
3ihw_A	184	Centg3; RAS, centaurin, GTPase, structural genomic	99.41
2iwr_A	178	Centaurin gamma 1; ANK repeat, zinc-finger, GTP-bi	99.4
2a5j_A	191	RAS-related protein RAB-2B; GTPase, signal transdu	99.39
3kkq_A	183	RAS-related protein M-RAS; GTP-binding, GTPase, si	99.39
3dz8_A	191	RAS-related protein RAB-3B; GDP, GTPase, structura	99.39
3t5g_A	181	GTP-binding protein RHEB; immunoglobulin-like beta	99.38
3tkl_A	196	RAS-related protein RAB-1A; vesicle trafficking, p	99.38
2fn4_A	181	P23, RAS-related protein R-RAS; GDP/GTP binding, G	99.36
2hup_A	201	RAS-related protein RAB-43; G-protein, GDP, struct	99.36
2ew1_A	201	RAS-related protein RAB-30; G-protein, GTP analogu	99.36
3cpj_B	223	GTP-binding protein YPT31/YPT8; RAB GTPase, prenyl	99.35
3c5c_A	187	RAS-like protein 12; GDP, GTPase, structural genom	99.35
1z0f_A	179	RAB14, member RAS oncogene family; RAB GTPase, ves	99.35
2f7s_A	217	C25KG, RAS-related protein RAB-27B; G-protein, str	99.34
2gf9_A	189	RAS-related protein RAB-3D; G-protein, structural	99.34
2o52_A	200	RAS-related protein RAB-4B; G-protein, GDP, struct	99.34
2gf0_A	199	GTP-binding protein DI-RAS1; GDP/GTP binding, GTP	99.34
3bc1_A	195	RAS-related protein RAB-27A; RAB27, GTPase, RAB, s	99.34
3tw8_B	181	RAS-related protein RAB-35; longin domain, RAB GTP	99.34
2bme_A	186	RAB4A, RAS-related protein RAB4A; GTP-binding prot	99.33
1zbd_A	203	Rabphilin-3A; G protein, effector, RABCDR, synapti	99.33
2atv_A	196	RERG, RAS-like estrogen-regulated growth inhibitor	99.33
3oes_A	201	GTPase rhebl1; small GTPase, structural genomics,	99.32
2g6b_A	180	RAS-related protein RAB-26; G-protein, GTP analogu	99.32
2oil_A	193	CATX-8, RAS-related protein RAB-25; G-protein, GDP	99.32
1z08_A	170	RAS-related protein RAB-21; RAB GTPase, vesicular	99.31
2a9k_A	187	RAS-related protein RAL-A; bacterial ADP-ribosyltr	99.31
1u8z_A	168	RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNH	99.31
2hxs_A	178	RAB-26, RAS-related protein RAB-28; GTPase, signal	99.31
3q3j_B	214	RHO-related GTP-binding protein RHO6; RAS-binding	99.31
2atx_A	194	Small GTP binding protein TC10; GTPase, P-loop, al	99.3
1g16_A	170	RAS-related protein SEC4; G protein RAB, signaling	99.29
1c1y_A	167	RAS-related protein RAP-1A; GTP-binding proteins,	99.29
2efe_B	181	Small GTP-binding protein-like; GEF, GTPase, VPS9,	99.28
3t1o_A	198	Gliding protein MGLA; G domain containing protein,	99.28
2q3h_A	201	RAS homolog gene family, member U; GTPase, structu	99.28
1kao_A	167	RAP2A; GTP-binding protein, small G protein, GDP,	99.27
3reg_A	194	RHO-like small GTPase; cytoskeleton, nucleotide-bi	99.27
2yc2_C	208	IFT27, small RAB-related GTPase; transport protein	99.27
1z2a_A	168	RAS-related protein RAB-23; RAB GTPase, vesicular	99.26
2il1_A	192	RAB12; G-protein, GDP, GTPase, predicted, structur	99.26
3cph_A	213	RAS-related protein SEC4; RAB GTPase, prenylation,	99.25
2p5s_A	199	RAS and EF-hand domain containing; G-protein, RAB,	99.25
1ky3_A	182	GTP-binding protein YPT7P; vesicular traffic, GTP	99.24
1r2q_A	170	RAS-related protein RAB-5A; GTPase, GNP, atomic re	99.24
2j1l_A	214	RHO-related GTP-binding protein RHOD; GTPase, memb	99.23
1z0j_A	170	RAB-22, RAS-related protein RAB-22A; RAB GTPase, R	99.23
2j0v_A	212	RAC-like GTP-binding protein ARAC7; nucleotide-bin	99.23
1z06_A	189	RAS-related protein RAB-33B; RAB GTPase, RAB33B GT	99.23
2gco_A	201	H9, RHO-related GTP-binding protein RHOC; GTPase,s	99.23
1wms_A	177	RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, p	99.22
4djt_A	218	GTP-binding nuclear protein GSP1; structural genom	99.22
2fg5_A	192	RAB-22B, RAS-related protein RAB-31; G-protein, GT	99.22
3clv_A	208	RAB5 protein, putative; malaria, GTPase, structura	99.21
3con_A	190	GTPase NRAS; structural genomics consortium, SGC,	99.21
1x3s_A	195	RAS-related protein RAB-18; GTPase, GNP, structura	99.2
2ce2_X	166	GTPase HRAS; signaling protein, guanine nucleotide	99.19
2y8e_A	179	RAB-protein 6, GH09086P, RAB6; hydrolase, nucleoti	99.19
3bwd_D	182	RAC-like GTP-binding protein ARAC6; G domain, cyto	99.19
2erx_A	172	GTP-binding protein DI-RAS2; GTP hydrolysis, trans	99.19
1m7b_A	184	RND3/RHOE small GTP-binding protein; small GTPase,	99.18
1ek0_A	170	Protein (GTP-binding protein YPT51); vesicular tra	99.18
2fv8_A	207	H6, RHO-related GTP-binding protein RHOB; GDP/GTP	99.17
1mh1_A	186	RAC1; GTP-binding, GTPase, small G-protein, RHO fa	99.17
1gwn_A	205	RHO-related GTP-binding protein RHOE; GTPase, inac	99.16
2qu8_A	228	Putative nucleolar GTP-binding protein 1; GTPase,	99.14
2wji_A	165	Ferrous iron transport protein B homolog; membrane	99.13
4gzl_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	99.08
3llu_A	196	RAS-related GTP-binding protein C; structural geno	99.07
2cxx_A	190	Probable GTP-binding protein ENGB; structural geno	99.07
2wkq_A	332	NPH1-1, RAS-related C3 botulinum toxin substrate 1	99.06
3th5_A	204	RAS-related C3 botulinum toxin substrate 1; rossma	98.62
3l0i_B	199	RAS-related protein RAB-1A; GEF-GDF-RAB complex, G	99.04
3r7w_B	331	Gtpase2, GTP-binding protein GTR2; RAG gtpases, GT	99.04
3c5h_A	255	Glucocorticoid receptor DNA-binding factor 1; RAS,	99.03
4bas_A	199	ADP-ribosylation factor, putative (small GTPase, p	99.01
2f9l_A	199	RAB11B, member RAS oncogene family; RAB11B GTPase,	99.01
3gj0_A	221	GTP-binding nuclear protein RAN; G protein, GDP, a	98.96
1f6b_A	198	SAR1; gtpases, N-terminal helix, Mg-containing com	98.95
1r8s_A	164	ADP-ribosylation factor 1; protein transport/excha	98.94
1m2o_B	190	GTP-binding protein SAR1, GTP binding protein; zin	98.93
2wjg_A	188	FEOB, ferrous iron transport protein B homolog; me	98.93
1upt_A	171	ARL1, ADP-ribosylation factor-like protein 1; hydr	98.92
1oix_A	191	RAS-related protein RAB-11A; small G protein, intr	98.9
2zej_A	184	Dardarin, leucine-rich repeat kinase 2; parkinson'	98.9
3pqc_A	195	Probable GTP-binding protein ENGB; rossmann fold,	98.88
1u0l_A	301	Probable GTPase ENGC; permutation, OB-fold, zinc-f	98.88
2fh5_B	214	SR-beta, signal recognition particle receptor beta	98.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	98.85
1svi_A	195	GTP-binding protein YSXC; ENGB, GTPase, GDP, hydro	98.85
1fzq_A	181	ADP-ribosylation factor-like protein 3; protein-GD	98.84
2x77_A	189	ADP-ribosylation factor; GTP-binding protein, smal	98.84
2b6h_A	192	ADP-ribosylation factor 5; membrane trafficking, G	98.83
2h57_A	190	ADP-ribosylation factor-like protein 6; GTP, GTPas	98.83
2dyk_A	161	GTP-binding protein; GTPase, ribosome-binding prot	98.82
1cip_A	353	Protein (guanine nucleotide-binding protein alpha-	98.82
2hf9_A	226	Probable hydrogenase nickel incorporation protein	98.81
1zj6_A	187	ADP-ribosylation factor-like protein 5; ARL, GTP-b	98.77
3dpu_A	535	RAB family protein; roccor, G-domain, COR, GTP-bin	98.77
3a1s_A	258	Iron(II) transport protein B; FEOB, iron transport	98.76
3b1v_A	272	Ferrous iron uptake transporter protein B; G prote	98.75
3ohm_A	327	Guanine nucleotide-binding protein G(Q) subunit A;	98.75
1ksh_A	186	ARF-like protein 2; small GTPase, small GTP-bindin	98.72
1zd9_A	188	ADP-ribosylation factor-like 10B; transport protei	98.72
2h17_A	181	ADP-ribosylation factor-like protein 5A; GDP, GTPa	98.72
1moz_A	183	ARL1, ADP-ribosylation factor-like protein 1; GTP-	98.71
2yv5_A	302	YJEQ protein; hydrolase, GTPase, permutation, stru	98.68
2e87_A	357	Hypothetical protein PH1320; GTP-binding, GTPase,	98.67
2lkc_A	178	Translation initiation factor IF-2; NMR {Geobacill	98.67
1zcb_A	362	G alpha I/13; GTP-binding, lipoprotein, membrane,	98.67
3o47_A	329	ADP-ribosylation factor GTPase-activating protein	98.65
2xtz_A	354	Guanine nucleotide-binding protein alpha-1 subuni;	98.63
3iev_A	308	GTP-binding protein ERA; ERA, GTPase, KH domain, a	98.57
2gj8_A	172	MNME, tRNA modification GTPase TRME; G-domain dime	98.57
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	98.55
3r7w_A	307	Gtpase1, GTP-binding protein GTR1; RAG gtpases, GT	98.54
3qq5_A	423	Small GTP-binding protein; hydrogenase, H-cluster,	98.53
2qnr_A	301	Septin-2, protein NEDD5; structural genomics conso	98.51
2wsm_A	221	Hydrogenase expression/formation protein (HYPB); m	98.51
4dhe_A	223	Probable GTP-binding protein ENGB; melioidosis, RA	98.5
1xzp_A	482	Probable tRNA modification GTPase TRME; GTP-bindin	98.49
1azs_C	402	GS-alpha; complex (lyase/hydrolase), hydrolase, si	98.46
3k53_A	271	Ferrous iron transport protein B; GTPase fold, hel	98.43
3lvq_E	497	ARF-GAP with SH3 domain, ANK repeat and PH domain	98.43
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	98.42
3iby_A	256	Ferrous iron transport protein B; G protein, G dom	98.37
1lnz_A	342	SPO0B-associated GTP-binding protein; GTPase, OBG,	98.37
3h2y_A	368	GTPase family protein; GTP-binding protein YQEH, p	98.33
3i8s_A	274	Ferrous iron transport protein B; GTPase, GPCR, ir	98.29
3gee_A	476	MNME, tRNA modification GTPase MNME; G protein, cy	98.28
2qag_A	361	Septin-2, protein NEDD5; cell cycle, cell division	98.27
1s0u_A	408	EIF-2-gamma, translation initiation factor 2 gamma	98.22
4fid_A	340	G protein alpha subunit; RAS-like domain, all-heli	98.17
1wb1_A	482	Translation elongation factor SELB; selenocysteine	98.06
2qag_C	418	Septin-7; cell cycle, cell division, GTP-binding,	98.06
3geh_A	462	MNME, tRNA modification GTPase MNME; G protein, U3	98.05
3ec1_A	369	YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase	98.05
1ega_A	301	Protein (GTP-binding protein ERA); GTPase, RNA-bin	98.03
3cb4_D	599	GTP-binding protein LEPA; GTPase, OB-fold, membran	98.0
1mky_A	439	Probable GTP-binding protein ENGA; GTPase, DER, KH	97.97
1nrj_B	218	SR-beta, signal recognition particle receptor beta	97.93
1udx_A	416	The GTP-binding protein OBG; TGS domain, riken str	97.93
2ywe_A	600	GTP-binding protein LEPA; G domain, beta-barrel, f	97.91
1kk1_A	410	EIF2gamma; initiation of translation; HET: GNP; 1.	97.89
3sjy_A	403	Translation initiation factor 2 subunit gamma; zin	97.85
1wf3_A	301	GTP-binding protein; GTPase, riken structural geno	97.85
3p32_A	355	Probable GTPase RV1496/MT1543; structural genomics	97.74
2elf_A	370	Protein translation elongation factor 1A; tRNA, py	97.67
1yrb_A	262	ATP(GTP)binding protein; GTPase, P-loop, rossman f	97.64
2hjg_A	436	GTP-binding protein ENGA; GTPase ENGA KH-domain, h	97.62
3p26_A	483	Elongation factor 1 alpha-like protein; GTP/GDP bi	97.62
2qtf_A	364	Protein HFLX, GTP-binding protein; beta-alpha-barr	97.62
2aka_B	299	Dynamin-1; fusion protein, GTPase domain, myosin,	97.58
1zun_B	434	Sulfate adenylate transferase, subunit 1/adenylyls	97.49
1puj_A	282	YLQF, conserved hypothetical protein YLQF; structu	97.4
1pui_A	210	ENGB, probable GTP-binding protein ENGB; structura	97.39
2dy1_A	665	Elongation factor G; translocation, GTP complex, s	97.39
3izy_P	537	Translation initiation factor IF-2, mitochondrial;	97.36
1jny_A	435	EF-1-alpha, elongation factor 1-alpha, EF-TU, TUF-	97.34
1d2e_A	397	Elongation factor TU (EF-TU); G-protein, beta-barr	97.34
1zo1_I	501	IF2, translation initiation factor 2; E. coli, rib	97.27
3tr5_A	528	RF-3, peptide chain release factor 3; protein synt	97.26
3j2k_7	439	ERF3, eukaryotic polypeptide chain release factor	97.24
2xtp_A	260	GTPase IMAP family member 2; immune system, G prot	97.24
3izq_1	611	HBS1P, elongation factor 1 alpha-like protein; NO-	97.24
3t5d_A	274	Septin-7; GTP-binding protein, cytoskeleton, signa	97.23
1r5b_A	467	Eukaryotic peptide chain release factor GTP-bindi	97.18
2c78_A	405	Elongation factor TU-A; hydrolase, GTPase, transla	97.13
3t34_A	360	Dynamin-related protein 1A, linker, dynamin-relat	97.11
3avx_A	1289	Elongation factor TS, elongation factor TU, linke	97.07
1g7s_A	594	Translation initiation factor IF2/EIF5B; translati	97.02
2p67_A	341	LAO/AO transport system kinase; ARGK, structural G	96.96
3lxx_A	239	GTPase IMAP family member 4; structural genomics c	96.86
1f60_A	458	Elongation factor EEF1A; protein-protein complex,	96.86
4dcu_A	456	GTP-binding protein ENGA; GTPase, GDP, protein bin	96.85
2www_A	349	Methylmalonic aciduria type A protein, mitochondri	96.72
2qm8_A	337	GTPase/ATPase; G protein, G3E, metallochaperone, c	96.66
3cnl_A	262	YLQF, putative uncharacterized protein; circular p	96.57
3mca_A	592	HBS1, elongation factor 1 alpha-like protein; prot	96.57
2x2e_A	353	Dynamin-1; nitration, hydrolase, membrane fission,	96.32
2rcn_A	358	Probable GTPase ENGC; YJEQ, circularly permuted, G	95.99
2j69_A	695	Bacterial dynamin-like protein; FZO, FZL, GTPase,	95.97
1jwy_B	315	Dynamin A GTPase domain; dynamin, GTPase, GDP, myo	95.89
1t9h_A	307	YLOQ, probable GTPase ENGC; N-terminal beta-barrel	95.64
3lxw_A	247	GTPase IMAP family member 1; immunity, structural	94.94
2dby_A	368	GTP-binding protein; GDP, structural genomics, NPP	94.93
3l82_B	227	F-box only protein 4; TRFH domain, helix, GTPase d	93.08
3l2o_B	312	F-box only protein 4; small G protein fold, UBL co	92.4
1dar_A	691	EF-G, elongation factor G; ribosomal translocase,	91.11
1wxq_A	397	GTP-binding protein; structural genomics, riken st	89.7
2rdo_7	704	EF-G, elongation factor G; elongation factor G, EF	88.94
3zvr_A	772	Dynamin-1; hydrolase, DRP1, DRP, endocytosis, mito	88.76
2h5e_A	529	Peptide chain release factor RF-3; beta barrel, tr	87.68
2xex_A	693	Elongation factor G; GTPase, translation, biosynth	84.68
1jal_A	363	YCHF protein; nucleotide-binding fold, structural	84.23

>4dkx_A RAS-related protein RAB-6A; GTP binding fold, membrane trafficking, GTP, cytosol, protei transport; HET: GDP; 1.90A {Homo sapiens} PDB: 3bbp_A*

Probab=99.85  E-value=5.2e-22  Score=127.46  Aligned_cols=60  Identities=30%  Similarity=0.314  Sum_probs=52.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.|||||+||.+.|.|+.+++.+||+++++.|||||||+|.||+++|..+++.+....
T Consensus       119 ~piilVgNK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~SAktg~nV~e~F~~i~~~i~~~~  178 (216)
T 4dkx_A          119 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALPGME  178 (216)
T ss_dssp             SEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHHC----
T ss_pred             CeEEEEeeccchHhcCcccHHHHhhHHHHhCCeeEEEeCCCCcCHHHHHHHHHHHHHhhh
Confidence            345678999999999999999999999999999999999999999999999999887543

>2bcg_Y Protein YP2, GTP-binding protein YPT1; RABGTPase, geranylgeranylation, vesicular transport, protein transport; HET: GDP GER; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ukv_Y* 3cue_F* 1yzn_A* 3sfv_A* 2wwx_A 2fol_A* 3nkv_A* 3jza_A* 2rhd_A*

Probab=99.60  E-value=7e-15  Score=92.42  Aligned_cols=63  Identities=30%  Similarity=0.351  Sum_probs=55.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      ..+.||+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+++.+.+.....
T Consensus       114 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~~  176 (206)
T 2bcg_Y          114 VLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQ  176 (206)
T ss_dssp             CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHCCHH
T ss_pred             CCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHHhhc
Confidence            345688999999888889999999999999999999999999999999999999988765443

>2bov_A RAla, RAS-related protein RAL-A; C3BOT, exoenzyme, RAla, GTPase, ribosylating toxin, GTP-binding, lipoprotein, prenylation; HET: GDP; 2.66A {Homo sapiens}

Probab=99.57  E-value=1e-14  Score=91.31  Aligned_cols=61  Identities=31%  Similarity=0.442  Sum_probs=55.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+....
T Consensus       119 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~  179 (206)
T 2bov_A          119 NVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  179 (206)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeccCccccccccHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHHcc
Confidence            4566788999999887889999999999999999999999999999999999999988754

>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=99.51  E-value=4.9e-14  Score=89.92  Aligned_cols=59  Identities=24%  Similarity=0.309  Sum_probs=53.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.||+||+||.+.+.++.+++..++..++++|||||||+|.||+++|..+++.+..
T Consensus       145 ~~piilVgNK~DL~~~r~v~~~e~~~~a~~~~~~~~e~SAk~g~~v~elf~~l~~~i~~  203 (211)
T 2g3y_A          145 DIPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRL  203 (211)
T ss_dssp             TSCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEEChHHhcCceEeHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            45567889999998778899999999999999999999999999999999999998854

>1vg8_A RAS-related protein RAB-7; GTP-binding protein, protein transport; HET: GNP; 1.70A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 1vg0_B* 3law_A* 1t91_A* 1yhn_A* 1vg1_A* 1vg9_B*

Probab=99.49  E-value=9e-14  Score=87.09  Aligned_cols=62  Identities=32%  Similarity=0.345  Sum_probs=53.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.++.+|+||+|+. .+.+..+++..++. ..+++||++||++|.||+++|..+++.+.+....
T Consensus       117 ~~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~  179 (207)
T 1vg8_A          117 NFPFVVLGNKIDLE-NRQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETE  179 (207)
T ss_dssp             GSCEEEEEECTTSS-CCCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCCc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHHhccc
Confidence            45677889999997 57788899999998 6678999999999999999999999999876543

>2cjw_A GTP-binding protein GEM; nucleotide-binding, small GTPase, conformational change, cysteine-modified, G-protein hydrolase; HET: GDP; 2.10A {Homo sapiens} PDB: 2cjw_B* 2ht6_A*

Probab=99.46  E-value=2.2e-13  Score=85.19  Aligned_cols=61  Identities=23%  Similarity=0.304  Sum_probs=54.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +..+.||+||+|+...+.+..+++..++..++++|||||||+|.||+++|..+++.+....
T Consensus       114 ~~piilV~NK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~SA~~g~~v~~lf~~l~~~~~~~~  174 (192)
T 2cjw_A          114 DIPIILVGNKSDLVRXREVSVSEGRAXAVVFDXKFIETSAAVQHNVKELFEGIVRQVRLRR  174 (192)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEechhhhccccccHHHHHHHHHHhCCceEEeccccCCCHHHHHHHHHHHHHhhc
Confidence            4556788999999877889999999999999999999999999999999999999886543

>2nzj_A GTP-binding protein REM 1; GDP/GTP binding, GTP hydrolysis, RAD and GEM like GTP protein 1, structural genomics; HET: GDP; 2.50A {Homo sapiens}

Probab=99.45  E-value=3.7e-13  Score=81.99  Aligned_cols=60  Identities=25%  Similarity=0.319  Sum_probs=54.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.++.+++..++..++++||++||++|.||+++|..+++.+...
T Consensus       111 ~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  170 (175)
T 2nzj_A          111 HVPIILVGNKADLARCREVSVEEGRACAVVFDCKFIETSATLQHNVAELFEGVVRQLRLR  170 (175)
T ss_dssp             -CCEEEEEECTTCTTTCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhhccccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            456678899999988889999999999999999999999999999999999999988754

>2fu5_C RAS-related protein RAB-8A; MSS4:RAB8 protein complex, GEF:GTPase nucleotide free complex; 2.00A {Mus musculus} SCOP: c.37.1.8 PDB: 3qbt_A* 3tnf_A*

Probab=99.44  E-value=4.1e-13  Score=82.62  Aligned_cols=62  Identities=60%  Similarity=0.822  Sum_probs=50.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .++.||+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.+....
T Consensus       114 ~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~i~~~~~~  175 (183)
T 2fu5_C          114 VEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK  175 (183)
T ss_dssp             CEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECccCCccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHhhc
Confidence            45678899999988889999999999999999999999999999999999999998876543

>3cbq_A GTP-binding protein REM 2; FLJ38964A, structural genomics consortium, SGC, GDP, membrane, nucleotide-binding, nucleotide binding protein; HET: GDP; 1.82A {Homo sapiens}

Probab=99.43  E-value=5.1e-13  Score=83.72  Aligned_cols=59  Identities=25%  Similarity=0.228  Sum_probs=53.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.||+||+|+.+.+.++.+++..+++.++++|||+||++|.||+++|..+++.+..
T Consensus       130 ~~piilv~nK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sa~~~~~v~~lf~~l~~~i~~  188 (195)
T 3cbq_A          130 DLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL  188 (195)
T ss_dssp             CCCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHT
T ss_pred             CCCEEEEeechhccccCCcCHHHHHHHHHHhCCEEEEEcCCCCCCHHHHHHHHHHHHHH
Confidence            34566889999998888999999999999999999999999999999999999988764

>3q72_A GTP-binding protein RAD; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.66A {Homo sapiens} SCOP: c.37.1.8 PDB: 3q7p_A* 3q7q_A* 2gjs_A* 2dpx_A*

Probab=99.42  E-value=7.7e-13  Score=80.05  Aligned_cols=60  Identities=25%  Similarity=0.306  Sum_probs=54.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.++.+++..++..++++||++||++|.||+++|..+++.+.+.
T Consensus       106 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  165 (166)
T 3q72_A          106 DVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLR  165 (166)
T ss_dssp             CCCEEEEEECTTCCSSCCSCHHHHHHHHHHTTCEEEECBGGGTBSHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeccccccccccCHHHHHHHHHHhCCcEEEeccCCCCCHHHHHHHHHHHHHhc
Confidence            345678899999998899999999999999999999999999999999999999887653

>3q85_A GTP-binding protein REM 2; G-domain, CAV2 beta, signaling protein; HET: GNP; 1.76A {Mus musculus} SCOP: c.37.1.8 PDB: 4aii_A*

Probab=99.41  E-value=5.2e-13  Score=81.04  Aligned_cols=59  Identities=25%  Similarity=0.228  Sum_probs=53.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++|+++||++|.||+++|..+++.+..
T Consensus       109 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~  167 (169)
T 3q85_A          109 DLPVILVGNKSDLARSREVSLEEGRHLAGTLSCKHIETSAALHHNTRELFEGAVRQIRL  167 (169)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEeeCcchhhcccCCHHHHHHHHHHcCCcEEEecCccCCCHHHHHHHHHHHHHh
Confidence            45667889999998888999999999999999999999999999999999999988764

>4dsu_A GTPase KRAS, isoform 2B; small G-protein, signaling, hydrolase; HET: GDP; 1.70A {Homo sapiens} PDB: 4dsn_A* 4dst_A* 4dso_A*

Probab=99.41  E-value=2.5e-12  Score=79.19  Aligned_cols=63  Identities=35%  Similarity=0.517  Sum_probs=54.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      +.++.+|+||+|+. .+.+..+++..+++.++++||++||++|.||+++|..+++.+.......
T Consensus       109 ~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~~~~  171 (189)
T 4dsu_A          109 DVPMVLVGNKCDLP-SRTVDTKQAQDLARSYGIPFIETSAKTRQGVDDAFYTLVREIRKHKEKM  171 (189)
T ss_dssp             CCCEEEEEECTTSS-SCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECccCc-ccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHhhhhc
Confidence            35567889999997 4778899999999999999999999999999999999999988765443

>3ihw_A Centg3; RAS, centaurin, GTPase, structural genomics, structural genomics consortium, SGC, alternative splicing, ANK repeat, cytoplasm, GTP-binding; 1.92A {Homo sapiens} SCOP: c.37.1.0

Probab=99.41  E-value=1e-12  Score=81.58  Aligned_cols=60  Identities=18%  Similarity=0.302  Sum_probs=53.5

Q ss_pred             cCCCcEEeecCCC--CCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFV--SSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl--~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.||+||+|+  ...+.++.+++..+++.++ +.||++||++|.||+++|..+++.+.+.
T Consensus       119 ~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~gv~~lf~~l~~~i~~~  181 (184)
T 3ihw_A          119 EVPMVLVGTQDAISAANPRVIDDSRARKLSTDLKRCTYYETCATYGLNVERVFQDVAQKVVAL  181 (184)
T ss_dssp             GSCEEEEEECTTCBTTBCCCSCHHHHHHHHHHTTTCEEEEEBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccccccccccCHHHHHHHHHHcCCCeEEEecCCCCCCHHHHHHHHHHHHHHH
Confidence            3456788999999  4578899999999999997 8999999999999999999999988765

>2iwr_A Centaurin gamma 1; ANK repeat, zinc-finger, GTP-binding, polymorphism, nucleotide-binding, alternative splicing, protein transport; HET: CAF; 1.5A {Homo sapiens} PDB: 2bmj_A

Probab=99.40  E-value=1.2e-12  Score=80.13  Aligned_cols=63  Identities=19%  Similarity=0.271  Sum_probs=54.2

Q ss_pred             cCCCcEEeecCCC--CCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFV--SSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl--~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.++.||+||+|+  ...+.++.+++..++..+ +++||++||++|.||+++|..+++.+++....
T Consensus       108 ~~piilv~nK~Dl~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~lf~~l~~~~~~~~~~  173 (178)
T 2iwr_A          108 GLALALVGTQDRISASSPRVVGDARARALXADMKRCSYYETXATYGLNVDRVFQEVAQKVVTLRKQ  173 (178)
T ss_dssp             CCEEEEEEECTTCBTTBCCCSCHHHHHHHHHHHSSEEEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECccccccccCcCCHHHHHHHHHhhcCCeEEEEeccccCCHHHHHHHHHHHHHHHHhh
Confidence            3456788999999  456889999999999987 68999999999999999999999998876443

>2a5j_A RAS-related protein RAB-2B; GTPase, signal transduction, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.50A {Homo sapiens} SCOP: c.37.1.8 PDB: 1z0a_A*

Probab=99.39  E-value=1.3e-12  Score=81.25  Aligned_cols=61  Identities=41%  Similarity=0.489  Sum_probs=55.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +..+.+|+||+|+.+.+.++.+++..+++.+++.||++||++|.||+++|..+++.+.+..
T Consensus       126 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  186 (191)
T 2a5j_A          126 NMVIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKI  186 (191)
T ss_dssp             TCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCCccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            3456788999999877889999999999999999999999999999999999999998754

>3kkq_A RAS-related protein M-RAS; GTP-binding, GTPase, signaling protein; HET: GDP; 1.20A {Mus musculus} SCOP: c.37.1.8 PDB: 3kkp_A* 3kko_A* 3pit_A* 3pir_A* 1x1r_A* 1x1s_A*

Probab=99.39  E-value=1.3e-12  Score=80.31  Aligned_cols=58  Identities=29%  Similarity=0.493  Sum_probs=53.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccC-CCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk-~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+.+.+.++.+++..+++.++++||++||+ +|.||+++|..+++.+.+
T Consensus       124 ~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~v~~l~~~l~~~i~~  182 (183)
T 3kkq_A          124 FPMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  182 (183)
T ss_dssp             CCEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCCchhccCcCHHHHHHHHHHhCCeEEEeccCCCCCCHHHHHHHHHHHHhh
Confidence            4567889999998889999999999999999999999999 999999999999988764

>3dz8_A RAS-related protein RAB-3B; GDP, GTPase, structural genomics consortium, SGC, cell GTP-binding, lipoprotein, membrane, methylation; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.39  E-value=8e-13  Score=82.14  Aligned_cols=61  Identities=30%  Similarity=0.364  Sum_probs=55.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +..+.||+||+|+.+.+.+..+++..+++.++++||++||++|.||+++|..+++.+.+..
T Consensus       128 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  188 (191)
T 3dz8_A          128 NAQVILVGNKCDMEEERVVPTEKGQLLAEQLGFDFFEASAKENISVRQAFERLVDAICDKM  188 (191)
T ss_dssp             TCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEECCCCccccccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHhc
Confidence            3456788999999888899999999999999999999999999999999999999887653

>3t5g_A GTP-binding protein RHEB; immunoglobulin-like beta sandwitch, PDE delta, RHEB; HET: GDP FAR; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 1xtq_A* 1xtr_A* 1xts_A* 2l0x_A* 3sea_A*

Probab=99.38  E-value=5.1e-13  Score=82.06  Aligned_cols=60  Identities=20%  Similarity=0.232  Sum_probs=54.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+...
T Consensus       111 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  170 (181)
T 3t5g_A          111 QIPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAEKM  170 (181)
T ss_dssp             -CCEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCTTSHHHHHHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECccchhcceecHHHHHHHHHHhCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            355678899999988899999999999999999999999999999999999999988754

>3tkl_A RAS-related protein RAB-1A; vesicle trafficking, protein transport-protein binding compl; HET: GTP; 2.18A {Homo sapiens}

Probab=99.38  E-value=2e-12  Score=80.18  Aligned_cols=60  Identities=32%  Similarity=0.424  Sum_probs=55.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      .++.||+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+++.+.+..
T Consensus       122 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  181 (196)
T 3tkl_A          122 VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIKKRM  181 (196)
T ss_dssp             CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEEECTTTCTTHHHHHHHHHHHHHHHC
T ss_pred             CCEEEEEECcccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            456778999999988999999999999999999999999999999999999999988754

>2fn4_A P23, RAS-related protein R-RAS; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ery_A*

Probab=99.36  E-value=1.3e-12  Score=79.79  Aligned_cols=61  Identities=23%  Similarity=0.305  Sum_probs=54.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+.+.+.++.+++..++..+++.||++||++|.||+++|..+++.+.+..
T Consensus       114 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~~  174 (181)
T 2fn4_A          114 DFPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  174 (181)
T ss_dssp             CCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHHHhh
Confidence            3456788999999887889999999999999999999999999999999999999887653

>2hup_A RAS-related protein RAB-43; G-protein, GDP, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.05A {Homo sapiens}

Probab=99.36  E-value=1.7e-12  Score=81.56  Aligned_cols=60  Identities=33%  Similarity=0.385  Sum_probs=54.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.||+||+|+.+.+.++.+++..+++.+++ .||++||++|.||+++|..+++.+.+..
T Consensus       135 ~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  195 (201)
T 2hup_A          135 IVQLLIGNKSDLSELREVSLAEAQSLAEHYDILCAIETSAKDSSNVEEAFLRVATELIMRH  195 (201)
T ss_dssp             CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CCEEEEEECCccccccccCHHHHHHHHHHcCCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            44577899999988788999999999999999 9999999999999999999999887653

>2ew1_A RAS-related protein RAB-30; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.36  E-value=1.5e-12  Score=82.14  Aligned_cols=60  Identities=27%  Similarity=0.328  Sum_probs=54.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+|+||+|+.+.+.++.+++..++...+++||++||++|.||+++|..+++.+.+..
T Consensus       132 ~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~i~~~~  191 (201)
T 2ew1_A          132 VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISEA  191 (201)
T ss_dssp             CEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            345678999999877889999999999999999999999999999999999999988754

>3cpj_B GTP-binding protein YPT31/YPT8; RAB GTPase, prenylation, vesicular transport, acetylation, golgi apparatus, lipoprotein, membrane; HET: GDP; 2.35A {Saccharomyces cerevisiae}

Probab=99.35  E-value=5.2e-13  Score=85.04  Aligned_cols=60  Identities=30%  Similarity=0.297  Sum_probs=52.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.||+||+|+...+.++.+++..+++.++++||++||++|.||+++|..+++.+.+..
T Consensus       119 ~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  178 (223)
T 3cpj_B          119 VAVGLIGNKSDLAHLRAVPTEESKTFAQENQLLFTETSALNSENVDKAFEELINTIYQKV  178 (223)
T ss_dssp             CEEEEEECCGGGGGGCCSCHHHHHHHHHHTTCEEEECCCC-CCCHHHHHHHHHHHHTTCC
T ss_pred             CeEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            446778999999877889999999999999999999999999999999999999887543

>3c5c_A RAS-like protein 12; GDP, GTPase, structural genomics consortium, SGC, limited proteolysis, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.85A {Homo sapiens}

Probab=99.35  E-value=6.3e-13  Score=82.61  Aligned_cols=58  Identities=22%  Similarity=0.297  Sum_probs=53.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEecc-CCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSA-KNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSA-k~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.||+||+|+.+.+.++.+++.++++.+++.||++|| ++|.||+++|..+++.+.
T Consensus       127 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sa~~~g~gv~~lf~~l~~~i~  185 (187)
T 3c5c_A          127 SIPALLLGNKLDMAQYRQVTKAEGVALAGRFGCLFFEVSACLDFEHVQHVFHEAVREAR  185 (187)
T ss_dssp             CCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECCSSSCSHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcchhhcCccCHHHHHHHHHHcCCcEEEEeecCccccHHHHHHHHHHHHh
Confidence            4567788999999888899999999999999999999999 899999999999998775

>1z0f_A RAB14, member RAS oncogene family; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 2.15A {Homo sapiens} SCOP: c.37.1.8 PDB: 2aed_A* 4drz_A*

Probab=99.35  E-value=1.7e-12  Score=79.21  Aligned_cols=58  Identities=36%  Similarity=0.405  Sum_probs=51.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++.+|+||+|+.+.+.++.+++.++++.++++||++||++|.||+++|..+++.+.+
T Consensus       121 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  178 (179)
T 1z0f_A          121 TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIYQ  178 (179)
T ss_dssp             CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC-
T ss_pred             CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHhh
Confidence            4467889999998778899999999999999999999999999999999999987753

>2f7s_A C25KG, RAS-related protein RAB-27B; G-protein, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GDP; 2.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2iez_A*

Probab=99.34  E-value=2.9e-12  Score=80.95  Aligned_cols=63  Identities=32%  Similarity=0.345  Sum_probs=56.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.++.||+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.+....
T Consensus       141 ~~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~~~~  203 (217)
T 2f7s_A          141 NPDIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  203 (217)
T ss_dssp             CCEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCccccccccCHHHHHHHHHHCCCcEEEEECCCCCCHHHHHHHHHHHHHHHhhc
Confidence            345678899999988788999999999999999999999999999999999999998876543

>2gf9_A RAS-related protein RAB-3D; G-protein, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 1.53A {Homo sapiens} PDB: 3rab_A*

Probab=99.34  E-value=2.9e-12  Score=79.37  Aligned_cols=60  Identities=30%  Similarity=0.365  Sum_probs=54.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.+..+++..+++.++++||++||++|.||+++|..+++.+.+.
T Consensus       127 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~~~  186 (189)
T 2gf9_A          127 NAQVILVGNKCDLEDERVVPAEDGRRLADDLGFEFFEASAKENINVKQVFERLVDVICEK  186 (189)
T ss_dssp             TCEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccccccCCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            345678899999988788999999999999999999999999999999999999988764

>2o52_A RAS-related protein RAB-4B; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.20A {Homo sapiens}

Probab=99.34  E-value=2.7e-12  Score=80.47  Aligned_cols=62  Identities=27%  Similarity=0.274  Sum_probs=55.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      +..+.+|+||+|+...+.++.+++..+++.+++.||++||++|.||+++|..+++.+.+...
T Consensus       130 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~~  191 (200)
T 2o52_A          130 NIVVILCGNKKDLDPEREVTFLEASRFAQENELMFLETSALTGENVEEAFLKCARTILNKID  191 (200)
T ss_dssp             TCEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            34567889999998778899999999999999999999999999999999999999887643

>2gf0_A GTP-binding protein DI-RAS1; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC, transport protein; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.34  E-value=7.6e-13  Score=82.28  Aligned_cols=58  Identities=24%  Similarity=0.226  Sum_probs=51.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.. +.+..+++..++..+++.||++||++|.||+++|..+++.+.+
T Consensus       114 ~~piilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  171 (199)
T 2gf0_A          114 DIPVMLVGNKCDETQ-REVDTREAQAVAQEWKCAFMETSAKMNYNVKELFQELLTLETR  171 (199)
T ss_dssp             GSCEEEEEECTTCSS-CSSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHCSS
T ss_pred             CCCEEEEEECccCCc-cccCHHHHHHHHHHhCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            456788899999975 6788999999999999999999999999999999999876643

>3bc1_A RAS-related protein RAB-27A; RAB27, GTPase, RAB, signaling protein, GDPNP, SLP2A, exophil GTP-binding, lipoprotein, membrane, methylation; HET: GNP; 1.80A {Mus musculus} PDB: 2iey_A* 2if0_A* 2zet_A*

Probab=99.34  E-value=4.9e-12  Score=77.98  Aligned_cols=62  Identities=29%  Similarity=0.315  Sum_probs=55.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      +.++.+|+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+++.+.+...
T Consensus       127 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~~~  188 (195)
T 3bc1_A          127 NPDIVLCGNKSDLEDQRAVKEEEARELAEKYGIPYFETSAANGTNISHAIEMLLDLIMKRME  188 (195)
T ss_dssp             SCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccccccccCHHHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHHHHHHhh
Confidence            45567889999998778899999999999999999999999999999999999999887643

>3tw8_B RAS-related protein RAB-35; longin domain, RAB GTPase, guanine exchange factor; 2.10A {Homo sapiens}

Probab=99.34  E-value=3.8e-12  Score=77.75  Aligned_cols=62  Identities=24%  Similarity=0.257  Sum_probs=55.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .++.+|+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+.+.+.+....
T Consensus       114 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~~  175 (181)
T 3tw8_B          114 VCRILVGNKNDDPERKVVETEDAYKFAGQMGIQLFETSAKENVNVEEMFNCITELVLRAKKD  175 (181)
T ss_dssp             SEEEEEEECTTCGGGCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCchhcccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHHhhh
Confidence            44577899999988888999999999999999999999999999999999999988876544

>2bme_A RAB4A, RAS-related protein RAB4A; GTP-binding protein, vesicular transport, endocytosis, prenylation, protein transport, transport; HET: GNP; 1.57A {Homo sapiens} SCOP: c.37.1.8 PDB: 2bmd_A* 1yu9_A* 1z0k_A*

Probab=99.33  E-value=2.5e-12  Score=79.15  Aligned_cols=61  Identities=28%  Similarity=0.249  Sum_probs=54.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      .++.+|+||+|+...+.++.+++..++..++++||++||++|.||+++|..+++.+.+...
T Consensus       116 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  176 (186)
T 2bme_A          116 IVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIE  176 (186)
T ss_dssp             CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHhh
Confidence            4467889999998778899999999999999999999999999999999999999887643

>1zbd_A Rabphilin-3A; G protein, effector, RABCDR, synaptic exocytosis, RAB protein, RAB3A; HET: GTP; 2.60A {Rattus norvegicus} SCOP: c.37.1.8

Probab=99.33  E-value=4.3e-12  Score=79.31  Aligned_cols=63  Identities=33%  Similarity=0.393  Sum_probs=56.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.++.+|+||+|+.+.+.+..+++..+++.++++||++||++|.||+++|..+++.+.+....
T Consensus       113 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~~~  175 (203)
T 1zbd_A          113 NAQVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICEKMSE  175 (203)
T ss_dssp             SCEEEEEEECTTCTTSCCSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCcccccCHHHHHHHHHHCCCeEEEEECCCCCCHHHHHHHHHHHHHHHHHh
Confidence            455678899999988888999999999999999999999999999999999999988876543

>2atv_A RERG, RAS-like estrogen-regulated growth inhibitor; GDP/GTP binding, GTP hydrolysis, structural genomics, structural genomics consortium, SGC; HET: GDP; 1.90A {Homo sapiens} SCOP: c.37.1.8

Probab=99.33  E-value=3.7e-12  Score=79.40  Aligned_cols=60  Identities=30%  Similarity=0.421  Sum_probs=54.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCC-CHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSI-NVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~-~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|. ||+++|..+++.+.+.
T Consensus       132 ~~piilv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~g~~gi~~l~~~l~~~i~~~  192 (196)
T 2atv_A          132 NVTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR  192 (196)
T ss_dssp             CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECcccccccccCHHHHHHHHHHhCCeEEEECCCcCCcCHHHHHHHHHHHHHhh
Confidence            34567889999998778899999999999999999999999999 9999999999988764

>3oes_A GTPase rhebl1; small GTPase, structural genomics, structural genomics conso SGC, hydrolase; HET: GNP; 2.30A {Homo sapiens}

Probab=99.32  E-value=1.4e-12  Score=81.69  Aligned_cols=60  Identities=22%  Similarity=0.295  Sum_probs=54.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.||+||+|+...+.++.+++..++..++++||++||++|.||+++|..+++.+.+.
T Consensus       129 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~i~~~  188 (201)
T 3oes_A          129 RVPVVLVGNKADLSPEREVQAVEGKKLAESWGATFMESSARENQLTQGIFTKVIQEIARV  188 (201)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEECccCccccccCHHHHHHHHHHhCCeEEEEeCCCCCCHHHHHHHHHHHHHhh
Confidence            345678899999988889999999999999999999999999999999999999988754

>2g6b_A RAS-related protein RAB-26; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, unknown function; HET: GNP; 2.00A {Homo sapiens} SCOP: c.37.1.8

Probab=99.32  E-value=5.2e-12  Score=77.27  Aligned_cols=60  Identities=38%  Similarity=0.524  Sum_probs=53.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+...+.+..+++..+++.++++|+++||++|.||+++|..+++.+.+.
T Consensus       116 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  175 (180)
T 2g6b_A          116 DVALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELKRR  175 (180)
T ss_dssp             TCEEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHC-
T ss_pred             CCcEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            345678899999988888999999999999999999999999999999999999887643

>2oil_A CATX-8, RAS-related protein RAB-25; G-protein, GDP, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.30A {Homo sapiens}

Probab=99.32  E-value=4.4e-12  Score=78.74  Aligned_cols=60  Identities=32%  Similarity=0.330  Sum_probs=54.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+|+||+|+...+.+..+++..++..+++.||++||++|.||+++|..+++.+.+..
T Consensus       131 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  190 (193)
T 2oil_A          131 IVVMLVGNKSDLSQAREVPTEEARMFAENNGLLFLETSALDSTNVELAFETVLKEIFAKV  190 (193)
T ss_dssp             CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECCCcccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHh
Confidence            446788999999877889999999999999999999999999999999999999888754

>1z08_A RAS-related protein RAB-21; RAB GTPase, vesicular trafficking, protein transport; HET: GNP; 1.80A {Homo sapiens} SCOP: c.37.1.8 PDB: 2ot3_B 1yzu_A* 1z0i_A 1yzt_A*

Probab=99.31  E-value=2.4e-12  Score=78.00  Aligned_cols=57  Identities=23%  Similarity=0.211  Sum_probs=52.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.
T Consensus       112 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  168 (170)
T 1z08_A          112 ICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMI  168 (170)
T ss_dssp             SEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHH
T ss_pred             CeEEEEEECcccccccccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHh
Confidence            445788999999887889999999999999999999999999999999999998775

>2a9k_A RAS-related protein RAL-A; bacterial ADP-ribosyltransferase, RAL, RHO, GD binding; HET: GDP NAD; 1.73A {Homo sapiens} SCOP: c.37.1.8 PDB: 2a78_A*

Probab=99.31  E-value=5.6e-12  Score=77.35  Aligned_cols=61  Identities=31%  Similarity=0.442  Sum_probs=54.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+.+.+.+..+++..+++.++++||++||+++.||+++|..+++.+.+..
T Consensus       123 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~~  183 (187)
T 2a9k_A          123 NVPFLLVGNKSDLEDKRQVSVEEAKNRAEQWNVNYVETSAKTRANVDKVFFDLMREIRARK  183 (187)
T ss_dssp             TCCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHHHhh
Confidence            3556788999999877889999999999999999999999999999999999999887643

>1u8z_A RAS-related protein RAL-A; GNP, GTP, GMPPNP, GPPNHP, GDP, GTPase, signaling protein; HET: GDP; 1.50A {Saguinus oedipus} SCOP: c.37.1.8 PDB: 1u8y_A* 1u90_A* 1uad_A* 1zc3_A* 1zc4_A* 2kwi_A* 2ke5_A*

Probab=99.31  E-value=3.9e-12  Score=76.67  Aligned_cols=58  Identities=31%  Similarity=0.436  Sum_probs=52.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.
T Consensus       109 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  166 (168)
T 1u8z_A          109 NVPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             TSCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECccccccCccCHHHHHHHHHHcCCeEEEeCCCCCCCHHHHHHHHHHHHH
Confidence            4566788999999877889999999999999999999999999999999999998775

>2hxs_A RAB-26, RAS-related protein RAB-28; GTPase, signaling protein; HET: G3D; 1.10A {Homo sapiens} PDB: 2hy4_A* 3e5h_A*

Probab=99.31  E-value=2.8e-12  Score=78.33  Aligned_cols=56  Identities=20%  Similarity=0.118  Sum_probs=51.2

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.+
T Consensus       118 iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  173 (178)
T 2hxs_A          118 VALVGNKIDLEHMRTIKPEKHLRFCQENGFSSHFVSAKTGDSVFLCFQKVAAEILG  173 (178)
T ss_dssp             EEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHTT
T ss_pred             EEEEEEccccccccccCHHHHHHHHHHcCCcEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            46789999998778899999999999999999999999999999999999987754

>3q3j_B RHO-related GTP-binding protein RHO6; RAS-binding domain, plexin, small GTPase, structural genomic consortium, SGC; HET: GNP; 1.97A {Homo sapiens} PDB: 2rex_B* 2cls_A*

Probab=99.31  E-value=1.5e-12  Score=82.57  Aligned_cols=61  Identities=21%  Similarity=0.213  Sum_probs=52.9

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCC-HHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~-V~~~F~~~~~~i~~~~   66 (101)
                      +..+.||+||+|+.+            .+.++.+++..+++.+++ .|||+||++|.| |+++|..+++.++...
T Consensus       131 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~g~v~~lf~~l~~~~~~~~  205 (214)
T 3q3j_B          131 STRVLLIGCKTDLRTDLSTLMELSHQKQAPISYEQGCAIAKQLGAEIYLEGSAFTSEKSIHSIFRTASMLCLNKP  205 (214)
T ss_dssp             TSEEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHC--
T ss_pred             CCCEEEEEEChhhccchhhhhhhcccccCccCHHHHHHHHHHcCCCEEEEeccCCCcccHHHHHHHHHHHHhccC
Confidence            345678899999965            378999999999999998 899999999998 9999999999887653

>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=99.30  E-value=1.2e-11  Score=76.78  Aligned_cols=58  Identities=22%  Similarity=0.189  Sum_probs=51.4

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.||+||+|+.+.            +.++.+++..+++.++. .||++||++|.||+++|..+++.++
T Consensus       122 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~i~  192 (194)
T 2atx_A          122 NVPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  192 (194)
T ss_dssp             TCCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhhcccccchhhcccccCcccCHHHHHHHHHHcCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            4566788999999753            67999999999999997 8999999999999999999998775

>1g16_A RAS-related protein SEC4; G protein RAB, signaling protein, endocytosis/exocytosis complex; HET: GDP; 1.80A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1g17_A* 2ocy_C 2eqb_A

Probab=99.29  E-value=7.8e-12  Score=75.64  Aligned_cols=59  Identities=37%  Similarity=0.517  Sum_probs=51.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+ ..+.+..+++..+++.++++||++||++|.||+++|..+++.+.+.
T Consensus       108 ~~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~~  166 (170)
T 1g16_A          108 EAQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK  166 (170)
T ss_dssp             TCEEEEEEECTTC-TTCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEECccC-CcCccCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHHHH
Confidence            3456788999999 4577889999999999999999999999999999999999888653

>1c1y_A RAS-related protein RAP-1A; GTP-binding proteins, protein-protein complex, effectors, signaling protein; HET: GTP; 1.90A {Homo sapiens} SCOP: c.37.1.8 PDB: 3kuc_A* 1gua_A* 3cf6_R* 3brw_D*

Probab=99.29  E-value=8.2e-12  Score=75.34  Aligned_cols=57  Identities=30%  Similarity=0.482  Sum_probs=51.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.+ +.+||++||++|.||+++|..+++.+
T Consensus       108 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  165 (167)
T 1c1y_A          108 DVPMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQI  165 (167)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCcEEEEEECccccccccCCHHHHHHHHHHccCCcEEEecCCCCCCHHHHHHHHHHHH
Confidence            4556788999999888889999999999998 78999999999999999999998866

>2efe_B Small GTP-binding protein-like; GEF, GTPase, VPS9, nucleotide, transport protein; HET: GNH; 2.08A {Arabidopsis thaliana} PDB: 2efd_B 2efc_B* 2efh_B*

Probab=99.28  E-value=5.4e-12  Score=77.26  Aligned_cols=58  Identities=29%  Similarity=0.382  Sum_probs=51.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+..
T Consensus       118 ~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  175 (181)
T 2efe_B          118 MVMALAGNKSDLLDARKVTAEDAQTYAQENGLFFMETSAKTATNVKEIFYEIARRLPR  175 (181)
T ss_dssp             CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCEEEECCSSSCTTHHHHHHHHHHTCC-
T ss_pred             CcEEEEEECCcccccccCCHHHHHHHHHHcCCEEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            3466789999998888899999999999999999999999999999999999887654

>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=99.28  E-value=6.9e-12  Score=77.58  Aligned_cols=60  Identities=12%  Similarity=0.030  Sum_probs=53.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      +.++.||+||+|+.+  .++.+++..+++.+++ +||++||++|.||+++|..+++.+.+...
T Consensus       135 ~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~i~~~~~  195 (198)
T 3t1o_A          135 DVPIVIQVNKRDLPD--ALPVEMVRAVVDPEGKFPVLEAVATEGKGVFETLKEVSRLVLARVA  195 (198)
T ss_dssp             SSCEEEEEECTTSTT--CCCHHHHHHHHCTTCCSCEEECBGGGTBTHHHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEEchhccc--ccCHHHHHHHHHhcCCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            456778899999974  4889999999999998 99999999999999999999999987643

>2q3h_A RAS homolog gene family, member U; GTPase, structural genomics, structural genomics consortium,; HET: GDP; 1.73A {Homo sapiens}

Probab=99.28  E-value=1e-11  Score=77.45  Aligned_cols=61  Identities=16%  Similarity=0.110  Sum_probs=53.5

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.||+||+|+..            .+.++.+++..+++.++. +||++||++|.||+++|..+++.+++..
T Consensus       124 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~~  197 (201)
T 2q3h_A          124 KAPIILVGTQSDLREDVKVLIELDKCKEKPVPEEAAKLLAEEIKAASYIECSALTQKNLKEVFDAAIVAGIQYS  197 (201)
T ss_dssp             SSCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECHhhhhchhhhhhhcccccccCCHHHHHHHHHhcCCcEEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            456678899999864            478899999999999997 8999999999999999999999887654

>1kao_A RAP2A; GTP-binding protein, small G protein, GDP, RAS; HET: GDP; 1.70A {Homo sapiens} SCOP: c.37.1.8 PDB: 2rap_A* 3rap_R*

Probab=99.27  E-value=3.7e-12  Score=76.68  Aligned_cols=58  Identities=31%  Similarity=0.400  Sum_probs=52.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+.+.+.+..+++..+++.++++||++||++|.||+++|..+++.+.
T Consensus       108 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  165 (167)
T 1kao_A          108 KVPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCcccccccCCHHHHHHHHHHhCCCEEEecCCCCcCHHHHHHHHHHHHh
Confidence            4566788999999877889999999999999999999999999999999999988764

>3reg_A RHO-like small GTPase; cytoskeleton, nucleotide-binding, GTP-binding, signaling Pro lipoprotein, prenylation; HET: GSP; 1.80A {Entamoeba histolytica} PDB: 3ref_B* 4dvg_A*

Probab=99.27  E-value=1.1e-11  Score=76.96  Aligned_cols=59  Identities=17%  Similarity=0.294  Sum_probs=52.4

Q ss_pred             CCCcEEeecCCCCC--CCCCCHHHHHHHHHHhCCe-EEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS--MPQVSRERGEQLAIEYGIK-FMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~--~~~v~~~~~~~~a~~~~~~-~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.||+||+|+.+  .+.+..+++..+++.+++. ||++||++|.||+++|..+++.+++.
T Consensus       128 ~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  189 (194)
T 3reg_A          128 AKTVLVGLKVDLRKDGSDDVTKQEGDDLCQKLGCVAYIEASSVAKIGLNEVFEKSVDCIFSN  189 (194)
T ss_dssp             SEEEEEEECGGGCCTTTTCCCHHHHHHHHHHHTCSCEEECBTTTTBSHHHHHHHHHHHHHCS
T ss_pred             CCEEEEEEChhhccCCCCcccHHHHHHHHHhcCCCEEEEeecCCCCCHHHHHHHHHHHHHhc
Confidence            45678899999975  4789999999999999988 99999999999999999999988653

>2yc2_C IFT27, small RAB-related GTPase; transport protein, cilium, IFT complex; 2.59A {Chlamydomonas reinhardtii} PDB: 2yc4_C

Probab=99.27  E-value=1e-11  Score=77.55  Aligned_cols=63  Identities=14%  Similarity=0.221  Sum_probs=44.9

Q ss_pred             cCCCcEEeecCCCCC-CCCCCHHHHHHHHHHhCCeEEEeccCC-CCCHHHHHHHHHHHHHHHHhh
Q psy17493          6 NTKSKYIEVPNFVSS-MPQVSRERGEQLAIEYGIKFMETSAKN-SINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~-~~~v~~~~~~~~a~~~~~~~~etSAk~-~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      +.++.+|+||+|+.+ .+.++.+++..+++.++++|+++||++ |.||+++|..+++.+.+....
T Consensus       132 ~~piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~gi~~l~~~i~~~~~~~~~~  196 (208)
T 2yc2_C          132 PLRAVLVANKTDLPPQRHQVRLDMAQDWATTNTLDFFDVSANPPGKDADAPFLSIATTFYRNYED  196 (208)
T ss_dssp             CCEEEEEEECC-------CCCHHHHHHHHHHTTCEEEECCC-------CHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECcccchhhccCCHHHHHHHHHHcCCEEEEeccCCCCcCHHHHHHHHHHHHHHHHHh
Confidence            455678899999987 788999999999999999999999999 999999999999988766543

>1z2a_A RAS-related protein RAB-23; RAB GTPase, vesicular trafficking, protein transport; HET: GDP; 1.90A {Mus musculus} SCOP: c.37.1.8 PDB: 1z22_A*

Probab=99.26  E-value=5.5e-12  Score=76.18  Aligned_cols=59  Identities=22%  Similarity=0.261  Sum_probs=53.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+++
T Consensus       109 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~  167 (168)
T 1z2a_A          109 DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHLQ  167 (168)
T ss_dssp             SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHHC
T ss_pred             CCCEEEEEECcccCcccccCHHHHHHHHHHcCCeEEEEecCCCCCHHHHHHHHHHHHhh
Confidence            45667889999998778899999999999999999999999999999999999987753

>2il1_A RAB12; G-protein, GDP, GTPase, predicted, structural genomics, structural genomics consortium, SGC, protein transport; HET: GDP; 2.10A {Homo sapiens}

Probab=99.26  E-value=6.2e-12  Score=78.30  Aligned_cols=58  Identities=28%  Similarity=0.470  Sum_probs=51.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.||+||+|+.+.+.++.+++..+++.+ ++.||++||++|.||+++|..+++.+.+
T Consensus       132 ~piilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~  190 (192)
T 2il1_A          132 AELLLVGNKLDCETDREITRQQGEKFAQQITGMRFCEASAKDNFNVDEIFLKLVDDILK  190 (192)
T ss_dssp             CEEEEEEECGGGGGGCCSCHHHHHHHHHTSTTCEEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECcccccccccCHHHHHHHHHhcCCCeEEEEeCCCCCCHHHHHHHHHHHHHH
Confidence            446788999999887889999999999985 7899999999999999999999988764

>3cph_A RAS-related protein SEC4; RAB GTPase, prenylation, vesicular transport, cytoplasm, cytoplasmic vesicle, exocytosis, GTP-binding; HET: GDP; 2.90A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.25  E-value=2.4e-11  Score=76.26  Aligned_cols=60  Identities=37%  Similarity=0.515  Sum_probs=53.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      .++.+|+||+|+ ..+.+..+++..+++.++++||++||++|.||+++|..+++.+.+...
T Consensus       126 ~piilv~nK~Dl-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~~  185 (213)
T 3cph_A          126 AQLLLVGNKSDM-ETRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEKID  185 (213)
T ss_dssp             SEEEEEEECTTC-SSCCSCHHHHHHHHHHHTCCEEECBTTTTBSSHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCC-cccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHh
Confidence            456788999999 557888999999999999999999999999999999999998877653

>2p5s_A RAS and EF-hand domain containing; G-protein, RAB, GDP, structural genomics, SGC, structural genomics consortium, signaling protein; HET: GDP; 2.15A {Homo sapiens}

Probab=99.25  E-value=9.4e-12  Score=77.78  Aligned_cols=58  Identities=33%  Similarity=0.435  Sum_probs=51.2

Q ss_pred             cCCCcEEeecCCCC------CCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVS------SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~------~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.||+||+|+.      ..+.+..+++..++..++++||++||++|.||+++|..+++.+.
T Consensus       133 ~~piilv~NK~Dl~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~SA~~g~gv~el~~~l~~~i~  196 (199)
T 2p5s_A          133 TVPIMLVGNKADIRDTAATEGQKCVPGHFGEKLAMTYGALFCETSAKDGSNIVEAVLHLAREVK  196 (199)
T ss_dssp             -CCEEEEEECGGGHHHHHHTTCCCCCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             CCCEEEEEECcccccccccccccccCHHHHHHHHHHcCCeEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            35567889999985      46789999999999999999999999999999999999998775

>1ky3_A GTP-binding protein YPT7P; vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase, endocytosis/exocytosis complex; HET: GDP; 1.35A {Saccharomyces cerevisiae} SCOP: c.37.1.8 PDB: 1ky2_A*

Probab=99.24  E-value=2.3e-11  Score=74.32  Aligned_cols=61  Identities=31%  Similarity=0.224  Sum_probs=51.9

Q ss_pred             cCCCcEEeecCCCC-CCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVS-SMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~-~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+. ..+.+..+++..+++ ..+.+||++||++|.||+++|..+++.++++.
T Consensus       118 ~~p~ilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~~  180 (182)
T 1ky3_A          118 TFPFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  180 (182)
T ss_dssp             TCCEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEECCccccccccCCHHHHHHHHHhcCCCeEEEEecCCCCCHHHHHHHHHHHHHHhh
Confidence            44667889999994 456788999999998 45689999999999999999999999887653

>1r2q_A RAS-related protein RAB-5A; GTPase, GNP, atomic resolution, protein transport; HET: GNP; 1.05A {Homo sapiens} SCOP: c.37.1.8 PDB: 1n6h_A* 1tu4_A* 1tu3_A* 1n6k_A* 1n6i_A* 1n6l_A* 1n6o_A* 1n6p_A* 1n6n_A* 1n6r_A* 3mjh_A* 1z0d_A* 1huq_A* 2hei_A* 1z07_A*

Probab=99.24  E-value=7.8e-12  Score=75.55  Aligned_cols=54  Identities=26%  Similarity=0.346  Sum_probs=48.5

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.+|+||+|+.+.+.++.+++..++..++++||++||++|.||+++|..+++.+
T Consensus       114 iilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~i~~~~  167 (170)
T 1r2q_A          114 IALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKL  167 (170)
T ss_dssp             EEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTS
T ss_pred             EEEEEECccCccccccCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHH
Confidence            456679999987788999999999999999999999999999999999998754

>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=99.23  E-value=1.2e-11  Score=78.27  Aligned_cols=60  Identities=20%  Similarity=0.205  Sum_probs=52.5

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.||+||+|+...            +.++.+++..+++.+++ +||++||++|.||+++|..+++.+++.
T Consensus       138 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~~~~~  210 (214)
T 2j1l_A          138 KVPIIVVGCKTDLRKDKSLVNKLRRNGLEPVTYHRGQEMARSVGAVAYLECSARLHDNVHAVFQEAAEVALSS  210 (214)
T ss_dssp             SCCEEEEEECGGGGSCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECBTTTTBSHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEEChhhhccchhhhhhcccccCcccHHHHHHHHHhcCCCEEEEecCCCCCCHHHHHHHHHHHHHHh
Confidence            4566788999999654            47899999999999997 899999999999999999999988754

>1z0j_A RAB-22, RAS-related protein RAB-22A; RAB GTPase, RAB22 GTPase, rabenosyn, endosomal trafficking; HET: GTP; 1.32A {Mus musculus} SCOP: c.37.1.8 PDB: 1yvd_A*

Probab=99.23  E-value=1.4e-11  Score=74.47  Aligned_cols=55  Identities=25%  Similarity=0.314  Sum_probs=49.6

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+.+|+||+|+.+.+.+..+++..+++.++++||++||++|.||+++|..+++.+
T Consensus       113 ~iilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~i~~~i  167 (170)
T 1z0j_A          113 VVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  167 (170)
T ss_dssp             EEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             cEEEEEECCccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHH
Confidence            3456789999988788999999999999999999999999999999999998765

>2j0v_A RAC-like GTP-binding protein ARAC7; nucleotide-binding protein, ROP9, atrac7, membrane, palmitate, RHO GTPase; HET: GDP; 1.78A {Arabidopsis thaliana}

Probab=99.23  E-value=2.7e-12  Score=80.79  Aligned_cols=60  Identities=20%  Similarity=0.246  Sum_probs=51.4

Q ss_pred             cCCCcEEeecCCCCCCC--------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.||+||+|+.+.+        .++.+++..+++.++. +||++||++|.||+++|..+++.+.+.
T Consensus       113 ~~piilv~nK~Dl~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~~  181 (212)
T 2j0v_A          113 NVPIVLVGTKLDLRDDKGYLADHTNVITSTQGEELRKQIGAAAYIECSSKTQQNVKAVFDTAIKVVLQP  181 (212)
T ss_dssp             TCCEEEEEECHHHHTCHHHHHTCSSCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHHCC
T ss_pred             CCCEEEEEeCHHhhhCccccccccCCCCHHHHHHHHHHcCCceEEEccCCCCCCHHHHHHHHHHHHhhh
Confidence            45667889999986544        3588999999999996 899999999999999999999988754

>1z06_A RAS-related protein RAB-33B; RAB GTPase, RAB33B GTPase, vesicular trafficking, protein transport; HET: GNP; 1.81A {Mus musculus} SCOP: c.37.1.8 PDB: 2g77_B*

Probab=99.23  E-value=1.3e-11  Score=76.42  Aligned_cols=58  Identities=29%  Similarity=0.307  Sum_probs=49.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCC---CCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNS---INVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~---~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||+|+.+.+.++.+++..++..+++.||++||+++   .||+++|..+++.+.
T Consensus       127 ~~piilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~i~~l~~~l~~~i~  187 (189)
T 1z06_A          127 DIPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLAHKLK  187 (189)
T ss_dssp             CCCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC----
T ss_pred             CCCEEEEEECccccccceeCHHHHHHHHHHcCCEEEEEeCCcCCcccCHHHHHHHHHHHHh
Confidence            3556788999999887889999999999999999999999999   999999999988764

>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=99.23  E-value=2.6e-11  Score=75.95  Aligned_cols=58  Identities=21%  Similarity=0.186  Sum_probs=51.4

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+...            +.++.+++..+++.++. .||++||++|.||+++|..+++.++
T Consensus       129 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~i~~~~l  199 (201)
T 2gco_A          129 NVPIILVGNKKDLRQDEHTRRELAKMKQEPVRSEEGRDMANRISAFGYLECSAKTKEGVREVFEMATRAGL  199 (201)
T ss_dssp             TCCEEEEEECGGGTTCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCEEEEEecHHhhcCccchhhhcccccCcCCHHHHHHHHHhCCCcEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            4566788999999764            67899999999999998 8999999999999999999998775

>1wms_A RAB-9, RAB9, RAS-related protein RAB-9A; GTPase, protein transport; HET: GDP; 1.25A {Homo sapiens} SCOP: c.37.1.8 PDB: 1s8f_A* 1yzl_A* 2ocb_A*

Probab=99.22  E-value=3e-11  Score=73.66  Aligned_cols=58  Identities=28%  Similarity=0.213  Sum_probs=50.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-HhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-EYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+. .+.+..+++..+++ ..+++||++||++|.||+++|..+++.+++
T Consensus       116 ~~p~i~v~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  174 (177)
T 1wms_A          116 SFPFVILGNKIDIS-ERQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  174 (177)
T ss_dssp             TSCEEEEEECTTCS-SCSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCcEEEEEECCccc-ccccCHHHHHHHHHhcCCceEEEEeCCCCCCHHHHHHHHHHHHHh
Confidence            34567889999997 57889999999998 566899999999999999999999998864

>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=99.22  E-value=1.2e-11  Score=78.11  Aligned_cols=60  Identities=17%  Similarity=0.132  Sum_probs=50.8

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+|+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+++.+.+..
T Consensus       118 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  177 (218)
T 4djt_A          118 APIVVCANKIDIKNRQKISKKLVMEVLKGKNYEYFEISAKTAHNFGLPFLHLARIFTGRP  177 (218)
T ss_dssp             SCEEEEEECTTCC----CCHHHHHHHTTTCCCEEEEEBTTTTBTTTHHHHHHHHHHHCCT
T ss_pred             CCEEEEEECCCCccccccCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHhccc
Confidence            466788999999888899999999999999999999999999999999999999887543

>2fg5_A RAB-22B, RAS-related protein RAB-31; G-protein, GTP analogue, structural genomics, structural genomics consortium, SGC, signaling protein; HET: GNP; 2.80A {Homo sapiens} SCOP: c.37.1.8

Probab=99.22  E-value=5.9e-12  Score=78.30  Aligned_cols=59  Identities=29%  Similarity=0.329  Sum_probs=51.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.+.++.+++..+++.++++||++||++|.||+++|..+++.+.+
T Consensus       128 ~~piiiv~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  186 (192)
T 2fg5_A          128 NIVMAIAGNKCDLSDIREVPLKDAKEYAESIGAIVVETSAKNAINIEELFQGISRQIPP  186 (192)
T ss_dssp             TCEEEEEEECGGGGGGCCSCHHHHHHHHHTTTCEEEECBTTTTBSHHHHHHHHHHTCC-
T ss_pred             CCcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHHHh
Confidence            34567889999998778899999999999999999999999999999999999886643

>3clv_A RAB5 protein, putative; malaria, GTPase, structural genomics, GTP-binding, nucleotide-binding, signaling protein; HET: GDP; 1.89A {Plasmodium falciparum}

Probab=99.21  E-value=6.3e-11  Score=73.32  Aligned_cols=58  Identities=22%  Similarity=0.232  Sum_probs=51.5

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.+|+||+| ...+.+..+++..+++.++++||++||++|.||+++|..+++.+.++
T Consensus       148 ~piilv~NK~D-~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~~~  205 (208)
T 3clv_A          148 YIIILVANKID-KNKFQVDILEVQKYAQDNNLLFIQTSAKTGTNIKNIFYMLAEEIYKN  205 (208)
T ss_dssp             CEEEEEEECTT-CC-CCSCHHHHHHHHHHTTCEEEEECTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEECCC-cccccCCHHHHHHHHHHcCCcEEEEecCCCCCHHHHHHHHHHHHHHh
Confidence            45678899999 55678999999999999999999999999999999999999988764

>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=99.21  E-value=6.8e-11  Score=73.03  Aligned_cols=59  Identities=36%  Similarity=0.526  Sum_probs=52.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.. +.+..+++.++++.++++||++||++|.||+++|..+++.+.+.
T Consensus       126 ~~p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  184 (190)
T 3con_A          126 DVPMVLVGNKCDLPT-RTVDTKQAHELAKSYGIPFIETSAKTRQGVEDAFYTLVREIRQY  184 (190)
T ss_dssp             CCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEECCcCCc-ccCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHH
Confidence            456678899999976 67889999999999999999999999999999999999988754

>1x3s_A RAS-related protein RAB-18; GTPase, GNP, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GNP; 1.32A {Homo sapiens} SCOP: c.37.1.8

Probab=99.20  E-value=5.9e-11  Score=73.34  Aligned_cols=58  Identities=24%  Similarity=0.210  Sum_probs=51.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.+|+||+|+. .+.+..+++..+++.+++.||++||+++.||+++|..+++.+.+.
T Consensus       122 ~p~ilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  179 (195)
T 1x3s_A          122 IVNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT  179 (195)
T ss_dssp             CEEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             CcEEEEEECCcCc-ccccCHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHhh
Confidence            3446789999994 467889999999999999999999999999999999999988753

>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=99.19  E-value=9.3e-11  Score=70.29  Aligned_cols=57  Identities=35%  Similarity=0.557  Sum_probs=50.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+++||+|+.. +.+..+++..+++.+++++|++||++|.||+++|..+++.+.
T Consensus       108 ~~p~iiv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~  164 (166)
T 2ce2_X          108 DVPMVLVGNKSDLAA-RTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR  164 (166)
T ss_dssp             CCCEEEEEECTTCSC-CCSCHHHHHHHHHHHTCCEEEECTTTCTTHHHHHHHHHHHHH
T ss_pred             CCcEEEEEEchhhhh-cccCHHHHHHHHHHcCCeEEEecCCCCCCHHHHHHHHHHHHH
Confidence            456678899999976 678889999999999999999999999999999999998764

>2y8e_A RAB-protein 6, GH09086P, RAB6; hydrolase, nucleotide binding, GTP binding; HET: GNP; 1.39A {Drosophila melanogaster} PDB: 3cwz_A* 1yzq_A* 2gil_A* 2e9s_A* 2fe4_A* 2ffq_A* 1d5c_A*

Probab=99.19  E-value=1.3e-11  Score=75.24  Aligned_cols=57  Identities=33%  Similarity=0.353  Sum_probs=50.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||+|+.+.+.++.+++..++..++++|+++||++|.||+++|..+++.+.
T Consensus       120 ~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~i~~l~~~l~~~~~  176 (179)
T 2y8e_A          120 VIIMLVGNKTDLSDKRQVSTEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAALP  176 (179)
T ss_dssp             SEEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEEEBTTTTBSHHHHHHHHHHTCC
T ss_pred             CcEEEEEECCcccccCcCCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHh
Confidence            345678999999887889999999999999999999999999999999999987553

>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=99.19  E-value=8e-12  Score=76.53  Aligned_cols=58  Identities=21%  Similarity=0.226  Sum_probs=49.7

Q ss_pred             cCCCcEEeecCCCCCCCC----------CCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ----------VSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~----------v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+.+.+.          ++.+++..+++.++. +||++||++|.||+++|..+++.++
T Consensus       112 ~~piilv~nK~Dl~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  180 (182)
T 3bwd_D          112 GVPIVLVGTKLDLRDDKQFFIDHPGAVPITTVQGEELKKLIGAPAYIECSSKSQENVKGVFDAAIRVVL  180 (182)
T ss_dssp             TCCEEEEEECHHHHTCHHHHHHC--CCCCCHHHHHHHHHHHTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             CCCEEEEEechhhhcCcccccccccCCCCCHHHHHHHHHHcCCCEEEEEECCCCCCHHHHHHHHHHHHh
Confidence            456678899999865443          588999999999996 8999999999999999999988764

>2erx_A GTP-binding protein DI-RAS2; GTP hydrolysis, transport protein; HET: GDP; 1.65A {Homo sapiens} SCOP: c.37.1.8

Probab=99.19  E-value=3.3e-11  Score=72.89  Aligned_cols=57  Identities=28%  Similarity=0.204  Sum_probs=51.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.+.+.+...++..++..++++||++||++|.||+++|..+++.+
T Consensus       109 ~~pii~v~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~  165 (172)
T 2erx_A          109 SIPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE  165 (172)
T ss_dssp             CCCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             CCCEEEEEEccccccccccCHHHHHHHHHHhCCeEEEecCCCCcCHHHHHHHHHHHH
Confidence            456778899999987788999999999999999999999999999999999998644

>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=99.18  E-value=1.2e-11  Score=76.31  Aligned_cols=59  Identities=24%  Similarity=0.296  Sum_probs=50.7

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccC-CCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAK-NSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk-~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.||+||+|+.+            .+.++.+++..+++.++ .+||++||+ ++.||+++|..+++.+++
T Consensus       111 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~Sa~~~~~gi~~l~~~i~~~~l~  183 (184)
T 1m7b_A          111 NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  183 (184)
T ss_dssp             TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             CCCEEEEEEcchhhcchhhHhhhhhcccCCCCHHHHHHHHHHcCCcEEEEeeecCCCcCHHHHHHHHHHHHhc
Confidence            345678899999964            37799999999999998 789999999 689999999999988763

>1ek0_A Protein (GTP-binding protein YPT51); vesicular traffic, GTP hydrolysis, YPT/RAB protein, endocytosis, hydrolase; HET: MHO GNP GDP; 1.48A {Saccharomyces cerevisiae} SCOP: c.37.1.8

Probab=99.18  E-value=2.1e-11  Score=73.65  Aligned_cols=56  Identities=36%  Similarity=0.426  Sum_probs=48.8

Q ss_pred             CCCcEEeecCCCCCC---CCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSM---PQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~---~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+|+||+|+...   +.+..+++..++..++++||++||++|.||+++|..+++.+
T Consensus       109 ~piilv~nK~Dl~~~~~~~~v~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i  167 (170)
T 1ek0_A          109 IIIALVGNKIDXLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             CcEEEEEECCCccccccccCCCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHH
Confidence            345578999998654   78999999999999999999999999999999999987654

>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=99.17  E-value=6.7e-11  Score=74.36  Aligned_cols=59  Identities=22%  Similarity=0.255  Sum_probs=51.9

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+...            +.++.+++..++..++. .||++||++|.||+++|..+++.+++
T Consensus       129 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~el~~~l~~~i~~  200 (207)
T 2fv8_A          129 NVPIILVANKKDLRSDEHVRTELARMKQEPVRTDDGRAMAVRIQAYDYLECSAKTKEGVREVFETATRAALQ  200 (207)
T ss_dssp             TCCEEEEEECGGGGGCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHS
T ss_pred             CCCEEEEEEchhhhccccchhhhhhcccCCCCHHHHHHHHHhcCCCEEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            4566788999999654            67899999999999997 89999999999999999999988764

>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=99.17  E-value=3.7e-11  Score=73.69  Aligned_cols=59  Identities=20%  Similarity=0.222  Sum_probs=51.2

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.            +.++.+++..+++.++. +||++||++|.||+++|..+++.+++
T Consensus       109 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  180 (186)
T 1mh1_A          109 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  180 (186)
T ss_dssp             TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHSC
T ss_pred             CCCEEEEeEcccccccchhhhhhcccccccCCHHHHHHHHHhcCCcEEEEecCCCccCHHHHHHHHHHHHhc
Confidence            4556788999998643            68899999999999997 89999999999999999999987753

>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=99.16  E-value=2.7e-11  Score=76.48  Aligned_cols=59  Identities=24%  Similarity=0.296  Sum_probs=50.9

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccC-CCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAK-NSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk-~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.||+||+|+.+            .+.++.+++..+++.++ ..||++||| ++.||+++|..+++.+++
T Consensus       132 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~gv~~lf~~l~~~~l~  204 (205)
T 1gwn_A          132 NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  204 (205)
T ss_dssp             TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECCTTTCHHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEechhhccchhhhhhhcccccCCCCHHHHHHHHHHcCCCEEEEeeeccCCcCHHHHHHHHHHHHhh
Confidence            355678899999964            36799999999999998 689999999 689999999999988764

>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=99.14  E-value=1.5e-10  Score=73.83  Aligned_cols=61  Identities=21%  Similarity=0.063  Sum_probs=49.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHH---HHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRE---RGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~---~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +.++.+|+||+|+.+.+.+..+   .+..++...+  +.||++||++|.||+++|..+++.+.+..
T Consensus       142 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~~~~  207 (228)
T 2qu8_A          142 NKSIVIGFNKIDKCNMDSLSIDNKLLIKQILDNVKNPIKFSSFSTLTGVGVEQAKITACELLKNDQ  207 (228)
T ss_dssp             CCCEEEEEECGGGCC--CCCHHHHHHHHHHHHHCCSCEEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CCcEEEEEeCcccCCchhhHHHHHHHHHHHHHhcCCCceEEEEecccCCCHHHHHHHHHHHHHHHH
Confidence            4556788999999877777765   5667778877  88999999999999999999999887654

>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=99.13  E-value=6.3e-12  Score=76.56  Aligned_cols=56  Identities=11%  Similarity=0.067  Sum_probs=46.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +..+.+|+||+|+...+.++. ++..+++.++++|+++||++|.||+++|..+++.+
T Consensus       108 ~~p~ilv~nK~Dl~~~~~~~~-~~~~~~~~~~~~~~~~SA~~~~~v~~l~~~l~~~~  163 (165)
T 2wji_A          108 GANLLLALNKMDLAKSLGIEI-DVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAV  163 (165)
T ss_dssp             TCCEEEEEECHHHHHHTTCCC-CHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHT
T ss_pred             CCCEEEEEEchHhccccChhh-HHHHHHHHhCCCEEEEEcCCCCCHHHHHHHHHHHh
Confidence            456678899999865555553 47889999999999999999999999999998754

>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=99.08  E-value=3.4e-11  Score=75.70  Aligned_cols=57  Identities=21%  Similarity=0.239  Sum_probs=48.5

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+...            +.++.+++..+++.++. +||++||++|.||+++|..+++.+
T Consensus       134 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~~  203 (204)
T 4gzl_A          134 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
T ss_dssp             SCCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHTT
T ss_pred             CCCEEEEEechhhccchhhhhhhhccccccccHHHHHHHHHhcCCcEEEEeeCCCCCCHHHHHHHHHHHh
Confidence            4566788999998654            34889999999999996 599999999999999999998754

>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=99.07  E-value=2.1e-11  Score=76.13  Aligned_cols=56  Identities=14%  Similarity=0.121  Sum_probs=47.4

Q ss_pred             cCCCcEEeecCCCCC-------CCCCCHHHHHHHHH----HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS-------MPQVSRERGEQLAI----EYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~-------~~~v~~~~~~~~a~----~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +..+.||+||+|+.+       .+.+..+++..+++    .+++.||+|||++ .||+++|..+++.+
T Consensus       129 ~~piilv~nK~Dl~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~e~Sa~~-~~v~~~f~~l~~~l  195 (196)
T 3llu_A          129 DMNFEVFIHKVDGLSDDHKIETQRDIHQRANDDLADAGLEKLHLSFYLTSIYD-HSIFEAFSKVVQKL  195 (196)
T ss_dssp             TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTTCTTSCEEEEEECTTS-THHHHHHHHHHHHT
T ss_pred             CCcEEEEEeccccCchhhhhHHHhHHHHHHHHHHHHhhhhcCCcceEEEEech-hhHHHHHHHHHHHh
Confidence            456678899999753       46788888899999    7788999999999 99999999998865

>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=99.07  E-value=1.7e-10  Score=70.96  Aligned_cols=57  Identities=18%  Similarity=0.036  Sum_probs=48.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-------EEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-------FMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-------~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+...+   .+++..+++.++.+       ||++||++|.||+++|..+++.+.+.
T Consensus       122 ~~piilv~nK~Dl~~~~---~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~l~~~~~~~  185 (190)
T 2cxx_A          122 DIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRER  185 (190)
T ss_dssp             TCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHHC
T ss_pred             CCceEEEeehHhccCcH---HHHHHHHHHHhhhhhhccCCcEEEEecCCCCCHHHHHHHHHHhcchh
Confidence            45677889999997544   67788999999875       69999999999999999999887654

>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=99.06  E-value=1.4e-10  Score=77.16  Aligned_cols=59  Identities=20%  Similarity=0.222  Sum_probs=51.7

Q ss_pred             cCCCcEEeecCCCCCC------------CCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM------------PQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~------------~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.            +.++.+++..+++.++. +||++||++|.||+++|..+++.++.
T Consensus       259 ~~p~ilv~nK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~  330 (332)
T 2wkq_A          259 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVLC  330 (332)
T ss_dssp             TSCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHHC
T ss_pred             CCcEEEEEEchhcccccchhhhccccccccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHhc
Confidence            4566788999998543            78999999999999997 89999999999999999999988764

>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=98.62  E-value=1.9e-11  Score=76.60  Aligned_cols=57  Identities=21%  Similarity=0.235  Sum_probs=48.6

Q ss_pred             cCCCcEEeecCCCCCCC------------CCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP------------QVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~------------~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.+.+            .++.+++..+++.++. +||++||++|.||+++|..+++.+
T Consensus       134 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~l~~~l~~~i  203 (204)
T 3th5_A          134 NTPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV  203 (204)
Confidence            44567889999996543            6788899999999997 899999999999999999998765

>3l0i_B RAS-related protein RAB-1A; GEF-GDF-RAB complex, GTP-binding, guanine-nucleotide exchang GDI-displacement factor; 2.85A {Homo sapiens}

Probab=99.04  E-value=6.3e-12  Score=78.60  Aligned_cols=57  Identities=33%  Similarity=0.444  Sum_probs=44.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.||+||+|+.+.+.+..+++..++..++++||++||++|.||+++|..+++.+.
T Consensus       139 ~p~ilv~nK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gv~~l~~~l~~~l~  195 (199)
T 3l0i_B          139 VNKLLVGNKCDLTTKKVVDYTTAKEFADSLGIPFLETSAKNATNVEQSFMTMAAEIK  195 (199)
T ss_dssp             SEEEEC-CCSSCC--CCCCSCC-CHHHHTTTCCBCCCCC---HHHHHHHHHHTTTTT
T ss_pred             CCEEEEEECccCCccccCCHHHHHHHHHHcCCeEEEEECCCCCCHHHHHHHHHHHHH
Confidence            455678999999888888888899999999999999999999999999999987654

>3r7w_B Gtpase2, GTP-binding protein GTR2; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_B*

Probab=99.04  E-value=5.6e-12  Score=85.27  Aligned_cols=58  Identities=16%  Similarity=0.119  Sum_probs=49.1

Q ss_pred             CCCcEEeecCCCCCC-------CCCCHHHHHHHHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSM-------PQVSRERGEQLAIE----YGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~-------~~v~~~~~~~~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .++.|+|||+||.++       |.|+.+++++||+.    +++.|||||||+ .||.++|..+++.++..
T Consensus       107 ipillvgNK~DL~~~~~R~~~~R~V~~~~~~~la~~~~~~~~i~f~eTSAkd-~nV~eAFs~iv~~li~~  175 (331)
T 3r7w_B          107 INIEVLIHKVDGLSEDFKVDAQRDIMQRTGEELLELGLDGVQVSFYLTSIFD-HSIYEAFSRIVQKLIPE  175 (331)
T ss_dssp             CEEEEECCCCCSSCSHHHHHHHHHHHHHHHHTTSSSSCSCCCEEEECCCSSS-SHHHHHHHHHHTTSSTT
T ss_pred             CcEEEEEECcccCchhhhhhHHHHhhHHHHHHHHhhcccccCceEEEeccCC-CcHHHHHHHHHHHHHhh
Confidence            455678999999753       57889999999996    689999999998 59999999999887643

>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=99.03  E-value=1.1e-10  Score=76.00  Aligned_cols=55  Identities=22%  Similarity=0.224  Sum_probs=46.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +..+.||+||+|+.+.+.+  +++..++.. .++.||++||++|.||+++|..+++.+
T Consensus       198 ~~piilV~NK~Dl~~~~~v--~~~~~~~~~~~~~~~~e~SAk~g~gv~elf~~l~~~l  253 (255)
T 3c5h_A          198 KKPIVVVLTKCDEGVERYI--RDAHTFALSKKNLQVVETSARSNVNVDLAFSTLVQLI  253 (255)
T ss_dssp             TCCEEEEEECGGGBCHHHH--HHHHHHHHTSSSCCEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCEEEEEEcccccccHHH--HHHHHHHHhcCCCeEEEEECCCCCCHHHHHHHHHHHh
Confidence            3556788999999765555  578888887 478999999999999999999998865

>4bas_A ADP-ribosylation factor, putative (small GTPase, putative); hydrolase; HET: GNP; 2.00A {Trypanosoma brucei TREU927}

Probab=99.01  E-value=1.9e-10  Score=71.31  Aligned_cols=61  Identities=8%  Similarity=0.013  Sum_probs=43.6

Q ss_pred             cCCCcEEeecCCCCCCCCCC---HHHHHH-HHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS---RERGEQ-LAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~---~~~~~~-~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      +..+.||+||+|+.......   ...+.. +++..++.||++||++|.||+++|..+++.+.+..
T Consensus       127 ~~piilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~~~~  191 (199)
T 4bas_A          127 RVPFLFFANKMDAAGAKTAAELVEILDLTTLMGDHPFVIFASNGLKGTGVHEGFSWLQETASRQS  191 (199)
T ss_dssp             BCCEEEEEECTTSTTCCCHHHHHHHHTHHHHHTTSCEEEEECBTTTTBTHHHHHHHHHHHHHHHC
T ss_pred             CCCEEEEEECcCCCCCCCHHHHHHHhcchhhccCCeeEEEEeeCCCccCHHHHHHHHHHHHHHHh
Confidence            45677889999997543211   111111 12446788999999999999999999999887653

>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=99.01  E-value=1.4e-09  Score=67.94  Aligned_cols=60  Identities=23%  Similarity=0.286  Sum_probs=53.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+++||.|+.+.+.++.+++..++...++.|++|||+++.|++++|..+.+.+.+..
T Consensus       111 ~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~~d~Sal~~~~i~~l~~~l~~~~~~~~  170 (199)
T 2f9l_A          111 IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIV  170 (199)
T ss_dssp             CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHH
T ss_pred             CeEEEEEECcccccccCcCHHHHHHHHHHcCCeEEEEeCCCCCCHHHHHHHHHHHHHHHH
Confidence            346778999999887888999999999999999999999999999999999999887654

>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=98.96  E-value=2.8e-10  Score=72.06  Aligned_cols=58  Identities=17%  Similarity=0.189  Sum_probs=48.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.+|+||+|+.+.+. . .++..+++.+++.||++||++|.||+++|..+++.+...
T Consensus       119 ~~p~ilv~nK~Dl~~~~~-~-~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~l~~~  176 (221)
T 3gj0_A          119 NIPIVLCGNKVDIKDRKV-K-AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD  176 (221)
T ss_dssp             TCCEEEEEECTTSSSCSS-C-GGGCCHHHHHTCEEEECBGGGTBTTTHHHHHHHHHHHTC
T ss_pred             CCCEEEEEECCccccccc-c-HHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHhC
Confidence            456778899999975443 3 267778999999999999999999999999999988764

>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=98.95  E-value=5.3e-10  Score=69.96  Aligned_cols=54  Identities=13%  Similarity=-0.007  Sum_probs=43.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-----------------hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-----------------YGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-----------------~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||+|+..  .++.+++.+++..                 .+..||++||++|.||+++|..+++.
T Consensus       126 ~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~  196 (198)
T 1f6b_A          126 NVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  196 (198)
T ss_dssp             TSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             CCcEEEEEECCCccc--cCCHHHHHHHhCcccccccccccccccccCceEEEEEEECCCCCCHHHHHHHHHHh
Confidence            456678899999964  6788888887663                 23579999999999999999998753

>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=98.94  E-value=6.2e-11  Score=71.42  Aligned_cols=57  Identities=7%  Similarity=-0.012  Sum_probs=38.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-H----HHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-L----AIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~----a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.  ...++... +    +...+++|+++||++|.||+++|..+++.+.+
T Consensus       101 ~~piilv~nK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  162 (164)
T 1r8s_A          101 DAVLLVFANKQDLPNA--MNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  162 (164)
T ss_dssp             TCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHC--
T ss_pred             CCeEEEEEECcCCcCC--CCHHHHHHHhCcccccCccEEEEEcccCCCcCHHHHHHHHHHHHhh
Confidence            4456788999999653  22222221 1    11234579999999999999999999987653

>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=98.93  E-value=5e-10  Score=69.59  Aligned_cols=54  Identities=11%  Similarity=-0.095  Sum_probs=42.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH------------hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE------------YGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~------------~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||+|+..  .++.+++.++...            .+++||++||++|.||+++|..+++.
T Consensus       124 ~~piilv~NK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  189 (190)
T 1m2o_B          124 DVPFVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQY  189 (190)
T ss_dssp             TCCEEEEEECTTSTT--CCCHHHHHHHTTCSSCCC---CCSSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             CCCEEEEEECCCCcC--CCCHHHHHHHhCCccccccccccccceEEEEEeECCcCCCHHHHHHHHHhh
Confidence            456778899999974  6777777766543            34679999999999999999998753

>2wjg_A FEOB, ferrous iron transport protein B homolog; membrane G-proteins, cell membrane, ION transport, transmembrane; HET: GDP; 2.20A {Methanocaldococcus jannaschii}

Probab=98.93  E-value=1.8e-10  Score=70.95  Aligned_cols=58  Identities=12%  Similarity=0.079  Sum_probs=48.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+++||+|+...+.+. .++..+++.++++|+++||+++.||+++|..+++.+..
T Consensus       112 ~~piilv~nK~Dl~~~~~~~-~~~~~~~~~~~~~~~~~Sa~~~~~v~~l~~~i~~~~~~  169 (188)
T 2wjg_A          112 GANLLLALNKMDLAKSLGIE-IDVDKLEKILGVKVVPLSAAKKMGIEELKKAISIAVKD  169 (188)
T ss_dssp             TCCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBGGGTBSHHHHHHHHHHHHTT
T ss_pred             CCCEEEEEEhhhccccccch-HHHHHHHHHhCCCeEEEEecCCCCHHHHHHHHHHHHHh
Confidence            45567889999986555555 46788999999999999999999999999999987754

>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=98.92  E-value=1.1e-10  Score=70.58  Aligned_cols=59  Identities=12%  Similarity=0.071  Sum_probs=40.8

Q ss_pred             cCCCcEEeecCCCCCCCCC---CHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQV---SRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v---~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+....   ....+..++...+++||++||++|.||+++|..+++.+.+
T Consensus       108 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  169 (171)
T 1upt_A          108 KAILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKS  169 (171)
T ss_dssp             TCEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CCEEEEEEECCCCcCCCCHHHHHHHhCchhccCCceEEEECcCCCCcCHHHHHHHHHHHHhh
Confidence            4556788999999754321   1111112233345689999999999999999999987753

>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=98.90  E-value=2e-09  Score=66.96  Aligned_cols=56  Identities=29%  Similarity=0.369  Sum_probs=50.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.+++||.|+.+.+.+..+++..++...++.|++|||+++.|++++|..+.+.+
T Consensus       135 ~~i~~v~nK~Dl~~~~~~~~~~a~~l~~~~~~~~ld~Sald~~~v~~l~~~l~~~i  190 (191)
T 1oix_A          135 IVIMLVGNKSDLRHLRAVPTDEARAFAEKNGLSFIETSALDSTNVEAAFQTILTEI  190 (191)
T ss_dssp             CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CcEEEEEECcccccccccCHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            34677899999987788889999999999999999999999999999999998765

>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=98.90  E-value=1.3e-10  Score=71.83  Aligned_cols=59  Identities=12%  Similarity=0.023  Sum_probs=46.1

Q ss_pred             cCCCcEEeecCCCCCCCCCC---HHHHHHHHHHhCCe----EEEeccCCCC-CHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS---RERGEQLAIEYGIK----FMETSAKNSI-NVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~~~----~~etSAk~~~-~V~~~F~~~~~~i~~   64 (101)
                      +..+.||+||+|+.+.+.++   .+.+..+++.++++    |+++||++|. +++++|..+.+.+.+
T Consensus       112 ~~piilv~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~~~~~l~~~i~~~~~~  178 (184)
T 2zej_A          112 SSPVILVGTHLDVSDEKQRKACMSKITKELLNKRGFPAIRDYHFVNATEESDALAKLRKTIINESLN  178 (184)
T ss_dssp             TCEEEEEEECGGGCCHHHHHHHHHHHHHHTTTCTTSCEEEEEEECCTTSCCHHHHHHHHHHHHHHHC
T ss_pred             CCcEEEEEECCCcccchhhHHHHHHHHHHHHHhcCCcchhheEEEecccCchhHHHHHHHHHHHHhc
Confidence            45567789999997655543   35567777778876    9999999997 999999999887654

>3pqc_A Probable GTP-binding protein ENGB; rossmann fold, GTPase, cell cycle, hydrolase; HET: GDP; 1.90A {Thermotoga maritima} PDB: 3pr1_A

Probab=98.88  E-value=6.7e-10  Score=68.47  Aligned_cols=58  Identities=14%  Similarity=0.109  Sum_probs=45.6

Q ss_pred             cCCCcEEeecCCCCCC--CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM--PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~--~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||+|+.+.  +.+..+++..++..++ ++||++||++|.||+++|..+++.+.
T Consensus       133 ~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l~  193 (195)
T 3pqc_A          133 NIPFTIVLTKMDKVKMSERAKKLEEHRKVFSKYGEYTIIPTSSVTGEGISELLDLISTLLK  193 (195)
T ss_dssp             TCCEEEEEECGGGSCGGGHHHHHHHHHHHHHSSCCSCEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             CCCEEEEEEChhcCChHHHHHHHHHHHHHHhhcCCCceEEEecCCCCCHHHHHHHHHHHhh
Confidence            4567788999998642  3445566777777755 78999999999999999999988764

>1u0l_A Probable GTPase ENGC; permutation, OB-fold, zinc-finger, structural genomics, BSGC structure funded by NIH, protein structure initiative, PSI; HET: GDP; 2.80A {Thermotoga maritima} SCOP: b.40.4.5 c.37.1.8

Probab=98.88  E-value=8.1e-10  Score=73.68  Aligned_cols=53  Identities=15%  Similarity=0.120  Sum_probs=43.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.||+||+||.+.+.+  +++..+++.++  ..||+|||++|.||+++|..+..
T Consensus       115 ~~piilv~NK~DL~~~~~v--~~~~~~~~~~~~~~~~~~~SAktg~gv~~lf~~l~g  169 (301)
T 1u0l_A          115 ELETVMVINKMDLYDEDDL--RKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYLKG  169 (301)
T ss_dssp             TCEEEEEECCGGGCCHHHH--HHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHSS
T ss_pred             CCCEEEEEeHHHcCCchhH--HHHHHHHHHHhhhCcEEEEECCCCcCHHHHHHHhcC
Confidence            4456788999999754443  56788888888  89999999999999999988753

>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=98.86  E-value=1.6e-10  Score=72.72  Aligned_cols=25  Identities=32%  Similarity=0.388  Sum_probs=20.8

Q ss_pred             CCeEEEeccCCC------CCHHHHHHHHHHH
Q psy17493         37 GIKFMETSAKNS------INVEDAFFTLARD   61 (101)
Q Consensus        37 ~~~~~etSAk~~------~~V~~~F~~~~~~   61 (101)
                      ++.|||||||+|      .||+++|..+++.
T Consensus       183 ~~~~~e~SAk~g~~~~~~~gv~~lf~~l~~~  213 (214)
T 2fh5_B          183 KVEFLECSAKGGRGDTGSADIQDLEKWLAKI  213 (214)
T ss_dssp             CEEEEECBCC-------CCBCHHHHHHHHHH
T ss_pred             cEEEEEeeccCCCccccccChHHHHHHHHHh
Confidence            677999999999      9999999999864

>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=98.85  E-value=3.1e-09  Score=74.34  Aligned_cols=60  Identities=5%  Similarity=-0.099  Sum_probs=51.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-----CCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-----GIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-----~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.||+||+|+.+.+.++.+++.++++..     +++|+++||++|.||+++|..+++.+...
T Consensus       306 ~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~~  370 (456)
T 4dcu_A          306 GKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASENH  370 (456)
T ss_dssp             TCEEEEEEECGGGSCCCSSHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhcCCCchHHHHHHHHHHHHhcccCCCCCEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            4556788999999888888888888888876     57899999999999999999998876543

>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=98.85  E-value=1.6e-09  Score=66.99  Aligned_cols=57  Identities=12%  Similarity=0.041  Sum_probs=41.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCH--HHHHH-HHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR--ERGEQ-LAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~--~~~~~-~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.+.+.+..  +++.+ ++...+.+||++||++|.||+++|..+++.+
T Consensus       134 ~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  193 (195)
T 1svi_A          134 GIPVIVIATKADKIPKGKWDKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TCCEEEEEECGGGSCGGGHHHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCChHHHHHHHHHHHHHHcccCCCceEEEEccCCCCHHHHHHHHHHHh
Confidence            356678899999976555433  23332 3333467899999999999999999998765

>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=98.84  E-value=4.3e-10  Score=69.33  Aligned_cols=57  Identities=9%  Similarity=-0.025  Sum_probs=39.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH-----HHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL-----AIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~-----a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+++||+|+...+.  .++....     +...++.||++||++|.||+++|..+++.+.+
T Consensus       117 ~~piilv~NK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (181)
T 1fzq_A          117 CVPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNVNA  178 (181)
T ss_dssp             TCCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTC--
T ss_pred             CCCEEEEEECcCcccCCC--HHHHHHHhCchhccCCceEEEEccCCCCCCHHHHHHHHHHHHHh
Confidence            456678899999975433  2332221     11234679999999999999999999887654

>2x77_A ADP-ribosylation factor; GTP-binding protein, small GTPase, nucleotide-binding; HET: GDP; 2.10A {Leishmania major}

Probab=98.84  E-value=3.6e-10  Score=69.80  Aligned_cols=57  Identities=9%  Similarity=0.031  Sum_probs=40.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH-H----HHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE-Q----LAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~----~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+....  ..++.. .    ++...+++|+++||++|.||+++|..+++.+.+
T Consensus       123 ~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~  184 (189)
T 2x77_A          123 KSLLLIFANKQDLPDAA--SEAEIAEQLGVSSIMNRTWTIVKSSSKTGDGLVEGMDWLVERLRE  184 (189)
T ss_dssp             TCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEECCCCcCCC--CHHHHHHHhChhhccCCceEEEEccCCCccCHHHHHHHHHHHHHh
Confidence            44567889999997532  222222 1    222335679999999999999999999988764

>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=98.83  E-value=1.5e-10  Score=72.12  Aligned_cols=56  Identities=9%  Similarity=-0.006  Sum_probs=38.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH-HH----HHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE-QL----AIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~-~~----a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+.+.  ...++.. .+    +...+++|+++||++|.||+++|..+++.+.
T Consensus       130 ~~piilv~NK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gi~~l~~~l~~~i~  190 (192)
T 2b6h_A          130 DAVLLVFANKQDMPNA--MPVSELTDKLGLQHLRSRTWYVQATCATQGTGLYDGLDWLSHELS  190 (192)
T ss_dssp             TCEEEEEEECTTSTTC--CCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHHTT
T ss_pred             CCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEECcCCCcCCHHHHHHHHHHHHh
Confidence            4456788999999653  2222221 11    1123457999999999999999999987653

>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=98.83  E-value=4.7e-09  Score=64.82  Aligned_cols=56  Identities=11%  Similarity=0.052  Sum_probs=43.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||+|+.+  .+..++...+..     ..++.||++||++|.||+++|..+++.+.
T Consensus       126 ~~piilv~nK~Dl~~--~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~  186 (190)
T 2h57_A          126 RIPILFFANKMDLRD--AVTSVKVSQLLCLENIKDKPWHICASDAIKGEGLQEGVDWLQDQIQ  186 (190)
T ss_dssp             CCCEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHC-
T ss_pred             CCeEEEEEeCcCccc--CCCHHHHHHHhChhhccCCceEEEEccCCCCcCHHHHHHHHHHHHH
Confidence            456678899999964  455666666653     23578999999999999999999988664

>2dyk_A GTP-binding protein; GTPase, ribosome-binding protein, structural genomics; HET: GDP; 1.96A {Thermus thermophilus}

Probab=98.82  E-value=6.4e-10  Score=66.64  Aligned_cols=52  Identities=10%  Similarity=0.013  Sum_probs=40.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+.+.    .+++..++ .+++ +||++||++|.||+++|..+++.+
T Consensus       108 ~~p~ilv~nK~Dl~~~----~~~~~~~~-~~~~~~~~~~Sa~~~~gv~~l~~~l~~~l  160 (161)
T 2dyk_A          108 GKPVILVATKVDDPKH----ELYLGPLY-GLGFGDPIPTSSEHARGLEELLEAIWERL  160 (161)
T ss_dssp             TCCEEEEEECCCSGGG----GGGCGGGG-GGSSCSCEECBTTTTBSHHHHHHHHHHHC
T ss_pred             CCCEEEEEECcccccc----hHhHHHHH-hCCCCCeEEEecccCCChHHHHHHHHHhC
Confidence            4556788999998653    24455566 6777 799999999999999999988753

>1cip_A Protein (guanine nucleotide-binding protein alpha-1 subunit); GTPase, hydrolase; HET: GNP; 1.50A {Rattus norvegicus} SCOP: a.66.1.1 c.37.1.8 PDB: 1agr_A* 1bof_A* 1gdd_A* 1gfi_A* 1gia_A* 1gp2_A* 3ffa_A* 3ffb_A* 1gg2_A* 1git_A* 1svs_A* 1svk_A* 2zjz_A* 2zjy_A* 3ums_A* 2pz2_A* 2pz3_A* 1as0_A* 1as2_A* 1as3_A* ...

Probab=98.82  E-value=5.2e-10  Score=76.31  Aligned_cols=60  Identities=15%  Similarity=-0.021  Sum_probs=49.3

Q ss_pred             cCCCcEEeecCCCCCCC---------------CCCHHHHHHHHH-----------HhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP---------------QVSRERGEQLAI-----------EYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~---------------~v~~~~~~~~a~-----------~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      +..+.|++||.||..++               .++.+++..|+.           ..++.|++|||+++.||+++|..++
T Consensus       260 ~~piiLv~NK~DL~~~ki~~~~l~~~fp~~~g~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~etSA~~~~nV~~vF~~v~  339 (353)
T 1cip_A          260 DTSIILFLNKKDLFEEKIKKSPLTICYPEYAGSNTYEEAAAYIQCQFEDLNKRKDTKEIYTHFTCATDTKNVQFVFDAVT  339 (353)
T ss_dssp             TSEEEEEEECHHHHHHHHTTSCGGGTCTTCCSCSCHHHHHHHHHHHHHTTCSCTTTCCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             CCcEEEEEECcCchhhhccccchhhcccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEECcCchhHHHHHHHHH
Confidence            45677889999984322               478899999987           3467899999999999999999999


Q ss_pred             HHHHHH
Q psy17493         60 RDIKAQ   65 (101)
Q Consensus        60 ~~i~~~   65 (101)
                      +.+++.
T Consensus       340 ~~i~~~  345 (353)
T 1cip_A          340 DVIIKN  345 (353)
T ss_dssp             HHHHHH
T ss_pred             HHHHHH
Confidence            988764

>2hf9_A Probable hydrogenase nickel incorporation protein HYPB; alpha and beta protein; HET: GSP; 1.90A {Methanocaldococcus jannaschii} PDB: 2hf8_A*

Probab=98.81  E-value=5.2e-09  Score=66.32  Aligned_cols=54  Identities=9%  Similarity=-0.016  Sum_probs=45.2

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .+++||+|+.+.+.+..+++..++..+  +.++|++||++|.||+++|..+++.+.
T Consensus       168 iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~~l~~~l~~~~~  223 (226)
T 2hf9_A          168 LIVINKIDLADAVGADIKKMENDAKRINPDAEVVLLSLKTMEGFDKVLEFIEKSVK  223 (226)
T ss_dssp             EEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             EEEEeccccCchhHHHHHHHHHHHHHhCCCCeEEEEEecCCCCHHHHHHHHHHHHH
Confidence            678999998654456778888888775  578999999999999999999987664

>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=98.77  E-value=7.3e-09  Score=63.80  Aligned_cols=57  Identities=7%  Similarity=-0.067  Sum_probs=42.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.+|+||+|+.+  .+..++......     ..++.|+++||++|.||+++|..+++.+..
T Consensus       117 ~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~~~~  178 (187)
T 1zj6_A          117 KAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLKI  178 (187)
T ss_dssp             TCEEEEEEECTTSTT--CCCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHHCC
T ss_pred             CCeEEEEEECCCCcC--CCCHHHHHHHhChhhhcCCCcEEEEccCCCCcCHHHHHHHHHHHHHH
Confidence            455678899999964  344555544432     245689999999999999999999987643

>3dpu_A RAB family protein; roccor, G-domain, COR, GTP-binding, nucleotide-binding, SIGN protein; 2.90A {Chlorobaculum tepidum}

Probab=98.77  E-value=4.8e-09  Score=74.65  Aligned_cols=58  Identities=12%  Similarity=-0.000  Sum_probs=47.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+...+.+..+++..++...+.+||++||++|.||+++|..+++.+.+
T Consensus       151 ~pvilV~NK~Dl~~~~~v~~~~~~~~~~~~~~~~~~vSA~~g~gi~eL~~~l~~~~~~  208 (535)
T 3dpu_A          151 SPVIVVMNKIDENPSYNIEQKKINERFPAIENRFHRISCKNGDGVESIAKSLKSAVLH  208 (535)
T ss_dssp             CCEEEEECCTTTCTTCCCCHHHHHHHCGGGTTCEEECCC-----CTTHHHHHHHHHTC
T ss_pred             CCEEEEEECCCcccccccCHHHHHHHHHhcCCceEEEecCcccCHHHHHHHHHHHHhc
Confidence            5567889999998888899999999999999999999999999999999999887754

>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=98.76  E-value=2.1e-09  Score=70.26  Aligned_cols=56  Identities=13%  Similarity=-0.013  Sum_probs=47.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||+|+...+.+.. ++..+++.+|++++++||++|.||+++|..+++.+
T Consensus       110 ~~pvilv~NK~Dl~~~~~i~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~  165 (258)
T 3a1s_A          110 EKKVILAMTAIDEAKKTGMKI-DRYELQKHLGIPVVFTSSVTGEGLEELKEKIVEYA  165 (258)
T ss_dssp             TCCEEEEEECHHHHHHTTCCB-CHHHHHHHHCSCEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcCCCCccchHH-HHHHHHHHcCCCEEEEEeeCCcCHHHHHHHHHHHh
Confidence            556778899999876555553 47889999999999999999999999999998754

>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=98.75  E-value=1.9e-09  Score=71.13  Aligned_cols=56  Identities=14%  Similarity=0.019  Sum_probs=46.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||+|+...+.+. .++..+++.+|++++++||++|.||+++|..+++.+
T Consensus       107 ~~p~ilv~NK~Dl~~~~~~~-~~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~~  162 (272)
T 3b1v_A          107 GIPVTIALNMIDVLDGQGKK-INVDKLSYHLGVPVVATSALKQTGVDQVVKKAAHTT  162 (272)
T ss_dssp             CSCEEEEEECHHHHHHTTCC-CCHHHHHHHHTSCEEECBTTTTBSHHHHHHHHHHSC
T ss_pred             CCCEEEEEEChhhCCcCCcH-HHHHHHHHHcCCCEEEEEccCCCCHHHHHHHHHHHH
Confidence            55677889999986555555 467789999999999999999999999999997643

>3ohm_A Guanine nucleotide-binding protein G(Q) subunit A; PH domain, EF hand, TIM barrel, C2 domain, GTPase, lipase, C binding, GTP binding; HET: GDP; 2.70A {Mus musculus} PDB: 2bcj_Q* 2rgn_A* 3ah8_A*

Probab=98.75  E-value=6.7e-10  Score=75.10  Aligned_cols=60  Identities=13%  Similarity=0.005  Sum_probs=49.2

Q ss_pred             cCCCcEEeecCCCCCCC----------------CCCHHHHHHHH----------HHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP----------------QVSRERGEQLA----------IEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~----------------~v~~~~~~~~a----------~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      ++.+.|++||+||..++                .++.++|..|.          ...++.+++|||+++.||+.+|..++
T Consensus       234 ~~~iiL~~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~e~a~~fi~~~F~~~~~~~~~~i~~~~TsA~d~~nV~~vF~~v~  313 (327)
T 3ohm_A          234 NSSVILFLNKKDLLEEKIMYSHLVDYFPEYDGPQRDAQAAREFILKMFVDLNPDSDKIIYSHFTCATDTENIRFVFAAVK  313 (327)
T ss_dssp             TCEEEEEEECHHHHHHHTTTSCGGGTCTTCCSCSSCHHHHHHHHHHHHHSSCTTTTSCEEEEECCTTCHHHHHHHHHHHH
T ss_pred             CceEEEEEECchhhhhhhccchHhhhchhccCCCCCHHHHHHHHHHHHHhhcccccCCcEEEEEEeecCHHHHHHHHHHH
Confidence            45567889999985433                57889999884          44567889999999999999999999


Q ss_pred             HHHHHH
Q psy17493         60 RDIKAQ   65 (101)
Q Consensus        60 ~~i~~~   65 (101)
                      +.|++.
T Consensus       314 ~~Il~~  319 (327)
T 3ohm_A          314 DTILQL  319 (327)
T ss_dssp             HHHHHT
T ss_pred             HHHHHH
Confidence            999864

>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=98.72  E-value=1.6e-08  Score=62.04  Aligned_cols=58  Identities=10%  Similarity=-0.058  Sum_probs=41.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH-----HhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI-----EYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~-----~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+..  ..++......     ..+++|+++||++|.||+++|..+++.+.+.
T Consensus       119 ~~piilv~nK~Dl~~~~--~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~i~~~  181 (186)
T 1ksh_A          119 GATLLIFANKQDLPGAL--SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR  181 (186)
T ss_dssp             TCEEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHHTC
T ss_pred             CCcEEEEEeCccCCCCC--CHHHHHHHhChhhccCCceEEEEeeCCCCCCHHHHHHHHHHHHHhc
Confidence            34567889999997543  3333332221     3456899999999999999999999877543

>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=98.72  E-value=7.5e-10  Score=68.51  Aligned_cols=57  Identities=11%  Similarity=0.028  Sum_probs=38.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-HH----HHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-LA----IEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~a----~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.+|+||+|+...  ...++... +.    ...++.||++||++|.||+++|..+++.+.+
T Consensus       124 ~~piilv~NK~Dl~~~--~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~  185 (188)
T 1zd9_A          124 GIPVLVLGNKRDLPGA--LDEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSKS  185 (188)
T ss_dssp             TCCEEEEEECTTSTTC--CCHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHTCC-
T ss_pred             CCCEEEEEECCCCccC--CCHHHHHHHhChhhhccCCeeEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            4556788999999653  22222221 11    1234579999999999999999999876543

>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=98.72  E-value=7e-09  Score=63.64  Aligned_cols=54  Identities=6%  Similarity=-0.103  Sum_probs=39.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.+|+||+|+.+  .+..++...+.     ...++.||++||++|.||+++|..+++.
T Consensus       122 ~~piilv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~g~gi~~l~~~l~~~  180 (181)
T 2h17_A          122 KAGLLIFANKQDVKE--CMTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSR  180 (181)
T ss_dssp             TCEEEEEEECTTSTT--CCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHTC
T ss_pred             CCeEEEEEECCCccc--CCCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHhh
Confidence            445678899999964  34444444432     2234689999999999999999998753

>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=98.71  E-value=3e-08  Score=60.54  Aligned_cols=58  Identities=10%  Similarity=-0.029  Sum_probs=42.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-----hCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-----YGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-----~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+.+.  ...++...+...     .+++|+++||++|.||+++|..+++.+.++
T Consensus       119 ~~piilv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~~~~gi~~l~~~l~~~~~~~  181 (183)
T 1moz_A          119 DAALLVFANKQDQPGA--LSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  181 (183)
T ss_dssp             SCEEEEEEECTTSTTC--CCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             CCeEEEEEECCCCCCC--CCHHHHHHHhCcccccCCceEEEEccCCCCcCHHHHHHHHHHHHHhc
Confidence            4456788999999643  344444433221     234799999999999999999999988654

>2yv5_A YJEQ protein; hydrolase, GTPase, permutation, structural genomics, NPPSFA, national project on protein structural and functional analyses; HET: GDP; 1.90A {Aquifex aeolicus}

Probab=98.68  E-value=6.3e-09  Score=69.45  Aligned_cols=54  Identities=13%  Similarity=0.049  Sum_probs=42.9

Q ss_pred             cCCCcEEeecCCCCCCCCCC-HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS-RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~-~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      +.++.||+||+||.+.+.++ .++...+++.+|+++|++||++|.||+++|..+.
T Consensus       110 ~~~~ilV~NK~DL~~~~~v~~~~~~~~~~~~~g~~~~~~SA~~g~gi~~L~~~l~  164 (302)
T 2yv5_A          110 KVEPVIVFNKIDLLNEEEKKELERWISIYRDAGYDVLKVSAKTGEGIDELVDYLE  164 (302)
T ss_dssp             TCEEEEEECCGGGCCHHHHHHHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHTT
T ss_pred             CCCEEEEEEcccCCCccccHHHHHHHHHHHHCCCeEEEEECCCCCCHHHHHhhcc
Confidence            45567889999997544333 4566677778899999999999999999998775

>2e87_A Hypothetical protein PH1320; GTP-binding, GTPase, OBG, bundle, GDP, complex, structural G NPPSFA; HET: GDP; 2.35A {Pyrococcus horikoshii}

Probab=98.67  E-value=2.5e-08  Score=67.76  Aligned_cols=58  Identities=12%  Similarity=0.091  Sum_probs=47.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.+|+||.|+.....+  +++..++...+++++++||++|.||+++|..+.+.+...
T Consensus       280 ~~piilV~NK~Dl~~~~~~--~~~~~~~~~~~~~~~~iSA~~g~gi~~l~~~i~~~l~~~  337 (357)
T 2e87_A          280 DLPFLVVINKIDVADEENI--KRLEKFVKEKGLNPIKISALKGTGIDLVKEEIIKTLRPL  337 (357)
T ss_dssp             TSCEEEEECCTTTCCHHHH--HHHHHHHHHTTCCCEECBTTTTBTHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCChHHH--HHHHHHHHhcCCCeEEEeCCCCcCHHHHHHHHHHHHHHH
Confidence            4566788999999754333  556777888889999999999999999999999887553

>2lkc_A Translation initiation factor IF-2; NMR {Geobacillus stearothermophilus} PDB: 2lkd_A*

Probab=98.67  E-value=2.6e-08  Score=60.51  Aligned_cols=56  Identities=18%  Similarity=0.065  Sum_probs=40.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-------C--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-------G--IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-------~--~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+.   ..++........       +  ++||++||++|.||+++|..+++.+..
T Consensus       107 ~~p~ilv~nK~Dl~~~---~~~~~~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~gv~~l~~~l~~~~~~  171 (178)
T 2lkc_A          107 NVPIIVAINKMDKPEA---NPDRVMQELMEYNLVPEEWGGDTIFCKLSAKTKEGLDHLLEMILLVSEM  171 (178)
T ss_dssp             SCCEEEEEETTTSSCS---CHHHHHHHHTTTTCCBTTTTSSEEEEECCSSSSHHHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECccCCcC---CHHHHHHHHHhcCcChhHcCCcccEEEEecCCCCCHHHHHHHHHHhhhh
Confidence            3456788999999642   233333332222       2  479999999999999999999987654

>1zcb_A G alpha I/13; GTP-binding, lipoprotein, membrane, transducer, signaling PR; HET: GDP; 2.00A {Mus musculus} SCOP: a.66.1.1 c.37.1.8 PDB: 3ab3_A* 3cx8_A* 3cx7_A* 3cx6_A* 1zca_A*

Probab=98.67  E-value=3.2e-09  Score=72.64  Aligned_cols=61  Identities=11%  Similarity=0.001  Sum_probs=47.9

Q ss_pred             cCCCcEEeecCCCCCCC----------------CCCHHHHHHHHH-----------HhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP----------------QVSRERGEQLAI-----------EYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~----------------~v~~~~~~~~a~-----------~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      ++.+.|++||+||..++                .++.+++..|+.           ..++.|++|||+++.||+++|..+
T Consensus       268 ~~piILv~NK~DL~~~ki~~~~l~~~fp~y~g~~~~~~e~~~~~~~~f~~l~~~~~~~~~~~~~tSA~d~~nV~~vF~~v  347 (362)
T 1zcb_A          268 NVSIILFLNKTDLLEEKVQVVSIKDYFLEFEGDPHCLRDVQKFLVECFRGKRRDQQQRPLYHHFTTAINTENIRLVFRDV  347 (362)
T ss_dssp             TSEEEEEEECHHHHHHHTTTCCGGGTCTTCCSCTTCHHHHHHHHHHHHHTTCSSCC--CCEEEECCTTCHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhhhhhhccccchhhcCccccCCCCCHHHHHHHHHHHHHHhhcccCCCceEEEEEecCCchhHHHHHHHH
Confidence            45677889999985322                378899988872           345789999999999999999999


Q ss_pred             HHHHHHHH
Q psy17493         59 ARDIKAQT   66 (101)
Q Consensus        59 ~~~i~~~~   66 (101)
                      ++.+++..
T Consensus       348 ~~~i~~~~  355 (362)
T 1zcb_A          348 KDTILHDN  355 (362)
T ss_dssp             HHHHHHHH
T ss_pred             HHHHHHHH
Confidence            99887653

>3o47_A ADP-ribosylation factor GTPase-activating protein ribosylation factor 1; structural genomics consortium, GTPase activation; HET: GDP; 2.80A {Homo sapiens}

Probab=98.65  E-value=2.5e-09  Score=72.07  Aligned_cols=57  Identities=7%  Similarity=-0.037  Sum_probs=39.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-H----HHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-L----AIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~----a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.||+||+|+.+...  .++... +    +...+++||++||++|.||+++|..+++.+.+
T Consensus       266 ~~piilV~NK~Dl~~~~~--~~~i~~~~~~~~~~~~~~~~~~vSAk~g~gi~el~~~l~~~l~~  327 (329)
T 3o47_A          266 DAVLLVFANKQDLPNAMN--AAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQLRN  327 (329)
T ss_dssp             TCEEEEEEECTTSTTCCC--HHHHHHHHTCTTCCSSCEEEEECBTTTTBTHHHHHHHHHHHHTC
T ss_pred             CCeEEEEEECccCCcccC--HHHHHHHhchhhhhcCCCEEEEEECCCCcCHHHHHHHHHHHHHh
Confidence            344678899999975332  222221 1    11224569999999999999999999987753

>2xtz_A Guanine nucleotide-binding protein alpha-1 subuni; hydrolase, G-protein signaling, SELF-activation, RAS-like DO; HET: GSP; 2.34A {Arabidopsis thaliana}

Probab=98.63  E-value=5.6e-09  Score=71.25  Aligned_cols=61  Identities=13%  Similarity=0.049  Sum_probs=44.9

Q ss_pred             cCCCcEEeecCCCCCCCC--C-------------------CHHHHHHHHHHh----------------CCeEEEeccCCC
Q psy17493          6 NTKSKYIEVPNFVSSMPQ--V-------------------SRERGEQLAIEY----------------GIKFMETSAKNS   48 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~--v-------------------~~~~~~~~a~~~----------------~~~~~etSAk~~   48 (101)
                      ...+.|++||+||..++.  +                   +.+++..|+...                .+.|++|||+++
T Consensus       250 ~~piiLvgNK~DL~~~k~~~v~l~~~~~fp~y~~~~~~~~~~~~a~~~~~~~f~~l~~~~~~~~~~~~~~~~~eTSA~d~  329 (354)
T 2xtz_A          250 KTSFMLFLNKFDIFEKKVLDVPLNVCEWFRDYQPVSSGKQEIEHAYEFVKKKFEELYYQNTAPDRVDRVFKIYRTTALDQ  329 (354)
T ss_dssp             SCEEEEEEECHHHHHHHTTTSCGGGSGGGTTCCCCSSHHHHHHHHHHHHHHHHHHHHHHTCCTTTTTSCEEEEECCTTCH
T ss_pred             CCeEEEEEECcchhhhhcccccccccccccccccccCCCcCHHHHHHHHHHHHHHhhhccccccccCcceEEEEEEeecc
Confidence            355678899999853221  2                   257888885531                234689999999


Q ss_pred             CCHHHHHHHHHHHHHHHH
Q psy17493         49 INVEDAFFTLARDIKAQT   66 (101)
Q Consensus        49 ~~V~~~F~~~~~~i~~~~   66 (101)
                      .||+++|..+++.+++..
T Consensus       330 ~nV~~vF~~v~~~I~~~~  347 (354)
T 2xtz_A          330 KLVKKTFKLVDETLRRRN  347 (354)
T ss_dssp             HHHHHHHHHHHHHHHHHH
T ss_pred             hhHHHHHHHHHHHHHHHH
Confidence            999999999999887653

>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=98.57  E-value=7e-08  Score=64.45  Aligned_cols=57  Identities=9%  Similarity=-0.037  Sum_probs=48.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+...+....+....+++.++  ..+|++||++|.||+++|..+++.+
T Consensus       122 ~~pvilV~NK~Dl~~~~~~~~~~~~~l~~~~~~~~~i~~vSA~~g~gv~~L~~~l~~~l  180 (308)
T 3iev_A          122 NKPVIVVINKIDKIGPAKNVLPLIDEIHKKHPELTEIVPISALKGANLDELVKTILKYL  180 (308)
T ss_dssp             CCCEEEEEECGGGSSSGGGGHHHHHHHHHHCTTCCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CCCEEEEEECccCCCCHHHHHHHHHHHHHhccCCCeEEEEeCCCCCCHHHHHHHHHHhC
Confidence            35667889999997456677788888888886  7899999999999999999998765

>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=98.57  E-value=3.3e-09  Score=64.96  Aligned_cols=50  Identities=10%  Similarity=0.039  Sum_probs=37.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||+|+.+...       .+++..+.+||++||++|.||+++|..+++.+.
T Consensus       116 ~p~ilv~NK~Dl~~~~~-------~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~  165 (172)
T 2gj8_A          116 LPITVVRNKADITGETL-------GMSEVNGHALIRLSARTGEGVDVLRNHLKQSMG  165 (172)
T ss_dssp             CCEEEEEECHHHHCCCC-------EEEEETTEEEEECCTTTCTTHHHHHHHHHHHC-
T ss_pred             CCEEEEEECccCCcchh-------hhhhccCCceEEEeCCCCCCHHHHHHHHHHHhh
Confidence            45677899999853211       123345678999999999999999999987653

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=98.55  E-value=9e-08  Score=66.63  Aligned_cols=59  Identities=5%  Similarity=-0.098  Sum_probs=45.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-HHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-LAIE----YGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +..+.+++||+|+.+.+.++.++... +.+.    .+++|+++||++|.||+++|..+.+.+..
T Consensus       286 ~~~iiiv~NK~Dl~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~SA~tg~~v~~l~~~i~~~~~~  349 (436)
T 2hjg_A          286 GKAVVIVVNKWDAVDKDESTMKEFEENIRDHFQFLDYAPILFMSALTKKRIHTLMPAIIKASEN  349 (436)
T ss_dssp             TCEEEEEEECGGGSCCCTTHHHHHHHHHHHHCGGGTTSCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             CCcEEEEEECccCCCcchHHHHHHHHHHHHhcccCCCCCEEEEecccCCCHHHHHHHHHHHHHH
Confidence            55677889999998766666554433 2232    36889999999999999999999887654

>3r7w_A Gtpase1, GTP-binding protein GTR1; RAG gtpases, GTR1P, GTR2P, MTOR, protein transport; HET: GNP; 2.77A {Saccharomyces cerevisiae} PDB: 4arz_A*

Probab=98.54  E-value=1.7e-08  Score=67.35  Aligned_cols=56  Identities=11%  Similarity=0.046  Sum_probs=47.9

Q ss_pred             cCCCcEEeecCCCCC--CCC----CCHHHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS--MPQ----VSRERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~--~~~----v~~~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||+|+..  .+.    +..+++..+++.+|   ++|++|||++ .++.++|..+++.+
T Consensus       115 ~~piilv~NK~Dl~~~~~r~~~~~v~~~~~~~~~~~~g~~~~~~~~tSa~~-~~i~e~~~~iv~~l  179 (307)
T 3r7w_A          115 DAKIFVLLHKMDLVQLDKREELFQIMMKNLSETSSEFGFPNLIGFPTSIWD-ESLYKAWSQIVCSL  179 (307)
T ss_dssp             TCEEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHTTTCCSCEEEECCTTS-SHHHHHHHHHHHTT
T ss_pred             CCeEEEEEecccccchhhhhHHHHHHHHHHHHHHHHcCCCCeEEEEeeecC-ChHHHHHHHHHHHH
Confidence            456778899999976  555    77789999999998   7899999999 89999999998754

>3qq5_A Small GTP-binding protein; hydrogenase, H-cluster, HYDA maturation, GTP-binding domain, maturation enzyme, oxidoreductase; 2.99A {Thermotoga neapolitana}

Probab=98.53  E-value=1.2e-08  Score=71.02  Aligned_cols=57  Identities=14%  Similarity=-0.034  Sum_probs=47.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+...+..  +.+..+++.++++|+++||++|.||+++|..+++.+.+
T Consensus       140 ~~piIvV~NK~Dl~~~~~~--~~~~~l~~~~g~~v~~vSAktg~gI~eL~~~L~~~l~~  196 (423)
T 3qq5_A          140 EIPFVVVVNKIDVLGEKAE--ELKGLYESRYEAKVLLVSALQKKGFDDIGKTISEILPG  196 (423)
T ss_dssp             TCCEEEECCCCTTTTCCCT--HHHHHSSCCTTCCCCCCSSCCTTSTTTHHHHHHHHSCC
T ss_pred             CCCEEEEEeCcCCCCccHH--HHHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHHhhhh
Confidence            4566788999999865554  67777888889999999999999999999999987743

>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=98.51  E-value=1.3e-08  Score=67.85  Aligned_cols=57  Identities=16%  Similarity=0.079  Sum_probs=38.6

Q ss_pred             CCCcEEeecCCCCCCCC--CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||.|+...+.  +..+++.++++.+++.||++||+++ ||+++|..+++.+..
T Consensus       156 ~~iilV~~K~Dl~~~~e~~~~~~~~~~~~~~~~~~~~e~Sa~~~-~v~e~f~~l~~~i~~  214 (301)
T 2qnr_A          156 VNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAES-DEDEDFKEQTRLLKA  214 (301)
T ss_dssp             SCEEEEECCGGGSCHHHHHHHHHHHHHHHHHTTCCCCCCC----------CHHHHHHHHT
T ss_pred             CCEEEEEEeCCCCCHHHHHHHHHHHHHHHHHcCCeEEecCCccc-cccHHHHHHHHHhhc
Confidence            35678899999875433  3457888999999999999999999 999999999988864

>2wsm_A Hydrogenase expression/formation protein (HYPB); metal binding protein; 2.30A {Archaeoglobus fulgidus}

Probab=98.51  E-value=7e-08  Score=60.85  Aligned_cols=59  Identities=12%  Similarity=-0.021  Sum_probs=45.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +....+++||+|+...+.+..++...++...+  ++++++||++|.||+++|..+.+.+..
T Consensus       154 ~~~~iiv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~i~~~Sa~~g~gi~~l~~~l~~~~~~  214 (221)
T 2wsm_A          154 RVADLIVINKVALAEAVGADVEKMKADAKLINPRAKIIEMDLKTGKGFEEWIDFLRGILNV  214 (221)
T ss_dssp             HTCSEEEEECGGGHHHHTCCHHHHHHHHHHHCTTSEEEECBTTTTBTHHHHHHHHHHHHC-
T ss_pred             hcCCEEEEecccCCcchhhHHHHHHHHHHHhCCCCeEEEeecCCCCCHHHHHHHHHHHHHH
Confidence            34567889999986433456777777777654  689999999999999999999887654

>4dhe_A Probable GTP-binding protein ENGB; melioidosis, RAS-like GTPase, cell division, cell cycle, SEP GTP-binding; 2.20A {Burkholderia thailandensis}

Probab=98.50  E-value=7.1e-08  Score=60.76  Aligned_cols=60  Identities=8%  Similarity=-0.045  Sum_probs=40.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCH--HHHH-HHHHH------hCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR--ERGE-QLAIE------YGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~--~~~~-~~a~~------~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +..+.+|+||+|+...+.+..  ++.. .+...      .+.++|++||++|.||+++|..+.+.+...
T Consensus       144 ~~p~i~v~nK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~l~~~~~~~  212 (223)
T 4dhe_A          144 GKPIHSLLTKCDKLTRQESINALRATQKSLDAYRDAGYAGKLTVQLFSALKRTGLDDAHALIESWLRPA  212 (223)
T ss_dssp             CCCEEEEEECGGGSCHHHHHHHHHHHHHHHHHHHHHTCCSCEEEEEEBTTTTBSHHHHHHHHHHHHC--
T ss_pred             CCCEEEEEeccccCChhhHHHHHHHHHHHHHhhhhcccCCCCeEEEeecCCCcCHHHHHHHHHHhcCcc
Confidence            345678899999865333211  1122 22222      457899999999999999999998877543

>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=98.49  E-value=1.5e-07  Score=66.56  Aligned_cols=56  Identities=13%  Similarity=0.023  Sum_probs=43.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+..  .++.++...++. ++.+|+++||++|.||+++|..+.+.+..
T Consensus       350 ~~piivV~NK~DL~~--~~~~~~~~~~~~-~~~~~i~iSAktg~Gi~eL~~~l~~~~~~  405 (482)
T 1xzp_A          350 NKRYLVVINKVDVVE--KINEEEIKNKLG-TDRHMVKISALKGEGLEKLEESIYRETQE  405 (482)
T ss_dssp             TSSEEEEEEECSSCC--CCCHHHHHHHHT-CSTTEEEEEGGGTCCHHHHHHHHHHHTHH
T ss_pred             CCCEEEEEECccccc--ccCHHHHHHHhc-CCCcEEEEECCCCCCHHHHHHHHHHHHhh
Confidence            456678899999964  355566555543 44689999999999999999999987664

>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=98.46  E-value=2.8e-08  Score=68.87  Aligned_cols=62  Identities=10%  Similarity=-0.140  Sum_probs=45.2

Q ss_pred             cCCCcEEeecCCCCCCCC---C---------------------------CHHHHHHHH-----HH--------hCCeEEE
Q psy17493          6 NTKSKYIEVPNFVSSMPQ---V---------------------------SRERGEQLA-----IE--------YGIKFME   42 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~---v---------------------------~~~~~~~~a-----~~--------~~~~~~e   42 (101)
                      +..+.|++||+||...+.   +                           +.++|..|+     +.        +++.|++
T Consensus       284 ~~piiLvgNK~DL~~~ki~~~~~~l~~~fp~y~~~~~~~~~~~~~g~~~~~~~a~~fi~~kF~~~~~~~~~~~~~~~~~~  363 (402)
T 1azs_C          284 TISVILFLNKQDLLAEKVLAGKSKIEDYFPEFARYTTPEDATPEPGEDPRVTRAKYFIRDEFLRISTASGDGRHYCYPHF  363 (402)
T ss_dssp             SCCEEEEEECHHHHHHHHHHCSSCGGGTCGGGGTCCCCSSCCCCTTCCHHHHHHHHHHHHHHHHHHHTSCTTSSCEEEEE
T ss_pred             CCeEEEEEEChhhhhhhhcccccchhhccccccccccccccccccCCcccHHHHHHHHHHHHHHhhccccccCcccEEEE
Confidence            455678899999854322   2                           146777764     22        2456889


Q ss_pred             eccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493         43 TSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus        43 tSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      |||+++.||+++|..+++.+++...
T Consensus       364 TSA~d~~nV~~vF~~v~~~I~~~~l  388 (402)
T 1azs_C          364 TCAVDTENIRRVFNDCRDIIQRMHL  388 (402)
T ss_dssp             CCTTCHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEeecCcCHHHHHHHHHHHHHHHHH
Confidence            9999999999999999988876543

>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=98.43  E-value=3.1e-08  Score=64.85  Aligned_cols=56  Identities=14%  Similarity=0.044  Sum_probs=45.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+++||.|+...+.+... ...+++.+|++++++||++|.||+++|..+.+.+.
T Consensus       110 ~p~ilv~NK~Dl~~~~~~~~~-~~~l~~~lg~~~~~~Sa~~g~gi~~l~~~i~~~~~  165 (271)
T 3k53_A          110 KNIILVLNKFDLLKKKGAKID-IKKMRKELGVPVIPTNAKKGEGVEELKRMIALMAE  165 (271)
T ss_dssp             CSEEEEEECHHHHHHHTCCCC-HHHHHHHHSSCEEECBGGGTBTHHHHHHHHHHHHH
T ss_pred             CCEEEEEEChhcCcccccHHH-HHHHHHHcCCcEEEEEeCCCCCHHHHHHHHHHHHh
Confidence            566788999998644444433 67788999999999999999999999999987653

>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=98.42  E-value=2.2e-07  Score=64.70  Aligned_cols=59  Identities=8%  Similarity=-0.074  Sum_probs=43.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-HHHH----hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-LAIE----YGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-~a~~----~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      |..+.+++||+|+.+.+.++.++... +++.    .+++++++||++|.||+++|..+++.+..
T Consensus       292 ~~~~ilv~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~g~gv~~l~~~i~~~~~~  355 (439)
T 1mky_A          292 GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNLAYAS  355 (439)
T ss_dssp             TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECccCCCchhhHHHHHHHHHHHHhccCCCCcEEEEECCCCCCHHHHHHHHHHHHHh
Confidence            55677889999997655555544432 2232    35789999999999999999999876544

>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=98.37  E-value=4.1e-08  Score=64.10  Aligned_cols=55  Identities=13%  Similarity=0.017  Sum_probs=43.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+++||+|+...+.+.. ....+++.+|++++++||++|.||+++|..+.+.
T Consensus       110 ~~pvilv~NK~Dl~~~~~~~~-~~~~l~~~lg~~vi~~SA~~g~gi~el~~~i~~~  164 (256)
T 3iby_A          110 GKPVVVALNMMDIAEHRGISI-DTEKLESLLGCSVIPIQAHKNIGIPALQQSLLHC  164 (256)
T ss_dssp             CSCEEEEEECHHHHHHTTCEE-CHHHHHHHHCSCEEECBGGGTBSHHHHHHHHHTC
T ss_pred             CCCEEEEEEChhcCCcCCcHH-HHHHHHHHcCCCEEEEECCCCCCHHHHHHHHHhh
Confidence            556778899999865444432 2455888899999999999999999999998764

>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=98.37  E-value=3e-07  Score=62.44  Aligned_cols=54  Identities=11%  Similarity=0.102  Sum_probs=43.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..++.+|+||+|+...    .+....+++.++  .++|++||+++.||+++|..+++.+.
T Consensus       274 ~~p~ilV~NK~Dl~~~----~e~~~~l~~~l~~~~~v~~iSA~tg~gi~eL~~~l~~~l~  329 (342)
T 1lnz_A          274 ERPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQLE  329 (342)
T ss_dssp             TSCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHHT
T ss_pred             CCCEEEEEECccCCCC----HHHHHHHHHHhhcCCCEEEEECCCCcCHHHHHHHHHHHHh
Confidence            4567889999998642    245677888776  68999999999999999999988764

>3h2y_A GTPase family protein; GTP-binding protein YQEH, possibly involved in replication initiation, csgid, IDP90222; HET: DGI; 1.80A {Bacillus anthracis str}

Probab=98.33  E-value=1.5e-06  Score=59.42  Aligned_cols=54  Identities=13%  Similarity=0.129  Sum_probs=41.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+|+||+||.+ +.+..++..+|    ++..|.   .++++||++|.||+++|..+.+
T Consensus        96 ~~p~ilV~NK~DL~~-~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~l~~  156 (368)
T 3h2y_A           96 NNKVLLVGNKADLIP-KSVKHDKVKHWMRYSAKQLGLKPEDVFLISAAKGQGIAELADAIEY  156 (368)
T ss_dssp             SSCEEEEEECGGGSC-TTSCHHHHHHHHHHHHHHTTCCCSEEEECCTTTCTTHHHHHHHHHH
T ss_pred             CCcEEEEEEChhcCC-cccCHHHHHHHHHHHHHHcCCCcccEEEEeCCCCcCHHHHHhhhhh
Confidence            455678899999964 34444555444    666787   7999999999999999998865

>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=98.29  E-value=3.5e-08  Score=64.92  Aligned_cols=56  Identities=7%  Similarity=-0.004  Sum_probs=44.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+...+.+.. ....+++.+|++++++||++|.||+++|..+.+.+
T Consensus       112 ~~p~ivv~NK~Dl~~~~~~~~-~~~~l~~~lg~~~i~~SA~~g~gi~el~~~i~~~~  167 (274)
T 3i8s_A          112 GIPCIVALNMLDIAEKQNIRI-EIDALSARLGCPVIPLVSTRGRGIEALKLAIDRYK  167 (274)
T ss_dssp             TCCEEEEEECHHHHHHTTEEE-CHHHHHHHHTSCEEECCCGGGHHHHHHHHHHHTCC
T ss_pred             CCCEEEEEECccchhhhhHHH-HHHHHHHhcCCCEEEEEcCCCCCHHHHHHHHHHHH
Confidence            456778899999865444332 35678889999999999999999999999887644

>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=98.28  E-value=7.1e-07  Score=63.01  Aligned_cols=55  Identities=13%  Similarity=-0.019  Sum_probs=41.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||+|+...+.+.   ...+++....+++++|||+|.||+++|..+.+.+.
T Consensus       343 ~~piIvV~NK~Dl~~~~~~~---~~~l~~~~~~~~i~vSAktg~GI~eL~~~i~~~~~  397 (476)
T 3gee_A          343 AAKFLTVANKLDRAANADAL---IRAIADGTGTEVIGISALNGDGIDTLKQHMGDLVK  397 (476)
T ss_dssp             TSEEEEEEECTTSCTTTHHH---HHHHHHHHTSCEEECBTTTTBSHHHHHHHHTHHHH
T ss_pred             CCCEEEEEECcCCCCccchh---HHHHHhcCCCceEEEEECCCCCHHHHHHHHHHHHh
Confidence            34567789999997654432   24455553478999999999999999999988764

>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=98.27  E-value=6.9e-08  Score=65.87  Aligned_cols=59  Identities=17%  Similarity=0.089  Sum_probs=38.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCH--HHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR--ERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~--~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+|+||+|+...+.+..  +++..+++.++++||++||+++.| ++.|..+++.+.+.
T Consensus       174 ~~piIlV~NK~Dl~~~~ev~~~k~~i~~~~~~~~i~~~~~Sa~~~~~-~e~~~~l~~~i~~~  234 (361)
T 2qag_A          174 KVNIVPVIAKADTLTLKERERLKKRILDEIEEHNIKIYHLPDAESDE-DEDFKEQTRLLKAS  234 (361)
T ss_dssp             -SCEEEEEECCSSSCHHHHHHHHHHHHHHTTCC-CCSCCCC----------CHHHHHHHHHT
T ss_pred             CCCEEEEEECCCCCCHHHHHHHHHHHHHHHHHCCCCEEeCCCcCCCc-chhHHHHHHHHHhc
Confidence            355678899999976555554  577788888899999999999999 99999999888653

>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=98.22  E-value=1.1e-06  Score=60.71  Aligned_cols=55  Identities=13%  Similarity=0.042  Sum_probs=36.7

Q ss_pred             CCcEEeecCCCCCCCC--CCHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQ--VSRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ++.+++||+|+.+...  ...++...+++..   ++++|++||++|.||+++|+.+.+.+
T Consensus       137 ~iivv~NK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~i  196 (408)
T 1s0u_A          137 KIIIVQNKIDLVDEKQAEENYEQIKEFVKGTIAENAPIIPISAHHEANIDVLLKAIQDFI  196 (408)
T ss_dssp             CEEEEEECTTSSCTTTTTTHHHHHHHHHTTSTTTTCCEEEC------CHHHHHHHHHHHS
T ss_pred             eEEEEEEccCCCCHHHHHHHHHHHHHHHhhcCCCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            4567899999975433  3456677777653   57899999999999999999987654

>4fid_A G protein alpha subunit; RAS-like domain, all-helical domain, GTP binding, nucleotide signaling protein, transducer, lipoprotein; HET: MLY MSE GDP; 2.62A {Entamoeba histolytica}

Probab=98.17  E-value=1.8e-07  Score=63.60  Aligned_cols=59  Identities=12%  Similarity=0.019  Sum_probs=45.0

Q ss_pred             cCCCcEEeecCCCCCCC---------------CCCHHHHHHHHHH-h--------------------------CCeEEEe
Q psy17493          6 NTKSKYIEVPNFVSSMP---------------QVSRERGEQLAIE-Y--------------------------GIKFMET   43 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~---------------~v~~~~~~~~a~~-~--------------------------~~~~~et   43 (101)
                      +..+.|++||+||..++               ....++|..|... +                          ++.+++|
T Consensus       228 ~~piiLv~NK~DL~~eki~~~~l~~~fp~y~g~~~~e~a~~~i~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~iy~h~T  307 (340)
T 4fid_A          228 GAVKLIFLNKMDLFEEKLTKVPLNTIFPEYTGGDNAVMGAQYIQQLFTGKLQTEEMNISGADGTANIEGAVNEKVYTNPT  307 (340)
T ss_dssp             TSEEEEEEECHHHHHHHHHHSCGGGTCTTCCCTTCHHHHHHHHHHHHHTTSEEEESCC--------------CEEEEEEE
T ss_pred             CCeEEEEEECchhhhhhcCcchHHHhhhhhcCCCCHHHHHHHHHHhcccccchhhhhccccccccccccccCcceEEEEE
Confidence            45567889999974311               1357777766543 2                          3678999


Q ss_pred             ccCCCCCHHHHHHHHHHHHHH
Q psy17493         44 SAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        44 SAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ||++..||..+|..+++.|++
T Consensus       308 sA~dt~nv~~vF~~v~~~Il~  328 (340)
T 4fid_A          308 NATDGSNIKRVFMLAVDVIMK  328 (340)
T ss_dssp             CTTCHHHHHHHHHHHHHHHHH
T ss_pred             EeeCcHHHHHHHHHHHHHHHH
Confidence            999999999999999999987

>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=98.06  E-value=4.6e-06  Score=58.87  Aligned_cols=58  Identities=9%  Similarity=0.011  Sum_probs=42.9

Q ss_pred             cCCCcEEeecCCCCCCC--CCCHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--QVSRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.+..+++||+|+.+..  ....++...+.+..    +.+++++||++|.||+++|+.+.+.+.
T Consensus       125 ~ip~IvviNK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~ii~vSA~~g~gI~~L~~~L~~~i~  188 (482)
T 1wb1_A          125 NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLN  188 (482)
T ss_dssp             TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCCEEEEEECCCcccchhHHHHHHHHHHHHhhhcccccceEEEEECcCCCCHHHHHHHHHHhhc
Confidence            55668889999986421  11234455566555    578999999999999999999988664

>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=98.06  E-value=4.1e-07  Score=63.33  Aligned_cols=57  Identities=7%  Similarity=-0.042  Sum_probs=32.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCH--HHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSR--ERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~--~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +..+.+|+||+|+...+.+..  +++..++..+++.||++||+++.+++++|..+...+
T Consensus       167 ~v~iIlVinK~Dll~~~ev~~~k~~i~~~~~~~~i~~~~~sa~~~~~v~~~~~~l~~~i  225 (418)
T 2qag_C          167 KVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDRL  225 (418)
T ss_dssp             TSEEEEEEESTTSSCHHHHHHHHHHHHHHHHHHTCCCCCCC-----------------C
T ss_pred             cCcEEEEEEcccCccHHHHHHHHHHHHHHHHHcCCeEEeCCCCCCcCHHHHHHHHHhhC
Confidence            455678899999876556655  677888899999999999999999999998887543

>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=98.05  E-value=1.3e-06  Score=61.40  Aligned_cols=53  Identities=6%  Similarity=-0.068  Sum_probs=38.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||+|+...+.+.  ....++  .+.+++++||++|.||+++|..+.+.+.
T Consensus       331 ~piivV~NK~Dl~~~~~~~--~~~~~~--~~~~~i~iSAktg~Gi~eL~~~i~~~~~  383 (462)
T 3geh_A          331 RPLILVMNKIDLVEKQLIT--SLEYPE--NITQIVHTAAAQKQGIDSLETAILEIVQ  383 (462)
T ss_dssp             SCEEEEEECTTSSCGGGST--TCCCCT--TCCCEEEEBTTTTBSHHHHHHHHHHHHT
T ss_pred             CcEEEEEECCCCCcchhhH--HHHHhc--cCCcEEEEECCCCCCHHHHHHHHHHHHh
Confidence            4567789999997654443  111111  3568999999999999999999988664

>3ec1_A YQEH GTPase; atnos1, atnoa1, trap, PVHL, hydrolase, signaling protein; HET: GDP; 2.36A {Geobacillus stearothermophilus}

Probab=98.05  E-value=1.1e-05  Score=55.24  Aligned_cols=55  Identities=15%  Similarity=0.088  Sum_probs=40.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH----HHHhCC---eEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL----AIEYGI---KFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~----a~~~~~---~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||+||.+ ..+..+....|    ++..|.   .+|.+||++|.|+++++..+.+.
T Consensus        98 ~~piilV~NK~DLl~-~~~~~~~~~~~l~~~~~~~g~~~~~v~~iSA~~g~gi~~L~~~I~~~  159 (369)
T 3ec1_A           98 DNPILLVGNKADLLP-RSVKYPKLLRWMRRMAEELGLCPVDVCLVSAAKGIGMAKVMEAINRY  159 (369)
T ss_dssp             TSCEEEEEECGGGSC-TTCCHHHHHHHHHHHHHTTTCCCSEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             CCCEEEEEEChhcCC-CccCHHHHHHHHHHHHHHcCCCcccEEEEECCCCCCHHHHHHHHHhh
Confidence            456678899999965 33444444444    556676   68999999999999999888653

>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=98.03  E-value=2.8e-06  Score=56.51  Aligned_cols=57  Identities=11%  Similarity=-0.013  Sum_probs=43.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||.|+...+....+....+++.++. .++.+||+++.|++++|..+...+
T Consensus       116 ~~P~ilvlNK~D~~~~~~~~~~~l~~l~~~~~~~~~i~iSA~~g~~v~~l~~~i~~~l  173 (301)
T 1ega_A          116 KAPVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHL  173 (301)
T ss_dssp             SSCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             CCCEEEEEECcccCccHHHHHHHHHHHHHhcCcCceEEEECCCCCCHHHHHHHHHHhC
Confidence            456778899999865233334555667666775 699999999999999999987543

>3cb4_D GTP-binding protein LEPA; GTPase, OB-fold, membrane, nucleotide-binding, translation; 2.80A {Escherichia coli} PDB: 3deg_C*

Probab=98.00  E-value=1e-05  Score=58.66  Aligned_cols=56  Identities=21%  Similarity=0.215  Sum_probs=43.3

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe---EEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK---FMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~---~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+++||+|+...+  ..+...++++.++..   ++++||++|.||+++|..+++.+.
T Consensus       123 ~ipiIvViNKiDl~~a~--~~~v~~ei~~~lg~~~~~vi~vSAktg~GI~~Ll~~I~~~lp  181 (599)
T 3cb4_D          123 DLEVVPVLNKIDLPAAD--PERVAEEIEDIVGIDATDAVRCSAKTGVGVQDVLERLVRDIP  181 (599)
T ss_dssp             TCEEEEEEECTTSTTCC--HHHHHHHHHHHTCCCCTTCEEECTTTCTTHHHHHHHHHHHSC
T ss_pred             CCCEEEeeeccCccccc--HHHHHHHHHHHhCCCcceEEEeecccCCCchhHHHHHhhcCC
Confidence            44567789999997533  344456777777764   999999999999999999887653

>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=97.97  E-value=3.9e-06  Score=58.42  Aligned_cols=55  Identities=13%  Similarity=0.169  Sum_probs=40.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHH-HHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERG-EQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.||+||+|+...  + ..++ ..+. ..|+ .++++||++|.||+++|..+++.+.+
T Consensus       110 ~~p~ilv~NK~D~~~~--~-~~~~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~~  166 (439)
T 1mky_A          110 TVDTILVANKAENLRE--F-EREVKPELY-SLGFGEPIPVSAEHNINLDTMLETIIKKLEE  166 (439)
T ss_dssp             TCCEEEEEESCCSHHH--H-HHHTHHHHG-GGSSCSCEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeCCCCccc--c-HHHHHHHHH-hcCCCCEEEEeccCCCCHHHHHHHHHHhccc
Confidence            4567788999997521  1 1223 4443 4576 69999999999999999999987754

>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=97.93  E-value=1.1e-06  Score=55.04  Aligned_cols=46  Identities=7%  Similarity=-0.154  Sum_probs=30.0

Q ss_pred             cCCCcEEeecCCCCCCCCCC------HHHHHHHHHHhCCeEEEeccCCCCCH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS------RERGEQLAIEYGIKFMETSAKNSINV   51 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~------~~~~~~~a~~~~~~~~etSAk~~~~V   51 (101)
                      +..+.+|+||+|+...+.+.      .+++..++..++..|+++||++|.+.
T Consensus       120 ~~p~ilv~nK~Dl~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~Sa~~~~~~  171 (218)
T 1nrj_B          120 GIDILIACNKSELFTARPPSKIKDALESEIQKVIERRKKSLNEVERKINEED  171 (218)
T ss_dssp             CCCEEEEEECTTSTTCCCHHHHHHHHHHHHHHHHHHHHHHHHC---------
T ss_pred             CCCEEEEEEchHhcccCCHHHHHHHHHHHHHHHHHHHhcccccccccccccc
Confidence            45567889999998777665      56788888888899999999998763

>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=97.93  E-value=1.1e-05  Score=56.07  Aligned_cols=57  Identities=9%  Similarity=-0.084  Sum_probs=43.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+..|++||.|+...  ...++...+.+..+..++.+||+++.||+++|..+++.+.+
T Consensus       269 ~~P~ILVlNKlDl~~~--~~~~~l~~~l~~~g~~vi~iSA~~g~gi~eL~~~i~~~l~~  325 (416)
T 1udx_A          269 RRPSLVALNKVDLLEE--EAVKALADALAREGLAVLPVSALTGAGLPALKEALHALVRS  325 (416)
T ss_dssp             HSCEEEEEECCTTSCH--HHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             cCCEEEEEECCChhhH--HHHHHHHHHHHhcCCeEEEEECCCccCHHHHHHHHHHHHHh
Confidence            4556778899998643  22344455555667899999999999999999999988764

>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=97.91  E-value=1.3e-05  Score=58.15  Aligned_cols=56  Identities=16%  Similarity=0.117  Sum_probs=42.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC---eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI---KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~---~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+++||+|+...+  ..+...++++.+++   .++++||++|.||+++|+.+++.+.
T Consensus       125 ~ipiIvviNKiDl~~a~--~~~v~~el~~~lg~~~~~vi~vSAktg~GI~~Lle~I~~~lp  183 (600)
T 2ywe_A          125 DLVIIPVINKIDLPSAD--VDRVKKQIEEVLGLDPEEAILASAKEGIGIEEILEAIVNRIP  183 (600)
T ss_dssp             TCEEEEEEECTTSTTCC--HHHHHHHHHHTSCCCGGGCEECBTTTTBSHHHHHHHHHHHSC
T ss_pred             CCCEEEEEeccCccccC--HHHHHHHHHHhhCCCcccEEEEEeecCCCchHHHHHHHHhcc
Confidence            44567789999997533  23445667777776   4999999999999999999987654

>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=97.89  E-value=4.1e-06  Score=57.83  Aligned_cols=55  Identities=7%  Similarity=-0.054  Sum_probs=39.7

Q ss_pred             CCcEEeecCCCCCCCC--CCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQ--VSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~--v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+.+++||+|+.+...  ...++...+.+.   .++++|++||++|.||+++|+.+.+.+
T Consensus       139 ~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~~i~vSA~~g~gi~~L~~~l~~~~  198 (410)
T 1kk1_A          139 NIIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDFI  198 (410)
T ss_dssp             CEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             cEEEEEECccCCCHHHHHHHHHHHHHHHHhcCcCCCeEEEeeCCCCCCHHHHHHHHHHhC
Confidence            4567799999864321  223445555554   357899999999999999999887654

>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=97.85  E-value=2.4e-05  Score=53.94  Aligned_cols=55  Identities=15%  Similarity=0.100  Sum_probs=37.1

Q ss_pred             CCcEEeecCCCCCCCCC--CHHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQV--SRERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ++.+++||+|+.+....  ..++...+....   ++++|++||++|.||+++|..+.+.+
T Consensus       131 ~iivviNK~Dl~~~~~~~~~~~~i~~~l~~~~~~~~~ii~vSA~~g~gi~~L~~~l~~~l  190 (403)
T 3sjy_A          131 NLIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEYI  190 (403)
T ss_dssp             CEEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHHS
T ss_pred             CEEEEEECccccchHHHHHHHHHHHHHHHhhCCCCCEEEEEECCCCcChHHHHHHHHHhC
Confidence            46778999998642211  112222222222   46899999999999999999988654

>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=97.85  E-value=3.1e-06  Score=56.38  Aligned_cols=53  Identities=11%  Similarity=-0.058  Sum_probs=37.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-C-CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-G-IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~-~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+...+.    +...+++.+ + ..++++||++|.||+++|..+++.+
T Consensus       117 ~~p~ilV~NK~Dl~~~~~----~~~~~~~~~~~~~~~~~iSA~~g~gv~~l~~~l~~~l  171 (301)
T 1wf3_A          117 KVPILLVGNKLDAAKYPE----EAMKAYHELLPEAEPRMLSALDERQVAELKADLLALM  171 (301)
T ss_dssp             TSCEEEEEECGGGCSSHH----HHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             CCCEEEEEECcccCCchH----HHHHHHHHhcCcCcEEEEeCCCCCCHHHHHHHHHHhc
Confidence            456778899999864322    022333332 3 5689999999999999999987654

>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=97.74  E-value=1.7e-05  Score=53.81  Aligned_cols=57  Identities=9%  Similarity=0.028  Sum_probs=38.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHH----------hCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIE----------YGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~----------~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ....+|+||+|+....... .....+...          ++.+++.+||++|.||+++|..+.+.+..
T Consensus       218 ~p~ivVlNK~Dl~~~~~~~-~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~Gi~~L~~~i~~~~~~  284 (355)
T 3p32_A          218 LADIVVVNKADGEHHKEAR-LAARELSAAIRLIYPREALWRPPVLTMSAVEGRGLAELWDTVERHRQV  284 (355)
T ss_dssp             GCSEEEEECCCGGGHHHHH-HHHHHHHHHHHHHSTTCCSCCCCEEEEBGGGTBSHHHHHHHHHHHHHH
T ss_pred             cCCEEEEECCCCcChhHHH-HHHHHHHHHHhhccccccCCCCceEEEEcCCCCCHHHHHHHHHHHHHH
Confidence            3557789999985321111 111223222          25779999999999999999999876644

>2elf_A Protein translation elongation factor 1A; tRNA, pyrrolysine, structural genomics, NPPSFA; HET: CIT; 1.70A {Methanosarcina mazei}

Probab=97.67  E-value=2e-05  Score=53.99  Aligned_cols=58  Identities=7%  Similarity=-0.021  Sum_probs=41.5

Q ss_pred             cCCC-cEEee-cCCCCCCCCCCH--HHHHHHHHHhC---CeEEE--eccCC---CCCHHHHHHHHHHHHHH
Q psy17493          6 NTKS-KYIEV-PNFVSSMPQVSR--ERGEQLAIEYG---IKFME--TSAKN---SINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~-~lv~n-k~Dl~~~~~v~~--~~~~~~a~~~~---~~~~e--tSAk~---~~~V~~~F~~~~~~i~~   64 (101)
                      |.+. .++.| |+|+ +.+.+..  ++...+.+.++   +++++  +||++   +.||+++|..+.+.+..
T Consensus       111 ~i~~~ivvvNNK~Dl-~~~~~~~~~~~i~~~l~~~~~~~~~ii~~~~SA~~~~~g~gi~~L~~~l~~~~~~  180 (370)
T 2elf_A          111 GFKHGIIALTRSDST-HMHAIDELKAKLKVITSGTVLQDWECISLNTNKSAKNPFEGVDELKARINEVAEK  180 (370)
T ss_dssp             TCCEEEEEECCGGGS-CHHHHHHHHHHHHHHTTTSTTTTCEEEECCCCTTSSSTTTTHHHHHHHHHHHHHH
T ss_pred             CCCeEEEEEEeccCC-CHHHHHHHHHHHHHHHHhcCCCceEEEecccccccCcCCCCHHHHHHHHHhhccc
Confidence            4444 66788 9998 4332322  45555655543   68999  99999   99999999999877643

>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=97.64  E-value=4.9e-05  Score=48.86  Aligned_cols=30  Identities=20%  Similarity=0.021  Sum_probs=24.8

Q ss_pred             HHhC--CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493         34 IEYG--IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus        34 ~~~~--~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++  .+++++||+++.||+++|..+.+.+.
T Consensus       225 ~~~~~~~~~~~~SA~~~~gi~~l~~~i~~~~~  256 (262)
T 1yrb_A          225 TEVLPPVRVLYLSAKTREGFEDLETLAYEHYC  256 (262)
T ss_dssp             HHHSCCCCCEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             HHhcCcccceEEEecCcccHHHHHHHHHHHhc
Confidence            4444  47999999999999999999887654

>2hjg_A GTP-binding protein ENGA; GTPase ENGA KH-domain, hydrolase; HET: GDP; 2.50A {Bacillus subtilis}

Probab=97.62  E-value=1e-05  Score=56.27  Aligned_cols=53  Identities=11%  Similarity=0.030  Sum_probs=36.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.|++||+|+...+.    ++..+. ..|+ .++++||++|.||+++|..+++.+.
T Consensus       111 ~~pvilv~NK~D~~~~~~----~~~~~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l~  164 (436)
T 2hjg_A          111 KKPVVLAVNKLDNTEMRA----NIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHFK  164 (436)
T ss_dssp             CSCEEEEEECCCC---------CCCSSG-GGSSCCCEECBTTTTBTHHHHHHHHHHTGG
T ss_pred             CCCEEEEEECccCccchh----hHHHHH-HcCCCCeEEEeCcCCCChHHHHHHHHHhcC
Confidence            456678899999864321    111232 3565 6999999999999999999987664

>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=97.62  E-value=1.8e-05  Score=55.74  Aligned_cols=46  Identities=11%  Similarity=-0.068  Sum_probs=32.2

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHH----HHHHh-----CCeEEEeccCCCCCHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQ----LAIEY-----GIKFMETSAKNSINVEDA   54 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~----~a~~~-----~~~~~etSAk~~~~V~~~   54 (101)
                      +.+++||+|+.+.+....++...    +....     +++|+++||++|.||+++
T Consensus       174 iIvviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~iSA~~g~gi~el  228 (483)
T 3p26_A          174 LIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKI  228 (483)
T ss_dssp             EEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGEEEEECCSSSCTTSSSS
T ss_pred             EEEEEECcCcccchHHHHHHHHHHHHHHHHHcCCCcccceEEEEeeecCCCcccc
Confidence            67789999997644444444433    33333     357999999999999864

>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=97.62  E-value=7.3e-05  Score=51.08  Aligned_cols=58  Identities=12%  Similarity=-0.120  Sum_probs=40.9

Q ss_pred             CCCcEEeecCCCCCCCCCC--HHHHHHHHHHh-C--CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVS--RERGEQLAIEY-G--IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~~-~--~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.+|+||+|+.+.. ..  ...+..++..+ .  ..++.+||+++.|++++|..+.+.+...
T Consensus       293 ~p~ilV~NK~Dl~~~~-~~~~~~~~~~l~~~l~~~~~~~~~~SA~~g~gi~~L~~~I~~~l~~~  355 (364)
T 2qtf_A          293 KPILVTLNKIDKINGD-LYKKLDLVEKLSKELYSPIFDVIPISALKRTNLELLRDKIYQLATQL  355 (364)
T ss_dssp             CCEEEEEECGGGCCSC-HHHHHHHHHHHHHHHCSCEEEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEECCCCCCch-HHHHHHHHHHHHHHhcCCCCcEEEEECCCCcCHHHHHHHHHHHhccc
Confidence            3456789999986432 11  12344455665 2  4689999999999999999998876553

>2aka_B Dynamin-1; fusion protein, GTPase domain, myosin, contractIle protein; 1.90A {Rattus norvegicus} SCOP: c.37.1.8 PDB: 3l43_A*

Probab=97.58  E-value=5e-06  Score=54.56  Aligned_cols=55  Identities=16%  Similarity=0.067  Sum_probs=36.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH--HHHhC-CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL--AIEYG-IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~--a~~~~-~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+|+||+|+.+.+....+.....  ....+ .+++++||++|.||+++|..+.+
T Consensus       192 ~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~SA~~~~gi~~l~~~l~~  249 (299)
T 2aka_B          192 GQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  249 (299)
T ss_dssp             CSSEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCCBCTTSCBCHHHHHHH
T ss_pred             CCeEEEEEEccccCCCCchHHHHHhCCcCcCCCCcEEEECCChhhccccccHHHHHHH
Confidence            456678899999975444333322210  00112 35789999999999999999886

>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=97.49  E-value=2.1e-05  Score=54.71  Aligned_cols=49  Identities=12%  Similarity=-0.039  Sum_probs=36.4

Q ss_pred             CcEEeecCCCCCCCC--C--CHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQ--V--SRERGEQLAIEYG-----IKFMETSAKNSINVEDAFFT   57 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~--v--~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~~   57 (101)
                      +.+++||+|+.+...  +  ..++...+++.++     ++++++||++|.||+++|..
T Consensus       160 iIvviNK~Dl~~~~~~~~~~i~~~~~~~~~~~g~~~~~~~~i~vSA~~g~gi~~~~~~  217 (434)
T 1zun_B          160 IVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVNKSER  217 (434)
T ss_dssp             EEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSSCCTT
T ss_pred             EEEEEEcCcCCcccHHHHHHHHHHHHHHHHHhCCCccCceEEEEeccCCCCccccccc
Confidence            567899999965211  1  2345667777777     67999999999999987654

>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=97.40  E-value=0.00015  Score=47.92  Aligned_cols=54  Identities=9%  Similarity=0.011  Sum_probs=39.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH---HHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL---AIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~---a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.+..+|.||+||.+     .+..+.|   .+..|.+++.+||+++.|+++++..+.+.+..
T Consensus        50 ~kp~ilVlNK~DL~~-----~~~~~~~~~~~~~~g~~~i~iSA~~~~gi~~L~~~i~~~l~~  106 (282)
T 1puj_A           50 NKPRIMLLNKADKAD-----AAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQE  106 (282)
T ss_dssp             SSCEEEEEECGGGSC-----HHHHHHHHHHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHH
T ss_pred             CCCEEEEEECcccCC-----HHHHHHHHHHHHhcCCcEEEEECCCcccHHHHHHHHHHHHHH
Confidence            345578899999964     2333333   34457889999999999999999887766543

>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=97.39  E-value=9.8e-05  Score=45.78  Aligned_cols=57  Identities=7%  Similarity=-0.038  Sum_probs=39.6

Q ss_pred             cCCCcEEeecCCCCCC--CCCCHHHHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM--PQVSRERGEQLAIEYG--IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~--~~v~~~~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +....+++||.|+...  ++.....+..++...+  +.++.|||+++.|++++|..+.+.+
T Consensus       137 ~~~~~~v~nK~D~~s~~~~~~~~~~~~~~~~~~~~~~~~~~~Sal~~~~~~~l~~~l~~~~  197 (210)
T 1pui_A          137 NIAVLVLLTKADKLASGARKAQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDTWF  197 (210)
T ss_dssp             TCCEEEEEECGGGSCHHHHHHHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHHHH
T ss_pred             CCCeEEEEecccCCCchhHHHHHHHHHHHHHhcCCCCceEEEeecCCCCHHHHHHHHHHHH
Confidence            3344567899997532  1222345566666554  4688999999999999999887654

>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=97.39  E-value=0.00019  Score=52.50  Aligned_cols=27  Identities=11%  Similarity=0.066  Sum_probs=23.9

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +++|++||++|.||+++|..+++.+..
T Consensus       248 ~pv~~~SA~~~~Gv~~Ll~~i~~~lp~  274 (665)
T 2dy1_A          248 YPVALASGEREIGVLPLLELILEALPS  274 (665)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCCC
Confidence            479999999999999999999987653

>3izy_P Translation initiation factor IF-2, mitochondrial; E coli, RNA, ribosomal; 10.80A {Bos taurus}

Probab=97.36  E-value=2.9e-05  Score=55.62  Aligned_cols=56  Identities=11%  Similarity=-0.044  Sum_probs=36.7

Q ss_pred             cCCCcEEeecCCCCCCC--CCCHHHHHHH---HHHhC--CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMP--QVSRERGEQL---AIEYG--IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~--~v~~~~~~~~---a~~~~--~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+++||+|+.+.+  .+.. +...+   +..++  ++||++||++|.||+++|..+...+
T Consensus       104 ~vPiIVViNKiDl~~~~~~~v~~-~l~~~~~~~e~~~~~~~iv~vSAktG~GI~eLle~I~~l~  166 (537)
T 3izy_P          104 HVPIVLAINKCDKAEADPEKVKK-ELLAYDVVCEDYGGDVQAVHVSALTGENMMALAEATIALA  166 (537)
T ss_dssp             TCCEEECCBSGGGTTTSCCSSSS-HHHHTTSCCCCSSSSEEECCCCSSSSCSSHHHHHHHHHHH
T ss_pred             CCcEEEEEecccccccchHHHHH-HHHhhhhhHHhcCCCceEEEEECCCCCCchhHHHHHHHhh
Confidence            44566778999986422  2221 22111   22232  4799999999999999999987654

>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=97.34  E-value=3.9e-05  Score=53.42  Aligned_cols=49  Identities=12%  Similarity=0.117  Sum_probs=36.3

Q ss_pred             CCcEEeecCCCCCCC------CCCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMP------QVSRERGEQLAIEYG-----IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~------~v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F~   56 (101)
                      .+.+++||+|+.+..      ....++...+++.++     ++|+++||++|.||.++|.
T Consensus       146 ~iivviNK~Dl~~~~~~~~~~~~~~~~i~~~~~~~~~~~~~~~~i~iSA~~g~~v~e~~~  205 (435)
T 1jny_A          146 QLIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITHKSE  205 (435)
T ss_dssp             TCEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTBCCS
T ss_pred             eEEEEEEcccCCCccccHHHHHHHHHHHHHHHHHcCCCcCCceEEEeecccCcccccccc
Confidence            356789999986521      122456677777776     6799999999999987765

>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=97.34  E-value=4.3e-05  Score=52.55  Aligned_cols=53  Identities=13%  Similarity=0.060  Sum_probs=37.7

Q ss_pred             cEEeecCCCCCCCC---CCHHHHHHHHHHhC-----CeEEEeccCCCCC----------HHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQ---VSRERGEQLAIEYG-----IKFMETSAKNSIN----------VEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~-----~~~~etSAk~~~~----------V~~~F~~~~~~i   62 (101)
                      .+++||+|+.+...   ...++...+++.++     ++|+++||++|.|          |+++|+.+.+.+
T Consensus       123 ivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~n~~~~~~~~g~i~~Ll~~l~~~~  193 (397)
T 1d2e_A          123 VVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDTYI  193 (397)
T ss_dssp             EEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHHHS
T ss_pred             EEEEECcccCCCHHHHHHHHHHHHHHHHHcCCCcccCcEEEeehhhcccccCCCccCCcHHHHHHHHHHhC
Confidence            56799999864211   12246667777776     5899999999875          888888776544

>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=97.27  E-value=1.2e-05  Score=57.14  Aligned_cols=55  Identities=16%  Similarity=0.134  Sum_probs=36.1

Q ss_pred             cCCCcEEeecCCCCCC--CCCCHH--HHHHHHHHhC--CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSM--PQVSRE--RGEQLAIEYG--IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~--~~v~~~--~~~~~a~~~~--~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++.+++||+|+...  ..+..+  +...+++.++  ++|+++||++|.||+++|+.++.
T Consensus       103 ~vPiIVviNKiDl~~~~~~~v~~~l~~~~~~~~~~~~~~~~v~vSAktG~gI~eLle~I~~  163 (501)
T 1zo1_I          103 QVPVVVAVNKIDKPEADPDRVKNELSQYGILPEEWGGESQFVHVSAKAGTGIDELLDAILL  163 (501)
T ss_dssp             TCCEEEEEECSSSSTTCCCCTTCCCCCCCCCTTCCSSSCEEEECCTTTCTTCTTHHHHTTT
T ss_pred             CceEEEEEEeccccccCHHHHHHHHHHhhhhHHHhCCCccEEEEeeeeccCcchhhhhhhh
Confidence            4556778999998632  122111  0011223343  68999999999999999998864

>3tr5_A RF-3, peptide chain release factor 3; protein synthesis, translation; HET: GDP; 2.11A {Coxiella burnetii}

Probab=97.26  E-value=0.00052  Score=49.05  Aligned_cols=25  Identities=16%  Similarity=0.187  Sum_probs=22.1

Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493         39 KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus        39 ~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ++|.+||++|.||+++|..+++.+.
T Consensus       252 PV~~gSA~~~~GV~~Lld~i~~~~p  276 (528)
T 3tr5_A          252 PIFFGSAINNFGVGELLDAFVKEAP  276 (528)
T ss_dssp             EEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             EEEeccccCCccHHHHHHHHHHhCC
Confidence            6889999999999999999987653

>3j2k_7 ERF3, eukaryotic polypeptide chain release factor 3; rabbit 80S ribosome, ribosome-translation complex; 17.00A {Oryctolagus cuniculus}

Probab=97.24  E-value=0.00024  Score=49.61  Aligned_cols=51  Identities=16%  Similarity=0.079  Sum_probs=34.6

Q ss_pred             cCC-CcEEeecCCCCCC------CCCCHHHHHHHHHHhC------CeEEEeccCCCCCHHHHHH
Q psy17493          6 NTK-SKYIEVPNFVSSM------PQVSRERGEQLAIEYG------IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         6 ~~~-~~lv~nk~Dl~~~------~~v~~~~~~~~a~~~~------~~~~etSAk~~~~V~~~F~   56 (101)
                      |.+ +.+++||+|+...      .....++...+++..|      ++|+.+||++|.||++++.
T Consensus       154 ~v~~iIvviNK~Dl~~~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~~i~iSA~~G~ni~~l~~  217 (439)
T 3j2k_7          154 GVKHLIVLINKMDDPTVNWSNERYEECKEKLVPFLKKVGFNPKKDIHFMPCSGLTGANLKEQSD  217 (439)
T ss_pred             CCCeEEEEeecCCCcccchHHHHHHHHHHHHHHHHHHhcccccCCeeEEEeeccCCcccccccc
Confidence            444 5678999998531      1112234455666655      4699999999999999765

>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=97.24  E-value=5e-05  Score=48.97  Aligned_cols=55  Identities=7%  Similarity=0.042  Sum_probs=39.3

Q ss_pred             CcEEee-cCCCCCCCCCCH-------HHHHHHHHHhCCe---E--EEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          9 SKYIEV-PNFVSSMPQVSR-------ERGEQLAIEYGIK---F--METSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         9 ~~lv~n-k~Dl~~~~~v~~-------~~~~~~a~~~~~~---~--~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..++.| |.|+... .+..       .++..+++..+..   |  +++||+++.||+++|..+++.+..
T Consensus       141 ~i~vv~nK~Dl~~~-~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~~~~gv~~l~~~i~~~~~~  208 (260)
T 2xtp_A          141 TIVLFTHKEDLNGG-SLMDYMHDSDNKALSKLVAACGGRICAFNNRAEGSNQDDQVKELMDCIEDLLME  208 (260)
T ss_dssp             EEEEEECGGGGTTC-CHHHHHHHCCCHHHHHHHHHTTTCEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             EEEEEEcccccCCc-cHHHHHHhcchHHHHHHHHHhCCeEEEecCcccccccHHHHHHHHHHHHHHHHh
Confidence            344455 9999743 2322       3455677777653   3  789999999999999999987754

>3izq_1 HBS1P, elongation factor 1 alpha-like protein; NO-GO mRNA decay, ribosomal protein,hydrolase; 9.50A {Saccharomyces cerevisiae}

Probab=97.24  E-value=0.00011  Score=53.43  Aligned_cols=47  Identities=13%  Similarity=-0.065  Sum_probs=33.0

Q ss_pred             CcEEeecCCCCCCCCCCHH----HHHHHHHHhC-----CeEEEeccCCCCCHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRE----RGEQLAIEYG-----IKFMETSAKNSINVEDAF   55 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~----~~~~~a~~~~-----~~~~etSAk~~~~V~~~F   55 (101)
                      +.+++||+|+.+.+....+    +...+....|     ++||.+||++|.||+++.
T Consensus       308 iIVVvNKiDl~~~~~~~~~ei~~~l~~~l~~~g~~~~~~~~i~vSA~tG~gI~el~  363 (611)
T 3izq_1          308 LIIAMNKMDNVDWSQQRFEEIKSKLLPYLVDIGFFEDNINWVPISGFSGEGVYKIE  363 (611)
T ss_dssp             EEEEEECTTTTTTCHHHHHHHHHHHHHHHHHHTCCGGGCEEEECCTTTCTTTSSCT
T ss_pred             EEEEEecccccchhHHHHHHHHHHHHHHHHhhcccccCccEEeeecccCCCccccC
Confidence            6678999999754333333    3344455544     589999999999998764

>3t5d_A Septin-7; GTP-binding protein, cytoskeleton, signaling protein; HET: GDP; 3.30A {Homo sapiens} PDB: 3tw4_A*

Probab=97.23  E-value=2.4e-05  Score=51.17  Aligned_cols=56  Identities=7%  Similarity=-0.052  Sum_probs=28.7

Q ss_pred             cCCCcEEeecCCCCCCCCCC--HHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS--RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||+|+.....+.  .+........+++.+|++||+++.|+++++..+...
T Consensus       144 ~~pvi~V~nK~D~~~~~e~~~~~~~i~~~l~~~~i~v~~~sa~~~~~~~~l~~~l~~~  201 (274)
T 3t5d_A          144 KVNIIPLIAKADTLTPEECQQFKKQIMKEIQEHKIKIYEFPETDDEEENKLVKKIKDR  201 (274)
T ss_dssp             TSCEEEEESSGGGSCHHHHHHHHHHHHHHHHHTTCCCCCC-----------CHHHHHT
T ss_pred             cCCEEEEEeccCCCCHHHHHHHHHHHHHHHHHcCCeEEcCCCCCChhHHHHHHHHhcC
Confidence            35567789999975322221  123344555678999999999999999999887653

>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=97.18  E-value=6e-05  Score=52.99  Aligned_cols=48  Identities=19%  Similarity=0.107  Sum_probs=34.1

Q ss_pred             CcEEeecCCCCCCC------CCCHHHHHHHHHHh-C------CeEEEeccCCCCCHHHHHH
Q psy17493          9 SKYIEVPNFVSSMP------QVSRERGEQLAIEY-G------IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~------~v~~~~~~~~a~~~-~------~~~~etSAk~~~~V~~~F~   56 (101)
                      +.+++||+|+....      ....++...+++.+ +      ++|+++||++|.||+++|.
T Consensus       184 iivviNK~Dl~~~~~~~~~~~~i~~e~~~~l~~~~g~~~~~~~~~i~vSA~~g~~i~~l~~  244 (467)
T 1r5b_A          184 LVVVINKMDEPSVQWSEERYKECVDKLSMFLRRVAGYNSKTDVKYMPVSAYTGQNVKDRVD  244 (467)
T ss_dssp             EEEEEECTTSTTCSSCHHHHHHHHHHHHHHHHHHHCCCHHHHEEEEECBTTTTBTTSSCCC
T ss_pred             EEEEEECccCCCccccHHHHHHHHHHHHHHHHHhcCCCccCCceEEecccccccccccccc
Confidence            56789999985311      11223566777766 4      5699999999999998773

>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=97.13  E-value=7.4e-05  Score=51.47  Aligned_cols=42  Identities=12%  Similarity=0.060  Sum_probs=29.5

Q ss_pred             CcEEeecCCCCCCCC---CCHHHHHHHHHHhC-----CeEEEeccCCCCC
Q psy17493          9 SKYIEVPNFVSSMPQ---VSRERGEQLAIEYG-----IKFMETSAKNSIN   50 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~-----~~~~etSAk~~~~   50 (101)
                      +.+++||+|+.+...   ...++...+++.++     ++|+++||++|.|
T Consensus       131 iivviNK~Dl~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~i~~SA~~g~~  180 (405)
T 2c78_A          131 IVVFMNKVDMVDDPELLDLVEMEVRDLLNQYEFPGDEVPVIRGSALLALE  180 (405)
T ss_dssp             EEEEEECGGGCCCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHH
T ss_pred             EEEEEECccccCcHHHHHHHHHHHHHHHHHhcccccCCCEEEccHHHhhh
Confidence            456899999864211   11235666777766     5799999999987

>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=97.11  E-value=4.6e-05  Score=51.66  Aligned_cols=57  Identities=5%  Similarity=-0.046  Sum_probs=43.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      |..+.+|+||.|+.+......+.+..++..++.+|+++|++++.+|++.|..+....
T Consensus       203 ~~~~i~V~nK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~s~~~i~~~~~~~~~~~  259 (360)
T 3t34_A          203 GDRTFGVLTKIDLMDKGTDAVEILEGRSFKLKYPWVGVVNRSQADINKNVDMIAARK  259 (360)
T ss_dssp             CTTEEEEEECGGGCCTTCCSHHHHTTSSSCCSSCCEEECCCCHHHHHTTCCHHHHHH
T ss_pred             CCCEEEEEeCCccCCCcccHHHHHcCccccccCCeEEEEECChHHhccCCCHHHHHH
Confidence            456778899999977666666666666666778999999999999998876655443

>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=97.07  E-value=0.00042  Score=53.86  Aligned_cols=54  Identities=11%  Similarity=-0.033  Sum_probs=38.0

Q ss_pred             CcEEeecCCCCCCCC---CCHHHHHHHHHHhC-----CeEEEeccCCC--------CCHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQ---VSRERGEQLAIEYG-----IKFMETSAKNS--------INVEDAFFTLARDI   62 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~-----~~~~etSAk~~--------~~V~~~F~~~~~~i   62 (101)
                      +.+++||+|+.+...   ...++...+++.++     ++|+++||++|        .||+++|+.+...+
T Consensus       415 IIVVINKiDLv~d~e~le~i~eEi~elLk~~G~~~~~vp~IpvSAktG~ng~~~w~eGI~eLleaL~~~I  484 (1289)
T 3avx_A          415 IIVFLNKCDMVDDEELLELVEMEVRELLSQYDFPGDDTPIVRGSALKALEGDAEWEAKILELAGFLDSYI  484 (1289)
T ss_dssp             EEEEEECCTTCCCHHHHHHHHHHHHHHHHHTTSCTTTCCEEECCSTTTTTCCHHHHHHHHHHHHHHHHTS
T ss_pred             EEEEEeecccccchhhHHHHHHHHHHHHHhccccccceeEEEEEeccCCCCCccccccchhhHhHHhhhc
Confidence            356899999974221   12346667777776     57999999999        45888887776543

>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=97.02  E-value=0.0027  Score=46.05  Aligned_cols=25  Identities=12%  Similarity=0.081  Sum_probs=22.5

Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493         39 KFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus        39 ~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +++.+||++|.||++++..+...+.
T Consensus       193 pvv~vSA~tG~GI~eLl~~I~~~~~  217 (594)
T 1g7s_A          193 SIIPISAITGEGIPELLTMLMGLAQ  217 (594)
T ss_dssp             EEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             eEEEEeccCCCCchhHHHHHHhhcc
Confidence            7999999999999999999887654

>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=96.96  E-value=0.0027  Score=42.77  Aligned_cols=57  Identities=7%  Similarity=-0.036  Sum_probs=36.3

Q ss_pred             CCCcEEeecCCCCCCCCCCH--HHHHHHHHHh-------CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSR--ERGEQLAIEY-------GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~--~~~~~~a~~~-------~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ....+|+||+|+.....+..  ++........       ..+++.+||++|.||++++..+.+.+.
T Consensus       195 ~p~ivv~NK~Dl~~~~~~~~~~~~l~~~l~~~~~~~~~~~~~vi~iSA~~g~gi~~L~~~l~~~~~  260 (341)
T 2p67_A          195 VADLIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDFKT  260 (341)
T ss_dssp             HCSEEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHHHH
T ss_pred             ccCEEEEECCCCCChHHHHHHHHHHHHHHHhccccccCCCCcEEEeeCCCCCCHHHHHHHHHHHHH
Confidence            34567899999863211111  0111111111       356899999999999999999987654

>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=96.86  E-value=0.0012  Score=41.95  Aligned_cols=57  Identities=11%  Similarity=0.018  Sum_probs=39.3

Q ss_pred             CCcEEeecCCCCCCCCCC------HHHHHHHHHHhCCeEEEeccCCC-----CCHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVS------RERGEQLAIEYGIKFMETSAKNS-----INVEDAFFTLARDIKA   64 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~------~~~~~~~a~~~~~~~~etSAk~~-----~~V~~~F~~~~~~i~~   64 (101)
                      .+.+|+||+|+...+.+.      .+..+.+++..+..|+..+++.+     .+|.++|..+.+.+.+
T Consensus       147 ~~iiv~nK~D~~~~~~~~~~i~~~~~~l~~l~~~~~~~~~~~~~~~~~~~~~~~v~~ll~~i~~~~~~  214 (239)
T 3lxx_A          147 FMILIFTRKDDLGDTNLHDYLREAPEDIQDLMDIFGDRYCALNNKATGAEQEAQRAQLLGLIQRVVRE  214 (239)
T ss_dssp             GEEEEEECGGGC------------CHHHHHHHHHHSSSEEECCTTCCHHHHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEeCCccCCcccHHHHHHhchHHHHHHHHHcCCEEEEEECCCCccccHHHHHHHHHHHHHHHHH
Confidence            567889999986544443      24678888999988887777654     6899999888776643

>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=96.86  E-value=0.00032  Score=49.20  Aligned_cols=47  Identities=13%  Similarity=-0.016  Sum_probs=33.5

Q ss_pred             CcEEeecCCCCCCCC----CCHHHHHHHHHHhC-----CeEEEeccCCCCCHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQ----VSRERGEQLAIEYG-----IKFMETSAKNSINVEDAF   55 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~----v~~~~~~~~a~~~~-----~~~~etSAk~~~~V~~~F   55 (101)
                      +.+++||+|+.+...    ...++...+++.++     ++|+++||++|.||+++.
T Consensus       148 iivviNK~Dl~~~~~~~~~~i~~~~~~~l~~~g~~~~~~~~i~vSA~~g~nv~~~~  203 (458)
T 1f60_A          148 LIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIEAT  203 (458)
T ss_dssp             EEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTBCC
T ss_pred             EEEEEEccccccCCHHHHHHHHHHHHHHHHHcCCCccCceEEEeecccCcCccccc
Confidence            567899999863111    12345666777776     579999999999998653

>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=96.85  E-value=0.00028  Score=49.33  Aligned_cols=52  Identities=10%  Similarity=0.011  Sum_probs=31.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCC-eEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGI-KFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~-~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.||+||+|+.+.+    .....+. ..+. .++++||++|.||+++|..+.+.+
T Consensus       131 ~~pvilV~NK~D~~~~~----~~~~e~~-~lg~~~~~~iSA~~g~gv~~L~~~i~~~l  183 (456)
T 4dcu_A          131 KKPVVLAVNKLDNTEMR----ANIYDFY-SLGFGEPYPISGTHGLGLGDLLDAVAEHF  183 (456)
T ss_dssp             CSCEEEEEECC-------------CCSG-GGSSSSEEECCTTTCTTHHHHHHHHHTTG
T ss_pred             CCCEEEEEECccchhhh----hhHHHHH-HcCCCceEEeecccccchHHHHHHHHhhc
Confidence            45567889999985322    1111111 2333 467999999999999999997654

>2www_A Methylmalonic aciduria type A protein, mitochondrial; transport protein, nucleotide-binding; HET: GDP 2PE; 2.64A {Homo sapiens}

Probab=96.72  E-value=0.0051  Score=41.62  Aligned_cols=54  Identities=7%  Similarity=-0.010  Sum_probs=34.1

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHH----------HhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAI----------EYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~----------~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ...++.||+|+.+.... ......+..          .++.+++.+||++|.|+++++..+.+.+
T Consensus       214 ~~ivVlNK~Dl~~~~~~-~~~~~~l~~~l~~~~~~a~~~~~~vi~iSA~~g~Gi~~L~~~I~~~~  277 (349)
T 2www_A          214 ADLVAVTKSDGDLIVPA-RRIQAEYVSALKLLRKRSQVWKPKVIRISARSGEGISEMWDKMKDFQ  277 (349)
T ss_dssp             CSEEEECCCSGGGHHHH-HHHHHHHHHHHTTCC-----CCCEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             CCEEEEeeecCCCchhH-HHHHHHHHHHHHhcCccccCCCceEEEEecCCCCCHHHHHHHHHHHH
Confidence            34567899998521100 011122322          1245789999999999999999887754

>2qm8_A GTPase/ATPase; G protein, G3E, metallochaperone, chaperone; HET: MSE; 1.70A {Methylobacterium extorquens} SCOP: c.37.1.10 PDB: 2qm7_A*

Probab=96.66  E-value=0.0036  Score=42.23  Aligned_cols=53  Identities=2%  Similarity=-0.095  Sum_probs=34.5

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHh----------CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEY----------GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~----------~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.||.|+...........+.+....          ..+++.+||+++.|+++++..+.+..
T Consensus       197 ivvlNK~Dl~~~~~~s~~~~~~l~~a~~l~~~~~~~~~~~vl~~Sal~g~gi~~L~~~I~~~~  259 (337)
T 2qm8_A          197 MIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  259 (337)
T ss_dssp             EEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             EEEEEchhccCchhHHHHHHHHHHHHHHhccccccCCCCCEEEEeCCCCCCHHHHHHHHHHHH
Confidence            456799997432222222333443321          35678899999999999998887654

>3cnl_A YLQF, putative uncharacterized protein; circular permutation, GNP, signaling protein; HET: GNP; 2.00A {Thermotoga maritima} PDB: 3cnn_A* 3cno_A*

Probab=96.57  E-value=0.001  Score=43.48  Aligned_cols=52  Identities=6%  Similarity=-0.142  Sum_probs=35.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.+..+|.||+||.+...  .+....+.+..|.++ .+||+++.|+++++..+..
T Consensus        46 ~k~~iivlNK~DL~~~~~--~~~~~~~~~~~g~~v-~iSa~~~~gi~~L~~~l~~   97 (262)
T 3cnl_A           46 RKETIILLNKVDIADEKT--TKKWVEFFKKQGKRV-ITTHKGEPRKVLLKKLSFD   97 (262)
T ss_dssp             TSEEEEEEECGGGSCHHH--HHHHHHHHHHTTCCE-EECCTTSCHHHHHHHHCCC
T ss_pred             CCCcEEEEECccCCCHHH--HHHHHHHHHHcCCeE-EEECCCCcCHHHHHHHHHH
Confidence            445678899999864211  112233444557888 9999999999999876643

>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein complex, translation regulation; 2.74A {Schizosaccharomyces pombe}

Probab=96.57  E-value=0.00056  Score=49.47  Aligned_cols=44  Identities=14%  Similarity=-0.010  Sum_probs=28.6

Q ss_pred             CcEEeecCCCCCCCCCC----HHHHHHHH-HHhCC-----eEEEeccCCCCCHH
Q psy17493          9 SKYIEVPNFVSSMPQVS----RERGEQLA-IEYGI-----KFMETSAKNSINVE   52 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~----~~~~~~~a-~~~~~-----~~~etSAk~~~~V~   52 (101)
                      +.+++||+|+.+.....    ..+...+. +.+|+     +|+.+||++|.||+
T Consensus       318 iIvviNKiDl~~~~~~~~~~i~~el~~~l~~~~g~~~~~~~ii~iSA~~G~gI~  371 (592)
T 3mca_A          318 IVVSVNKLDLMSWSEDRFQEIKNIVSDFLIKMVGFKTSNVHFVPISAISGTNLI  371 (592)
T ss_dssp             EEEEEECGGGGTTCHHHHHHHHHHHHHHHTTTSCCCGGGEEEEEECSSSCSSSC
T ss_pred             EEEEEeccccccccHHHHHHHHHHHHHHHHHhhCCCccceEEEEEecccCcccc
Confidence            56789999986421111    12333344 33454     69999999999998

>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=96.32  E-value=2.8e-05  Score=52.65  Aligned_cols=55  Identities=18%  Similarity=0.090  Sum_probs=35.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHH--HHHHHhC-CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGE--QLAIEYG-IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~--~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +..+.+|+||.|+.+......+...  .+...++ ..++.+||+++.|++++|..+.+
T Consensus       197 ~~~~i~V~NK~Dl~~~~~~~~~~~~~~~~~l~~~~~~v~~~SA~~~~~i~~l~~~l~~  254 (353)
T 2x2e_A          197 GQRTIGVITKLDLMDEGTDARDVLENKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  254 (353)
T ss_dssp             CTTEEEEEECGGGSCTTCCCHHHHTTCSSCCTTCEEECCCCCHHHHHTTCCHHHHHHH
T ss_pred             CCceEEEeccccccCcchhHHHHHhCCcccccCCceEEEeCCcccccccccHHHHHHH
Confidence            4566788999998654332121111  0111123 24678999999999999998876

>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=95.99  E-value=0.0034  Score=42.87  Aligned_cols=51  Identities=6%  Similarity=-0.094  Sum_probs=35.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHH---HhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAI---EYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~---~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      |.+..||.||+||.+...  .+....|..   ..|++.+.+||+++.|++++-..+
T Consensus       160 ~~~~iivlNK~DL~~~~~--~~~~~~~~~~y~~~G~~v~~~Sa~~~~gl~~L~~~~  213 (358)
T 2rcn_A          160 QVEPLIVLNKIDLLDDEG--MDFVNEQMDIYRNIGYRVLMVSSHTQDGLKPLEEAL  213 (358)
T ss_dssp             TCEEEEEEECGGGCCHHH--HHHHHHHHHHHHTTTCCEEECBTTTTBTHHHHHHHH
T ss_pred             CCCEEEEEECccCCCchh--HHHHHHHHHHHHhCCCcEEEEecCCCcCHHHHHHhc
Confidence            566778899999964211  112333433   457889999999999999886543

>2j69_A Bacterial dynamin-like protein; FZO, FZL, GTPase, hydrolase; 3.0A {Nostoc punctiforme} PDB: 2j68_A 2w6d_A*

Probab=95.97  E-value=0.0026  Score=46.81  Aligned_cols=27  Identities=11%  Similarity=0.068  Sum_probs=23.2

Q ss_pred             CeEEEeccC--------------CCCCHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAK--------------NSINVEDAFFTLARDIKA   64 (101)
Q Consensus        38 ~~~~etSAk--------------~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+|.+||+              ++.||+++|..+.+.+..
T Consensus       285 ~~v~~vSAk~al~~~~~~~~~~~~~~Gi~~L~~~L~~~l~~  325 (695)
T 2j69_A          285 ERVFELSSIQALRRRLKNPQADLDGTGFPKFMDSLNTFLTR  325 (695)
T ss_dssp             GTEEECCHHHHHHHHHHCTTCCCTTSSHHHHHHHHHHHHHH
T ss_pred             CcEEEEeChHHHHhhccCchhhhhccCHHHHHHHHHHHHHH
Confidence            368999999              999999999999876643

>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=95.89  E-value=0.0087  Score=39.32  Aligned_cols=58  Identities=7%  Similarity=-0.023  Sum_probs=35.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCC------CCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKN------SINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~------~~~V~~~F~~~~~~i~   63 (101)
                      +..+.+|+||.|+........+.........+..|+++|+++      +.||++++..+...+.
T Consensus       198 ~~~~i~v~NK~Dl~~~~~~~~~~~~~~~~~~~~~~~~v~~~sa~~~~~~~gv~~l~~~~~~~~~  261 (315)
T 1jwy_B          198 GKRTIGVITKLDLMDKGTDAMEVLTGRVIPLTLGFIGVINRSQEDIIAKKSIRESLKSEILYFK  261 (315)
T ss_dssp             CSSEEEEEECTTSSCSSCCCHHHHTTSSSCCTTCEEECCCCCHHHHSSSCCHHHHHHHHHHHHH
T ss_pred             CCcEEEEEcCcccCCcchHHHHHHhCCCccCCCCeEEEecCChhhhccCCCHHHHHHHHHHHHh
Confidence            455678899999875443222222210011235688887765      6888998887766543

>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=95.64  E-value=0.00067  Score=45.43  Aligned_cols=52  Identities=12%  Similarity=0.029  Sum_probs=34.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      |.+..||.||+||.+.... .+....+.   +..|.+.+.+||+++.|++++|...
T Consensus       117 ~~~~vivlnK~DL~~~~~~-~~~~~~~~~~y~~~g~~v~~~sa~~~~g~~~L~~~~  171 (307)
T 1t9h_A          117 DIQPIICITKMDLIEDQDT-EDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIPHF  171 (307)
T ss_dssp             TCEEEEEEECGGGCCCHHH-HHHHHHHHHHHHHHTCCEEECCHHHHTTCTTTGGGG
T ss_pred             CCCEEEEEECCccCchhhh-HHHHHHHHHHHHhCCCeEEEEecCCCCCHHHHHhhc
Confidence            4566788999999753210 01133333   3457889999999999988877543

>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=94.93  E-value=0.0066  Score=41.57  Aligned_cols=55  Identities=15%  Similarity=0.009  Sum_probs=40.7

Q ss_pred             ccCCCcEEeecCCCC--CC-CCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHH
Q psy17493          5 INTKSKYIEVPNFVS--SM-PQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLA   59 (101)
Q Consensus         5 ~~~~~~lv~nk~Dl~--~~-~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~   59 (101)
                      ...++.+++||.|.+  +. +..-.+....+++.+|++++.+||++..+|.+++..-.
T Consensus       200 t~KPvi~v~N~~e~d~~~~~~n~~~~~v~~~a~~~g~~vv~iSAk~E~el~eL~~~~~  257 (368)
T 2dby_A          200 TAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVVVVSARLEAELAELSGEEA  257 (368)
T ss_dssp             GGSCEEEEEECCGGGTTTCTTCHHHHHHHHHHHHHTCEEEEECHHHHHHHHTSCHHHH
T ss_pred             hcCCeEEeccccHHhhcccchhhHHHHHHHHHHHcCCeEEEeechhHHHHHHhchHHH
Confidence            345677889998632  22 13456777889999999999999999888887776543

>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=93.08  E-value=0.1  Score=33.45  Aligned_cols=56  Identities=4%  Similarity=-0.165  Sum_probs=35.5

Q ss_pred             ccCCCcEEeecC-CCCCCCCCCHHHHHHHHHH--hC--CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          5 INTKSKYIEVPN-FVSSMPQVSRERGEQLAIE--YG--IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         5 ~~~~~~lv~nk~-Dl~~~~~v~~~~~~~~a~~--~~--~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .|..+-+.+||. |+.  ...+..+....-.-  ..  ...+.|||++|+|+.+.++=++..+
T Consensus       161 ~gapLLVlANKqqDlp--~Ams~~EI~e~L~L~~l~R~W~Iq~csA~TGeGL~EGLdWL~~~l  221 (227)
T 3l82_B          161 SGRPLLVLSCISQGDV--KRMPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEV  221 (227)
T ss_dssp             SCSCEEEEEEESSTTS--CBCCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHTTTT
T ss_pred             CCCeEEEEeCCCcCcc--CCCCHHHHHHHcCCcCCCCCEEEEEeECCCCcCHHHHHHHHHHHH
Confidence            455555667985 663  45565544322111  11  2357899999999999998887544

>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=92.40  E-value=0.23  Score=33.32  Aligned_cols=56  Identities=4%  Similarity=-0.166  Sum_probs=36.1

Q ss_pred             ccCCCcEEeec-CCCCCCCCCCHHHHHHHHHH--hC--CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          5 INTKSKYIEVP-NFVSSMPQVSRERGEQLAIE--YG--IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         5 ~~~~~~lv~nk-~Dl~~~~~v~~~~~~~~a~~--~~--~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .|..+-+.+|| -|+.  ...+..+....-.-  ..  ...+.|||++|+|+.+.++=++..+
T Consensus       246 ~~apLLVfANKkQDlp--~Ams~~EI~e~L~L~~l~r~W~Iq~csA~tGeGL~EGldWL~~~l  306 (312)
T 3l2o_B          246 SGRPLLVLSCISQGDV--KRMPCFYLAHELHLNLLNHPWLVQDTEAETLTGFLNGIEWILEEV  306 (312)
T ss_dssp             TTCCEEEEEEESSTTS--CBCCHHHHHHHTTGGGGCSCEEEEEEETTTCTTHHHHHHHHHHHS
T ss_pred             CCCeEEEEeCCccccc--CCCCHHHHHHHcCCccCCCcEEEEecccCCCcCHHHHHHHHHHHH
Confidence            45556666787 4774  45555444322111  11  2357899999999999999888765

>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=91.11  E-value=0.33  Score=35.82  Aligned_cols=26  Identities=12%  Similarity=-0.022  Sum_probs=22.4

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .+.|..||++|.||+.++..++..+.
T Consensus       256 ~Pv~~gSA~~~~Gv~~LLd~i~~~lP  281 (691)
T 1dar_A          256 TPVFLGSALKNKGVQLLLDAVVDYLP  281 (691)
T ss_dssp             EEEEECBGGGTBSHHHHHHHHHHHSC
T ss_pred             eEEEEeecccCcCHHHHHHHHHHhCC
Confidence            46899999999999999999887653

>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=89.70  E-value=0.025  Score=39.02  Aligned_cols=45  Identities=20%  Similarity=0.095  Sum_probs=31.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIE---YGIKFMETSAKNSINVEDAFF   56 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~   56 (101)
                      .++.+++||.|+..     .+....+.+.   .+..++.+||+.+.++.+++.
T Consensus       215 kP~i~v~NK~D~~~-----~~~l~~l~~~~~~~~~~vv~iSA~~e~~l~~L~~  262 (397)
T 1wxq_A          215 KPMVIAANKADAAS-----DEQIKRLVREEEKRGYIVIPTSAAAELTLRKAAK  262 (397)
T ss_dssp             SCEEEEEECGGGSC-----HHHHHHHHHHHHHTTCEEEEECHHHHHHHHSCSS
T ss_pred             CCEEEEEeCccccc-----hHHHHHHHHHHhhcCCcEEEEeccchhhHHHHHh
Confidence            55677899999751     2333333333   377899999999999977543

>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=88.94  E-value=1.2  Score=32.94  Aligned_cols=27  Identities=15%  Similarity=0.027  Sum_probs=23.4

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ++.|..||++|.||+.+++.++..+..
T Consensus       262 ~Pv~~gSa~~~~Gv~~LLd~i~~~lPs  288 (704)
T 2rdo_7          262 ILVTCGSAFKNKGVQAMLDAVIDYLPS  288 (704)
T ss_pred             eEEEEeecccCccHHHHHHHHHHHCCC
Confidence            468999999999999999999887653

>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=88.76  E-value=0.082  Score=39.59  Aligned_cols=53  Identities=17%  Similarity=0.023  Sum_probs=34.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH----hC-CeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE----YG-IKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~----~~-~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      |..+.+|.||.|+.+..........  .+.    .+ ..++.+||++|.|+++++..+.+
T Consensus       217 g~pvIlVlNKiDlv~~~~~~~~il~--~~~~~l~lg~~~VV~iSA~~G~GvdeL~eaI~~  274 (772)
T 3zvr_A          217 GQRTIGVITKLDLMDEGTDARDVLE--NKLLPLRRGYIGVVNRSQKDIDGKKDITAALAA  274 (772)
T ss_dssp             CSSEEEEEECTTSSCTTCCSHHHHT--TCSSCCSSCEEECCCCCCEESSSSEEHHHHHHH
T ss_pred             CCCEEEEEeCcccCCcchhhHHHHH--HHhhhhhccCCceEEecccccccchhHHHHHHH
Confidence            4567888999998754333221111  011    12 23567999999999999988875

>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=87.68  E-value=0.17  Score=36.20  Aligned_cols=47  Identities=13%  Similarity=-0.143  Sum_probs=30.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCe-----EEEeccCCCCCHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIK-----FMETSAKNSINVEDA   54 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~-----~~etSAk~~~~V~~~   54 (101)
                      +.++.+++||.|+....  ..+....+.+.++..     |..+||+++.||.++
T Consensus       134 ~ipiivviNK~Dl~~~~--~~~~~~~i~~~l~~~~~~~~~pi~sa~~~~Gv~dl  185 (529)
T 2h5e_A          134 DTPILTFMNKLDRDIRD--PMELLDEVENELKIGCAPITWPIGCGKLFKGVYHL  185 (529)
T ss_dssp             TCCEEEEEECTTSCCSC--HHHHHHHHHHHHCCEEEESEEEESCGGGCCEEEET
T ss_pred             CCCEEEEEcCcCCcccc--HHHHHHHHHHHhCCCccceecceecccCcceeeeh
Confidence            45667789999986432  234455666666643     556788777776544

>2xex_A Elongation factor G; GTPase, translation, biosynthetic protein; 1.90A {Staphylococcus aureus}

Probab=84.68  E-value=2.8  Score=30.96  Aligned_cols=27  Identities=7%  Similarity=-0.025  Sum_probs=22.5

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .+.|..||++|.||+.++..+++.+..
T Consensus       254 ~Pv~~gSA~~~~Gv~~LLd~i~~~lPs  280 (693)
T 2xex_A          254 YPVLCGTAFKNKGVQLMLDAVIDYLPS  280 (693)
T ss_dssp             EEEEECBTTTTBSHHHHHHHHHHHSCC
T ss_pred             eeEEEeecccCcCHHHHHHHHHHHCCC
Confidence            368899999999999999888876643

>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=84.23  E-value=1  Score=30.76  Aligned_cols=42  Identities=17%  Similarity=0.039  Sum_probs=30.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCC
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKN   47 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~   47 (101)
                      .-++.+++|+.|.......-......++..++++++.+||+.
T Consensus       199 ~KPvi~v~N~~e~~~~~n~~~~~v~~~~~~~~~~~i~~sA~~  240 (363)
T 1jal_A          199 LKPTMYIANVNEDGFENNPYLDRVREIAAKEGAVVVPVCAAI  240 (363)
T ss_dssp             TSCEEEEEECCTTCSSSCHHHHHHHHHHHHTTCEEEEECHHH
T ss_pred             CCcEEEEEecccccccccHHHHHHHHHHHHcCCCEEEechHH
Confidence            455677899988543223345677788888899999999874

---

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	101
d2g6ba1	170	c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [T	4e-12
d2fu5c1	173	c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [Ta	1e-11
d2gjsa1	168	c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [Tax	5e-11
d2f7sa1	186	c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [T	6e-11
d1z0fa1	166	c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [Ta	2e-10
d2a5ja1	173	c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [Ta	2e-10
d1kaoa_	167	c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId:	5e-10
d1u8za_	168	c.37.1.8 (A:) Ras-related protein RalA {Cotton-top	6e-10
d1g16a_	166	c.37.1.8 (A:) Rab-related protein Sec4 {Baker's ye	7e-10
d2erxa1	171	c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [	1e-09
d1z0ja1	167	c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [	1e-09
d2g3ya1	172	c.37.1.8 (A:73-244) GTP-binding protein GEM {Human	2e-09
d2atxa1	185	c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [Tax	2e-09
d1ctqa_	166	c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapi	2e-09
d2bmja1	175	c.37.1.8 (A:66-240) Centaurin gamma 1, G domain {H	2e-09
d1x3sa1	177	c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [Ta	3e-09
d1z08a1	167	c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [T	6e-09
d2fn4a1	173	c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [T	7e-09
d1ek0a_	170	c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces	8e-09
d1yzqa1	164	c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [Ta	9e-09
d1wmsa_	174	c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId:	9e-09
d1xtqa1	167	c.37.1.8 (A:3-169) GTP-binding protein RheB {Human	1e-08
d1z2aa1	164	c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [Ta	1e-08
d1zj6a1	177	c.37.1.8 (A:2-178) ADP-ribosylation factor {Human	2e-08
d2erya1	171	c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [	3e-08
d1vg8a_	184	c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId	4e-08
d2bmea1	174	c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [Ta	4e-08
d1c1ya_	167	c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId:	4e-08
d1z06a1	165	c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus)	4e-08
d2atva1	168	c.37.1.8 (A:5-172) Ras-like estrogen-regulated gro	7e-08
d1x1ra1	169	c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRa	8e-08
d1kmqa_	177	c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9	9e-08
d1r2qa_	170	c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId:	1e-07
d1e0sa_	173	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	1e-07
d1moza_	182	c.37.1.8 (A:) ADP-ribosylation factor {Baker's yea	1e-07
d1mh1a_	183	c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 96	2e-07
d2f9la1	175	c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [T	2e-07
d2ew1a1	171	c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [Ta	2e-07
d1i2ma_	170	c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 96	2e-07
d3raba_	169	c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxI	2e-07
d1r8sa_	160	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	4e-07
d1upta_	169	c.37.1.8 (A:) ADP-ribosylation factor {Human (Homo	5e-07
d1fzqa_	176	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	6e-07
d1zd9a1	164	c.37.1.8 (A:18-181) ADP-ribosylation factor {Human	8e-07
d2ngra_	191	c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId:	2e-06
d1ky3a_	175	c.37.1.8 (A:) Rab-related protein ypt7p {Baker's y	3e-06
d1ksha_	165	c.37.1.8 (A:) ADP-ribosylation factor {Mouse (Mus	3e-05
d1m7ba_	179	c.37.1.8 (A:) RhoE (RND3) {Mouse (Mus musculus) [T	3e-05
d2bcgy1	194	c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Sac	3e-05
d2qtvb1	166	c.37.1.8 (B:24-189) SAR1 {Baker's yeast (Saccharom	6e-04
d1f6ba_	186	c.37.1.8 (A:) SAR1 {Chinese hamster (Cricetulus gr	0.002

>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 = 56.8 bits (136), Expect = 4e-12
 Identities = 23/42 (54%), Positives = 31/42 (73%)

Query: 22  PQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
             V RE GE+LA EYG+ FMETSAK  +NV+ AF  +A+++K
Sbjct: 128 RVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK 169

>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 = 55.9 bits (134), Expect = 1e-11
 Identities = 36/48 (75%), Positives = 44/48 (91%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
             QVS+ERGE+LA++YGIKFMETSAK +INVE+AFFTLARDIKA+ +K
Sbjct: 126 KRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKMDK 173

>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 = 54.0 bits (128), Expect = 5e-11
 Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 2/71 (2%)

Query: 1   MEIQINTKSKYIEVPNFVSSMPQ--VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTL 58
              +       I V N    +    VS + G   A+ +  KF+ETSA    NV+  F  +
Sbjct: 98  RRARQTDDVPIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGV 157

Query: 59  ARDIKAQTEKK 69
            R I+ + + K
Sbjct: 158 VRQIRLRRDSK 168

>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 = 54.1 bits (129), Expect = 6e-11
 Identities = 18/46 (39%), Positives = 25/46 (54%)

Query: 26  RERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLE 71
             +  +LA +YGI + ETSA    NVE A  TL   I  + E+ +E
Sbjct: 141 ERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQCVE 186

>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 = 52.2 bits (124), Expect = 2e-10
 Identities = 19/42 (45%), Positives = 24/42 (57%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
              V+ E  +Q A E G+ F+E SAK   NVEDAF   A+ I
Sbjct: 124 QRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKI 165

>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 = 52.2 bits (124), Expect = 2e-10
 Identities = 23/50 (46%), Positives = 32/50 (64%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
              V RE GE  A E+G+ FMETSAK + NVE+AF   A++I  + ++ L
Sbjct: 123 RRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQGL 172

>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 = 51.1 bits (121), Expect = 5e-10
 Identities = 17/43 (39%), Positives = 24/43 (55%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
             +VS   G  LA E+G  FMETSAK+   V++ F  + R + 
Sbjct: 123 EREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN 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 = 51.1 bits (121), Expect = 6e-10
 Identities = 18/45 (40%), Positives = 28/45 (62%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
             QVS E  +  A ++ + ++ETSAK   NV+  FF L R+I+A+
Sbjct: 124 KRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIRAR 168

>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 = 50.9 bits (121), Expect = 7e-10
 Identities = 22/45 (48%), Positives = 31/45 (68%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
              V+ ++GE LA E GI F+E+SAKN  NV + FFTLA+ I+ +
Sbjct: 121 TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQEK 165

>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 = 50.4 bits (119), Expect = 1e-09
 Identities = 17/46 (36%), Positives = 23/46 (50%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT 66
             +V     E LA  +   FMETSAK + NV++ F  L    K +T
Sbjct: 123 SREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLEKRRT 168

>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 = 50.4 bits (119), Expect = 1e-09
 Identities = 14/44 (31%), Positives = 24/44 (54%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA 64
           + +V     +  A      F+ETSAKN+IN+ + F  ++R I +
Sbjct: 124 VREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRIPS 167

>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 = 50.1 bits (118), Expect = 2e-09
 Identities = 14/47 (29%), Positives = 25/47 (53%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
             +VS   G   A+ +  KF+ETSA    NV++ F  + R ++ + +
Sbjct: 126 CREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLRRD 172

>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 = 50.0 bits (118), Expect = 2e-09
 Identities = 11/44 (25%), Positives = 19/44 (43%), Gaps = 1/44 (2%)

Query: 20  SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62
               +  E+G++LA E G   ++E SA     ++  F      I
Sbjct: 139 KEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAI 182

>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 = 49.6 bits (117), Expect = 2e-09
 Identities = 20/43 (46%), Positives = 27/43 (62%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
              V   + + LA  YGI ++ETSAK    VEDAF+TL R+I+
Sbjct: 122 ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIR 164

>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 = 49.6 bits (117), Expect = 2e-09
 Identities = 10/50 (20%), Positives = 20/50 (40%), Gaps = 1/50 (2%)

Query: 21  MPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
              V   R   L  +     + ET A   +NV+  F  +A+ +    +++
Sbjct: 123 PRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ 172

>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 = 49.1 bits (116), Expect = 3e-09
 Identities = 14/42 (33%), Positives = 21/42 (50%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
             +V R  G + A ++ + F+E SAK    V+ AF  L   I
Sbjct: 127 NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKI 168

>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 = 48.4 bits (114), Expect = 6e-09
 Identities = 13/42 (30%), Positives = 19/42 (45%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
              VS +  E  A   G K   TSAK +  +E+ F  L + +
Sbjct: 123 ERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRM 164

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]} Length = 173

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

 Score = 48.1 bits (113), Expect = 7e-09
 Identities = 14/48 (29%), Positives = 23/48 (47%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK 68
             QV R         + + + E SAK  +NV++AF  L R ++   E+
Sbjct: 126 QRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQEQ 173

>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 = 48.1 bits (113), Expect = 8e-09
 Identities = 20/45 (44%), Positives = 25/45 (55%)

Query: 19  SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
               +V+RE GE+LA E G+ F ETSAK   NV D F  +   I 
Sbjct: 124 GGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKIP 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 = 48.0 bits (113), Expect = 9e-09
 Identities = 18/44 (40%), Positives = 25/44 (56%)

Query: 19  SSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           +   QVS E GE+ A E  + F+ETSAK   NV+  F  +A  +
Sbjct: 118 ADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL 161

>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 = 48.0 bits (113), Expect = 9e-09
 Identities = 14/41 (34%), Positives = 20/41 (48%), Gaps = 1/41 (2%)

Query: 25  SRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKA 64
           S E  +    + G   + ETSAK++ NV  AF    R + A
Sbjct: 133 STEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA 173

>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 = 47.8 bits (112), Expect = 1e-08
 Identities = 12/43 (27%), Positives = 21/43 (48%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
              +S E G+ LA  +   F+E+SAK +    D F  +  + +
Sbjct: 124 ERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE 166

>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 = 47.4 bits (111), Expect = 1e-08
 Identities = 13/43 (30%), Positives = 18/43 (41%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
               +  E  E LA    ++F  TS K  +NV + F  LA   
Sbjct: 120 DDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKH 162

>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 = 47.3 bits (111), Expect = 2e-08
 Identities = 3/44 (6%), Positives = 13/44 (29%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           ++ ++S+        ++        A     +      +   +K
Sbjct: 133 TVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRLK 176

>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 = 46.6 bits (109), Expect = 3e-08
 Identities = 20/51 (39%), Positives = 30/51 (58%)

Query: 17  FVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE 67
            +    QV++E G+QLA +  + +ME SAK  +NV+ AF  L R I+   E
Sbjct: 121 DLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKFQE 171

>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 = 46.6 bits (109), Expect = 4e-08
 Identities = 17/57 (29%), Positives = 27/57 (47%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
               ++        +  I + ETSAK +INVE AF T+AR+   Q  +    +  P+
Sbjct: 126 RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEVELYNEFPE 182

>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 = 46.4 bits (109), Expect = 4e-08
 Identities = 16/39 (41%), Positives = 21/39 (53%)

Query: 31  QLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           + A E  + F+ETSA    NVE+AF   AR I  + E  
Sbjct: 135 RFAQENELMFLETSALTGENVEEAFVQCARKILNKIESG 173

>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 = 46.1 bits (108), Expect = 4e-08
 Identities = 17/44 (38%), Positives = 27/44 (61%), Gaps = 1/44 (2%)

Query: 21  MPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIK 63
              V +E+G+ LA ++    F+E+SAK+ INV + F+ L R I 
Sbjct: 123 ERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN 166

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]} Length = 165

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

 Score = 46.2 bits (108), Expect = 4e-08
 Identities = 12/37 (32%), Positives = 20/37 (54%), Gaps = 3/37 (8%)

Query: 26  RERGEQLAIEYGIKFMETSAK---NSINVEDAFFTLA 59
            +  ++ A  + +   ETSAK   ++ +VE  F TLA
Sbjct: 129 TDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA 165

>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 = 45.4 bits (106), Expect = 7e-08
 Identities = 17/46 (36%), Positives = 25/46 (54%), Gaps = 1/46 (2%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQ 65
             QVS E GE+LA E    F E SA     N+ + F+ L R+++ +
Sbjct: 121 SRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR 166

>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 = 45.4 bits (106), Expect = 8e-08
 Identities = 18/44 (40%), Positives = 31/44 (70%), Gaps = 1/44 (2%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAK-NSINVEDAFFTLARDIKAQ 65
           +V+R++G+++A +Y I ++ETSAK   +NV+  F  L R I+ Q
Sbjct: 126 KVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQQ 169

>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 = 45.4 bits (106), Expect = 9e-08
 Identities = 13/43 (30%), Positives = 16/43 (37%), Gaps = 1/43 (2%)

Query: 21  MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62
              V  E G  +A   G   +ME SAK    V + F    R  
Sbjct: 133 QEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAA 175

>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 = 45.0 bits (105), Expect = 1e-07
 Identities = 14/44 (31%), Positives = 24/44 (54%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           +   V  +  +  A +  + FMETSAK S+NV + F  +A+ + 
Sbjct: 125 NKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP 168

>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 = 44.9 bits (105), Expect = 1e-07
 Identities = 4/44 (9%), Positives = 13/44 (29%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
              ++  + G     +       + A +   + +    L  + K
Sbjct: 130 KPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSNYK 173

>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 = 45.0 bits (105), Expect = 1e-07
 Identities = 11/51 (21%), Positives = 20/51 (39%), Gaps = 3/51 (5%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKL 70
           S  +VS+E       +     + +SA     + +    L   IK   E++L
Sbjct: 135 SASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIK---EEQL 182

>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 = 44.6 bits (104), Expect = 2e-07
 Identities = 10/44 (22%), Positives = 21/44 (47%), Gaps = 1/44 (2%)

Query: 20  SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI 62
            +  ++  +G  +A E G +K++E SA     ++  F    R +
Sbjct: 135 KLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAV 178

>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 = 44.5 bits (104), Expect = 2e-07
 Identities = 15/49 (30%), Positives = 25/49 (51%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
           +  V  +     A +  + F+ETSA +S NVE+AF  +  +I     +K
Sbjct: 124 LRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVSQK 172

>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 = 44.4 bits (104), Expect = 2e-07
 Identities = 16/45 (35%), Positives = 27/45 (60%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
             +VS++R E+ +    + ++ETSAK S NVE  F  LA  + ++
Sbjct: 125 RREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE 169

>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 = 44.3 bits (103), Expect = 2e-07
 Identities = 11/52 (21%), Positives = 22/52 (42%)

Query: 14  VPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
             N V    +  + +      +  +++ + SAK++ N E  F  LAR +   
Sbjct: 113 CGNKVDIKDRKVKAKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIGD 164

>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 = 44.1 bits (103), Expect = 2e-07
 Identities = 15/35 (42%), Positives = 20/35 (57%)

Query: 31  QLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           QLA   G +F E SAK++INV+  F  L   I  +
Sbjct: 135 QLADHLGFEFFEASAKDNINVKQTFERLVDVICEK 169

>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 = 43.5 bits (101), Expect = 4e-07
 Identities = 4/40 (10%), Positives = 13/40 (32%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
           +++ + G             T A +   + +    L+  +
Sbjct: 121 EITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQL 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 = 43.2 bits (100), Expect = 5e-07
 Identities = 7/46 (15%), Positives = 20/46 (43%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           +  +++   G     +   +  +TSA     +++A   L   +K++
Sbjct: 123 TSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLKSR 168

>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 = 43.0 bits (100), Expect = 6e-07
 Identities = 4/43 (9%), Positives = 14/43 (32%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
              +++         +   +    SA     V+D    + +++
Sbjct: 134 PASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKNV 176

>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 = 42.8 bits (99), Expect = 8e-07
 Identities = 6/41 (14%), Positives = 13/41 (31%)

Query: 23  QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK 63
           ++  +       +  I     S K   N++     L +  K
Sbjct: 124 ELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQHSK 164

>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 = 41.9 bits (97), Expect = 2e-06
 Identities = 11/50 (22%), Positives = 21/50 (42%), Gaps = 1/50 (2%)

Query: 21  MPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIKAQTEKK 69
              ++ E  E+LA +   +K++E SA     +++ F           E K
Sbjct: 134 QKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAALEPPEPK 183

>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 = 41.2 bits (95), Expect = 3e-06
 Identities = 14/30 (46%), Positives = 18/30 (60%)

Query: 38  IKFMETSAKNSINVEDAFFTLARDIKAQTE 67
           I    TSAKN+INV+ AF  +AR    Q +
Sbjct: 146 IPLFLTSAKNAINVDTAFEEIARSALQQNQ 175

>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 = 38.5 bits (88), Expect = 3e-05
 Identities = 6/46 (13%), Positives = 13/46 (28%)

Query: 20  SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ 65
           S   +           +  +    SA    ++      L  DI ++
Sbjct: 120 SCNAIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDISSR 165

>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 = 38.5 bits (88), Expect = 3e-05
 Identities = 13/42 (30%), Positives = 19/42 (45%), Gaps = 2/42 (4%)

Query: 23  QVSRERGEQLAIEYGI-KFMETSAKNSIN-VEDAFFTLARDI 62
            VS ++G  +A + G   ++E SA  S N V D F       
Sbjct: 135 PVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLAC 176

>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 = 38.3 bits (88), Expect = 3e-05
 Identities = 18/42 (42%), Positives = 24/42 (57%)

Query: 36  YGIKFMETSAKNSINVEDAFFTLARDIKAQTEKKLEASNPPK 77
             + F+ETSA +S NVEDAF T+AR IK    ++       K
Sbjct: 141 NKMPFLETSALDSTNVEDAFLTMARQIKESMSQQNLNETTQK 182

>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 = 34.7 bits (78), Expect = 6e-04
 Identities = 4/40 (10%), Positives = 16/40 (40%)

Query: 21  MPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLAR 60
           +  ++    +++  +  ++    S        +AF  L++
Sbjct: 126 LGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ 165

>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 = 33.1 bits (74), Expect = 0.002
 Identities = 4/36 (11%), Positives = 10/36 (27%)

Query: 27  ERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI 62
               +      ++    S        + F  +A+ I
Sbjct: 150 SVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQYI 185

Homologous Domains Detected by HHsearch

Original result of HHsearch against SCOP70(version1.75) database

ID	Length	Definition	Probability
Query	101
d2atva1	168	Ras-like estrogen-regulated growth inhibitor, RERG	99.67
d2gjsa1	168	Rad {Human (Homo sapiens) [TaxId: 9606]}	99.65
d1x1ra1	169	Ras-related protein M-Ras (XRas) {Mouse (Mus muscu	99.64
d1z2aa1	164	Rab23 {Mouse (Mus musculus) [TaxId: 10090]}	99.64
d2g3ya1	172	GTP-binding protein GEM {Human (Homo sapiens) [Tax	99.64
d1z08a1	167	Rab21 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2fn4a1	173	r-Ras {Human (Homo sapiens) [TaxId: 9606]}	99.63
d2erya1	171	r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.63
d1xtqa1	167	GTP-binding protein RheB {Human (Homo sapiens) [Ta	99.62
d1z0ja1	167	Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}	99.62
d1u8za_	168	Ras-related protein RalA {Cotton-top tamarin (Sagu	99.62
d2erxa1	171	di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}	99.61
d2f7sa1	186	Rab27b {Human (Homo sapiens) [TaxId: 9606]}	99.6
d2a5ja1	173	Rab2b {Human (Homo sapiens) [TaxId: 9606]}	99.59
d1yzqa1	164	Rab6 {Human (Homo sapiens) [TaxId: 9606]}	99.59
d2ew1a1	171	Rab30 {Human (Homo sapiens) [TaxId: 9606]}	99.58
d1kaoa_	167	Rap2a {Human (Homo sapiens) [TaxId: 9606]}	99.57
d2atxa1	185	RhoQ {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1z0fa1	166	Rab14 {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1r2qa_	170	Rab5a {Human (Homo sapiens) [TaxId: 9606]}	99.55
d1ctqa_	166	cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9	99.54
d1wmsa_	174	Rab9a {Human (Homo sapiens) [TaxId: 9606]}	99.54
d3raba_	169	Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}	99.54
d1ky3a_	175	Rab-related protein ypt7p {Baker's yeast (Saccharo	99.54
d1z06a1	165	Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}	99.54
d2ngra_	191	CDC42 {Human (Homo sapiens) [TaxId: 9606]}	99.53
d1c1ya_	167	Rap1A {Human (Homo sapiens) [TaxId: 9606]}	99.52
d1kmqa_	177	RhoA {Human (Homo sapiens) [TaxId: 9606]}	99.51
d2bmea1	174	Rab4a {Human (Homo sapiens) [TaxId: 9606]}	99.49
d2g6ba1	170	Rab26 {Human (Homo sapiens) [TaxId: 9606]}	99.46
d1ek0a_	170	Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [T	99.45
d2f9la1	175	Rab11b {Human (Homo sapiens) [TaxId: 9606]}	99.41
d2fu5c1	173	Rab8a {Mouse (Mus musculus) [TaxId: 10090]}	99.41
d1vg8a_	184	Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}	99.4
d1m7ba_	179	RhoE (RND3) {Mouse (Mus musculus) [TaxId: 10090]}	99.39
d2bcgy1	194	GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisi	99.39
d2bmja1	175	Centaurin gamma 1, G domain {Human (Homo sapiens)	99.39
d1i2ma_	170	Ran {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1mh1a_	183	Rac {Human (Homo sapiens) [TaxId: 9606]}	99.37
d1x3sa1	177	Rab18 {Human (Homo sapiens) [TaxId: 9606]}	99.29
d1g16a_	166	Rab-related protein Sec4 {Baker's yeast (Saccharom	99.21
d1moza_	182	ADP-ribosylation factor {Baker's yeast (Saccharomy	99.03
d1upta_	169	ADP-ribosylation factor {Human (Homo sapiens), ARL	99.0
d1ksha_	165	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.92
d1e0sa_	173	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.89
d1fzqa_	176	ADP-ribosylation factor {Mouse (Mus musculus), ARL	98.86
d1zj6a1	177	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.85
d1r8sa_	160	ADP-ribosylation factor {Human (Homo sapiens), ARF	98.84
d1zd9a1	164	ADP-ribosylation factor {Human (Homo sapiens), ARL	98.76
d1udxa2	180	Obg GTP-binding protein middle domain {Thermus the	98.67
d1mkya1	171	Probable GTPase Der, N-terminal and middle domains	98.54
d1lnza2	185	Obg GTP-binding protein middle domain {Bacillus su	98.39
d2gj8a1	161	Probable tRNA modification GTPase TrmE (MnmE), G d	98.38
d1f6ba_	186	SAR1 {Chinese hamster (Cricetulus griseus) [TaxId:	98.36
d2bcjq2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.32
d2qtvb1	166	SAR1 {Baker's yeast (Saccharomyces cerevisiae) [Ta	98.3
d1wf3a1	178	GTPase Era, N-terminal domain {Thermus thermophilu	98.29
d1mkya2	186	Probable GTPase Der, N-terminal and middle domains	98.25
d1svia_	195	Probable GTPase EngB {Bacillus subtilis [TaxId: 14	98.15
d1xzpa2	160	TrmE GTPase domain {Thermotoga maritima [TaxId: 23	98.13
d1svsa1	195	Transducin (alpha subunit) {Rat (Rattus norvegicus	98.12
d1egaa1	179	GTPase Era, N-terminal domain {Escherichia coli [T	98.1
d1wb1a4	179	Elongation factor SelB, N-terminal domain {Methano	98.1
d1zcba2	200	Transducin (alpha subunit) {Mouse (Mus musculus) [	98.06
d2cxxa1	184	GTP-binding protein engB {Pyrococcus horikoshii [T	98.05
d1puia_	188	Probable GTPase EngB {Escherichia coli [TaxId: 562	97.64
d2qm8a1	323	Metallochaperone MeaB {Methylobacterium extorquens	97.41
d1kk1a3	195	Initiation factor eIF2 gamma subunit, N-terminal (	97.34
d2qn6a3	205	Initiation factor eIF2 gamma subunit, N-terminal (	97.33
d1g7sa4	227	Initiation factor IF2/eIF5b, N-terminal (G) domain	96.98
d1u0la2	225	Probable GTPase EngC (YjeQ), C-terminal domain {Th	96.96
d1azta2	221	Transducin (alpha subunit) {Cow (Bos taurus) [TaxI	96.92
d2p67a1	327	LAO/AO transport system kinase ArgK {Escherichia c	96.64
d1yrba1	244	ATP(GTP)-binding protein PAB0955 {Pyrococcus abyss	96.6
d1puja_	273	Probable GTPase YlqF {Bacillus subtilis [TaxId: 14	96.31
d1t9ha2	231	Probable GTPase EngC (YjeQ), C-terminal domain {Ba	95.32
d1zunb3	222	Sulfate adenylate transferase subunit cysN/C, EF-T	93.67
d1d2ea3	196	Elongation factor Tu (EF-Tu), N-terminal (G) domai	92.59
d1r5ba3	245	Eukaryotic peptide chain release factor ERF2, G do	90.86
d2fh5b1	207	Signal recognition particle receptor beta-subunit	88.88
d1jnya3	224	Elongation factor eEF-1alpha, N-terminal (G) domai	85.22
d1f60a3	239	Elongation factor eEF-1alpha, N-terminal (G) domai	80.38

>d2atva1 c.37.1.8 (A:5-172) Ras-like estrogen-regulated growth inhibitor, RERG {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-like estrogen-regulated growth inhibitor, RERG
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.67  E-value=5.4e-17  Score=98.50  Aligned_cols=59  Identities=29%  Similarity=0.407  Sum_probs=54.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCC-CHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSI-NVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~-~V~~~F~~~~~~i~~~   65 (101)
                      ..+.+||||+||...+.|+.++++++|++++++|||||||+|. ||+++|..+++.+.++
T Consensus       107 ~piilvgnK~Dl~~~r~V~~~e~~~~a~~~~~~~~e~Saktg~gnV~e~F~~l~~~i~~~  166 (168)
T d2atva1         107 VTLILVGNKADLDHSRQVSTEEGEKLATELACAFYECSACTGEGNITEIFYELCREVRRR  166 (168)
T ss_dssp             CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSEEEECCTTTCTTCHHHHHHHHHHHHHHH
T ss_pred             cceeeeccchhhhhhccCcHHHHHHHHHHhCCeEEEEccccCCcCHHHHHHHHHHHHHHh
Confidence            4567789999999889999999999999999999999999998 6999999999988764

>d2gjsa1 c.37.1.8 (A:91-258) Rad {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rad
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.65  E-value=1.7e-16  Score=96.31  Aligned_cols=59  Identities=25%  Similarity=0.298  Sum_probs=54.3

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ++.|||||+|+.+.+.|+..+++++++.++++|||||||+|.||+++|..+++.+..+.
T Consensus       107 piilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~v~~~f~~l~~~i~~~~  165 (168)
T d2gjsa1         107 PIILVGNKSDLVRSREVSVDEGRACAVVFDCKFIETSAALHHNVQALFEGVVRQIRLRR  165 (168)
T ss_dssp             CEEEEEECTTCGGGCCSCHHHHHHHHHHHTSEEEECBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             eEEEeecccchhhhcchhHHHHHHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            45678999999988999999999999999999999999999999999999999887654

>d1x1ra1 c.37.1.8 (A:10-178) Ras-related protein M-Ras (XRas) {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein M-Ras (XRas)
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=3.5e-16  Score=95.02  Aligned_cols=57  Identities=30%  Similarity=0.501  Sum_probs=52.5

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCC-CHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSI-NVEDAFFTLARDIKA   64 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~-~V~~~F~~~~~~i~~   64 (101)
                      .+.|++||+|+...+.|+.+++.+||+.++++|||||||++. ||+++|..+++.+++
T Consensus       111 p~ilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~Sak~~~~nV~~~F~~l~~~i~~  168 (169)
T d1x1ra1         111 PMILVANKVDLMHLRKVTRDQGKEMATKYNIPYIETSAKDPPLNVDKTFHDLVRVIRQ  168 (169)
T ss_dssp             CEEEEEECTTCSTTCCSCHHHHHHHHHHHTCCEEEEBCSSSCBSHHHHHHHHHHHHHH
T ss_pred             cEEEEecccchhhhceeehhhHHHHHHHcCCEEEEEcCCCCCcCHHHHHHHHHHHHHh
Confidence            456779999999999999999999999999999999999986 999999999998875

>d1z2aa1 c.37.1.8 (A:8-171) Rab23 {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab23
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.64  E-value=8.3e-17  Score=97.20  Aligned_cols=58  Identities=22%  Similarity=0.267  Sum_probs=53.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.||+||+|+.+++.++.++++++|+.++++|||||||+|.||+++|..+++.++
T Consensus       106 ~~~iilVgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~~v~e~f~~l~~~~l  163 (164)
T d1z2aa1         106 DIPTALVQNKIDLLDDSCIKNEEAEGLAKRLKLRFYRTSVKEDLNVSEVFKYLAEKHL  163 (164)
T ss_dssp             SCCEEEEEECGGGGGGCSSCHHHHHHHHHHHTCEEEECBTTTTBSSHHHHHHHHHHHH
T ss_pred             CceEEEeeccCCcccceeeeehhhHHHHHHcCCEEEEeccCCCcCHHHHHHHHHHHHh
Confidence            3456778999999888999999999999999999999999999999999999999886

>d2g3ya1 c.37.1.8 (A:73-244) GTP-binding protein GEM {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein GEM
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.64  E-value=2.9e-16  Score=95.58  Aligned_cols=59  Identities=24%  Similarity=0.305  Sum_probs=54.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.||+||+||.+.+.|+.++++++|+.++++|||||||+|.||+++|..+++.+..+
T Consensus       112 ~piilvgnK~Dl~~~~~v~~~~~~~~a~~~~~~~~e~Sak~g~~i~~~f~~l~~~i~~r  170 (172)
T d2g3ya1         112 IPIILVGNKSDLVRCREVSVSEGRACAVVFDCKFIETSAAVQHNVKELFEGIVRQVRLR  170 (172)
T ss_dssp             SCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             ceEEEEeccccccccccccHHHHHHHHHHcCCeEEEEeCCCCcCHHHHHHHHHHHHHHc
Confidence            34567899999998899999999999999999999999999999999999999988654

>d1z08a1 c.37.1.8 (A:17-183) Rab21 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab21
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=1.4e-16  Score=96.40  Aligned_cols=58  Identities=22%  Similarity=0.208  Sum_probs=53.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.|+|||+|+...+.|+.++++.+|++++++|||||||+|.||+++|..+++.+++
T Consensus       109 ~~~ilvgnK~Dl~~~~~v~~~e~~~~a~~~~~~~~e~Sak~~~~v~e~F~~l~~~i~~  166 (167)
T d1z08a1         109 ICLCIVGNKIDLEKERHVSIQEAESYAESVGAKHYHTSAKQNKGIEELFLDLCKRMIE  166 (167)
T ss_dssp             SEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEEEBTTTTBSHHHHHHHHHHHHHC
T ss_pred             cceeeeccccccccccccchHHHHHHHHHcCCeEEEEecCCCcCHHHHHHHHHHHHhh
Confidence            3456789999999889999999999999999999999999999999999999998864

>d2fn4a1 c.37.1.8 (A:24-196) r-Ras {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=2.5e-16  Score=95.90  Aligned_cols=60  Identities=23%  Similarity=0.298  Sum_probs=54.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.||+||+|+.+.+.++.+++..+|+.++++|||||||+|.||+++|..+++.+.+..
T Consensus       112 ~p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~k~~  171 (173)
T d2fn4a1         112 FPVVLVGNKADLESQRQVPRSEASAFGASHHVAYFEASAKLRLNVDEAFEQLVRAVRKYQ  171 (173)
T ss_dssp             CCEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHHT
T ss_pred             CceEEEEEeechhhccccchhhhhHHHHhcCCEEEEEeCCCCcCHHHHHHHHHHHHHHHh
Confidence            345678999999988999999999999999999999999999999999999999987653

>d2erya1 c.37.1.8 (A:10-180) r-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: r-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.63  E-value=5.8e-16  Score=93.96  Aligned_cols=57  Identities=35%  Similarity=0.438  Sum_probs=52.8

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.||+||+|+...+.++.+++.++|+.++++|||||||+|.||+++|..+++.+.+.
T Consensus       113 ~ilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~k~  169 (171)
T d2erya1         113 MILIGNKADLDHQRQVTQEEGQQLARQLKVTYMEASAKIRMNVDQAFHELVRVIRKF  169 (171)
T ss_dssp             EEEEEECTTCTTSCSSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHHHHH
T ss_pred             EEEEEeccchhhhccchHHHHHHHHHHcCCEEEEEcCCCCcCHHHHHHHHHHHHHHh
Confidence            457799999998899999999999999999999999999999999999999988643

>d1xtqa1 c.37.1.8 (A:3-169) GTP-binding protein RheB {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTP-binding protein RheB
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.62  E-value=1.8e-16  Score=95.83  Aligned_cols=57  Identities=21%  Similarity=0.248  Sum_probs=52.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.||+||+|+...+.|+.++++.||++++++|||||||+|.||+++|..+++.+.
T Consensus       110 ~piilvgnK~Dl~~~r~v~~~~~~~~a~~~~~~~~e~Sak~~~~v~~~f~~li~~~~  166 (167)
T d1xtqa1         110 IPIMLVGNKKDLHMERVISYEEGKALAESWNAAFLESSAKENQTAVDVFRRIILEAE  166 (167)
T ss_dssp             CCEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECCTTCHHHHHHHHHHHHHHHH
T ss_pred             cceeeeccccccccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHHhc
Confidence            345678999999988999999999999999999999999999999999999998764

>d1z0ja1 c.37.1.8 (A:2-168) Rab-22a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-22a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.62  E-value=2.4e-16  Score=95.40  Aligned_cols=56  Identities=25%  Similarity=0.304  Sum_probs=52.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.||+||+|+.+.+.++.++++++|+.++++|||||||+|.||+++|..+++++
T Consensus       110 ~~iilvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAk~~~nV~e~f~~l~~~i  165 (167)
T d1z0ja1         110 IVVAIAGNKCDLTDVREVMERDAKDYADSIHAIFVETSAKNAININELFIEISRRI  165 (167)
T ss_dssp             SEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECBTTTTBSHHHHHHHHHHHC
T ss_pred             ceEEEecccchhccccchhHHHHHHHHHHcCCEEEEEecCCCCCHHHHHHHHHHhC
Confidence            45678899999998899999999999999999999999999999999999999875

>d1u8za_ c.37.1.8 (A:) Ras-related protein RalA {Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ras-related protein RalA
species: Cotton-top tamarin (Saguinus oedipus) [TaxId: 9490]

Probab=99.62  E-value=2.6e-16  Score=95.53  Aligned_cols=57  Identities=30%  Similarity=0.421  Sum_probs=52.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.||+||+|+.+.+.|+.++++.+++.++++|||||||+|.||+++|..+++.+.
T Consensus       110 ~piiivgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~  166 (168)
T d1u8za_         110 VPFLLVGNKSDLEDKRQVSVEEAKNRADQWNVNYVETSAKTRANVDKVFFDLMREIR  166 (168)
T ss_dssp             SCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CcEEEEeccccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHHH
Confidence            345678999999988999999999999999999999999999999999999998875

>d2erxa1 c.37.1.8 (A:6-176) di-Ras2 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: di-Ras2
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.61  E-value=2.5e-16  Score=95.44  Aligned_cols=56  Identities=29%  Similarity=0.202  Sum_probs=51.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.|||||+|+...+.|+.+++++||+.++++|||||||+|.||+++|..+++.+
T Consensus       109 ~piilVgnK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~~  164 (171)
T d2erxa1         109 IPIMLVGNKCDESPSREVQSSEAEALARTWKCAFMETSAKLNHNVKELFQELLNLE  164 (171)
T ss_dssp             CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHTC
T ss_pred             CcEEEEeecccccccccccHHHHHHHHHHcCCeEEEEcCCCCcCHHHHHHHHHHHH
Confidence            34677899999988899999999999999999999999999999999999998754

>d2f7sa1 c.37.1.8 (A:5-190) Rab27b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab27b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.60  E-value=1.3e-15  Score=93.40  Aligned_cols=61  Identities=31%  Similarity=0.335  Sum_probs=55.7

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .+.||+||.|+.+.+.|+.+++.+||++++++|||||||+|.||+++|..+++.+.++.++
T Consensus       123 ~iilv~nK~Dl~~~~~v~~~e~~~~~~~~~~~~~e~Sak~~~~i~e~f~~l~~~i~~k~~~  183 (186)
T d2f7sa1         123 DIVLIGNKADLPDQREVNERQARELADKYGIPYFETSAATGQNVEKAVETLLDLIMKRMEQ  183 (186)
T ss_dssp             EEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEEEBTTTTBTHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeeeccchhhhcchHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHHHHHHh
Confidence            3567899999998899999999999999999999999999999999999999999876543

>d2a5ja1 c.37.1.8 (A:9-181) Rab2b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab2b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=1.8e-15  Score=91.96  Aligned_cols=61  Identities=39%  Similarity=0.489  Sum_probs=55.3

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhh
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEK   68 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~   68 (101)
                      .+.||+||+|+...+.+..+++..+|+.++++|+|||||+|.||+++|..+++.++++.++
T Consensus       110 piilv~nK~D~~~~~~~~~~~~~~~a~~~~~~~~e~Sa~tg~~V~e~f~~i~~~i~~~~~~  170 (173)
T d2a5ja1         110 VIMLIGNKSDLESRRDVKREEGEAFAREHGLIFMETSAKTACNVEEAFINTAKEIYRKIQQ  170 (173)
T ss_dssp             EEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEEECTTTCTTHHHHHHHHHHHHHHHHHT
T ss_pred             eEEEEecCCchhhhhhhHHHHHHHHHHHcCCEEEEecCCCCCCHHHHHHHHHHHHHHHHHc
Confidence            3567789999988889999999999999999999999999999999999999999876543

>d1yzqa1 c.37.1.8 (A:14-177) Rab6 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab6
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.59  E-value=1e-15  Score=92.16  Aligned_cols=56  Identities=32%  Similarity=0.343  Sum_probs=51.7

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ..+.||+||+|+.+.+.+..+++.+++++++++|||||||+|.||+++|..+++.+
T Consensus       106 ~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~~v~e~f~~i~~~l  161 (164)
T d1yzqa1         106 VIIMLVGNKTDLADKRQVSIEEGERKAKELNVMFIETSAKAGYNVKQLFRRVAAAL  161 (164)
T ss_dssp             SEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHS
T ss_pred             ceEEEEecccchhhhhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHhh
Confidence            44678899999988899999999999999999999999999999999999999865

>d2ew1a1 c.37.1.8 (A:4-174) Rab30 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab30
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.58  E-value=1.3e-15  Score=92.40  Aligned_cols=59  Identities=27%  Similarity=0.330  Sum_probs=54.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ..+.||+||+|+.+.+.++.++++.+++.++++|++||||+|.||+++|..++++++..
T Consensus       111 ~~~ilvgnK~D~~~~~~v~~~~~~~~~~~~~~~~~~~SAktg~gV~e~f~~l~~~l~~~  169 (171)
T d2ew1a1         111 VITVLVGNKIDLAERREVSQQRAEEFSEAQDMYYLETSAKESDNVEKLFLDLACRLISE  169 (171)
T ss_dssp             CEEEEEEECGGGGGGCSSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHHH
T ss_pred             ccEEEEEeecccccccchhhhHHHHHHHhCCCEEEEEccCCCCCHHHHHHHHHHHHHHh
Confidence            34567899999988899999999999999999999999999999999999999998865

>d1kaoa_ c.37.1.8 (A:) Rap2a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap2a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.57  E-value=8.3e-16  Score=92.88  Aligned_cols=57  Identities=32%  Similarity=0.402  Sum_probs=52.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.|||||+|+.+.+.+..+++..+++.++++|||||||+|.||+++|..+++++.
T Consensus       109 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~~i~e~f~~i~~~i~  165 (167)
T d1kaoa_         109 VPVILVGNKVDLESEREVSSSEGRALAEEWGCPFMETSAKSKTMVDELFAEIVRQMN  165 (167)
T ss_dssp             CCEEEEEECGGGGGGCCSCHHHHHHHHHHHTSCEEEECTTCHHHHHHHHHHHHHHHH
T ss_pred             CCEEEEEEccchhhcccchHHHHHHHHHHcCCeEEEECCCCCcCHHHHHHHHHHHHc
Confidence            345678999999888999999999999999999999999999999999999998764

>d2atxa1 c.37.1.8 (A:9-193) RhoQ {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoQ
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=7.8e-15  Score=90.07  Aligned_cols=57  Identities=21%  Similarity=0.174  Sum_probs=50.7

Q ss_pred             CCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+|+||+||.+            .+.|+.+++.++|++++ +.|+|||||+|.||+++|+.+++.++
T Consensus       114 ~~~ilvgnK~Dl~~~~~~~~~~~~~~~r~v~~~~~~~~a~~~~~~~~~E~SAk~~~gv~e~F~~li~~il  183 (185)
T d2atxa1         114 VPFLLIGTQIDLRDDPKTLARLNDMKEKPICVEQGQKLAKEIGACCYVECSALTQKGLKTVFDEAIIAIL  183 (185)
T ss_dssp             CCEEEEEECTTSTTCHHHHHHHTTTTCCCCCHHHHHHHHHHHTCSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCeeEeeeccccccchhhhhhhhhcccccccHHHHHHHHHHcCCCEEEEecCCCCcCHHHHHHHHHHHHc
Confidence            45578899999853            57899999999999998 68999999999999999999999875

>d1z0fa1 c.37.1.8 (A:8-173) Rab14 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab14
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=3.4e-15  Score=90.14  Aligned_cols=57  Identities=37%  Similarity=0.413  Sum_probs=51.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||+|+...+.++.+++..+++.++++|+|||||+|.||+++|..+++.++
T Consensus       110 ~~iilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Saktg~~v~e~f~~i~~~i~  166 (166)
T d1z0fa1         110 TVIILIGNKADLEAQRDVTYEEAKQFAEENGLLFLEASAKTGENVEDAFLEAAKKIY  166 (166)
T ss_dssp             CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHC
T ss_pred             ceEEEEcccccchhhcccHHHHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHhC
Confidence            345677999999988999999999999999999999999999999999999998763

>d1r2qa_ c.37.1.8 (A:) Rab5a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab5a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.55  E-value=1.8e-15  Score=91.72  Aligned_cols=56  Identities=25%  Similarity=0.320  Sum_probs=51.5

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .+.||+||+|+.+++.|+.++++.+++.++++|+|||||+|.||+++|..+++.+.
T Consensus       113 ~iilvgnK~Dl~~~~~v~~e~~~~~~~~~~~~~~e~SAk~g~~V~e~f~~l~~~i~  168 (170)
T d1r2qa_         113 VIALSGNKADLANKRAVDFQEAQSYADDNSLLFMETSAKTSMNVNEIFMAIAKKLP  168 (170)
T ss_dssp             EEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHTSC
T ss_pred             eEEeecccccccccccccHHHHHHHHHhcCCEEEEeeCCCCCCHHHHHHHHHHHHh
Confidence            34678999999988999999999999999999999999999999999999988654

>d1ctqa_ c.37.1.8 (A:) cH-p21 Ras protein {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: cH-p21 Ras protein
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1e-14  Score=87.98  Aligned_cols=57  Identities=35%  Similarity=0.517  Sum_probs=50.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..+.+|+||+|+. .+.++.++++.|++.++++|||||||+|.||+++|..+++.+.+
T Consensus       109 ~piilv~nK~Dl~-~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~i~~~i~~  165 (166)
T d1ctqa_         109 VPMVLVGNKCDLA-ARTVESRQAQDLARSYGIPYIETSAKTRQGVEDAFYTLVREIRQ  165 (166)
T ss_dssp             CCEEEEEECTTCS-CCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CeEEEEecccccc-cccccHHHHHHHHHHhCCeEEEEcCCCCcCHHHHHHHHHHHHHh
Confidence            3467789999986 47788999999999999999999999999999999999988753

>d1wmsa_ c.37.1.8 (A:) Rab9a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab9a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.54  E-value=1.3e-14  Score=88.05  Aligned_cols=58  Identities=29%  Similarity=0.288  Sum_probs=51.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.||+||+|+.+ +.++.++++.|+++++ ++|||||||+|.||+++|..+++.++.
T Consensus       115 ~~piilVgnK~Dl~~-~~v~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~il~  173 (174)
T d1wmsa_         115 SFPFVILGNKIDISE-RQVSTEEAQAWCRDNGDYPYFETSAKDATNVAAAFEEAVRRVLA  173 (174)
T ss_dssp             TSCEEEEEECTTCSS-CSSCHHHHHHHHHHTTCCCEEECCTTTCTTHHHHHHHHHHHHHT
T ss_pred             CceEEEeccccchhh-ccCcHHHHHHHHHHcCCCeEEEEcCCCCcCHHHHHHHHHHHHhc
Confidence            345788999999964 7899999999999875 899999999999999999999998863

>d3raba_ c.37.1.8 (A:) Rab3a {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab3a
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.54  E-value=4.3e-15  Score=89.95  Aligned_cols=57  Identities=35%  Similarity=0.395  Sum_probs=52.5

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .+.+++||.|+.+.+.++.+++..+|+.++++|+|||||+|.||+++|..+++.+++
T Consensus       112 ~iivv~nK~D~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~f~~l~~~i~e  168 (169)
T d3raba_         112 QVLLVGNKCDMEDERVVSSERGRQLADHLGFEFFEASAKDNINVKQTFERLVDVICE  168 (169)
T ss_dssp             EEEEEEECTTCGGGCCSCHHHHHHHHHHHTCEEEECBTTTTBSHHHHHHHHHHHHHT
T ss_pred             eEEEEEeecccccccccchhhhHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHHhh
Confidence            345678999999889999999999999999999999999999999999999998864

>d1ky3a_ c.37.1.8 (A:) Rab-related protein ypt7p {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein ypt7p
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.54  E-value=1.1e-14  Score=88.36  Aligned_cols=59  Identities=32%  Similarity=0.306  Sum_probs=51.9

Q ss_pred             CCcEEeecCCCCCC-CCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSM-PQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~-~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ++.|++||+|+.+. +.++.+++++|++.++ .+||||||++|.||+++|..+++.++++.
T Consensus       114 piilv~nK~Dl~~~~~~v~~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~f~~l~~~~l~~~  174 (175)
T d1ky3a_         114 PFVILGNKIDAEESKKIVSEKSAQELAKSLGDIPLFLTSAKNAINVDTAFEEIARSALQQN  174 (175)
T ss_dssp             CEEEEEECTTSCGGGCCSCHHHHHHHHHHTTSCCEEEEBTTTTBSHHHHHHHHHHHHHHHH
T ss_pred             cEEEEecccchhhhhcchhHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHHhcc
Confidence            45678999999754 5688999999999987 78999999999999999999999998764

>d1z06a1 c.37.1.8 (A:32-196) Rab-33b {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-33b
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.54  E-value=3.4e-15  Score=89.79  Aligned_cols=53  Identities=30%  Similarity=0.280  Sum_probs=47.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCC---CCCHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKN---SINVEDAFFTLA   59 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~---~~~V~~~F~~~~   59 (101)
                      ..+.|||||+||.+.+.|+.+++++||+.++++|||+|||+   +.||+++|..+|
T Consensus       110 ~pi~lvgnK~Dl~~~~~v~~~~~~~~~~~~~~~~~e~SAkt~~~~~~V~e~F~~lA  165 (165)
T d1z06a1         110 IPRILVGNKCDLRSAIQVPTDLAQKFADTHSMPLFETSAKNPNDNDHVEAIFMTLA  165 (165)
T ss_dssp             CCEEEEEECTTCGGGCCSCHHHHHHHHHHTTCCEEECCSSSGGGGSCHHHHHHHHC
T ss_pred             CeEEEEeccccchhccchhHHHHHHHHHHCCCEEEEEecccCCcCcCHHHHHHHhC
Confidence            45668899999998899999999999999999999999997   459999999875

>d2ngra_ c.37.1.8 (A:) CDC42 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: CDC42
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.53  E-value=1.5e-14  Score=89.11  Aligned_cols=57  Identities=18%  Similarity=0.165  Sum_probs=48.7

Q ss_pred             CCCcEEeecCCCC------------CCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVS------------SMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~------------~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+|+||.||.            ..+.|+.+++.+||..++ ++|||||||+|.||+++|+.+++.++
T Consensus       108 ~~i~lvgnK~Dl~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~V~e~f~~l~~~~~  177 (191)
T d2ngra_         108 TPFLLVGTQIDLRDDPSTIEKLAKNKQKPITPETAEKLARDLKAVKYVECSALTQKGLKNVFDEAILAAL  177 (191)
T ss_dssp             CCEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHTTCSCEEECCTTTCTTHHHHHHHHHHHHT
T ss_pred             CceEEEeccccccccchhhhhhhhcccccccHHHHHHHHHHcCCCeEEEEeCCCCcCHHHHHHHHHHHHh
Confidence            4566789999974            346799999999999975 78999999999999999999987664

>d1c1ya_ c.37.1.8 (A:) Rap1A {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rap1A
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.52  E-value=1.4e-14  Score=87.44  Aligned_cols=56  Identities=30%  Similarity=0.482  Sum_probs=50.8

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHh-CCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEY-GIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .+.|||||+|+...+.++.+++..+++++ +++|||||||+|.||+++|..+++.|.
T Consensus       110 p~ilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~g~gv~e~F~~l~~~i~  166 (167)
T d1c1ya_         110 PMILVGNKCDLEDERVVGKEQGQNLARQWCNCAFLESSAKSKINVNEIFYDLVRQIN  166 (167)
T ss_dssp             CEEEEEECTTCGGGCCSCHHHHHHHHHHTTSCEEEECBTTTTBSHHHHHHHHHHHHT
T ss_pred             eEEEEEEecCcccccccchhHHHHHHHHhCCCEEEEEcCCCCcCHHHHHHHHHHHhc
Confidence            45778999999988999999999999985 689999999999999999999998774

>d1kmqa_ c.37.1.8 (A:) RhoA {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: RhoA
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.51  E-value=1.9e-14  Score=87.59  Aligned_cols=57  Identities=23%  Similarity=0.251  Sum_probs=49.9

Q ss_pred             CCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.|++||+|+.+            .+.++.+++..+|+.++ .+|||||||+|.||+++|+.+++.++
T Consensus       107 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~v~~~e~~~~a~~~~~~~~~E~SAkt~~gi~e~F~~i~~~~l  176 (177)
T d1kmqa_         107 VPIILVGNKKDLRNDEHTRRELAKMKQEPVKPEEGRDMANRIGAFGYMECSAKTKDGVREVFEMATRAAL  176 (177)
T ss_dssp             SCEEEEEECGGGTTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CceEEeeecccccchhhHHHHHHHhhcccccHHHHHHHHHHcCCcEEEEecCCCCcCHHHHHHHHHHHHh
Confidence            45567899999853            35799999999999998 58999999999999999999999876

>d2bmea1 c.37.1.8 (A:6-179) Rab4a {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab4a
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.49  E-value=2.1e-14  Score=87.11  Aligned_cols=61  Identities=28%  Similarity=0.249  Sum_probs=55.4

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      .++.+++||+|+...+.+..+++..+++.++++|+|+||++|.||+++|..+++.++++.+
T Consensus       111 ~piivv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gi~e~f~~l~~~i~~~~~  171 (174)
T d2bmea1         111 IVIILCGNKKDLDADREVTFLEASRFAQENELMFLETSALTGENVEEAFVQCARKILNKIE  171 (174)
T ss_dssp             CEEEEEEECGGGGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEEEecccccchhchhhhHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHHHHHHHh
Confidence            4556779999998889999999999999999999999999999999999999999987654

>d2g6ba1 c.37.1.8 (A:58-227) Rab26 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab26
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.46  E-value=9.7e-14  Score=83.86  Aligned_cols=56  Identities=41%  Similarity=0.542  Sum_probs=51.8

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .+.|++||.|+...+.++.+++..+++.++++|||+|||+|.||+++|..+++.+.
T Consensus       114 ~iilv~~k~d~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gi~e~f~~l~~~i~  169 (170)
T d2g6ba1         114 ALMLLGNKVDSAHERVVKREDGEKLAKEYGLPFMETSAKTGLNVDLAFTAIAKELK  169 (170)
T ss_dssp             EEEEEEECCSTTSCCCSCHHHHHHHHHHHTCCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             eEEEEEeeechhhcccccHHHHHHHHHHcCCEEEEEeCCCCcCHHHHHHHHHHHcC
Confidence            35677899999988999999999999999999999999999999999999998875

>d1ek0a_ c.37.1.8 (A:) Ypt51 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ypt51
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.45  E-value=2.7e-14  Score=86.33  Aligned_cols=56  Identities=36%  Similarity=0.435  Sum_probs=49.6

Q ss_pred             CCCcEEeecCCCC---CCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVS---SMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~---~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      ....+++||+|+.   ..+.|+.+++.++|+.++++|||||||+|.||+++|..+++++
T Consensus       109 ~~~~~v~nk~d~~~~~~~~~v~~~~~~~~~~~~~~~~~e~Sak~g~gV~e~F~~i~~~i  167 (170)
T d1ek0a_         109 IIIALVGNKIDMLQEGGERKVAREEGEKLAEEKGLLFFETSAKTGENVNDVFLGIGEKI  167 (170)
T ss_dssp             CEEEEEEECGGGGGSSCCCCSCHHHHHHHHHHHTCEEEECCTTTCTTHHHHHHHHHTTS
T ss_pred             cceeeeecccccccccchhhhhHHHHHHHHHHcCCEEEEecCCCCcCHHHHHHHHHHHh
Confidence            4556789999874   3589999999999999999999999999999999999998754

>d2f9la1 c.37.1.8 (A:8-182) Rab11b {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab11b
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.41  E-value=3.1e-13  Score=82.02  Aligned_cols=61  Identities=23%  Similarity=0.282  Sum_probs=54.2

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTE   67 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~   67 (101)
                      .++.||+||+|+.+.+.+..+.+..++..++.+|+||||++|.||+++|..+++.+++...
T Consensus       110 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~~i~e~f~~l~~~i~~~~~  170 (175)
T d2f9la1         110 IVIMLVGNKSDLRHLRAVPTDEARAFAEKNNLSFIETSALDSTNVEEAFKNILTEIYRIVS  170 (175)
T ss_dssp             CEEEEEEECTTCGGGCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHHHHH
T ss_pred             CcEEEEEeeecccccccchHHHHHHhhcccCceEEEEecCCCcCHHHHHHHHHHHHHHHhh
Confidence            3466789999998888888899999999999999999999999999999999999876543

>d2fu5c1 c.37.1.8 (C:3-175) Rab8a {Mouse (Mus musculus) [TaxId: 10090]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab8a
species: Mouse (Mus musculus) [TaxId: 10090]

Probab=99.41  E-value=4.8e-13  Score=81.01  Aligned_cols=60  Identities=60%  Similarity=0.817  Sum_probs=49.6

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQT   66 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~   66 (101)
                      ..+.+|+||.|+...+.+..+++..++..++++|||+||++|.||+++|..+++.+..+.
T Consensus       112 ~~iilv~~k~D~~~~~~~~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~f~~l~~~i~~k~  171 (173)
T d2fu5c1         112 VEKMILGNKCDVNDKRQVSKERGEKLALDYGIKFMETSAKANINVENAFFTLARDIKAKM  171 (173)
T ss_dssp             CEEEEEEEC--CCSCCCSCHHHHHHHHHHHTCEEEECCC---CCHHHHHHHHHHHHHHHH
T ss_pred             ceEEEEEecccchhhcccHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHHHHHHhc
Confidence            445678999999988899999999999999999999999999999999999999987654

>d1vg8a_ c.37.1.8 (A:) Rab7 {Rat (Rattus norvegicus) [TaxId: 10116]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab7
species: Rat (Rattus norvegicus) [TaxId: 10116]

Probab=99.40  E-value=4.7e-13  Score=81.69  Aligned_cols=61  Identities=31%  Similarity=0.344  Sum_probs=51.1

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      .+.||+||+||.+ +.+..+++..++.. ++++|+|||||+|.||+++|..+++.++++....
T Consensus       113 p~ilv~nK~Dl~~-~~~~~~~~~~~~~~~~~~~~~e~Sak~~~gI~e~f~~l~~~i~~~~~~~  174 (184)
T d1vg8a_         113 PFVVLGNKIDLEN-RQVATKRAQAWCYSKNNIPYFETSAKEAINVEQAFQTIARNALKQETEV  174 (184)
T ss_dssp             CEEEEEECTTSSC-CCSCHHHHHHHHHHTTSCCEEECBTTTTBSHHHHHHHHHHHHHHHHHHH
T ss_pred             CEEEEEEeecccc-cchhHHHHHHHHHHhcCCeEEEEcCCCCcCHHHHHHHHHHHHHhccccc
Confidence            4678899999965 66778888888765 5789999999999999999999999998865443

>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=99.39  E-value=8.8e-14  Score=84.97  Aligned_cols=59  Identities=27%  Similarity=0.323  Sum_probs=50.6

Q ss_pred             cCCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCC-HHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSIN-VEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~-V~~~F~~~~~~i~~   64 (101)
                      +..+.|||||+|+..            .+.|+.+++..+|++++ ..|||||||+|.| |+++|..+++.+++
T Consensus       106 ~~~iilVgnK~Dl~~~~~~~~~~~~~~~~~V~~~e~~~~a~~~~~~~y~E~SAk~~~n~i~~~F~~~~~~~l~  178 (179)
T d1m7ba_         106 NTKMLLVGCKSDLRTDVSTLVELSNHRQTPVSYDQGANMAKQIGAATYIECSALQSENSVRDIFHVATLACVN  178 (179)
T ss_dssp             TCEEEEEEECGGGGGCHHHHHHHHTTTCCCCCHHHHHHHHHHHTCSEEEECBTTTBHHHHHHHHHHHHHHHHT
T ss_pred             cceEEEEEecccccccchhhHHHhhhhcCcchHHHHHHHHHHhCCCeEEEEeCCCCCcCHHHHHHHHHHHHhc
Confidence            345678899999852            56799999999999998 5799999999986 99999999998874

>d2bcgy1 c.37.1.8 (Y:3-196) GTPase Ytp1 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: GTPase Ytp1
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.39  E-value=1.1e-12  Score=80.88  Aligned_cols=63  Identities=30%  Similarity=0.351  Sum_probs=56.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      ..+.|++||.|+.+.+.+..+++..++..+++.|+|+||++|.||+++|..+++.+.+.....
T Consensus       112 ~~iilv~nK~D~~~~~~~~~~~~~~~~~~~~~~~~e~SAk~g~gi~e~f~~l~~~i~~~~~~~  174 (194)
T d2bcgy1         112 VLKLLVGNKCDLKDKRVVEYDVAKEFADANKMPFLETSALDSTNVEDAFLTMARQIKESMSQQ  174 (194)
T ss_dssp             CEEEEEEECTTCTTTCCSCHHHHHHHHHHTTCCEEECCTTTCTTHHHHHHHHHHHHHHHCCHH
T ss_pred             ceEEEEEeccccccccchhHHHHhhhhhccCcceEEEecCcCccHHHHHHHHHHHHHHHhhhc
Confidence            345678999999999999999999999999999999999999999999999999998755443

>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=99.39  E-value=5e-13  Score=81.48  Aligned_cols=62  Identities=19%  Similarity=0.282  Sum_probs=51.8

Q ss_pred             CCcEEeecCCCC--CCCCCCHHHHHHHHHH-hCCeEEEeccCCCCCHHHHHHHHHHHHHHHHhhh
Q psy17493          8 KSKYIEVPNFVS--SMPQVSRERGEQLAIE-YGIKFMETSAKNSINVEDAFFTLARDIKAQTEKK   69 (101)
Q Consensus         8 ~~~lv~nk~Dl~--~~~~v~~~~~~~~a~~-~~~~~~etSAk~~~~V~~~F~~~~~~i~~~~~~~   69 (101)
                      .+.||++|+|++  ..+.|+.+++..|+.+ ++++|||||||+|.||+++|..+++.++......
T Consensus       108 pi~lV~~k~d~d~~~~~~v~~~~~~~~~~~~~~~~~~e~SAk~~~~v~~~F~~l~~~i~~~~~~~  172 (175)
T d2bmja1         108 ALALVGTQDRISASSPRVVGDARARALCADMKRCSYYETCATYGLNVDRVFQEVAQKVVTLRKQQ  172 (175)
T ss_dssp             EEEEEEECTTCCSSSCCCSCHHHHHHHHHTSTTEEEEEEBTTTTBTHHHHHHHHHHHHHHHHHHH
T ss_pred             cEEEEeeecCcchhhhcchhHHHHHHHHHHhCCCeEEEeCCCCCcCHHHHHHHHHHHHHHhhhhc
Confidence            356788888775  4678999999999765 5689999999999999999999999998765443

>d1i2ma_ c.37.1.8 (A:) Ran {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Ran
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=1.7e-13  Score=82.90  Aligned_cols=57  Identities=18%  Similarity=0.177  Sum_probs=48.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      ..++.|||||+|+...+..  +++..++..++++|||||||+|.||+++|..+++.++.
T Consensus       107 ~~piilvgnK~Dl~~~~~~--~~~~~~~~~~~~~~~e~Sak~~~~v~e~f~~l~~~l~~  163 (170)
T d1i2ma_         107 NIPIVLCGNKVDIKDRKVK--AKSIVFHRKKNLQYYDISAKSNYNFEKPFLWLARKLIG  163 (170)
T ss_dssp             SCCEEEEEECCCCSCSCCT--TTSHHHHSSCSSEEEEEBTTTTBTTTHHHHHHHHHHHT
T ss_pred             CCceeeecchhhhhhhhhh--hHHHHHHHHcCCEEEEEeCCCCCCHHHHHHHHHHHHcc
Confidence            3456778999999765544  45678899999999999999999999999999998874

>d1mh1a_ c.37.1.8 (A:) Rac {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rac
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.37  E-value=3.6e-13  Score=82.21  Aligned_cols=57  Identities=19%  Similarity=0.261  Sum_probs=49.3

Q ss_pred             CCCcEEeecCCCCC------------CCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSS------------MPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~------------~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.||+||+|+.+            .+.+...++..+|+.++ +.|||||||+|.||+++|..+++.++
T Consensus       110 ~piilvgnK~Dl~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~~~E~SAk~~~~V~e~F~~l~~~il  179 (183)
T d1mh1a_         110 TPIILVGTKLDLRDDKDTIEKLKEKKLTPITYPQGLAMAKEIGAVKYLECSALTQRGLKTVFDEAIRAVL  179 (183)
T ss_dssp             SCEEEEEECHHHHTCHHHHHHHHHTTCCCCCHHHHHHHHHHTTCSEEEECCTTTCTTHHHHHHHHHHHHS
T ss_pred             CcEEEEeecccchhhhhhhhhhhhccccchhhHHHHHHHHHcCCceEEEcCCCCCcCHHHHHHHHHHHHc
Confidence            45677899999743            34577889999999988 78999999999999999999999886

>d1x3sa1 c.37.1.8 (A:2-178) Rab18 {Human (Homo sapiens) [TaxId: 9606]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab18
species: Human (Homo sapiens) [TaxId: 9606]

Probab=99.29  E-value=4.5e-12  Score=76.87  Aligned_cols=57  Identities=25%  Similarity=0.217  Sum_probs=50.8

Q ss_pred             CCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          8 KSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         8 ~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+.+++||.|.. .+.+..+++.++++.+++.||++||++|.||+++|..+++.+++.
T Consensus       115 ~i~~~~nk~d~~-~~~v~~~~~~~~~~~~~~~~~e~Sa~tg~gv~e~f~~l~~~l~~~  171 (177)
T d1x3sa1         115 VNMLVGNKIDKE-NREVDRNEGLKFARKHSMLFIEASAKTCDGVQCAFEELVEKIIQT  171 (177)
T ss_dssp             EEEEEEECTTSS-SCCSCHHHHHHHHHHTTCEEEECCTTTCTTHHHHHHHHHHHHHTS
T ss_pred             eeEEEeeccccc-cccccHHHHHHHHHHCCCEEEEEeCCCCCCHHHHHHHHHHHHccC
Confidence            345778999964 588999999999999999999999999999999999999988854

>d1g16a_ c.37.1.8 (A:) Rab-related protein Sec4 {Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]}

class: Alpha and beta proteins (a/b)
fold: P-loop containing nucleoside triphosphate hydrolases
superfamily: P-loop containing nucleoside triphosphate hydrolases
family: G proteins
domain: Rab-related protein Sec4
species: Baker's yeast (Saccharomyces cerevisiae) [TaxId: 4932]

Probab=99.21  E-value=2.1e-11  Score=72.98  Aligned_cols=54  Identities=41%  Similarity=0.550  Sum_probs=47.7

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .++++|.|+. .+.+..+++..++++++++|++|||++|.||+++|..+++.+.+
T Consensus       111 i~~~~k~d~~-~~~~~~~~~~~~~~~~~~~~~~~Sa~~~~~v~e~f~~l~~~i~~  164 (166)
T d1g16a_         111 LLVGNKSDME-TRVVTADQGEALAKELGIPFIESSAKNDDNVNEIFFTLAKLIQE  164 (166)
T ss_dssp             EEEEECTTCT-TCCSCHHHHHHHHHHHTCCEEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             eeecchhhhh-hhhhhHHHHHHHHHhcCCeEEEECCCCCCCHHHHHHHHHHHHHh
Confidence            4467788875 47788999999999999999999999999999999999998865

>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=99.03  E-value=1.1e-11  Score=75.34  Aligned_cols=58  Identities=10%  Similarity=0.009  Sum_probs=42.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHH-----HHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQ-----LAIEYGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~-----~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.++.+++||+|+.+  .++.++...     .+..+++.||+|||++|.||+++|+.+++.+.++
T Consensus       118 ~~piliv~NK~Dl~~--~~~~~~i~~~~~~~~~~~~~~~~~e~SA~~g~gv~e~~~~l~~~i~~~  180 (182)
T d1moza_         118 DAALLVFANKQDQPG--ALSASEVSKELNLVELKDRSWSIVASSAIKGEGITEGLDWLIDVIKEE  180 (182)
T ss_dssp             SCEEEEEEECTTSTT--CCCHHHHHHHTTTTTCCSSCEEEEEEBGGGTBTHHHHHHHHHHHHHHH
T ss_pred             CcceEEEEEeecccc--ccCHHHHHHHHHHHHHhhCCCEEEEEECCCCCCHHHHHHHHHHHHHHc
Confidence            456677899999864  333333322     2334456799999999999999999999888654

>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=99.00  E-value=3.8e-11  Score=71.14  Aligned_cols=57  Identities=12%  Similarity=0.077  Sum_probs=41.9

Q ss_pred             CCCcEEeecCCCCCCCC---CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQ---VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      ..+.+++||.|+.+...   +....+..++...+++||++||++|.||+++|..+++.+.
T Consensus       107 ~~i~iv~nk~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~~~SA~~g~gv~e~~~~l~~~l~  166 (169)
T d1upta_         107 AILVVFANKQDMEQAMTSSEMANSLGLPALKDRKWQIFKTSATKGTGLDEAMEWLVETLK  166 (169)
T ss_dssp             CEEEEEEECTTSTTCCCHHHHHHHHTGGGCTTSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             ceEEEEEeeccccccccHHHHHHHHHHHHHhcCCCEEEEEeCCCCCCHHHHHHHHHHHHH
Confidence            44567889999975332   2223333445556688999999999999999999998764

>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=98.92  E-value=2.6e-10  Score=67.94  Aligned_cols=56  Identities=9%  Similarity=-0.072  Sum_probs=40.0

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH-----HHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA-----IEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a-----~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      +.++.+|+||.|+.+...+.  +.....     ...++.||+|||++|.||+++|+.+.+.+.
T Consensus       103 ~~p~iiv~nK~Dl~~~~~~~--~~~~~~~~~~~~~~~~~~~~~Sa~~g~gv~e~~~~l~~~i~  163 (165)
T d1ksha_         103 GATLLIFANKQDLPGALSCN--AIQEALELDSIRSHHWRIQGCSAVTGEDLLPGIDWLLDDIS  163 (165)
T ss_dssp             TCEEEEEEECTTSTTCCCHH--HHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             CCceEEEEeccccccccCHH--HHHHHHHhhhhhcCCCEEEEEECCCCCCHHHHHHHHHHHHH
Confidence            45567789999997544433  332221     122457999999999999999999988775

>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=98.89  E-value=1.1e-10  Score=70.34  Aligned_cols=56  Identities=5%  Similarity=-0.022  Sum_probs=37.9

Q ss_pred             cCCCcEEeecCCCCCCCC---CCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQ---VSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~---v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ...+.+++||+|+.+...   +....+...+...++.||+|||++|+||+++|+.|...
T Consensus       113 ~~piiiv~NK~Dl~~~~~~~~i~~~~~~~~~~~~~~~~~e~SA~tg~gv~e~~~~l~~~  171 (173)
T d1e0sa_         113 DAIILIFANKQDLPDAMKPHEIQEKLGLTRIRDRNWYVQPSCATSGDGLYEGLTWLTSN  171 (173)
T ss_dssp             TCEEEEEEECTTSTTCCCHHHHHHHTTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             cceeeeeeecccccccccHHHHHHHHHHHHHHhCCCEEEEeeCCCCcCHHHHHHHHHHh
Confidence            345567899999964222   11222222233345679999999999999999999765

>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=98.86  E-value=3.5e-10  Score=67.92  Aligned_cols=53  Identities=8%  Similarity=-0.036  Sum_probs=37.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHH-----HHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQ-----LAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~-----~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++.|++||.|+.+...  ..+..+     +++..+..||+|||++|.||+++|+.+++.
T Consensus       118 ~pillv~nK~Dl~~~~~--~~~~~~~~~~~~~~~~~~~~~~~SA~tg~gv~e~~~~l~~~  175 (176)
T d1fzqa_         118 VPVLIFANKQDLLTAAP--ASEIAEGLNLHTIRDRVWQIQSCSALTGEGVQDGMNWVCKN  175 (176)
T ss_dssp             CCEEEEEECTTSTTCCC--HHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             CeEEEEEEecccccccc--HHHHHHHHHHHHHHhcCCEEEEEeCCCCCCHHHHHHHHHhc
Confidence            45566799999975322  222221     223345679999999999999999998864

>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=98.85  E-value=4.3e-10  Score=67.36  Aligned_cols=55  Identities=5%  Similarity=-0.072  Sum_probs=39.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHH-----HHHhCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQL-----AIEYGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~-----a~~~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.||+||+|+...  ...++....     +...+++|+++||++|.||+++|+.+++.+
T Consensus       116 ~~p~iiv~nK~Dl~~~--~~~~~i~~~~~~~~~~~~~~~~~~~Sa~tg~Gi~e~~~~L~~~l  175 (177)
T d1zj6a1         116 KAGLLIFANKQDVKEC--MTVAEISQFLKLTSIKDHQWHIQACCALTGEGLCQGLEWMMSRL  175 (177)
T ss_dssp             TCEEEEEEECTTSTTC--CCHHHHHHHHTGGGCCSSCEEEEECBTTTTBTHHHHHHHHHHHH
T ss_pred             ceEEEEEEEccccccc--CcHHHHHHHHHHHhhHhcCCEEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4566788999998643  222333222     223346799999999999999999998764

>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=98.84  E-value=8.3e-11  Score=69.22  Aligned_cols=55  Identities=7%  Similarity=-0.040  Sum_probs=39.3

Q ss_pred             CCCcEEeecCCCCCCC---CCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMP---QVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~---~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ..+.+++||.|+.+..   ++....+..+++..++.|+++|||+|.||+++|+.++++
T Consensus       102 ~~i~~v~~k~d~~~~~~~~~i~~~~~~~~~~~~~~~~~~~SAktg~gi~e~~~~l~~~  159 (160)
T d1r8sa_         102 AVLLVFANKQDLPNAMNAAEITDKLGLHSLRHRNWYIQATCATSGDGLYEGLDWLSNQ  159 (160)
T ss_dssp             CEEEEEEECTTSTTCCCHHHHHHHTTGGGCSSCCEEEEECBTTTTBTHHHHHHHHHHH
T ss_pred             ceEEEEeecccccccccHHHHHHHHHHHHHhhCCCEEEEeECCCCCCHHHHHHHHHhc
Confidence            3456778899876422   222233334555567889999999999999999999875

>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=98.76  E-value=3e-10  Score=67.75  Aligned_cols=54  Identities=11%  Similarity=-0.010  Sum_probs=37.5

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHH-H----HHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERG-E----QLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~-~----~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.||+||.|+.+..  ...+. .    .+++..++.||++||++|.||+++|..|++.
T Consensus       104 ~~pi~lv~nK~Dl~~~~--~~~~i~~~~~~~~~~~~~~~~~e~Sa~~g~gv~e~~~~l~~~  162 (164)
T d1zd9a1         104 GIPVLVLGNKRDLPGAL--DEKELIEKMNLSAIQDREICCYSISCKEKDNIDITLQWLIQH  162 (164)
T ss_dssp             TCCEEEEEECTTSTTCC--CHHHHHHHTTGGGCCSSCEEEEECCTTTCTTHHHHHHHHHHT
T ss_pred             CCcEEEEEeccccchhh--hHHHHHHHHHHHHHHhCCCEEEEEeCcCCcCHHHHHHHHHHc
Confidence            34567889999986422  22222 2    2233345689999999999999999988764

>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=98.67  E-value=1.6e-08  Score=60.82  Aligned_cols=55  Identities=11%  Similarity=-0.062  Sum_probs=41.0

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIK   63 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~   63 (101)
                      .++.+|+||+|+.+...+  ++........+.++|.+||++|.||+++|..+.+.+.
T Consensus       114 ~p~iiv~NK~D~~~~~~~--~~~~~~~~~~~~~~~~iSA~tg~gid~L~~~i~~~l~  168 (180)
T d1udxa2         114 RPSLVALNKVDLLEEEAV--KALADALAREGLAVLPVSALTGAGLPALKEALHALVR  168 (180)
T ss_dssp             SCEEEEEECCTTSCHHHH--HHHHHHHHTTTSCEEECCTTTCTTHHHHHHHHHHHHH
T ss_pred             hhhhhhhhhhhhhhHHHH--HHHHHHHHhcCCeEEEEEcCCCCCHHHHHHHHHHHHh
Confidence            456778999998653222  2334444566889999999999999999998877653

>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=98.54  E-value=1.3e-08  Score=60.78  Aligned_cols=57  Identities=14%  Similarity=0.076  Sum_probs=38.6

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+.+  ....+....+.+.....++++|||+|.||+++++.+.+.+.+
T Consensus       109 ~~pviiv~NK~Dl~~--~~~~~~~~~~~~~~~~~~i~iSAk~g~gid~L~~~i~~~l~e  165 (171)
T d1mkya1         109 TVDTILVANKAENLR--EFEREVKPELYSLGFGEPIPVSAEHNINLDTMLETIIKKLEE  165 (171)
T ss_dssp             TCCEEEEEESCCSHH--HHHHHTHHHHGGGSSCSCEECBTTTTBSHHHHHHHHHHHHHH
T ss_pred             cccccccchhhhhhh--hhhhHHHHHHHhcCCCCeEEEecCCCCCHHHHHHHHHHhCCC
Confidence            556778899999852  111122222222223457899999999999999999887654

>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=98.39  E-value=2e-07  Score=55.97  Aligned_cols=52  Identities=12%  Similarity=0.100  Sum_probs=39.3

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.+|+||+|+.+.    .+..+.+.+..  +.++|.+||++|.||++++..+++.+
T Consensus       118 kp~ivv~NK~Dl~~~----~~~~~~~~~~~~~~~~v~~iSA~~g~Gi~~L~~~i~~~L  171 (185)
T d1lnza2         118 RPQIIVANKMDMPEA----AENLEAFKEKLTDDYPVFPISAVTREGLRELLFEVANQL  171 (185)
T ss_dssp             SCBCBEEECTTSTTH----HHHHHHHHHHCCSCCCBCCCSSCCSSTTHHHHHHHHHHH
T ss_pred             CcchhhccccchHhH----HHHHHHHHHHhccCCcEEEEECCCCCCHHHHHHHHHHhh
Confidence            346788999998642    23344555554  47899999999999999999988765

>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=98.38  E-value=9.4e-09  Score=60.57  Aligned_cols=49  Identities=10%  Similarity=0.020  Sum_probs=36.2

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.+|+||+||.+....       +.+..+.++|++|||+|.||++++..+++.
T Consensus       112 ~~~iilv~NK~Dl~~~~~~-------~~~~~~~~~~~iSAk~~~gi~~L~~~l~~~  160 (161)
T d2gj8a1         112 KLPITVVRNKADITGETLG-------MSEVNGHALIRLSARTGEGVDVLRNHLKQS  160 (161)
T ss_dssp             TCCEEEEEECHHHHCCCCE-------EEEETTEEEEECCTTTCTTHHHHHHHHHHH
T ss_pred             ccceeeccchhhhhhhHHH-------HHHhCCCcEEEEECCCCCCHHHHHHHHHhh
Confidence            3445678999998543221       112345789999999999999999999875

>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=98.36  E-value=2.5e-07  Score=54.89  Aligned_cols=54  Identities=13%  Similarity=-0.007  Sum_probs=36.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH-----------------hCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE-----------------YGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~-----------------~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +..+.|++||.|+..  .+...+.......                 .++.||++||++|+||+++|+-+++.
T Consensus       114 ~~~~li~~~K~D~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gi~e~~~~l~~~  184 (186)
T d1f6ba_         114 NVPILILGNKIDRPE--AISEERLREMFGLYGQTTGKGSVSLKELNARPLEVFMCSVLKRQGYGEGFRWMAQY  184 (186)
T ss_dssp             TSCEEEEEECTTSTT--CCCHHHHHHHHTCTTTCCCSSCCCTTTCCSCCEEEEECBTTTTBSHHHHHHHHHTT
T ss_pred             CCceEEEEeccCccc--cCCHHHHHHHHhhcccchhhhhhhHHHhhcCCCEEEEEeCCCCCCHHHHHHHHHHh
Confidence            445567788999753  3444443333221                 12468999999999999999988764

>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=98.32  E-value=7.8e-09  Score=62.57  Aligned_cols=28  Identities=21%  Similarity=0.114  Sum_probs=24.7

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.+|+||||+|.||+++|..+.+.|++.
T Consensus       170 ~~~~~tSAk~~~ni~~vF~~i~~~I~~~  197 (200)
T d2bcjq2         170 IYSHFTCATDTENIRFVFAAVKDTILQL  197 (200)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeEEEcCHhHHHHHHHHHHHHHHH
Confidence            4578999999999999999998888764

>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=98.30  E-value=3.5e-07  Score=53.06  Aligned_cols=50  Identities=12%  Similarity=-0.065  Sum_probs=33.3

Q ss_pred             CcEEeecCCCCCCCCCCHHHHHHHH------------HHhCCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSRERGEQLA------------IEYGIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~~~~~~~a------------~~~~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +.++++|.|+..  .+...+.....            ...++.||+|||++|+||+++|+.|++
T Consensus       104 i~i~~~k~d~~~--~~~~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~SA~tg~Gv~e~~~~l~~  165 (166)
T d2qtvb1         104 FVILGNKIDAPN--AVSEAELRSALGLLNTTGSQRIEGQRPVEVFMCSVVMRNGYLEAFQWLSQ  165 (166)
T ss_dssp             EEEEEECTTSSS--CCCHHHHHHHHTCSSCCC---CCSSCCEEEEEEBTTTTBSHHHHHHHHTT
T ss_pred             EEEEeccccccc--cCCHHHHHHHhhhhhhhHHHhhcccCCCEEEEeeCCCCCCHHHHHHHHhC
Confidence            456788999853  33333332211            122346999999999999999998764

>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=98.29  E-value=1.1e-07  Score=56.94  Aligned_cols=53  Identities=9%  Similarity=-0.143  Sum_probs=39.1

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .++.+|+||+|+...   ..+....+.+..+ ..++.+||++|.||+++|+.+++.+
T Consensus       116 ~piilv~NK~Dl~~~---~~~~~~~~~~~~~~~~~~~iSA~~~~gi~~L~~~i~~~l  169 (178)
T d1wf3a1         116 VPILLVGNKLDAAKY---PEEAMKAYHELLPEAEPRMLSALDERQVAELKADLLALM  169 (178)
T ss_dssp             SCEEEEEECGGGCSS---HHHHHHHHHHTSTTSEEEECCTTCHHHHHHHHHHHHTTC
T ss_pred             hhhhhhhcccccccC---HHHHHHHHHhhcccCceEEEecCCCCCHHHHHHHHHHhC
Confidence            346778999998542   2333455556555 5689999999999999999997644

>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=98.25  E-value=1e-06  Score=52.64  Aligned_cols=58  Identities=14%  Similarity=-0.055  Sum_probs=40.7

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh-----CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY-----GIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~-----~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||.|+........++......+.     .++++.+||++|.||+++|..+.+ .++
T Consensus       120 ~~~~i~v~nK~D~~~~~~~~~~~~~~~~~~~~~~~~~~~i~~vSa~~g~gv~~L~~~i~~-~~~  182 (186)
T d1mkya2         120 GRASVVVFNKWDLVVHREKRYDEFTKLFREKLYFIDYSPLIFTSADKGWNIDRMIDAMNL-AYA  182 (186)
T ss_dssp             TCEEEEEEECGGGSTTGGGCHHHHHHHHHHHCGGGTTSCEEECBTTTTBSHHHHHHHHHH-HHH
T ss_pred             CCceeeeccchhhhcchhhhhhhHHHHHHHHhcccCCCeEEEEeCCCCCCHHHHHHHHHH-HHH
Confidence            4566778999998655544445444433332     257899999999999999998854 443

>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=98.15  E-value=2.3e-06  Score=51.64  Aligned_cols=56  Identities=7%  Similarity=-0.009  Sum_probs=38.9

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh----CCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY----GIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~----~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      +.++.+|+||+|+...... .+....+.+.+    +.+++.+||++|.||+++|..+.+.+
T Consensus       134 ~~piivv~NK~D~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~SA~~~~gi~el~~~i~~~l  193 (195)
T d1svia_         134 GIPVIVIATKADKIPKGKW-DKHAKVVRQTLNIDPEDELILFSSETKKGKDEAWGAIKKMI  193 (195)
T ss_dssp             TCCEEEEEECGGGSCGGGH-HHHHHHHHHHHTCCTTSEEEECCTTTCTTHHHHHHHHHHHH
T ss_pred             cCcceechhhccccCHHHH-HHHHHHHHHHhcccCCCCEEEEeCCCCCCHHHHHHHHHHHh
Confidence            4456778999997543322 22333333333    35789999999999999999988765

>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=98.13  E-value=3e-06  Score=49.32  Aligned_cols=51  Identities=14%  Similarity=0.085  Sum_probs=36.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      ...+.+++||.|+.+.  ...++   .....  +.++|.+|||+|.||+++|+.+.++
T Consensus       107 ~~~~i~~~~k~d~~~~--~~~~~---~~~~~~~~~~~~~vSA~~g~gi~~L~~~I~ke  159 (160)
T d1xzpa2         107 NKRYLVVINKVDVVEK--INEEE---IKNKLGTDRHMVKISALKGEGLEKLEESIYRE  159 (160)
T ss_dssp             TSSEEEEEEECSSCCC--CCHHH---HHHHHTCSTTEEEEEGGGTCCHHHHHHHHHHH
T ss_pred             cccceeeeeeccccch--hhhHH---HHHHhCCCCcEEEEECCCCCCHHHHHHHHHhc
Confidence            3456777899998653  22322   22333  3679999999999999999988653

>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=98.12  E-value=9e-07  Score=52.94  Aligned_cols=28  Identities=25%  Similarity=0.123  Sum_probs=24.1

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.|++|||++|.||+++|..+.+.|+++
T Consensus       167 ~~~~~tSA~~~~nv~~~F~~v~~~il~~  194 (195)
T d1svsa1         167 IYTHFTCATDTKNVQFVFDAVTDVIIKN  194 (195)
T ss_dssp             EEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             ceeEEEEeECCHhHHHHHHHHHHHHHhc
Confidence            4577999999999999999998877653

>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=98.10  E-value=8e-07  Score=52.75  Aligned_cols=56  Identities=11%  Similarity=-0.008  Sum_probs=39.9

Q ss_pred             CCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-CeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493          7 TKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-IKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus         7 ~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+..++.||.|+...+.........+....+ .++|.+||++|.||+++|..+++.+
T Consensus       114 ~~~i~v~~k~d~~~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l  170 (179)
T d1egaa1         114 APVILAVNKVDNVQEKADLLPHLQFLASQMNFLDIVPISAETGLNVDTIAAIVRKHL  170 (179)
T ss_dssp             SCEEEEEESTTTCCCHHHHHHHHHHHHTTSCCSEEEECCTTTTTTHHHHHHHHHTTC
T ss_pred             CceeeeeeeeeccchhhhhhhHhhhhhhhcCCCCEEEEeCcCCCCHHHHHHHHHHhC
Confidence            3456677888765443333344555666666 5799999999999999999887643

>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=98.10  E-value=4.8e-06  Score=49.79  Aligned_cols=59  Identities=8%  Similarity=0.029  Sum_probs=38.8

Q ss_pred             cCCCcEEeecCCCCCCCCCC--HHHHHHHHHH-h---CCeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVS--RERGEQLAIE-Y---GIKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~--~~~~~~~a~~-~---~~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +-++.++.||.|+.......  .+....+.+. +   +.++|.+||++|.||+++++.++..+.+
T Consensus       111 ~~p~iiv~NKiD~~~~~~~~~~~~~~~~~~~~~~~~~~~~iv~iSA~~g~gi~eL~~~I~~~l~~  175 (179)
T d1wb1a4         111 NIPIIVVITKSDNAGTEEIKRTEMIMKSILQSTHNLKNSSIIPISAKTGFGVDELKNLIITTLNN  175 (179)
T ss_dssp             TCCBCEEEECTTSSCHHHHHHHHHHHHHHHHHSSSGGGCCEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCcceeccccccccCHHHHHHHHHHHHHHHHHhhcCCCCeEEEEEccCCcCHHHHHHHHHhcCCc
Confidence            55678899999985422111  1111222222 2   3578999999999999999999876643

>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=98.06  E-value=2.1e-06  Score=51.69  Aligned_cols=28  Identities=21%  Similarity=0.152  Sum_probs=24.0

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      +.+++|||+++.||+++|..+.+.|++.
T Consensus       170 iy~~~TsA~d~~ni~~vf~~v~d~i~~~  197 (200)
T d1zcba2         170 LYHHFTTAINTENIRLVFRDVKDTILHD  197 (200)
T ss_dssp             CEEEECCTTCHHHHHHHHHHHHHHHHHH
T ss_pred             eEEEEeeeeCcHHHHHHHHHHHHHHHHH
Confidence            4567899999999999999988877764

>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=98.05  E-value=5.2e-06  Score=49.28  Aligned_cols=56  Identities=18%  Similarity=-0.009  Sum_probs=37.8

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHhC-------CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEYG-------IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~~-------~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      +.++.+|+||+|+....   .+....+++..+       ..++.+||++|.||+++++.+.+.+.+
T Consensus       121 ~~p~iiv~NK~D~~~~~---~~~~~~~~~~~~~~~~~~~~~~~~vSA~~g~gi~~L~~~i~~~l~e  183 (184)
T d2cxxa1         121 DIPTIVAVNKLDKIKNV---QEVINFLAEKFEVPLSEIDKVFIPISAKFGDNIERLKNRIFEVIRE  183 (184)
T ss_dssp             TCCEEEEEECGGGCSCH---HHHHHHHHHHHTCCGGGHHHHEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CCCEEEEEeeeehhhhH---HHHHHHHHHHhcccccccCCeEEEEECCCCCCHHHHHHHHHHHccC
Confidence            34567789999975322   122223333332       248899999999999999999877653

>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=97.64  E-value=2e-05  Score=46.42  Aligned_cols=54  Identities=7%  Similarity=-0.057  Sum_probs=34.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHH---h--CCeEEEeccCCCCCHHHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIE---Y--GIKFMETSAKNSINVEDAFFTLAR   60 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~---~--~~~~~etSAk~~~~V~~~F~~~~~   60 (101)
                      +....+++||.|+.+..... .....+.+.   +  ..+++.+||++|.||++++..|..
T Consensus       127 ~~~~~~v~~k~D~~~~~~~~-~~~~~~~~~l~~~~~~~~~i~vSA~~g~Gid~L~~~i~~  185 (188)
T d1puia_         127 NIAVLVLLTKADKLASGARK-AQLNMVREAVLAFNGDVQVETFSSLKKQGVDKLRQKLDT  185 (188)
T ss_dssp             TCCEEEEEECGGGSCHHHHH-HHHHHHHHHHGGGCSCEEEEECBTTTTBSHHHHHHHHHH
T ss_pred             cccccchhhhhhccCHHHHH-HHHHHHHHHHHhhCCCCcEEEEeCCCCCCHHHHHHHHHH
Confidence            34556678999975321111 112222222   2  246899999999999999988754

>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=97.41  E-value=0.00019  Score=46.77  Aligned_cols=53  Identities=2%  Similarity=-0.069  Sum_probs=35.3

Q ss_pred             cEEeecCCCCCCCCCCHHHHHHHHHH----------hCCeEEEeccCCCCCHHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVSRERGEQLAIE----------YGIKFMETSAKNSINVEDAFFTLARDI   62 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~~~~~~~~a~~----------~~~~~~etSAk~~~~V~~~F~~~~~~i   62 (101)
                      .+|.||.|+.+...........+...          +..+.+.|||++|.||++++..+-+..
T Consensus       193 i~vvNKaD~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~p~V~~~Sa~~g~Gi~el~~~I~~~~  255 (323)
T d2qm8a1         193 MIAVNKADDGDGERRASAAASEYRAALHILTPPSATWTPPVVTISGLHGKGLDSLWSRIEDHR  255 (323)
T ss_dssp             EEEEECCSTTCCHHHHHHHHHHHHHHHTTBCCSBTTBCCCEEEEBTTTTBSHHHHHHHHHHHH
T ss_pred             eeeEeccccccchHHHHHHHHHHHHHhhcccccccCCCCceEEEEecCCCCHHHHHHHHHHHH
Confidence            35689999864333322222233322          345799999999999999999886543

>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=97.34  E-value=3.5e-05  Score=46.47  Aligned_cols=53  Identities=6%  Similarity=-0.092  Sum_probs=34.4

Q ss_pred             CcEEeecCCCCCCCCC--CHHHHHHHHHHhC---CeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQV--SRERGEQLAIEYG---IKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v--~~~~~~~~a~~~~---~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.||.|+.+....  ..+....+....+   ++|+.+||++|.||+++.+.+...
T Consensus       135 iiv~inK~D~~d~~~~~~~~~~~~~~~~~~~~~~~~iIpiSA~~G~ni~~Ll~~I~~~  192 (195)
T d1kk1a3         135 IIIAQNKIELVDKEKALENYRQIKEFIEGTVAENAPIIPISALHGANIDVLVKAIEDF  192 (195)
T ss_dssp             EEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             ceeeeecccchhhHHHHHHHHHHHHHhccccCCCCeEEEEECCCCCCHHHHHHHHHHH
Confidence            3445889998653221  1223333444332   679999999999999998877653

>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=97.33  E-value=6.1e-05  Score=45.78  Aligned_cols=53  Identities=13%  Similarity=0.059  Sum_probs=33.8

Q ss_pred             CcEEeecCCCCCCCCCC--HHHHHHHHHHh---CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVS--RERGEQLAIEY---GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~--~~~~~~~a~~~---~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      +.++.||.|+.+.....  ..+...+....   +++++.+||++|.||+++++.+...
T Consensus       143 iIV~vNK~Dl~~~~~~~~~~~~~~~~l~~~~~~~~p~ipiSA~~g~nI~~L~e~i~~~  200 (205)
T d2qn6a3         143 LIIVQNKVDVVSKEEALSQYRQIKQFTKGTWAENVPIIPVSALHKINIDSLIEGIEEY  200 (205)
T ss_dssp             EEEEEECGGGSCHHHHHHHHHHHHHHHTTSTTTTCCEEECBTTTTBSHHHHHHHHHHH
T ss_pred             eeeccccCCCccchHHHHHHHHHHHHhccccCCCCeEEEEeCCCCCChHHHHHHHHhh
Confidence            34558999986422111  11222222222   2679999999999999999887653

>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=96.98  E-value=0.00046  Score=42.41  Aligned_cols=27  Identities=11%  Similarity=0.111  Sum_probs=22.1

Q ss_pred             CeEEEeccCCCCCHHHHHHHHHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFFTLARDIKA   64 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~~~~~~i~~   64 (101)
                      .+++.+||++|.||+++++.+.....+
T Consensus       192 ~~i~pvSa~~G~gid~Ll~~l~~l~~~  218 (227)
T d1g7sa4         192 VSIIPISAITGEGIPELLTMLMGLAQQ  218 (227)
T ss_dssp             EEEEECCTTTCTTHHHHHHHHHHHHHH
T ss_pred             CeEEEeeCCCCCCHHHHHHHHHHHHHH
Confidence            357899999999999999888765433

>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=96.96  E-value=0.00019  Score=44.64  Aligned_cols=51  Identities=16%  Similarity=0.073  Sum_probs=34.4

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHHHHh--CCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLAIEY--GIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~~--~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      |.+..||.||+||.+..  ..+....+...+  +.+.+.+||+++.|++++-..+
T Consensus        41 ~i~pvIvlnK~DL~~~~--~~~~~~~~~~~~~~~~~v~~vSa~~~~g~~~L~~~l   93 (225)
T d1u0la2          41 ELETVMVINKMDLYDED--DLRKVRELEEIYSGLYPIVKTSAKTGMGIEELKEYL   93 (225)
T ss_dssp             TCEEEEEECCGGGCCHH--HHHHHHHHHHHHTTTSCEEECCTTTCTTHHHHHHHH
T ss_pred             CCCEEEEEeCcccCCHH--HHHHHHHhhcccccceeEEEeccccchhHhhHHHHh
Confidence            55677889999995421  112223333332  3678999999999999987655

>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=96.92  E-value=2.9e-05  Score=47.86  Aligned_cols=27  Identities=19%  Similarity=0.026  Sum_probs=23.6

Q ss_pred             eEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493         39 KFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus        39 ~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      .+++|||+++.||..+|..+.+.|++.
T Consensus       190 y~h~T~A~Dt~ni~~vf~~v~d~I~~~  216 (221)
T d1azta2         190 YPHFTCAVDTENIRRVFNDCRDIIQRM  216 (221)
T ss_dssp             EEEECCTTCHHHHHHHHHTTHHHHHHH
T ss_pred             eeeecceeccHHHHHHHHHHHHHHHHH
Confidence            356999999999999999998888765

>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=96.64  E-value=0.0009  Score=43.56  Aligned_cols=52  Identities=12%  Similarity=0.084  Sum_probs=32.7

Q ss_pred             cEEeecCCCCCCCCCC--HHHHHHHHH-------HhCCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493         10 KYIEVPNFVSSMPQVS--RERGEQLAI-------EYGIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus        10 ~lv~nk~Dl~~~~~v~--~~~~~~~a~-------~~~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .+|.||.|+.......  ..+......       .+..+.+.|||++|.||++++..+.+.
T Consensus       196 i~VvNKaD~~~~~~~~~~~~~~~~al~~~~~~~~~w~p~V~~~SA~~g~Gi~eL~~~I~~~  256 (327)
T d2p67a1         196 LIVINKDDGDNHTNVAIARHMYESALHILRRKYDEWQPRVLTCSALEKRGIDEIWHAIIDF  256 (327)
T ss_dssp             EEEECCCCTTCHHHHHHHHHHHHHHHHHSCCSBTTBCCEEEECBGGGTBSHHHHHHHHHHH
T ss_pred             EEEEEeecccchHHHHHHHHHHHHHhhhcccCCCCCcceeEEEEeeCCCCHHHHHHHHHHH
Confidence            4568999986421111  111111111       123579999999999999999888653

>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=96.60  E-value=0.0021  Score=39.00  Aligned_cols=25  Identities=20%  Similarity=0.084  Sum_probs=21.2

Q ss_pred             CCeEEEeccCCCCCHHHHHHHHHHH
Q psy17493         37 GIKFMETSAKNSINVEDAFFTLARD   61 (101)
Q Consensus        37 ~~~~~etSAk~~~~V~~~F~~~~~~   61 (101)
                      .++++.+||++|+|+++++.-+.+.
T Consensus       216 ~~~~v~vSa~~geGi~~L~~~l~e~  240 (244)
T d1yrba1         216 PVRVLYLSAKTREGFEDLETLAYEH  240 (244)
T ss_dssp             CCCCEECCTTTCTTHHHHHHHHHHH
T ss_pred             CCcEEEEECCCCCCHHHHHHHHHHH
Confidence            3679999999999999999776554

>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=96.31  E-value=0.0064  Score=38.17  Aligned_cols=58  Identities=10%  Similarity=0.028  Sum_probs=40.6

Q ss_pred             ccccCCCcEEeecCCCCCCCCCCHHHHHHHHHH---hCCeEEEeccCCCCCHHHHHHHHHHHHHHH
Q psy17493          3 IQINTKSKYIEVPNFVSSMPQVSRERGEQLAIE---YGIKFMETSAKNSINVEDAFFTLARDIKAQ   65 (101)
Q Consensus         3 il~~~~~~lv~nk~Dl~~~~~v~~~~~~~~a~~---~~~~~~etSAk~~~~V~~~F~~~~~~i~~~   65 (101)
                      ++.+.+..+|.||+||.+     .+....|.+.   .+..++.+||+.+.++.++...+.+.+.+.
T Consensus        39 ~~~~Kp~IlVlNK~DLv~-----~~~~~~w~~~f~~~~~~~i~isa~~~~~~~~~~~~~~~~l~~~   99 (273)
T d1puja_          39 ILKNKPRIMLLNKADKAD-----AAVTQQWKEHFENQGIRSLSINSVNGQGLNQIVPASKEILQEK   99 (273)
T ss_dssp             HCSSSCEEEEEECGGGSC-----HHHHHHHHHHHHTTTCCEEECCTTTCTTGGGHHHHHHHHHHHH
T ss_pred             HHcCCCeEEEEECccCCc-----hHHHHHHHHHHHhcCCccceeecccCCCccccchhhhhhhhhh
Confidence            344567788999999854     3444445443   357789999999999988877666554443

>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=95.32  E-value=0.00058  Score=42.53  Aligned_cols=52  Identities=12%  Similarity=0.039  Sum_probs=35.1

Q ss_pred             cCCCcEEeecCCCCCCCCCCHHHHHHHH---HHhCCeEEEeccCCCCCHHHHHHHH
Q psy17493          6 NTKSKYIEVPNFVSSMPQVSRERGEQLA---IEYGIKFMETSAKNSINVEDAFFTL   58 (101)
Q Consensus         6 ~~~~~lv~nk~Dl~~~~~v~~~~~~~~a---~~~~~~~~etSAk~~~~V~~~F~~~   58 (101)
                      |.+..||.||+||.+... ..+....+.   ...|++.+.+||+++.|++++-..+
T Consensus        41 ~i~pvIvlnK~DL~~~~~-~~~~~~~~~~~y~~~g~~v~~~Sa~~~~gl~~L~~~l   95 (231)
T d1t9ha2          41 DIQPIICITKMDLIEDQD-TEDTIQAYAEDYRNIGYDVYLTSSKDQDSLADIIPHF   95 (231)
T ss_dssp             TCEEEEEEECGGGCCCHH-HHHHHHHHHHHHHHHTCCEEECCHHHHTTCTTTGGGG
T ss_pred             CCCEEEEEecccccccHH-HHHHHHHHHHHHhhccccceeeecCChhHHHHHHHhh
Confidence            456678899999964311 122223333   3458899999999999998876544

>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=93.67  E-value=0.027  Score=34.29  Aligned_cols=45  Identities=13%  Similarity=-0.042  Sum_probs=29.0

Q ss_pred             CcEEeecCCCCCCCCCCH----HHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSR----ERGEQLAIEYG-----IKFMETSAKNSINVED   53 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~-----~~~~etSAk~~~~V~~   53 (101)
                      +.++.||.|+.+...-..    .+...+.+..+     ++|+-+||++|.||.+
T Consensus       145 iiv~vNK~D~~~~~~~~~~~~~~~l~~~~~~~~~~~~~i~~IPiSA~~G~ni~~  198 (222)
T d1zunb3         145 IVVAINKMDLNGFDERVFESIKADYLKFAEGIAFKPTTMAFVPMSALKGDNVVN  198 (222)
T ss_dssp             EEEEEECTTTTTSCHHHHHHHHHHHHHHHHTTTCCCSEEEEEECCTTTCTTTSS
T ss_pred             EEEEEEccccccccceehhhhHHHHhhhhHhhccCCCceEEEEEEcccCccCCc
Confidence            456689999875332212    23344555554     3688999999999843

>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=92.59  E-value=0.0099  Score=35.64  Aligned_cols=52  Identities=12%  Similarity=0.014  Sum_probs=31.4

Q ss_pred             CcEEeecCCCCCCCCCC---HHHHHHHHHHhC-----CeEEEeccCCC----------CCHHHHHHHHHH
Q psy17493          9 SKYIEVPNFVSSMPQVS---RERGEQLAIEYG-----IKFMETSAKNS----------INVEDAFFTLAR   60 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~---~~~~~~~a~~~~-----~~~~etSAk~~----------~~V~~~F~~~~~   60 (101)
                      +.++.||.|+......-   ..+...+....+     ++++.+||++|          .++.++|+.+..
T Consensus       122 iIv~iNK~D~~~~~~~~~~i~~~i~~~l~~~~~~~~~~pii~iSa~~g~~~~~~~~~~~~~~~Lldai~~  191 (196)
T d1d2ea3         122 VVVYVNKADAVQDSEMVELVELEIRELLTEFGYKGEETPIIVGSALCALEQRDPELGLKSVQKLLDAVDT  191 (196)
T ss_dssp             EEEEEECGGGCSCHHHHHHHHHHHHHHHHHTTSCTTTSCEEECCHHHHHTTCCTTTTHHHHHHHHHHHHH
T ss_pred             EEEEEecccccccHHHHHHHHHHHHHHHHHhCCCcccCEEEEEEccccccccCcccccCCHHHHHHHHHh
Confidence            44568999985422110   113333444443     56899999998          478887766643

>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=90.86  E-value=0.062  Score=33.06  Aligned_cols=19  Identities=37%  Similarity=0.436  Sum_probs=15.8

Q ss_pred             CeEEEeccCCCCCHHHHHH
Q psy17493         38 IKFMETSAKNSINVEDAFF   56 (101)
Q Consensus        38 ~~~~etSAk~~~~V~~~F~   56 (101)
                      ++|+-+||++|.||.+++.
T Consensus       207 v~~VPiSA~~G~nI~~~~~  225 (245)
T d1r5ba3         207 VKYMPVSAYTGQNVKDRVD  225 (245)
T ss_dssp             EEEEECBTTTTBTTSSCCC
T ss_pred             CEEEEeeccCCCCcccchh
Confidence            4789999999999977543

>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=88.88  E-value=0.41  Score=27.77  Aligned_cols=12  Identities=42%  Similarity=0.576  Sum_probs=6.5

Q ss_pred             eEEEeccCCCCC
Q psy17493         39 KFMETSAKNSIN   50 (101)
Q Consensus        39 ~~~etSAk~~~~   50 (101)
                      .++++||++|.+
T Consensus       178 ~~~~~S~~~~~~  189 (207)
T d2fh5b1         178 EFLECSAKGGRG  189 (207)
T ss_dssp             EEEECBCC----
T ss_pred             EEEEeeecCCCc
Confidence            478889988877

>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=85.22  E-value=0.4  Score=28.63  Aligned_cols=45  Identities=13%  Similarity=0.185  Sum_probs=27.4

Q ss_pred             CcEEeecCCCCCCC--CCCH----HHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493          9 SKYIEVPNFVSSMP--QVSR----ERGEQLAIEYG-----IKFMETSAKNSINVED   53 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~--~v~~----~~~~~~a~~~~-----~~~~etSAk~~~~V~~   53 (101)
                      +.++.||.|+....  .-..    .+...+...++     ++|+.+||.+|.||.+
T Consensus       144 iIv~iNK~D~~~~~~~~~~~~~v~~~i~~~~~~~~~~~~~i~~IPISA~~G~NV~~  199 (224)
T d1jnya3         144 LIVAVNKMDLTEPPYDEKRYKEIVDQVSKFMRSYGFNTNKVRFVPVVAPSGDNITH  199 (224)
T ss_dssp             CEEEEECGGGSSSTTCHHHHHHHHHHHHHHHHHTTCCCTTCEEEECBTTTTBTTTB
T ss_pred             eEEEEEcccCCCccccHHHHHHHHHHHHhHHHhcCCCcccCeEEEEEccCCCCccc
Confidence            45569999986321  1111    22333444443     5688999999999854

>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=80.38  E-value=0.5  Score=28.70  Aligned_cols=45  Identities=11%  Similarity=-0.009  Sum_probs=28.4

Q ss_pred             CcEEeecCCCCCCCCCCH----HHHHHHHHHhC-----CeEEEeccCCCCCHHH
Q psy17493          9 SKYIEVPNFVSSMPQVSR----ERGEQLAIEYG-----IKFMETSAKNSINVED   53 (101)
Q Consensus         9 ~~lv~nk~Dl~~~~~v~~----~~~~~~a~~~~-----~~~~etSAk~~~~V~~   53 (101)
                      +.++.||.|+.+...-.+    ++...+....+     ++|+-.||+.|.|+-+
T Consensus       147 iiv~iNKmD~~~~d~~~~~~~~~el~~~l~~~~~~~~~i~~ipiSa~~G~ni~~  200 (239)
T d1f60a3         147 LIVAVNKMDSVKWDESRFQEIVKETSNFIKKVGYNPKTVPFVPISGWNGDNMIE  200 (239)
T ss_dssp             EEEEEECGGGGTTCHHHHHHHHHHHHHHHHHHTCCGGGCCEEECCTTTCBTTTB
T ss_pred             EEEEEECCCCCCCCHHHHHHHHHHHHHHHHhcCCCCCcEEEEEEEccCCCccee
Confidence            345689999764322111    23344555544     5689999999998754